https://tncentral.ncc.unesp.br/TnPedia/index.php?title=General_Information/Non-autonomous_IS_derivatives&feed=atom&action=historyGeneral Information/Non-autonomous IS derivatives - Revision history2024-03-29T05:23:27ZRevision history for this page on the wikiMediaWiki 1.34.0https://tncentral.ncc.unesp.br/TnPedia/index.php?title=General_Information/Non-autonomous_IS_derivatives&diff=3044&oldid=prevTnCentral at 12:44, 5 December 20222022-12-05T12:44:27Z<p></p>
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</table>TnCentralhttps://tncentral.ncc.unesp.br/TnPedia/index.php?title=General_Information/Non-autonomous_IS_derivatives&diff=2983&oldid=prevTnCentral at 13:47, 4 December 20222022-12-04T13:47:29Z<p></p>
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</table>TnCentralhttps://tncentral.ncc.unesp.br/TnPedia/index.php?title=General_Information/Non-autonomous_IS_derivatives&diff=2697&oldid=prevTnCentral at 13:25, 21 March 20222022-03-21T13:25:35Z<p></p>
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<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>|'''<big>M</big>'''any prokaryotic genomes are littered with IS fragments and small, non-autonomous IS derivatives whose transposition can, in principle, be catalyzed in trans by the Tpase of a related complete IS [[:Image:1.13.1.png|(Fig.8.1)]]. Structures called MITEs ('''M'''iniature '''I'''nverted repeat '''T'''ransposable '''E'''lements), first identified in ''Neisseria''<ref name=":0"><pubmed>2842323</pubmed></div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>|'''<big>M</big>'''any prokaryotic genomes are littered with IS fragments and small, non-autonomous IS derivatives whose transposition can, in principle, be catalyzed in trans by the Tpase of a related complete IS [[:Image:1.13.1.png|(Fig.8.1)]]. Structures called MITEs ('''M'''iniature '''I'''nverted repeat '''T'''ransposable '''E'''lements), first identified in ''Neisseria''<ref name=":0"><pubmed>2842323</pubmed></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">&lt;/nowiki&gt;</del></ref> are found in many organisms including plants<ref><pubmed>12618411</pubmed></ref><ref name=":1"><pubmed>11756687</pubmed><del class="diffchange diffchange-inline">&lt;/nowiki&gt;</del></ref><ref><pubmed>1332797</pubmed></ref><ref><pubmed>8061524</pubmed></ref>, insects<ref><pubmed>16507338</pubmed></ref><ref><pubmed>16919158</pubmed></ref>, fungi<ref><pubmed>17179071</pubmed></ref> bacteria <ref name=":0" /><ref><pubmed>19393167</pubmed></ref><ref><pubmed>22016774</pubmed></ref><ref><pubmed>31085513</pubmed></ref><ref><pubmed>26442174</pubmed></ref> and archaea<ref><pubmed>15046567</pubmed></ref><ref name=":2"><pubmed>11814653</pubmed></div></td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div></ref> are found in many organisms including plants<ref><pubmed>12618411</pubmed></ref><ref name=":1"><pubmed>11756687</pubmed></ref><ref><pubmed>1332797</pubmed></ref><ref><pubmed>8061524</pubmed></ref>, insects<ref><pubmed>16507338</pubmed></ref><ref><pubmed>16919158</pubmed></ref>, fungi<ref><pubmed>17179071</pubmed></ref> bacteria <ref name=":0" /><ref><pubmed>19393167</pubmed></ref><ref><pubmed>22016774</pubmed></ref><ref><pubmed>31085513</pubmed></ref><ref><pubmed>26442174</pubmed></ref> and archaea<ref><pubmed>15046567</pubmed></ref><ref name=":2"><pubmed>11814653</pubmed></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">&lt;/nowiki&gt;</del></ref><ref><pubmed>16935554</pubmed></ref> are related to IS with DDE Tpases<ref name=":2" /><ref name=":3"><pubmed>17347521</pubmed></div></td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div></ref><ref><pubmed>16935554</pubmed></ref> are related to IS with DDE Tpases<ref name=":2" /><ref name=":3"><pubmed>17347521</pubmed></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">&lt;/nowiki&gt;</del></ref>. Among those derived from IS with DDE transposases, representatives of the [[IS Families/IS1 family|IS''1'']], [[IS Families/IS4 and related families|IS''4'']]'','' [[IS Families/IS5 and related IS1182 families|IS''5'']], [[IS Families/IS6 family|IS''6'']], and even [[Transposons families/Tn3 family|Tn''3'' family]] members such as [https://tncentral.ncc.unesp.br/ISfinder/scripts/ficheIS.php?name=ISRf1 IS''Rf1''] from ''[[wikipedia:Sinorhizobium_fredii|Sinorhizobium fredii]]'' have been identified. They are generally less than 300 bp long, include appropriately oriented left and right terminal IR but no Tpase and generally generate flanking DR. MITEs are probably derived from IS by internal deletion. Some carry short non-coding sequences between these IRs which may or may not be IS-derived. MITEs are considered to be non-autonomous transposable elements mobilizable in trans by Tpases of full-length parental genomic copies. They were first identified in plants<ref name=":1" /><ref><pubmed>15020481</pubmed></ref><ref><pubmed>15831788</pubmed></ref><ref><pubmed>17578919</pubmed></ref> and are related to Tc/mariner elements (distantly related to bacterial [[IS Families/IS630 family|IS''630'' family]]). [https://tncentral.ncc.unesp.br/ISfinder/scripts/ficheIS.php?name=IS630 IS''630'']-related MITEs were also the first described bacterial examples<ref name=":0" /><ref><pubmed>11707339</pubmed></ref><ref><pubmed>12095618</pubmed></ref><ref><pubmed>21283790</pubmed></ref><ref><pubmed>10537186</pubmed></ref>. MITEs showing similarities to other IS and transposon families are observed in bacteria and archaea. Those related to the [[Transposons families/Tn3 family|Tn''3'' family]] have been called TIMEs<ref><pubmed>25121765</pubmed></ref>.</div></td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div></ref>. Among those derived from IS with DDE transposases, representatives of the [[IS Families/IS1 family|IS''1'']], [[IS Families/IS4 and related families|IS''4'']]'','' [[IS Families/IS5 and related IS1182 families|IS''5'']], [[IS Families/IS6 family|IS''6'']], and even [[Transposons families/Tn3 family|Tn''3'' family]] members such as [https://tncentral.ncc.unesp.br/ISfinder/scripts/ficheIS.php?name=ISRf1 IS''Rf1''] from ''[[wikipedia:Sinorhizobium_fredii|Sinorhizobium fredii]]'' have been identified. They are generally less than 300 bp long, include appropriately oriented left and right terminal IR but no Tpase and generally generate flanking DR. MITEs are probably derived from IS by internal deletion. Some carry short non-coding sequences between these IRs which may or may not be IS-derived. MITEs are considered to be non-autonomous transposable elements mobilizable in trans by Tpases of full-length parental genomic copies. They were first identified in plants<ref name=":1" /><ref><pubmed>15020481</pubmed></ref><ref><pubmed>15831788</pubmed></ref><ref><pubmed>17578919</pubmed></ref> and are related to Tc/mariner elements (distantly related to bacterial [[IS Families/IS630 family|IS''630'' family]]). [https://tncentral.ncc.unesp.br/ISfinder/scripts/ficheIS.php?name=IS630 IS''630'']-related MITEs were also the first described bacterial examples<ref name=":0" /><ref><pubmed>11707339</pubmed></ref><ref><pubmed>12095618</pubmed></ref><ref><pubmed>21283790</pubmed></ref><ref><pubmed>10537186</pubmed></ref>. MITEs showing similarities to other IS and transposon families are observed in bacteria and archaea. Those related to the [[Transposons families/Tn3 family|Tn''3'' family]] have been called TIMEs<ref><pubmed>25121765</pubmed></ref>.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>MITE-like structures related to elements with other types of transposase have also been identified. Among these are [[IS Families/IS200-IS605 family|IS''200''/IS''605'' family]] derivatives<ref name=":3" />; ([https://scholar.google.fr/citations?user=WHAtfqcAAAAJ&hl=fr P. Siguier], unpublished) [[:Image:1.18.1.png|(Fig.13.1)]] now called PATEs ('''P'''alindrome-'''A'''ssociated '''T'''ransposable '''E'''lements)<ref><pubmed>21701686</pubmed></ref> reflecting the sub-terminal secondary structures which constitute the ends of these IS. Although originally observed in the Archaea as derivatives of known [[IS Families/IS200-IS605 family|IS''200''/IS''605'' family]] members, they have also been observed in certain cyanobacteria and ''[[wikipedia:Salmonella|Salmonella]]'' ([https://scholar.google.fr/citations?user=WHAtfqcAAAAJ&hl=fr P. Siguier] unpublished). They presumably represent decay products that appear quite frequently for this IS family.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>MITE-like structures related to elements with other types of transposase have also been identified. Among these are [[IS Families/IS200-IS605 family|IS''200''/IS''605'' family]] derivatives<ref name=":3" />; ([https://scholar.google.fr/citations?user=WHAtfqcAAAAJ&hl=fr P. Siguier], unpublished) [[:Image:1.18.1.png|(Fig.13.1)]] now called PATEs ('''P'''alindrome-'''A'''ssociated '''T'''ransposable '''E'''lements)<ref><pubmed>21701686</pubmed></ref> reflecting the sub-terminal secondary structures which constitute the ends of these IS. Although originally observed in the Archaea as derivatives of known [[IS Families/IS200-IS605 family|IS''200''/IS''605'' family]] members, they have also been observed in certain cyanobacteria and ''[[wikipedia:Salmonella|Salmonella]]'' ([https://scholar.google.fr/citations?user=WHAtfqcAAAAJ&hl=fr P. Siguier] unpublished). They presumably represent decay products that appear quite frequently for this IS family.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
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<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Another group of IS derivatives related to MITEs are called MICs ('''M'''obile '''I'''nsertion '''C'''assette)<ref name=":4"><pubmed>15228527</pubmed></div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Another group of IS derivatives related to MITEs are called MICs ('''M'''obile '''I'''nsertion '''C'''assette)<ref name=":4"><pubmed>15228527</pubmed></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">&lt;/nowiki&gt;</del></ref><ref><pubmed>10320586</pubmed></ref> [[:Image:1.13.1.png|(Fig.8.1)]]. These, like MITEs, are flanked by IR, do not include a Tpase gene and generate flanking DR. They carry various coding sequences, and are present in relatively low copy number. The [[IS Families/IS4 and related families#IS231|IS''231'' sub-group]] of the large [[IS Families/IS4 and related families|IS''4'' family]] includes examples of many of these IS-derivatives (canonical ISs, MITEs, MICs and tIS)<ref name=":4" /><ref><pubmed>18215304</pubmed></ref>. Tn''3''-derived MICs appear to be particularly prevalent in ''Xanthomonas'' where they include TALE ('''T'''ranscriptional '''A'''ctivator '''L'''ike '''E'''lements) genes involved in ''Xanthomonas'' pathogenicity in plants <ref><pubmed>25691597</pubmed></ref></div></td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div></ref><ref><pubmed>10320586</pubmed></ref> [[:Image:1.13.1.png|(Fig.8.1)]]. These, like MITEs, are flanked by IR, do not include a Tpase gene and generate flanking DR. They carry various coding sequences, and are present in relatively low copy number. The [[IS Families/IS4 and related families#IS231|IS''231'' sub-group]] of the large [[IS Families/IS4 and related families|IS''4'' family]] includes examples of many of these IS-derivatives (canonical ISs, MITEs, MICs and tIS)<ref name=":4" /><ref><pubmed>18215304</pubmed></ref>. Tn''3''-derived MICs appear to be particularly prevalent in ''Xanthomonas'' where they include TALE ('''T'''ranscriptional '''A'''ctivator '''L'''ike '''E'''lements) genes involved in ''Xanthomonas'' pathogenicity in plants <ref><pubmed>25691597</pubmed></ref></div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>==Bibliography==</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>==Bibliography==</div></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><<del class="diffchange diffchange-inline">references </del>/></div></td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins class="diffchange diffchange-inline">{{Reflist|32em}}</ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><<ins class="diffchange diffchange-inline">br </ins>/></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins class="diffchange diffchange-inline"><hr></ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins class="diffchange diffchange-inline">{{TnPedia}}</ins></div></td></tr>
</table>TnCentralhttps://tncentral.ncc.unesp.br/TnPedia/index.php?title=General_Information/Non-autonomous_IS_derivatives&diff=2183&oldid=prevTnCentral at 19:00, 9 August 20212021-08-09T19:00:28Z<p></p>
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<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">← Older revision</td>
<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">Revision as of 19:00, 9 August 2021</td>
</tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l2" >Line 2:</td>
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<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>|'''<big>M</big>'''any prokaryotic genomes are littered with IS fragments and small, non-autonomous IS derivatives whose transposition can, in principle, be catalyzed in trans by the Tpase of a related complete IS [[:Image:1.13.1.png|(Fig.8.1)]]. Structures called MITEs ('''M'''iniature '''I'''nverted repeat '''T'''ransposable '''E'''lements), first identified in ''Neisseria''<ref name=":0"><pubmed>2842323</pubmed></div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>|'''<big>M</big>'''any prokaryotic genomes are littered with IS fragments and small, non-autonomous IS derivatives whose transposition can, in principle, be catalyzed in trans by the Tpase of a related complete IS [[:Image:1.13.1.png|(Fig.8.1)]]. Structures called MITEs ('''M'''iniature '''I'''nverted repeat '''T'''ransposable '''E'''lements), first identified in ''Neisseria''<ref name=":0"><pubmed>2842323</pubmed></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>&lt;/nowiki&gt;</ref> are found in many organisms including plants<ref<del class="diffchange diffchange-inline">><nowiki</del>><pubmed>12618411</pubmed<del class="diffchange diffchange-inline">></nowiki</del>></ref><ref name=":1"><pubmed>11756687</pubmed>&lt;/nowiki&gt;</ref><ref<del class="diffchange diffchange-inline">><nowiki</del>><pubmed>1332797</pubmed<del class="diffchange diffchange-inline">></nowiki</del>></ref><ref<del class="diffchange diffchange-inline">><nowiki</del>><pubmed>8061524</pubmed<del class="diffchange diffchange-inline">></nowiki</del>></ref>, insects<ref<del class="diffchange diffchange-inline">><nowiki</del>><pubmed>16507338</pubmed<del class="diffchange diffchange-inline">></nowiki</del>></ref><ref<del class="diffchange diffchange-inline">><nowiki</del>><pubmed>16919158</pubmed<del class="diffchange diffchange-inline">></nowiki</del>></ref>, fungi<ref<del class="diffchange diffchange-inline">><nowiki</del>><pubmed>17179071</pubmed<del class="diffchange diffchange-inline">></nowiki</del>></ref> bacteria <ref name=":0" /><ref<del class="diffchange diffchange-inline">><nowiki</del>><pubmed>19393167</pubmed<del class="diffchange diffchange-inline">></nowiki</del>></ref><ref<del class="diffchange diffchange-inline">><nowiki</del>><pubmed>22016774</pubmed<del class="diffchange diffchange-inline">></nowiki</del>></ref><ref<del class="diffchange diffchange-inline">><nowiki</del>><pubmed>31085513</pubmed<del class="diffchange diffchange-inline">></nowiki</del>></ref><ref<del class="diffchange diffchange-inline">><nowiki</del>><pubmed>26442174</pubmed<del class="diffchange diffchange-inline">></nowiki</del>></ref> and archaea<ref<del class="diffchange diffchange-inline">><nowiki</del>><pubmed>15046567</pubmed<del class="diffchange diffchange-inline">></nowiki</del>></ref><ref name=":2"><pubmed>11814653</pubmed></div></td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>&lt;/nowiki&gt;</ref> are found in many organisms including plants<ref><pubmed>12618411</pubmed></ref><ref name=":1"><pubmed>11756687</pubmed>&lt;/nowiki&gt;</ref><ref><pubmed>1332797</pubmed></ref><ref><pubmed>8061524</pubmed></ref>, insects<ref><pubmed>16507338</pubmed></ref><ref><pubmed>16919158</pubmed></ref>, fungi<ref><pubmed>17179071</pubmed></ref> bacteria <ref name=":0" /><ref><pubmed>19393167</pubmed></ref><ref><pubmed>22016774</pubmed></ref><ref><pubmed>31085513</pubmed></ref><ref><pubmed>26442174</pubmed></ref> and archaea<ref><pubmed>15046567</pubmed></ref><ref name=":2"><pubmed>11814653</pubmed></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>&lt;/nowiki&gt;</ref><ref<del class="diffchange diffchange-inline">><nowiki</del>><pubmed>16935554</pubmed<del class="diffchange diffchange-inline">></nowiki</del>></ref> are related to IS with DDE Tpases<ref name=":2" /><ref name=":3"><pubmed>17347521</pubmed></div></td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>&lt;/nowiki&gt;</ref><ref><pubmed>16935554</pubmed></ref> are related to IS with DDE Tpases<ref name=":2" /><ref name=":3"><pubmed>17347521</pubmed></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>&lt;/nowiki&gt;</ref>. Among those derived from IS with DDE transposases, representatives of the [[IS Families/IS1 family|IS''1'']], [[IS Families/IS4 and related families|IS''4'']]'','' [[IS Families/IS5 and related IS1182 families|IS''5'']], [[IS Families/IS6 family|IS''6'']], and even [[Transposons families/Tn3 family|Tn''3'' family]] members such as [https://tncentral.ncc.unesp.br/ISfinder/scripts/ficheIS.php?name=ISRf1 IS''Rf1''] from ''[[wikipedia:Sinorhizobium_fredii|Sinorhizobium fredii]]'' have been identified. They are generally less than 300 bp long, include appropriately oriented left and right terminal IR but no Tpase and generally generate flanking DR. MITEs are probably derived from IS by internal deletion. Some carry short non-coding sequences between these IRs which may or may not be IS-derived. MITEs are considered to be non-autonomous transposable elements mobilizable in trans by Tpases of full-length parental genomic copies. They were first identified in plants<ref name=":1" /><ref<del class="diffchange diffchange-inline">><nowiki</del>><pubmed>15020481</pubmed<del class="diffchange diffchange-inline">></nowiki</del>></ref><ref<del class="diffchange diffchange-inline">><nowiki</del>><pubmed>15831788</pubmed<del class="diffchange diffchange-inline">></nowiki</del>></ref><ref<del class="diffchange diffchange-inline">><nowiki</del>><pubmed>17578919</pubmed<del class="diffchange diffchange-inline">></nowiki</del>></ref> and are related to Tc/mariner elements (distantly related to bacterial [[IS Families/IS630 family|IS''630'' family]]). [https://tncentral.ncc.unesp.br/ISfinder/scripts/ficheIS.php?name=IS630 IS''630'']-related MITEs were also the first described bacterial examples<ref name=":0" /><ref<del class="diffchange diffchange-inline">><nowiki</del>><pubmed>11707339</pubmed<del class="diffchange diffchange-inline">></nowiki</del>></ref><ref<del class="diffchange diffchange-inline">><nowiki</del>><pubmed>12095618</pubmed<del class="diffchange diffchange-inline">></nowiki</del>></ref><ref<del class="diffchange diffchange-inline">><nowiki</del>><pubmed>21283790</pubmed<del class="diffchange diffchange-inline">></nowiki</del>></ref><ref<del class="diffchange diffchange-inline">><nowiki</del>><pubmed>10537186</pubmed<del class="diffchange diffchange-inline">></nowiki</del>></ref>. MITEs showing similarities to other IS and transposon families are observed in bacteria and archaea. Those related to the [[Transposons families/Tn3 family|Tn''3'' family]] have been called TIMEs<ref<del class="diffchange diffchange-inline">><nowiki</del>><pubmed>25121765</pubmed<del class="diffchange diffchange-inline">></nowiki</del>></ref>.</div></td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>&lt;/nowiki&gt;</ref>. Among those derived from IS with DDE transposases, representatives of the [[IS Families/IS1 family|IS''1'']], [[IS Families/IS4 and related families|IS''4'']]'','' [[IS Families/IS5 and related IS1182 families|IS''5'']], [[IS Families/IS6 family|IS''6'']], and even [[Transposons families/Tn3 family|Tn''3'' family]] members such as [https://tncentral.ncc.unesp.br/ISfinder/scripts/ficheIS.php?name=ISRf1 IS''Rf1''] from ''[[wikipedia:Sinorhizobium_fredii|Sinorhizobium fredii]]'' have been identified. They are generally less than 300 bp long, include appropriately oriented left and right terminal IR but no Tpase and generally generate flanking DR. MITEs are probably derived from IS by internal deletion. Some carry short non-coding sequences between these IRs which may or may not be IS-derived. MITEs are considered to be non-autonomous transposable elements mobilizable in trans by Tpases of full-length parental genomic copies. They were first identified in plants<ref name=":1" /><ref><pubmed>15020481</pubmed></ref><ref><pubmed>15831788</pubmed></ref><ref><pubmed>17578919</pubmed></ref> and are related to Tc/mariner elements (distantly related to bacterial [[IS Families/IS630 family|IS''630'' family]]). [https://tncentral.ncc.unesp.br/ISfinder/scripts/ficheIS.php?name=IS630 IS''630'']-related MITEs were also the first described bacterial examples<ref name=":0" /><ref><pubmed>11707339</pubmed></ref><ref><pubmed>12095618</pubmed></ref><ref><pubmed>21283790</pubmed></ref><ref><pubmed>10537186</pubmed></ref>. MITEs showing similarities to other IS and transposon families are observed in bacteria and archaea. Those related to the [[Transposons families/Tn3 family|Tn''3'' family]] have been called TIMEs<ref><pubmed>25121765</pubmed></ref>.</div></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>MITE-like structures related to elements with other types of transposase have also been identified. Among these are [[IS Families/IS200-IS605 family|IS''200''/IS''605'' family]] derivatives<ref name=":3" />; ([https://scholar.google.fr/citations?user=WHAtfqcAAAAJ&hl=fr P. Siguier], unpublished) [[:Image:1.18.1.png|(Fig.13.1)]] now called PATEs ('''P'''alindrome-'''A'''ssociated '''T'''ransposable '''E'''lements)<ref<del class="diffchange diffchange-inline">><nowiki</del>><pubmed>21701686</pubmed<del class="diffchange diffchange-inline">></nowiki</del>></ref> reflecting the sub-terminal secondary structures which constitute the ends of these IS. Although originally observed in the Archaea as derivatives of known [[IS Families/IS200-IS605 family|IS''200''/IS''605'' family]] members, they have also been observed in certain cyanobacteria and ''[[wikipedia:Salmonella|Salmonella]]'' ([https://scholar.google.fr/citations?user=WHAtfqcAAAAJ&hl=fr P. Siguier] unpublished). They presumably represent decay products that appear quite frequently for this IS family.</div></td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>MITE-like structures related to elements with other types of transposase have also been identified. Among these are [[IS Families/IS200-IS605 family|IS''200''/IS''605'' family]] derivatives<ref name=":3" />; ([https://scholar.google.fr/citations?user=WHAtfqcAAAAJ&hl=fr P. Siguier], unpublished) [[:Image:1.18.1.png|(Fig.13.1)]] now called PATEs ('''P'''alindrome-'''A'''ssociated '''T'''ransposable '''E'''lements)<ref><pubmed>21701686</pubmed></ref> reflecting the sub-terminal secondary structures which constitute the ends of these IS. Although originally observed in the Archaea as derivatives of known [[IS Families/IS200-IS605 family|IS''200''/IS''605'' family]] members, they have also been observed in certain cyanobacteria and ''[[wikipedia:Salmonella|Salmonella]]'' ([https://scholar.google.fr/citations?user=WHAtfqcAAAAJ&hl=fr P. Siguier] unpublished). They presumably represent decay products that appear quite frequently for this IS family.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>Full-length copies of the parental IS may not be available or may be so divergent as to escape detection in standard [https://blast.ncbi.nlm.nih.gov/Blast.cgi BLAST analysi]s. This is the case for certain MITEs from the archaea <ref<del class="diffchange diffchange-inline">><nowiki</del>><pubmed>X</pubmed<del class="diffchange diffchange-inline">></nowiki</del>></ref> and is probably also true for the bacteria. Their detection and analysis are therefore arduous.</div></td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>Full-length copies of the parental IS may not be available or may be so divergent as to escape detection in standard [https://blast.ncbi.nlm.nih.gov/Blast.cgi BLAST analysi]s. This is the case for certain MITEs from the archaea <ref><pubmed>X</pubmed></ref> and is probably also true for the bacteria. Their detection and analysis are therefore arduous.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Another group of IS derivatives related to MITEs are called MICs ('''M'''obile '''I'''nsertion '''C'''assette)<ref name=":4"><pubmed>15228527</pubmed></div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Another group of IS derivatives related to MITEs are called MICs ('''M'''obile '''I'''nsertion '''C'''assette)<ref name=":4"><pubmed>15228527</pubmed></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>&lt;/nowiki&gt;</ref><ref<del class="diffchange diffchange-inline">><nowiki</del>><pubmed>10320586</pubmed<del class="diffchange diffchange-inline">></nowiki</del>></ref> [[:Image:1.13.1.png|(Fig.8.1)]]. These, like MITEs, are flanked by IR, do not include a Tpase gene and generate flanking DR. They carry various coding sequences, and are present in relatively low copy number. The [[IS Families/IS4 and related families#IS231|IS''231'' sub-group]] of the large [[IS Families/IS4 and related families|IS''4'' family]] includes examples of many of these IS-derivatives (canonical ISs, MITEs, MICs and tIS)<ref name=":4" /><ref<del class="diffchange diffchange-inline">><nowiki</del>><pubmed>18215304</pubmed<del class="diffchange diffchange-inline">></nowiki</del>></ref>. Tn''3''-derived MICs appear to be particularly prevalent in ''Xanthomonas'' where they include TALE ('''T'''ranscriptional '''A'''ctivator '''L'''ike '''E'''lements) genes involved in ''Xanthomonas'' pathogenicity in plants <ref<del class="diffchange diffchange-inline">><nowiki</del>><pubmed>25691597</pubmed<del class="diffchange diffchange-inline">></nowiki</del>></ref></div></td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>&lt;/nowiki&gt;</ref><ref><pubmed>10320586</pubmed></ref> [[:Image:1.13.1.png|(Fig.8.1)]]. These, like MITEs, are flanked by IR, do not include a Tpase gene and generate flanking DR. They carry various coding sequences, and are present in relatively low copy number. The [[IS Families/IS4 and related families#IS231|IS''231'' sub-group]] of the large [[IS Families/IS4 and related families|IS''4'' family]] includes examples of many of these IS-derivatives (canonical ISs, MITEs, MICs and tIS)<ref name=":4" /><ref><pubmed>18215304</pubmed></ref>. Tn''3''-derived MICs appear to be particularly prevalent in ''Xanthomonas'' where they include TALE ('''T'''ranscriptional '''A'''ctivator '''L'''ike '''E'''lements) genes involved in ''Xanthomonas'' pathogenicity in plants <ref><pubmed>25691597</pubmed></ref></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
</table>TnCentralhttps://tncentral.ncc.unesp.br/TnPedia/index.php?title=General_Information/Non-autonomous_IS_derivatives&diff=2152&oldid=prevTnCentral at 15:05, 9 August 20212021-08-09T15:05:03Z<p></p>
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<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">← Older revision</td>
<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">Revision as of 15:05, 9 August 2021</td>
</tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l1" >Line 1:</td>
<td colspan="2" class="diff-lineno">Line 1:</td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>{|</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>{|</div></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>|'''<big>M</big>'''any prokaryotic genomes are littered with IS fragments and small, non-autonomous IS derivatives whose transposition can, in principle, be catalyzed in trans by the Tpase of a related complete IS [[:Image:1.13.1.png|(Fig.8.1)]]. Structures called MITEs ('''M'''iniature '''I'''nverted repeat '''T'''ransposable '''E'''lements), first identified in ''Neisseria''<ref name=":0"><pubmed>2842323</pubmed><del class="diffchange diffchange-inline"><</del>/nowiki<del class="diffchange diffchange-inline">></del></ref> are found in many organisms including plants<ref><nowiki><pubmed>12618411</pubmed></nowiki></ref><ref name=":1"><pubmed>11756687</pubmed><del class="diffchange diffchange-inline"><</del>/nowiki<del class="diffchange diffchange-inline">></del></ref><ref><nowiki><pubmed>1332797</pubmed></nowiki></ref><ref><nowiki><pubmed>8061524</pubmed></nowiki></ref>, insects<ref><nowiki><pubmed>16507338</pubmed></nowiki></ref><ref><nowiki><pubmed>16919158</pubmed></nowiki></ref>, fungi<ref><nowiki><pubmed>17179071</pubmed></nowiki></ref> bacteria <ref name=":0" /><ref><nowiki><pubmed>19393167</pubmed></nowiki></ref><ref><nowiki><pubmed>22016774</pubmed></nowiki></ref><ref><nowiki><pubmed>31085513</pubmed></nowiki></ref><ref><nowiki><pubmed>26442174</pubmed></nowiki></ref> and archaea<ref><nowiki><pubmed>15046567</pubmed></nowiki></ref><ref name=":2"><pubmed>11814653</pubmed><del class="diffchange diffchange-inline"><</del>/nowiki<del class="diffchange diffchange-inline">></del></ref><ref><nowiki><pubmed>16935554</pubmed></nowiki></ref> are related to IS with DDE Tpases<ref name=":2" /><ref name=":3"><pubmed>17347521</pubmed><del class="diffchange diffchange-inline"><</del>/nowiki<del class="diffchange diffchange-inline">></del></ref>. Among those derived from IS with DDE transposases, representatives of the [[IS Families/IS1 family|IS''1'']], [[IS Families/IS4 and related families|IS''4'']]'','' [[IS Families/IS5 and related IS1182 families|IS''5'']], [[IS Families/IS6 family|IS''6'']], and even [[Transposons families/Tn3 family|Tn''3'' family]] members such as IS''Rf1'' from ''[[wikipedia:Sinorhizobium_fredii|Sinorhizobium fredii]]'' have been identified. They are generally less than 300 bp long, include appropriately oriented left and right terminal IR but no Tpase and generally generate flanking DR. MITEs are probably derived from IS by internal deletion. Some carry short non-coding sequences between these IRs which may or may not be IS-derived. MITEs are considered to be non-autonomous transposable elements mobilizable in trans by Tpases of full-length parental genomic copies. They were first identified in plants<ref name=":1" /><ref><nowiki><pubmed>15020481</pubmed></nowiki></ref><ref><nowiki><pubmed>15831788</pubmed></nowiki></ref><ref><nowiki><pubmed>17578919</pubmed></nowiki></ref> and are related to Tc/mariner elements (distantly related to bacterial [[IS Families/IS630 family|IS''630'' family]]). IS''630''-related MITEs were also the first described bacterial examples<ref name=":0" /><ref><nowiki><pubmed>11707339</pubmed></nowiki></ref><ref><nowiki><pubmed>12095618</pubmed></nowiki></ref><ref><nowiki><pubmed>21283790</pubmed></nowiki></ref><ref><nowiki><pubmed>10537186</pubmed></nowiki></ref>. MITEs showing similarities to other IS and transposon families are observed in bacteria and archaea. Those related to the [[Transposons families/Tn3 family|Tn''3'' family]] have been called TIMEs<ref><nowiki><pubmed>25121765</pubmed></nowiki></ref>.</div></td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>|'''<big>M</big>'''any prokaryotic genomes are littered with IS fragments and small, non-autonomous IS derivatives whose transposition can, in principle, be catalyzed in trans by the Tpase of a related complete IS [[:Image:1.13.1.png|(Fig.8.1)]]. Structures called MITEs ('''M'''iniature '''I'''nverted repeat '''T'''ransposable '''E'''lements), first identified in ''Neisseria''<ref name=":0"><pubmed>2842323</pubmed></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div> </div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins class="diffchange diffchange-inline">&lt;</ins>/nowiki<ins class="diffchange diffchange-inline">&gt;</ins></ref> are found in many organisms including plants<ref><nowiki><pubmed>12618411</pubmed></nowiki></ref><ref name=":1"><pubmed>11756687</pubmed><ins class="diffchange diffchange-inline">&lt;</ins>/nowiki<ins class="diffchange diffchange-inline">&gt;</ins></ref><ref><nowiki><pubmed>1332797</pubmed></nowiki></ref><ref><nowiki><pubmed>8061524</pubmed></nowiki></ref>, insects<ref><nowiki><pubmed>16507338</pubmed></nowiki></ref><ref><nowiki><pubmed>16919158</pubmed></nowiki></ref>, fungi<ref><nowiki><pubmed>17179071</pubmed></nowiki></ref> bacteria <ref name=":0" /><ref><nowiki><pubmed>19393167</pubmed></nowiki></ref><ref><nowiki><pubmed>22016774</pubmed></nowiki></ref><ref><nowiki><pubmed>31085513</pubmed></nowiki></ref><ref><nowiki><pubmed>26442174</pubmed></nowiki></ref> and archaea<ref><nowiki><pubmed>15046567</pubmed></nowiki></ref><ref name=":2"><pubmed>11814653</pubmed></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div> </div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins class="diffchange diffchange-inline">&lt;</ins>/nowiki<ins class="diffchange diffchange-inline">&gt;</ins></ref><ref><nowiki><pubmed>16935554</pubmed></nowiki></ref> are related to IS with DDE Tpases<ref name=":2" /><ref name=":3"><pubmed>17347521</pubmed></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div> </div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins class="diffchange diffchange-inline">&lt;</ins>/nowiki<ins class="diffchange diffchange-inline">&gt;</ins></ref>. Among those derived from IS with DDE transposases, representatives of the [[IS Families/IS1 family|IS''1'']], [[IS Families/IS4 and related families|IS''4'']]'','' [[IS Families/IS5 and related IS1182 families|IS''5'']], [[IS Families/IS6 family|IS''6'']], and even [[Transposons families/Tn3 family|Tn''3'' family]] members such as <ins class="diffchange diffchange-inline">[https://tncentral.ncc.unesp.br/ISfinder/scripts/ficheIS.php?name=ISRf1 </ins>IS''Rf1''<ins class="diffchange diffchange-inline">] </ins>from ''[[wikipedia:Sinorhizobium_fredii|Sinorhizobium fredii]]'' have been identified. They are generally less than 300 bp long, include appropriately oriented left and right terminal IR but no Tpase and generally generate flanking DR. MITEs are probably derived from IS by internal deletion. Some carry short non-coding sequences between these IRs which may or may not be IS-derived. MITEs are considered to be non-autonomous transposable elements mobilizable in trans by Tpases of full-length parental genomic copies. They were first identified in plants<ref name=":1" /><ref><nowiki><pubmed>15020481</pubmed></nowiki></ref><ref><nowiki><pubmed>15831788</pubmed></nowiki></ref><ref><nowiki><pubmed>17578919</pubmed></nowiki></ref> and are related to Tc/mariner elements (distantly related to bacterial [[IS Families/IS630 family|IS''630'' family]]). <ins class="diffchange diffchange-inline">[https://tncentral.ncc.unesp.br/ISfinder/scripts/ficheIS.php?name=IS630 </ins>IS''630''<ins class="diffchange diffchange-inline">]</ins>-related MITEs were also the first described bacterial examples<ref name=":0" /><ref><nowiki><pubmed>11707339</pubmed></nowiki></ref><ref><nowiki><pubmed>12095618</pubmed></nowiki></ref><ref><nowiki><pubmed>21283790</pubmed></nowiki></ref><ref><nowiki><pubmed>10537186</pubmed></nowiki></ref>. MITEs showing similarities to other IS and transposon families are observed in bacteria and archaea. Those related to the [[Transposons families/Tn3 family|Tn''3'' family]] have been called TIMEs<ref><nowiki><pubmed>25121765</pubmed></nowiki></ref>.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>MITE-like structures related to elements with other types of transposase have also been identified. Among these are [[IS Families/IS200-IS605 family|IS''200''/IS''605'' family]] derivatives<ref name=":3" />; ([https://scholar.google.fr/citations?user=WHAtfqcAAAAJ&hl=fr P. Siguier], unpublished) [[:Image:1.18.1.png|(Fig.13.1)]] now called PATEs ('''P'''alindrome-'''A'''ssociated '''T'''ransposable '''E'''lements)<ref><nowiki><pubmed>21701686</pubmed></nowiki></ref> reflecting the sub-terminal secondary structures which constitute the ends of these IS. Although originally observed in the Archaea as derivatives of known [[IS Families/IS200-IS605 family|IS''200''/IS''605'' family]] members, they have also been observed in certain cyanobacteria and ''[[wikipedia:Salmonella|Salmonella]]'' ([https://scholar.google.fr/citations?user=WHAtfqcAAAAJ&hl=fr P. Siguier] unpublished). They presumably represent decay products that appear quite frequently for this IS family.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>MITE-like structures related to elements with other types of transposase have also been identified. Among these are [[IS Families/IS200-IS605 family|IS''200''/IS''605'' family]] derivatives<ref name=":3" />; ([https://scholar.google.fr/citations?user=WHAtfqcAAAAJ&hl=fr P. Siguier], unpublished) [[:Image:1.18.1.png|(Fig.13.1)]] now called PATEs ('''P'''alindrome-'''A'''ssociated '''T'''ransposable '''E'''lements)<ref><nowiki><pubmed>21701686</pubmed></nowiki></ref> reflecting the sub-terminal secondary structures which constitute the ends of these IS. Although originally observed in the Archaea as derivatives of known [[IS Families/IS200-IS605 family|IS''200''/IS''605'' family]] members, they have also been observed in certain cyanobacteria and ''[[wikipedia:Salmonella|Salmonella]]'' ([https://scholar.google.fr/citations?user=WHAtfqcAAAAJ&hl=fr P. Siguier] unpublished). They presumably represent decay products that appear quite frequently for this IS family.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Full-length copies of the parental IS may not be available or may be so divergent as to escape detection in standard [https://blast.ncbi.nlm.nih.gov/Blast.cgi BLAST analysi]s. This is the case for certain MITEs from the archaea <ref><nowiki><pubmed>X</pubmed></nowiki></ref> and is probably also true for the bacteria. Their detection and analysis are therefore arduous.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Full-length copies of the parental IS may not be available or may be so divergent as to escape detection in standard [https://blast.ncbi.nlm.nih.gov/Blast.cgi BLAST analysi]s. This is the case for certain MITEs from the archaea <ref><nowiki><pubmed>X</pubmed></nowiki></ref> and is probably also true for the bacteria. Their detection and analysis are therefore arduous.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>Another group of IS derivatives related to MITEs are called MICs ('''M'''obile '''I'''nsertion '''C'''assette)<ref name=":4"><pubmed>15228527</pubmed><del class="diffchange diffchange-inline"><</del>/nowiki<del class="diffchange diffchange-inline">></del></ref><ref><nowiki><pubmed>10320586</pubmed></nowiki></ref> [[:Image:1.13.1.png|(Fig.8.1)]]. These, like MITEs, are flanked by IR, do not include a Tpase gene and generate flanking DR. They carry various coding sequences, and are present in relatively low copy number. The [[IS Families/IS4 and related families#IS231|IS''231'' sub-group]] of the large [[IS Families/IS4 and related families|IS''4'' family]] includes examples of many of these IS-derivatives (canonical ISs, MITEs, MICs and tIS)<ref name=":4" /><ref><nowiki><pubmed>18215304</pubmed></nowiki></ref>. Tn''3''-derived MICs appear to be particularly prevalent in ''Xanthomonas'' where they include TALE ('''T'''ranscriptional '''A'''ctivator '''L'''ike '''E'''lements) genes involved in ''Xanthomonas'' pathogenicity in plants <ref><nowiki><pubmed>25691597</pubmed></nowiki></ref></div></td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>Another group of IS derivatives related to MITEs are called MICs ('''M'''obile '''I'''nsertion '''C'''assette)<ref name=":4"><pubmed>15228527</pubmed></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div> </div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins class="diffchange diffchange-inline">&lt;</ins>/nowiki<ins class="diffchange diffchange-inline">&gt;</ins></ref><ref><nowiki><pubmed>10320586</pubmed></nowiki></ref> [[:Image:1.13.1.png|(Fig.8.1)]]. These, like MITEs, are flanked by IR, do not include a Tpase gene and generate flanking DR. They carry various coding sequences, and are present in relatively low copy number. The [[IS Families/IS4 and related families#IS231|IS''231'' sub-group]] of the large [[IS Families/IS4 and related families|IS''4'' family]] includes examples of many of these IS-derivatives (canonical ISs, MITEs, MICs and tIS)<ref name=":4" /><ref><nowiki><pubmed>18215304</pubmed></nowiki></ref>. Tn''3''-derived MICs appear to be particularly prevalent in ''Xanthomonas'' where they include TALE ('''T'''ranscriptional '''A'''ctivator '''L'''ike '''E'''lements) genes involved in ''Xanthomonas'' pathogenicity in plants <ref><nowiki><pubmed>25691597</pubmed></nowiki></ref></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
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<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div><br /></div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div><br /></div></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>|[[Image:1.18.1.png|thumb|450x450px|'''Fig.13.1.''' PATEs ('''P'''alindrome-'''A'''ssociated '''T'''ransposable '''E'''lements) isolated ends from IS''609''.</div></td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>|[[Image:1.18.1.png|thumb|450x450px|'''Fig.13.1.''' PATEs ('''P'''alindrome-'''A'''ssociated '''T'''ransposable '''E'''lements) isolated ends from <ins class="diffchange diffchange-inline">[https://tncentral.ncc.unesp.br/ISfinder/scripts/ficheIS.php?name=IS609 </ins>IS''609''<ins class="diffchange diffchange-inline">]</ins>.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>The particular case of MITES derived from IS200/IS605 family members. Top: The IS ends with their essential secondary structures are shown in red (left end) and blue (right end). The boxed (left) sequence represents the conserved target sequence and underlined (right) sequence at the right end are sequences recognized by guide sequences at the foot of the secondary structures necessary for directing cleavage. The inset represents a full-sized IS with its transposase tnpA1 (red) and the accessory gene tnpB (pale green). The actual DNA sequences are shown at the bottom of the figure.|alt=]]<br /></div></td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>The particular case of MITES derived from <ins class="diffchange diffchange-inline">[[IS Families/</ins>IS200<ins class="diffchange diffchange-inline">-IS605 family|IS''200</ins>/IS605<ins class="diffchange diffchange-inline">'' </ins>family<ins class="diffchange diffchange-inline">]] </ins>members. Top: The IS ends with their essential secondary structures are shown in red (left end) and blue (right end). The boxed (left) sequence represents the conserved target sequence and underlined (right) sequence at the right end are sequences recognized by guide sequences at the foot of the secondary structures necessary for directing cleavage. The inset represents a full-sized IS with its transposase <ins class="diffchange diffchange-inline">''</ins>tnpA1<ins class="diffchange diffchange-inline">'' </ins>(red) and the accessory gene <ins class="diffchange diffchange-inline">''</ins>tnpB<ins class="diffchange diffchange-inline">'' </ins>(pale green). The actual DNA sequences are shown at the bottom of the figure.|alt=]]<br /></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>|}</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>|}</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>==Bibliography==</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>==Bibliography==</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div><references /></div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div><references /></div></td></tr>
</table>TnCentralhttps://tncentral.ncc.unesp.br/TnPedia/index.php?title=General_Information/Non-autonomous_IS_derivatives&diff=2077&oldid=prevTnCentral at 19:14, 15 May 20212021-05-15T19:14:07Z<p></p>
<table class="diff diff-contentalign-left" data-mw="interface">
<col class="diff-marker" />
<col class="diff-content" />
<col class="diff-marker" />
<col class="diff-content" />
<tr class="diff-title" lang="en">
<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">← Older revision</td>
<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">Revision as of 19:14, 15 May 2021</td>
</tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l5" >Line 5:</td>
<td colspan="2" class="diff-lineno">Line 5:</td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Full-length copies of the parental IS may not be available or may be so divergent as to escape detection in standard [https://blast.ncbi.nlm.nih.gov/Blast.cgi BLAST analysi]s. This is the case for certain MITEs from the archaea <ref><nowiki><pubmed>X</pubmed></nowiki></ref> and is probably also true for the bacteria. Their detection and analysis are therefore arduous.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Full-length copies of the parental IS may not be available or may be so divergent as to escape detection in standard [https://blast.ncbi.nlm.nih.gov/Blast.cgi BLAST analysi]s. This is the case for certain MITEs from the archaea <ref><nowiki><pubmed>X</pubmed></nowiki></ref> and is probably also true for the bacteria. Their detection and analysis are therefore arduous.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>Another group of IS derivatives related to MITEs are called MICs ('''M'''obile '''I'''nsertion '''C'''assette)<ref name=":4"><pubmed>15228527</pubmed></nowiki></ref><ref><nowiki><pubmed>10320586</pubmed></nowiki></ref> [[:Image:1.13.1.png|(Fig.8.1)]]. These, like MITEs, are flanked by IR, do not include a Tpase gene and generate flanking DR. They carry various coding sequences, and are present in relatively low copy number. The [[IS Families/IS4 and related families#IS231|IS''231'' sub-group]] of the large [[IS Families/IS4 and related families|IS''4'' family]] includes examples of many of these IS-derivatives (canonical ISs, MITEs, MICs and tIS)<ref name=":4" /><ref><nowiki><pubmed>18215304</pubmed></nowiki></ref>. Tn''3''-derived MICs appear to be particularly prevalent in ''Xanthomonas'' where they include TALE ('''T'''ranscriptional '''A'''ctivator '''L'''ike '''E'''lements) genes involved in ''Xanthomonas'' pathogenicity in plants <ref><<pubmed>25691597</pubmed></nowiki></ref></div></td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>Another group of IS derivatives related to MITEs are called MICs ('''M'''obile '''I'''nsertion '''C'''assette)<ref name=":4"><pubmed>15228527</pubmed></nowiki></ref><ref><nowiki><pubmed>10320586</pubmed></nowiki></ref> [[:Image:1.13.1.png|(Fig.8.1)]]. These, like MITEs, are flanked by IR, do not include a Tpase gene and generate flanking DR. They carry various coding sequences, and are present in relatively low copy number. The [[IS Families/IS4 and related families#IS231|IS''231'' sub-group]] of the large [[IS Families/IS4 and related families|IS''4'' family]] includes examples of many of these IS-derivatives (canonical ISs, MITEs, MICs and tIS)<ref name=":4" /><ref><nowiki><pubmed>18215304</pubmed></nowiki></ref>. Tn''3''-derived MICs appear to be particularly prevalent in ''Xanthomonas'' where they include TALE ('''T'''ranscriptional '''A'''ctivator '''L'''ike '''E'''lements) genes involved in ''Xanthomonas'' pathogenicity in plants <ref><<ins class="diffchange diffchange-inline">nowiki></ins><pubmed>25691597</pubmed></nowiki></ref></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
</table>TnCentralhttps://tncentral.ncc.unesp.br/TnPedia/index.php?title=General_Information/Non-autonomous_IS_derivatives&diff=2076&oldid=prevTnCentral at 19:12, 15 May 20212021-05-15T19:12:23Z<p></p>
<table class="diff diff-contentalign-left" data-mw="interface">
<col class="diff-marker" />
<col class="diff-content" />
<col class="diff-marker" />
<col class="diff-content" />
<tr class="diff-title" lang="en">
<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">← Older revision</td>
<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">Revision as of 19:12, 15 May 2021</td>
</tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l5" >Line 5:</td>
<td colspan="2" class="diff-lineno">Line 5:</td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Full-length copies of the parental IS may not be available or may be so divergent as to escape detection in standard [https://blast.ncbi.nlm.nih.gov/Blast.cgi BLAST analysi]s. This is the case for certain MITEs from the archaea <ref><nowiki><pubmed>X</pubmed></nowiki></ref> and is probably also true for the bacteria. Their detection and analysis are therefore arduous.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Full-length copies of the parental IS may not be available or may be so divergent as to escape detection in standard [https://blast.ncbi.nlm.nih.gov/Blast.cgi BLAST analysi]s. This is the case for certain MITEs from the archaea <ref><nowiki><pubmed>X</pubmed></nowiki></ref> and is probably also true for the bacteria. Their detection and analysis are therefore arduous.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>Another group of IS derivatives related to MITEs are called MICs ('''M'''obile '''I'''nsertion '''C'''assette)<ref name=":4"><pubmed>15228527</pubmed></nowiki></ref><ref><nowiki><pubmed>10320586</pubmed></nowiki></ref> [[:Image:1.13.1.png|(Fig.8.1)]]. These, like MITEs, are flanked by IR, do not include a Tpase gene and generate flanking DR. They carry various coding sequences, and are present in relatively low copy number. The [[IS Families/IS4 and related families#IS231|IS''231'' sub-group]] of the large [[IS Families/IS4 and related families|IS''4'' family]] includes examples of many of these IS-derivatives (canonical ISs, MITEs, MICs and tIS)<ref name=":4" /><ref><nowiki><pubmed>18215304</pubmed></nowiki></ref>. Tn''3''-derived MICs appear to be particularly prevalent in ''Xanthomonas'' where they include TALE ('''T'''ranscriptional '''A'''ctivator '''L'''ike '''E'''lements) genes involved in ''Xanthomonas'' pathogenicity in plants <ref><<del class="diffchange diffchange-inline">nowiki></del><pubmed>25691597</pubmed></nowiki></ref></div></td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>Another group of IS derivatives related to MITEs are called MICs ('''M'''obile '''I'''nsertion '''C'''assette)<ref name=":4"><pubmed>15228527</pubmed></nowiki></ref><ref><nowiki><pubmed>10320586</pubmed></nowiki></ref> [[:Image:1.13.1.png|(Fig.8.1)]]. These, like MITEs, are flanked by IR, do not include a Tpase gene and generate flanking DR. They carry various coding sequences, and are present in relatively low copy number. The [[IS Families/IS4 and related families#IS231|IS''231'' sub-group]] of the large [[IS Families/IS4 and related families|IS''4'' family]] includes examples of many of these IS-derivatives (canonical ISs, MITEs, MICs and tIS)<ref name=":4" /><ref><nowiki><pubmed>18215304</pubmed></nowiki></ref>. Tn''3''-derived MICs appear to be particularly prevalent in ''Xanthomonas'' where they include TALE ('''T'''ranscriptional '''A'''ctivator '''L'''ike '''E'''lements) genes involved in ''Xanthomonas'' pathogenicity in plants <ref><<pubmed>25691597</pubmed></nowiki></ref></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
</table>TnCentralhttps://tncentral.ncc.unesp.br/TnPedia/index.php?title=General_Information/Non-autonomous_IS_derivatives&diff=2075&oldid=prevTnCentral at 19:08, 15 May 20212021-05-15T19:08:57Z<p></p>
<table class="diff diff-contentalign-left" data-mw="interface">
<col class="diff-marker" />
<col class="diff-content" />
<col class="diff-marker" />
<col class="diff-content" />
<tr class="diff-title" lang="en">
<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">← Older revision</td>
<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">Revision as of 19:08, 15 May 2021</td>
</tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l5" >Line 5:</td>
<td colspan="2" class="diff-lineno">Line 5:</td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Full-length copies of the parental IS may not be available or may be so divergent as to escape detection in standard [https://blast.ncbi.nlm.nih.gov/Blast.cgi BLAST analysi]s. This is the case for certain MITEs from the archaea <ref><nowiki><pubmed>X</pubmed></nowiki></ref> and is probably also true for the bacteria. Their detection and analysis are therefore arduous.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Full-length copies of the parental IS may not be available or may be so divergent as to escape detection in standard [https://blast.ncbi.nlm.nih.gov/Blast.cgi BLAST analysi]s. This is the case for certain MITEs from the archaea <ref><nowiki><pubmed>X</pubmed></nowiki></ref> and is probably also true for the bacteria. Their detection and analysis are therefore arduous.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>Another group of IS derivatives related to MITEs are called MICs ('''M'''obile '''I'''nsertion '''C'''assette)<ref name=":4"><pubmed>15228527</pubmed></nowiki></ref><ref><nowiki><pubmed>10320586</pubmed></nowiki></ref> [[:Image:1.13.1.png|(Fig.8.1)]]. These, like MITEs, are flanked by IR, do not include a Tpase gene and generate flanking DR. They carry various coding sequences, and are present in relatively low copy number. The [[IS Families/IS4 and related families#IS231|IS''231'' sub-group]] of the large [[IS Families/IS4 and related families|IS''4'' family]] includes examples of many of these IS-derivatives (canonical ISs, MITEs, MICs and tIS)<ref name=":4" /><ref><nowiki><pubmed>18215304</pubmed></nowiki></ref>. Tn''3''-derived MICs appear to be particularly prevalent in ''Xanthomonas'' where they include TALE ('''T'''ranscriptional '''A'''ctivator '''L'''ike '''E'''lements) genes involved in ''Xanthomonas'' pathogenicity in plants <del class="diffchange diffchange-inline">'''(Ferreira et al 2015)'''</del></div></td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>Another group of IS derivatives related to MITEs are called MICs ('''M'''obile '''I'''nsertion '''C'''assette)<ref name=":4"><pubmed>15228527</pubmed></nowiki></ref><ref><nowiki><pubmed>10320586</pubmed></nowiki></ref> [[:Image:1.13.1.png|(Fig.8.1)]]. These, like MITEs, are flanked by IR, do not include a Tpase gene and generate flanking DR. They carry various coding sequences, and are present in relatively low copy number. The [[IS Families/IS4 and related families#IS231|IS''231'' sub-group]] of the large [[IS Families/IS4 and related families|IS''4'' family]] includes examples of many of these IS-derivatives (canonical ISs, MITEs, MICs and tIS)<ref name=":4" /><ref><nowiki><pubmed>18215304</pubmed></nowiki></ref>. Tn''3''-derived MICs appear to be particularly prevalent in ''Xanthomonas'' where they include TALE ('''T'''ranscriptional '''A'''ctivator '''L'''ike '''E'''lements) genes involved in ''Xanthomonas'' pathogenicity in plants <ins class="diffchange diffchange-inline"><ref><nowiki><pubmed>25691597</pubmed></nowiki></ref></ins></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
</table>TnCentralhttps://tncentral.ncc.unesp.br/TnPedia/index.php?title=General_Information/Non-autonomous_IS_derivatives&diff=2074&oldid=prevTnCentral at 19:06, 15 May 20212021-05-15T19:06:27Z<p></p>
<table class="diff diff-contentalign-left" data-mw="interface">
<col class="diff-marker" />
<col class="diff-content" />
<col class="diff-marker" />
<col class="diff-content" />
<tr class="diff-title" lang="en">
<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">← Older revision</td>
<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">Revision as of 19:06, 15 May 2021</td>
</tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l5" >Line 5:</td>
<td colspan="2" class="diff-lineno">Line 5:</td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Full-length copies of the parental IS may not be available or may be so divergent as to escape detection in standard [https://blast.ncbi.nlm.nih.gov/Blast.cgi BLAST analysi]s. This is the case for certain MITEs from the archaea <ref><nowiki><pubmed>X</pubmed></nowiki></ref> and is probably also true for the bacteria. Their detection and analysis are therefore arduous.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Full-length copies of the parental IS may not be available or may be so divergent as to escape detection in standard [https://blast.ncbi.nlm.nih.gov/Blast.cgi BLAST analysi]s. This is the case for certain MITEs from the archaea <ref><nowiki><pubmed>X</pubmed></nowiki></ref> and is probably also true for the bacteria. Their detection and analysis are therefore arduous.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>Another group of IS derivatives related to MITEs are called MICs ('''M'''obile '''I'''nsertion '''C'''assette)<ref name=":4"><pubmed>15228527</pubmed></nowiki></ref><ref><nowiki><pubmed>10320586</pubmed></nowiki></ref> [[:Image:1.13.1.png|(Fig.8.1)]]. These, like MITEs, are flanked by IR, do not include a Tpase gene and generate flanking DR. They carry various coding sequences, and are present in relatively low copy number. The [[IS Families/IS4 and related families#IS231|IS''231'' sub-group]] of the large [[IS Families/IS4 and related families|IS''4'' family]] includes examples of many of these IS-derivatives (canonical ISs, MITEs, MICs and tIS)<ref name=":4" /><ref><nowiki><pubmed>18215304</pubmed></nowiki></ref>. <del class="diffchange diffchange-inline">Tn3</del>-derived MICs appear to be particularly prevalent in ''<del class="diffchange diffchange-inline">Xanthomonads</del>'' where they include TALE ('''T'''ranscriptional '''A'''ctivator '''L'''ike '''E'''lements) genes involved in <del class="diffchange diffchange-inline">Xanthomonad </del>pathogenicity in plants '''(Ferreira et al 2015)'''</div></td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>Another group of IS derivatives related to MITEs are called MICs ('''M'''obile '''I'''nsertion '''C'''assette)<ref name=":4"><pubmed>15228527</pubmed></nowiki></ref><ref><nowiki><pubmed>10320586</pubmed></nowiki></ref> [[:Image:1.13.1.png|(Fig.8.1)]]. These, like MITEs, are flanked by IR, do not include a Tpase gene and generate flanking DR. They carry various coding sequences, and are present in relatively low copy number. The [[IS Families/IS4 and related families#IS231|IS''231'' sub-group]] of the large [[IS Families/IS4 and related families|IS''4'' family]] includes examples of many of these IS-derivatives (canonical ISs, MITEs, MICs and tIS)<ref name=":4" /><ref><nowiki><pubmed>18215304</pubmed></nowiki></ref>. <ins class="diffchange diffchange-inline">Tn''3''</ins>-derived MICs appear to be particularly prevalent in ''<ins class="diffchange diffchange-inline">Xanthomonas</ins>'' where they include TALE ('''T'''ranscriptional '''A'''ctivator '''L'''ike '''E'''lements) genes involved in <ins class="diffchange diffchange-inline">''Xanthomonas'' </ins>pathogenicity in plants '''(Ferreira et al 2015)'''</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
</table>TnCentralhttps://tncentral.ncc.unesp.br/TnPedia/index.php?title=General_Information/Non-autonomous_IS_derivatives&diff=2072&oldid=prevTnCentral at 13:50, 15 May 20212021-05-15T13:50:02Z<p></p>
<table class="diff diff-contentalign-left" data-mw="interface">
<col class="diff-marker" />
<col class="diff-content" />
<col class="diff-marker" />
<col class="diff-content" />
<tr class="diff-title" lang="en">
<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">← Older revision</td>
<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">Revision as of 13:50, 15 May 2021</td>
</tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l5" >Line 5:</td>
<td colspan="2" class="diff-lineno">Line 5:</td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Full-length copies of the parental IS may not be available or may be so divergent as to escape detection in standard [https://blast.ncbi.nlm.nih.gov/Blast.cgi BLAST analysi]s. This is the case for certain MITEs from the archaea <ref><nowiki><pubmed>X</pubmed></nowiki></ref> and is probably also true for the bacteria. Their detection and analysis are therefore arduous.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Full-length copies of the parental IS may not be available or may be so divergent as to escape detection in standard [https://blast.ncbi.nlm.nih.gov/Blast.cgi BLAST analysi]s. This is the case for certain MITEs from the archaea <ref><nowiki><pubmed>X</pubmed></nowiki></ref> and is probably also true for the bacteria. Their detection and analysis are therefore arduous.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>Another group of IS derivatives related to MITEs are called MICs ('''M'''obile '''I'''nsertion '''C'''assette)<ref name=":4"><pubmed>15228527</pubmed></nowiki></ref><ref><nowiki><pubmed>10320586</pubmed></nowiki></ref> [[:Image:1.13.1.png|(Fig.8.1)]]. These, like MITEs, are flanked by IR, do not include a Tpase gene and generate flanking DR. They carry various coding sequences, and are present in relatively low copy number. The [[IS Families/IS4 and related families#IS231|IS''231'' sub-group]] of the large [[IS Families/IS4 and related families|IS''4'' family]] includes examples of many of these IS-derivatives (canonical ISs, MITEs, MICs and tIS)<ref name=":4" /><ref><nowiki><pubmed>18215304</pubmed></nowiki></ref>. Tn3-derived <del class="diffchange diffchange-inline">Mics </del>appear to be particularly prevalent in Xanthomonads where they include TALE (<del class="diffchange diffchange-inline">Transcriptional Activator like elements</del>) genes involved in Xanthomonad pathogenicity (Ferreira et al 2015)</div></td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>Another group of IS derivatives related to MITEs are called MICs ('''M'''obile '''I'''nsertion '''C'''assette)<ref name=":4"><pubmed>15228527</pubmed></nowiki></ref><ref><nowiki><pubmed>10320586</pubmed></nowiki></ref> [[:Image:1.13.1.png|(Fig.8.1)]]. These, like MITEs, are flanked by IR, do not include a Tpase gene and generate flanking DR. They carry various coding sequences, and are present in relatively low copy number. The [[IS Families/IS4 and related families#IS231|IS''231'' sub-group]] of the large [[IS Families/IS4 and related families|IS''4'' family]] includes examples of many of these IS-derivatives (canonical ISs, MITEs, MICs and tIS)<ref name=":4" /><ref><nowiki><pubmed>18215304</pubmed></nowiki></ref>. Tn3-derived <ins class="diffchange diffchange-inline">MICs </ins>appear to be particularly prevalent in <ins class="diffchange diffchange-inline">''</ins>Xanthomonads<ins class="diffchange diffchange-inline">'' </ins>where they include TALE (<ins class="diffchange diffchange-inline">'''T'''ranscriptional '''A'''ctivator '''L'''ike '''E'''lements</ins>) genes involved in Xanthomonad pathogenicity <ins class="diffchange diffchange-inline">in plants '''</ins>(Ferreira et al 2015)<ins class="diffchange diffchange-inline">'''</ins></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
</table>TnCentral