scholarly journals Identified Hybrid tRNA Structure Genes in Archaeal Genome

2019 ◽  
Vol 17 (3) ◽  
pp. 1-8
Author(s):  
Uttam Roy Mandal ◽  
Shib Sankar Das ◽  
Brajadulal Chattopadhyay ◽  
Satyabrata Sahoo
Keyword(s):  
Archaeal Genome ◽  
Trna Structure

scholarly journals Structural and Genetic Determinants of Convergence in the Drosophila tRNA Structure–Function Map

2021 ◽  
Vol 89 (1-2) ◽  
pp. 103-116
Author(s):  
Julie Baker Phillips ◽  
David H. Ardell
Keyword(s):  
Structure Function ◽  
Metal Ion ◽  
Binding Pocket ◽  
Trna Synthetase ◽  
Heterologous Gene ◽  
Multigene Families ◽  
Ion Binding ◽  
Trna Genes ◽  
Structural Factors ◽  
Trna Structure

AbstractThe evolution of tRNA multigene families remains poorly understood, exhibiting unusual phenomena such as functional conversions of tRNA genes through anticodon shift substitutions. We improved FlyBase tRNA gene annotations from twelve Drosophila species, incorporating previously identified ortholog sets to compare substitution rates across tRNA bodies at single-site and base-pair resolution. All rapidly evolving sites fell within the same metal ion-binding pocket that lies at the interface of the two major stacked helical domains. We applied our tRNA Structure–Function Mapper (tSFM) method independently to each Drosophila species and one outgroup species Musca domestica and found that, although predicted tRNA structure–function maps are generally highly conserved in flies, one tRNA Class-Informative Feature (CIF) within the rapidly evolving ion-binding pocket—Cytosine 17 (C17), ancestrally informative for lysylation identity—independently gained asparaginylation identity and substituted in parallel across tRNAAsn paralogs at least once, possibly multiple times, during evolution of the genus. In D. melanogaster, most tRNALys and tRNAAsn genes are co-arrayed in one large heterologous gene cluster, suggesting that heterologous gene conversion as well as structural similarities of tRNA-binding interfaces in the closely related asparaginyl-tRNA synthetase (AsnRS) and lysyl-tRNA synthetase (LysRS) proteins may have played a role in these changes. A previously identified Asn-to-Lys anticodon shift substitution in D. ananassae may have arisen to compensate for the convergent and parallel gains of C17 in tRNAAsn paralogs in that lineage. Our results underscore the functional and evolutionary relevance of our tRNA structure–function map predictions and illuminate multiple genomic and structural factors contributing to rapid, parallel and compensatory evolution of tRNA multigene families.

tRNA structure from a graph and quantum theoretical perspective

2006 ◽  
Vol 240 (4) ◽  
pp. 574-582 ◽  
Author(s):  
Johan F. Galindo ◽  
Clara I. Bermúdez ◽  
Edgar E. Daza
Keyword(s):  
Theoretical Perspective ◽  
Trna Structure

scholarly journals Alba shapes the archaeal genome using a delicate balance of bridging and stiffening the DNA

2012 ◽  
Vol 3 (1) ◽  
Author(s):  
Niels Laurens ◽  
Rosalie P.C. Driessen ◽  
Iddo Heller ◽  
Daan Vorselen ◽  
Maarten C. Noom ◽  
...  
Keyword(s):  
Archaeal Genome ◽  
Delicate Balance

Conservation of plant cytoplasmic tRNA structure. Nucleotide sequence of rape tRNAPhe

Biochimie ◽  
1984 ◽  
Vol 66 (6) ◽  
pp. 483-486 ◽  
Author(s):  
Miroslawa Barciszewska ◽  
Jan Barciszewski ◽  
Maciej Wiewiorowski ◽  
Guy Dirheimer ◽  
Gérard Keith
Keyword(s):  
Nucleotide Sequence ◽  
Trna Structure

EFFECT OF PHOTOCROSSLINKING ON ESCHERICHIA COLI tRNA STRUCTURE

1977 ◽  
Vol 26 (2) ◽  
pp. 97-101 ◽  
Author(s):  
P. H. Bolton ◽  
K. L. Wong ◽  
D. R. Kearns
Keyword(s):  
Escherichia Coli ◽  
Trna Structure

tRNA Structure and Ribosomal Function

1994 ◽  
Vol 235 (5) ◽  
pp. 1395-1405 ◽  
Author(s):  
Dennis W. Schultz ◽  
Michael Yarus
Keyword(s):  
Trna Structure ◽  
Ribosomal Function
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