Projects per year
Abstract
Transversion and transition mutations have variable effects on the stability of RNA secondary structure considering that the former destabilizes the double helix geometry to a greater extent by introducing purine:purine (R:R) or pyrimidine:pyrimidine (Y:Y) base pairs. Therefore, transversion frequency is likely to be lower than that of transition in the secondary structure regions of RNA genes. Here, we performed an analysis of transition and transversion frequencies in tRNA genes defined well with secondary structure and compared with the intergenic regions in five bacterial species namely Escherichia coli, Klebsiella pneumoniae, Salmonella enterica, Staphylococcus aureus and Streptococcus pneumoniae using a large genome sequence data set. In general, the transversion frequency was observed to be lower than that of transition in both tRNA genes and intergenic regions. The transition to transversion ratio was observed to be greater in tRNA genes than that in the intergenic regions in all the five bacteria that we studied. Interestingly, the intraspecies base substitution analysis in tRNA genes revealed that non-compensatory substitutions were more frequent than compensatory substitutions in the stem region. Further, transition to transversion ratio in the loop region was observed to be significantly lesser than that among the non-compensatory substitutions in the stem region. This indicated that the transversion is more deleterious than transition in the stem regions. In addition, substitutions from amino bases (A/C) to keto bases (G/T) were also observed to be more than the reverse substitutions in the stem region. Substitution from amino bases to keto bases are likely to facilitate the stable G:U pairing unlike the reverse substitution that facilitates the unstable A:C pairing in the stem region of tRNA. This work provides additional support that the secondary structure of tRNA molecule is what drives the different substitutions in its gene sequence.
Original language | English |
---|---|
Pages (from-to) | 114-123 |
Number of pages | 10 |
Journal | Journal of Molecular Evolution |
Volume | 90 |
Issue number | 1 |
Early online date | 27 Jan 2022 |
DOIs | |
Publication status | Published - 28 Feb 2022 |
Keywords
- Base substitution
- Intergenic region
- Transition
- Transversion
- tRNA secondary structure
ASJC Scopus subject areas
- Ecology, Evolution, Behavior and Systematics
- Molecular Biology
- Genetics
Fingerprint
Dive into the research topics of 'Stem Region of tRNA Genes Favors Transition Substitution Towards Keto Bases in Bacteria'. Together they form a unique fingerprint.Projects
- 1 Finished
-
SpARK - The Rates and Routes of Transmission of Multidrug Resistant Klebsiella Clones into the Clinic from Environmental Sources
1/04/17 → 31/12/20
Project: Research council