Difference between revisions of "Glossary"

From TnPedia
Jump to navigation Jump to search
(96 intermediate revisions by the same user not shown)
Line 1: Line 1:
<center>{{CompactTOC8|nobreak=yes}}
+
__NOTOC__{{compact ToC1}}
</center>
 
 
==A==
 
==A==
 
==B==
 
==B==
Line 10: Line 9:
 
*<u>Co-integrate</u>:
 
*<u>Co-integrate</u>:
 
*<u>Copy-and-paste transposition model</u>:
 
*<u>Copy-and-paste transposition model</u>:
*Copy-out–Paste-in transposition model:
+
*<u>Copy-out–Paste-in transposition model</u>:
 
*<u>Cut-and-paste transposition model</u>:
 
*<u>Cut-and-paste transposition model</u>:
  
Line 16: Line 15:
 
==D==
 
==D==
  
*'''D'''irect '''R'''epeats (DRs):
+
*<u>'''D'''irect '''R'''epeats (DRs)</u>:
*DDE Domain:
+
*<u>DDE Domain</u>:
*'''D'''onor '''P'''rimed '''R'''eplicative '''T'''ransposition (DPRT):
+
*<u>'''D'''onor '''P'''rimed '''R'''eplicative '''T'''ransposition (DPRT)</u>:
  
 
==E==
 
==E==
Line 25: Line 24:
  
 
*<u>Group II introns</u>: The group II introns are mobile retroelements that use the combined activities of an autocatalytic RNA and an intron-encoded reverse transcriptase (RT) to propagate efficiently within genomes. They are intimately related with the evolution of eukaryotes, being ancestrally related to nuclear spliceosomal introns, retrotransposons and telomerase ([[wikipedia:Group_II_intron|see also]]).
 
*<u>Group II introns</u>: The group II introns are mobile retroelements that use the combined activities of an autocatalytic RNA and an intron-encoded reverse transcriptase (RT) to propagate efficiently within genomes. They are intimately related with the evolution of eukaryotes, being ancestrally related to nuclear spliceosomal introns, retrotransposons and telomerase ([[wikipedia:Group_II_intron|see also]]).
*Genome decay:
+
*<u>Genome decay</u>:
*Genome Rearrangements:
+
*<u>Genome Rearrangements</u>:
  
 
<br />
 
<br />
 
==H==
 
==H==
  
*Horizontal gene transfer (or Lateral gene transfer):
+
*<u>Horizontal gene transfer (or Lateral gene transfer)</u>:
*Homologous recombination:
+
*<u>Homologous recombination</u>:
  
 
==I==
 
==I==
  
*'''I'''nverted '''R'''epeats (IR):
+
*<u>'''I'''nverted '''R'''epeats (IR)</u>:
 
*<u>Integron</u>: Integrons one class of '''M'''obile '''G'''enetic '''E'''lements (MGEs) are specific genetic structure composed by genes (named as integron cassettes) that generally allow bacteria to adapt and rapidly evolve through the acquisition, stockpiling, excision, and reordering of open reading frames found the integron cassettes. The integron mobilization is mediated by site-specific recombination reactions by the integrase ([[wikipedia:Integron|see also]]).
 
*<u>Integron</u>: Integrons one class of '''M'''obile '''G'''enetic '''E'''lements (MGEs) are specific genetic structure composed by genes (named as integron cassettes) that generally allow bacteria to adapt and rapidly evolve through the acquisition, stockpiling, excision, and reordering of open reading frames found the integron cassettes. The integron mobilization is mediated by site-specific recombination reactions by the integrase ([[wikipedia:Integron|see also]]).
*Invertases:
+
*<u>Invertases</u>:
  
 
==J==
 
==J==
Line 45: Line 44:
 
==M==
 
==M==
  
*Mobilome:
+
*<u>Mobilome</u>:
*Methylase (Methylation):
+
*<u>Methylase (Methylation)</u>:
  
 
==N==
 
==N==
Line 52: Line 51:
 
==P==
 
==P==
  
*Plasmidome:
+
*<u>Plasmidome</u>:
*Pseudogenisation:
+
*<u>plasmid F</u>:
*Peel-and-paste (Single-strand) transposition model:
+
*<u>Pseudogenisation</u>:
*Phage tyrosine integrase:
+
*<u>Peel-and-paste (Single-strand) transposition model</u>:
*Phage serine integrase:  
+
*<u>Phage tyrosine integrase</u>:
 +
*<u>Phage serine integrase</u>:
  
 
==Q==
 
==Q==
Line 68: Line 68:
 
==S==
 
==S==
  
*Synaptic complex:
+
*<u>Synaptic complex</u>:
 
*<u>Serine recombinase:</u> The serine recombinases are a family of DNA breaking and rejoining enzymes. Unlike homologous recombination, the serine recombinases promote rearrangements of DNA by breaking and rejoining strands at precisely defined sequence positions ([[wikipedia:Site-specific_recombination|see also]]).
 
*<u>Serine recombinase:</u> The serine recombinases are a family of DNA breaking and rejoining enzymes. Unlike homologous recombination, the serine recombinases promote rearrangements of DNA by breaking and rejoining strands at precisely defined sequence positions ([[wikipedia:Site-specific_recombination|see also]]).
*<u>Serine Resolvases</u>: The serine resolvases and the closely related invertases, are a group of group of site-specific recombinases that, in their native contexts, resolve large fused replicons into smaller separated ones
+
*<u>Serine Resolvases</u>: The serine resolvases and the closely related invertases, are a group of site-specific recombinases that, in their native contexts, resolve large fused replicons into smaller separated ones
*Single-strand transposition:
+
*<u>Single-strand transposition</u>:
*Site-specific recombination:
+
*<u>Site-specific recombination</u>:
  
 
<br />
 
<br />
 
==T==
 
==T==
  
*Target specificity:
+
*<u>Target specificity</u>:
*Transposase:
+
*<u>Transposase</u>:
*Transposome:
+
*<u>Transposome</u>:
*'''T'''arget '''P'''rimed '''R'''eplicative '''T'''ransposition (TPRT):
+
*<u>'''T'''arget '''P'''rimed '''R'''eplicative '''T'''ransposition (TPRT)</u>:
 
*<u>Tyrosine recombinase:</u> Tyrosine site-specific recombinases (YRs) are a family of DNA breaking and rejoining enzymes which use the active site tyrosine nucleophile for DNA strand breakage ([[wikipedia:Site-specific_recombination#Classification:_tyrosine-_vs._serine-_recombinases|see also]]).
 
*<u>Tyrosine recombinase:</u> Tyrosine site-specific recombinases (YRs) are a family of DNA breaking and rejoining enzymes which use the active site tyrosine nucleophile for DNA strand breakage ([[wikipedia:Site-specific_recombination#Classification:_tyrosine-_vs._serine-_recombinases|see also]]).
  
Line 86: Line 86:
 
==V==
 
==V==
  
* V(D)J Recombination:
+
*<u>V(D)J Recombination</u>:
  
 
==W==
 
==W==
 
==X==
 
==X==
  
* <u>Xer Site-Specific Recombination</u>:
+
*<u>Xer Site-Specific Recombination</u>:
  
<br />
 
 
==Y==
 
==Y==
 
==Z==
 
==Z==
==See also==
+
==Notes==
  
*The logic behind the IS nomenclature and naming attribution
+
<br/>
 +
{{TnPedia}}
 +
<htmlet nocache="yes" >foobar</htmlet>

Revision as of 12:17, 5 December 2022

Contents
A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

A

B

C

  • Class I Elements: (see also)
  • Class II Elements: (see also)
  • Cre Recombinase: The Cre Recombinase is a DNA breaking and rejoining enzyme (from tyrosine recombinase family) derived from the P1 bacteriophage. It is widely used for conditional mutagenesis of transgenes and insert DNA cassettes into eukaryotic chromosomes. (see also).
  • Co-integrate:
  • Copy-and-paste transposition model:
  • Copy-out–Paste-in transposition model:
  • Cut-and-paste transposition model:


D

  • Direct Repeats (DRs):
  • DDE Domain:
  • Donor Primed Replicative Transposition (DPRT):

E

F

G

  • Group II introns: The group II introns are mobile retroelements that use the combined activities of an autocatalytic RNA and an intron-encoded reverse transcriptase (RT) to propagate efficiently within genomes. They are intimately related with the evolution of eukaryotes, being ancestrally related to nuclear spliceosomal introns, retrotransposons and telomerase (see also).
  • Genome decay:
  • Genome Rearrangements:


H

  • Horizontal gene transfer (or Lateral gene transfer):
  • Homologous recombination:

I

  • Inverted Repeats (IR):
  • Integron: Integrons one class of Mobile Genetic Elements (MGEs) are specific genetic structure composed by genes (named as integron cassettes) that generally allow bacteria to adapt and rapidly evolve through the acquisition, stockpiling, excision, and reordering of open reading frames found the integron cassettes. The integron mobilization is mediated by site-specific recombination reactions by the integrase (see also).
  • Invertases:

J

K

L

M

  • Mobilome:
  • Methylase (Methylation):

N

O

P

  • Plasmidome:
  • plasmid F:
  • Pseudogenisation:
  • Peel-and-paste (Single-strand) transposition model:
  • Phage tyrosine integrase:
  • Phage serine integrase:

Q

R

  • Resolution site:
  • Resolvase:
  • Rolling-circle transposition model:


S

  • Synaptic complex:
  • Serine recombinase: The serine recombinases are a family of DNA breaking and rejoining enzymes. Unlike homologous recombination, the serine recombinases promote rearrangements of DNA by breaking and rejoining strands at precisely defined sequence positions (see also).
  • Serine Resolvases: The serine resolvases and the closely related invertases, are a group of site-specific recombinases that, in their native contexts, resolve large fused replicons into smaller separated ones
  • Single-strand transposition:
  • Site-specific recombination:


T

  • Target specificity:
  • Transposase:
  • Transposome:
  • Target Primed Replicative Transposition (TPRT):
  • Tyrosine recombinase: Tyrosine site-specific recombinases (YRs) are a family of DNA breaking and rejoining enzymes which use the active site tyrosine nucleophile for DNA strand breakage (see also).

U

V

  • V(D)J Recombination:

W

X

  • Xer Site-Specific Recombination:

Y

Z

Notes