Comparative analysis of codon usage between Gossypium hirsutum and G. barbadense mitochondrial genomes
| Autor: | Jun Qiao, Haiyan Wang, Zehui Liu, Weijia Li, Zhiwen Chen, Corrinne E. Grover, Jianguo Zhao, Baoyan Xing, Ran Xu, Jonathan F. Wendel, Jingwei Li |
|---|---|
| Rok vydání: | 2020 |
| Předmět: |
0106 biological sciences
0301 basic medicine Genetics Mitochondrial DNA selection Biology 010603 evolutionary biology 01 natural sciences Gossypium hirsutum Genome preferred codons 03 medical and health sciences 030104 developmental biology ENC and GC content Rapid Communications Codon usage bias Gossypium mitochondria neutral mutation Molecular Biology Gene Selection (genetic algorithm) GC-content Research Article Neutral mutation |
| Zdroj: | Mitochondrial DNA. Part B, Resources article-version (VoR) Version of Record |
| ISSN: | 2380-2359 |
| DOI: | 10.1080/23802359.2020.1780969 |
| Popis: | Gossypium hirsutum and G. barbadense mitochondrial genomes were analyzed to understand the factors shaping codon usage. While most analyses of codon usage suggest minimal to no bias, nucleotide composition, specifically GC content, was significantly correlated with codon usage. In general, both mitochondrial genomes favor codons that end in A or U, with a secondary preference for pyrimidine rich codons. These observations are similar to previous reports of codon usage in cotton nuclear genomes, possibly suggestive of a general bias spanning genomic compartment. Although evidence for codon usage bias is weak for most genes, we identified six genes (i.e. atp8, atp9, sdh3, sdh4, mttB and rpl2) with significant nonrandom codon usage. In general, we find multiple factors that influence cotton mitochondrial genome codon usage, which may include selection in a subset of genes. |
| Databáze: | OpenAIRE |
| Externí odkaz: |
|