Disentangling the interplay of positive and negative selection forces that shaped mitochondrial genomes of
            <i>Gammarus pisinnus</i>
            and
            <i>Gammarus lacustris</i>

Sun, Shengming; Wu, Ying; Ge, Xianping; Jakovlić, Ivan; Zhu, Jianguo; Mahboob, Shahid; Al‐Ghanim, Khalid A.; Al‐Misned, Fahad A.; Fu, Hongtuo

doi:10.1098/rsos.190669

Cited by 10 publications

(14 citation statements)

References 78 publications

(134 reference statements)

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Despite the prevalence of purifying selection in mitogenomes, the possibility for positive selection acting on single codon positions cannot be excluded, and, potentially, can facilitate physiological adaptations to new environments [ 24 , 43 ]. In this study, the codon-based analyses of selection showed that several sites may be under positive selection.…”

Section: Discussionmentioning

confidence: 99%

Natural selection drives the evolution of mitogenomes in Acrossocheilus

Zhao

Ye²,

Gao³

2022

PLoS ONE

View full text Add to dashboard Cite

The mitochondrial genome plays a crucial role in the balance of energy and heat production in organisms and, thus, may be under natural selection due to its potential role in adaptive divergence and speciation. Here, we studied natural selection on the mitogenome of Acrossocheilus (Cypriniformes: Cyprinidae), a genus of fish that inhabits a broad latitudinal distribution ranging from the tropics and subtropics through temperate regions. Specifically, we used 25 published mitogenome sequences of Acrossocheilus species to investigate phylogenetic relationships in this genus and detected signals of positive selection on 13 protein-coding, mitochondrial genes. We found that relaxed purifying selection and genetic drift were the predominant evolutionary forces acting on the analyzed mitogenomes. However, we also found evidence of diversifying selection on some codons, indicating episodes of positive selection. Additionally, we analyzed the mitogenomic data within an environmental modeling framework and found that the Ka/Ks ratio of ATP6 may correlated with a mean diurnal temperature range (p = 0.0449), while the Ka/Ks ratio of COX2 may correlated with precipitation during the driest month (p = 0.00761). These results suggest that the mitogenomes of Acrossocheilus species may be involved in evolutionary adaptations to different habitats. Based on this, we believe that our study provides a new insight into the role of the mitochondrial genome of Acrossocheilus species in adaptation to different environments. During our study, we also discovered several cases of paraphyly and polyphyly among accessions of species and their putative synonyms. Thus, our study suggests that a careful reassessment of the taxonomy of Acrossocheilus is using high-quality molecular data merited.

show abstract

Section: Discussionmentioning

confidence: 99%

Natural selection drives the evolution of mitogenomes in Acrossocheilus

Zhao

Ye²,

Gao³

2022

PLoS ONE

View full text Add to dashboard Cite

show abstract

“…Selection analyses show that negative (purifying) selection generally dominates mitochondrial genome evolution due to its importance in cellular respiration [ 71 , 81 , 82 ]. However, positive selection signatures can be detected in certain codons of mitochondrial Hyalella protein-coding genes.…”

Section: Discussionmentioning

confidence: 99%

Comparative Mitogenomics in Hyalella (Amphipoda: Crustacea)

Zapelloni

Jurado‐Rivera

Jaume

et al. 2021

Genes

View full text Add to dashboard Cite

We present the sequencing and comparative analysis of 17 mitochondrial genomes of Nearctic and Neotropical amphipods of the genus Hyalella, most from the Andean Altiplano. The mitogenomes obtained comprised the usual 37 gene-set of the metazoan mitochondrial genome showing a gene rearrangement (a reverse transposition and a reversal) between the North and South American Hyalella mitogenomes. Hyalella mitochondrial genomes show the typical AT-richness and strong nucleotide bias among codon sites and strands of pancrustaceans. Protein-coding sequences are biased towards AT-rich codons, with a preference for leucine and serine amino acids. Numerous base changes (539) were found in tRNA stems, with 103 classified as fully compensatory, 253 hemi-compensatory and the remaining base mismatches and indels. Most compensatory Watson–Crick switches were AU -> GC linked in the same haplotype, whereas most hemi-compensatory changes resulted in wobble GU and a few AC pairs. These results suggest a pairing fitness increase in tRNAs after crossing low fitness valleys. Branch-site level models detected positive selection for several amino acid positions in up to eight mitochondrial genes, with atp6 and nad5 as the genes displaying more sites under selection.

show abstract

“…have been sequenced recently from the representatives of both Baikalian species and several species of gen. Gammarus (Krebes and Bastrop, 2012;Romanova et al, 2016;Macher et al, 2017;Cormier et al, 2018;Sun et al, 2020). Since the proteins coded in mitochondrial DNA are not directly involved in morphogenesis, the deviations in the rate of their molecular evolution may serve as an indication of changes in the average rate of molecular evolution in the respective species.…”

Section: Several Mitochondrial Genomes (Mitogenomes)mentioning

confidence: 99%

Different rates of molecular evolution of mitochondrial genes in Baikalian and non-Baikalian amphipods

Романова

Sherbakov

2019

LFWB

View full text Add to dashboard Cite

Rates of molecular evolution in eight protein-coding mitochondrial genes from two parallel lineages of Baikalian amphipods were compared to those in the representatives of gen. Gammarus. In six genes (Atp6, Cox2, Cox3, Nad1, Nad5, Nad6), there was a significant acceleration in the evolutionary rate of Baikalian species over those from Gammarus group. Correlation of the absolute rate of base substitution accumulation and the acceleration was insignificant, that allowed us to propose mostly adaptive reasons for the effect found.

show abstract

Disentangling the interplay of positive and negative selection forces that shaped mitochondrial genomes of Gammarus pisinnus and Gammarus lacustris

Cited by 10 publications

References 78 publications

Natural selection drives the evolution of mitogenomes in Acrossocheilus

Natural selection drives the evolution of mitogenomes in Acrossocheilus

Comparative Mitogenomics in Hyalella (Amphipoda: Crustacea)

Different rates of molecular evolution of mitochondrial genes in Baikalian and non-Baikalian amphipods

Contact Info

Product

Resources

About