Dynamic evolution of the MutS family in animals: multiple losses of MSH paralogues and gain of a viral MutS homologue in octocorals

Muthye, Viraj; Lavrov, Dennis V.

doi:10.1101/2020.12.22.424024

Cited by 2 publications

(4 citation statements)

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“…Second, we found the same domain composition of mtMutS as Bilewitch et al [6], but provided evidence for the presence of an additional domain -"MutS IV" or the clamp domain -in 12 octocoral species. Interestingly, the "MutS IV" domain also shows an intermittent presence in other MutS proteins, like MSH1 [10]. Third, the functionally important amino-acids identified in [6] were well conserved in the expanded dataset, with a few exceptions.…”

Section: Sequence Changes In Mtmuts Of Octocoral Species With Acceler...mentioning

confidence: 98%

“…Of these, three proteins -MSH2, MSH3, and MSH6 -function in nuclear MMR, while MSH4 and MSH5 function in meiotic recombination [7]. Recently, we found that an ortholog of yeast MSH1, a MutS protein targeted to mitochondria and involved in mitochondrial DNA repair [8,9], is present in Hexacorallia, the sister group of octocorals, as well as two other phyla of non-bilaterian animals [10]. While the role of animal MSH1 has not been experimentally elucidated, its conserved structure, orthology to yeast MSH1, and inferred mitochondrial localization suggest a similar role in mitochondrial DNA repair [10].…”

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confidence: 99%

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Large dataset of octocoral mitochondrial genomes provides new insights into mt-mutS evolution and function

et al. 2022

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All studied octocoral mitochondrial genomes contain a gene from the MutS family, whose members code for proteins involved in DNA mismatch repair, other types of DNA repair, meiotic recombination, and other functions. Although mutS homologues are found in all domains of life as well as viruses, octocoral mt-mutS is the only such gene encoded in an organellar genome. While the function of mtMutS is not known, its domain architecture, conserved sequence, and presence of some characteristic residues suggest its involvement in mitochondrial DNA repair. This inference is supported by exceptionally low rates of mt-sequence evolution observed in octocorals. Previous studies of mt-mutS have been limited by the small number of octocoral mt-genomes available. We utilized sequence-capture data from the recent Quattrini et al. study to assemble complete mitochondrial genomes for 97 species of octocorals. Combined with sequences publicly available in GenBank, this resulted in a dataset of 184 complete mitochondrial genomes, which we used to re-analyze the conservation and evolution of mt-mutS. We discovered the first case of mt-mutS loss among octocorals in one of the two Pseudoanthomastus sp. assembled from Quattrini et al. data. This species displayed accelerated rate and and changed patterns of nucleotide substitutions in mt-genome, which we argue provide additional evidence for the role of mtMutS in DNA repair. In addition, we found accelerated mt-sequence evolution in the presence of mt-mutS in several octocoral lineages. This accelerated evolution did not appear to be the result of relaxed selection pressure and did not entail changes in patterns of nucleotide substitutions. Overall, our results support previously reported patterns of conservation in mt-mutS and suggest that mtMutS is involved in DNA repair in octocoral mitochondria. They also indicate that the presence of mt-mutS contributes to, but does not fully explain, the low rates of sequence evolution in octocorals

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Section: Sequence Changes In Mtmuts Of Octocoral Species With Acceler...mentioning

confidence: 98%

mentioning

confidence: 99%

Large dataset of octocoral mitochondrial genomes provides new insights into mt-mutS evolution and function

et al. 2022

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show abstract

“…[6], but provided evidence for the presence of an additional domain – “MutS IV” or the clamp domain – in 12 octocoral species. Interestingly, the “MutS IV” domain also shows an intermittent presence in other MutS proteins, like MSH1 [10]. Third, the functionally important amino-acids identified in [6] were well conserved in the expanded dataset, with a few exceptions.…”

Section: Discussionmentioning

confidence: 99%

“…Of these, three proteins – MSH2, MSH3, and MSH6 – function in nuclear MMR, while MSH4 and MSH5 function in meiotic recombination [7]. Recently, we found that an ortholog of yeast MSH1, a MutS protein targeted to mitochondria and involved in mitochondrial DNA repair [8, 9], is present in Hexacorallia, the sister group of octocorals, as well as two other phyla of non-bilaterian animals [10]. While the role of animal MSH1 has not been experimentally elucidated, its conserved structure, orthology to yeast MSH1, and inferred mitochondrial localization suggest a similar role in mitochondrial DNA repair [10].…”

Section: Introductionmentioning

confidence: 99%

Large dataset of octocoral mitochondrial genomes provides new insights into mt-mutS evolution and function

Muthye

Mackereth

Stewart

et al. 2021

Preprint

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All studied octocoral mitochondrial genomes contain a gene from the MutS family, whose members code for proteins involved in DNA mismatch repair, other types of DNA repair, meiotic recombination, and other functions. Although mutS homologues are found in all domains of life as well as viruses, octocoral mt-mutS is the only such gene encoded in an organellar genome. While the function of mtMutS is not known, its domain architecture, conserved sequence, and presence of some characteristic residues suggest its involvement in mitochondrial DNA repair. This inference is supported by exceptionally low rates of mt-sequence evolution observed in octocorals. Previous studies of mt-mutS have been limited by the small number of octocoral mt-genomes available. We utilized sequence-capture data from the recent Quattrini et al. study to assemble complete mitochondrial genomes for 97 species of octocorals. Combined with sequences publicly available in GenBank, this resulted in a dataset of 184 complete mitochondrial genomes, which we used to re-analyze the conservation and evolution of mt-mutS. We discovered the first case of mt-mutS loss among octocorals in one of the two Pseudoanthomastus sp. assembled from Quattrini et al. data. This species displayed accelerated rate and changed patterns of nucleotide substitutions in mt-genome, which we argue provide additional evidence for the role of mtMutS in DNA repair. In addition, we found accelerated mt-sequence evolution in the presence of mt-mutS in several octocoral lineages. This accelerated evolution did not appear to be the result of relaxed selection pressure and did not entail changes in patterns of nucleotide substitutions. Overall, our results support previously reported patterns of conservation in mt-mutS and suggest that mtMutS is involved in DNA repair in octocoral mitochondria. They also indicate that the presence of mt-mutS contributes to, but does not fully explain, the low rates of sequence evolution in octocorals.

show abstract

Dynamic evolution of the MutS family in animals: multiple losses of MSH paralogues and gain of a viral MutS homologue in octocorals

Cited by 2 publications

References 63 publications

Large dataset of octocoral mitochondrial genomes provides new insights into mt-mutS evolution and function

Large dataset of octocoral mitochondrial genomes provides new insights into mt-mutS evolution and function

Large dataset of octocoral mitochondrial genomes provides new insights into mt-mutS evolution and function

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