Evolutionary consequences of genomic deletions and insertions in the woolly mammoth genome

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Evolutionary consequences of genomic deletions and insertions in the woolly mammoth genome. / van der Valk, Tom; Dehasque, Marianne; Chacón-Duque, J. Camilo; Oskolkov, Nikolay; Vartanyan, Sergey; Heintzman, Peter D.; Pečnerová, Patrícia; Díez-del-Molino, David; Dalén, Love.

In: iScience, Vol. 25, No. 8, 104826, 2022.

Research output: Contribution to journal › Journal article › Research › peer-review

Harvard

van der Valk, T, Dehasque, M, Chacón-Duque, JC, Oskolkov, N, Vartanyan, S, Heintzman, PD, Pečnerová, P, Díez-del-Molino, D & Dalén, L 2022, 'Evolutionary consequences of genomic deletions and insertions in the woolly mammoth genome', iScience, vol. 25, no. 8, 104826. https://doi.org/10.1016/j.isci.2022.104826

APA

van der Valk, T., Dehasque, M., Chacón-Duque, J. C., Oskolkov, N., Vartanyan, S., Heintzman, P. D., Pečnerová, P., Díez-del-Molino, D., & Dalén, L. (2022). Evolutionary consequences of genomic deletions and insertions in the woolly mammoth genome. iScience, 25(8), [104826]. https://doi.org/10.1016/j.isci.2022.104826

Vancouver

van der Valk T, Dehasque M, Chacón-Duque JC, Oskolkov N, Vartanyan S, Heintzman PD et al. Evolutionary consequences of genomic deletions and insertions in the woolly mammoth genome. iScience. 2022;25(8). 104826. https://doi.org/10.1016/j.isci.2022.104826

Author

van der Valk, Tom ; Dehasque, Marianne ; Chacón-Duque, J. Camilo ; Oskolkov, Nikolay ; Vartanyan, Sergey ; Heintzman, Peter D. ; Pečnerová, Patrícia ; Díez-del-Molino, David ; Dalén, Love. / Evolutionary consequences of genomic deletions and insertions in the woolly mammoth genome. In: iScience. 2022 ; Vol. 25, No. 8.

Bibtex

@article{e84b99ab67ee431383237592d382bb06,

title = "Evolutionary consequences of genomic deletions and insertions in the woolly mammoth genome",

abstract = "Woolly mammoths had a set of adaptations that enabled them to thrive in the Arctic environment. Many mammoth-specific single nucleotide polymorphisms (SNPs) responsible for unique mammoth traits have been previously identified from ancient genomes. However, a multitude of other genetic variants likely contributed to woolly mammoth evolution. In this study, we sequenced two woolly mammoth genomes and combined these with previously sequenced mammoth and elephant genomes to conduct a survey of mammoth-specific deletions and indels. We find that deletions are highly enriched in non-coding regions, suggesting selection against structural variants that affect protein sequences. Nonetheless, at least 87 woolly mammoth genes contain deletions or indels that modify the coding sequence, including genes involved in skeletal morphology and hair growth. These results suggest that deletions and indels contributed to the unique phenotypic adaptations of the woolly mammoth, and were potentially critical to surviving in its natural environment.",

keywords = "Bioinformatics, Biological sciences, Evolutionary biology, Natural sciences, Phylogenetics, Zoology",

author = "{van der Valk}, Tom and Marianne Dehasque and Chac{\'o}n-Duque, {J. Camilo} and Nikolay Oskolkov and Sergey Vartanyan and Heintzman, {Peter D.} and Patr{\'i}cia Pe{\v c}nerov{\'a} and David D{\'i}ez-del-Molino and Love Dal{\'e}n",

note = "Publisher Copyright: {\textcopyright} 2022 The Author(s)",

year = "2022",

doi = "10.1016/j.isci.2022.104826",

language = "English",

volume = "25",

journal = "iScience",

issn = "2589-0042",

publisher = "Elsevier",

number = "8",

}

RIS

TY - JOUR

T1 - Evolutionary consequences of genomic deletions and insertions in the woolly mammoth genome

AU - van der Valk, Tom

AU - Dehasque, Marianne

AU - Chacón-Duque, J. Camilo

AU - Oskolkov, Nikolay

AU - Vartanyan, Sergey

AU - Heintzman, Peter D.

AU - Pečnerová, Patrícia

AU - Díez-del-Molino, David

AU - Dalén, Love

PY - 2022

Y1 - 2022

N2 - Woolly mammoths had a set of adaptations that enabled them to thrive in the Arctic environment. Many mammoth-specific single nucleotide polymorphisms (SNPs) responsible for unique mammoth traits have been previously identified from ancient genomes. However, a multitude of other genetic variants likely contributed to woolly mammoth evolution. In this study, we sequenced two woolly mammoth genomes and combined these with previously sequenced mammoth and elephant genomes to conduct a survey of mammoth-specific deletions and indels. We find that deletions are highly enriched in non-coding regions, suggesting selection against structural variants that affect protein sequences. Nonetheless, at least 87 woolly mammoth genes contain deletions or indels that modify the coding sequence, including genes involved in skeletal morphology and hair growth. These results suggest that deletions and indels contributed to the unique phenotypic adaptations of the woolly mammoth, and were potentially critical to surviving in its natural environment.

AB - Woolly mammoths had a set of adaptations that enabled them to thrive in the Arctic environment. Many mammoth-specific single nucleotide polymorphisms (SNPs) responsible for unique mammoth traits have been previously identified from ancient genomes. However, a multitude of other genetic variants likely contributed to woolly mammoth evolution. In this study, we sequenced two woolly mammoth genomes and combined these with previously sequenced mammoth and elephant genomes to conduct a survey of mammoth-specific deletions and indels. We find that deletions are highly enriched in non-coding regions, suggesting selection against structural variants that affect protein sequences. Nonetheless, at least 87 woolly mammoth genes contain deletions or indels that modify the coding sequence, including genes involved in skeletal morphology and hair growth. These results suggest that deletions and indels contributed to the unique phenotypic adaptations of the woolly mammoth, and were potentially critical to surviving in its natural environment.

KW - Bioinformatics

KW - Biological sciences

KW - Evolutionary biology

KW - Natural sciences

KW - Phylogenetics

KW - Zoology

U2 - 10.1016/j.isci.2022.104826

DO - 10.1016/j.isci.2022.104826

M3 - Journal article

C2 - 35992080

AN - SCOPUS:85135699106

VL - 25

JO - iScience

JF - iScience

SN - 2589-0042

IS - 8

M1 - 104826

ER -

ID: 321949662

Department of Biology