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  A genome-wide investigation of adaptive signatures in protein-coding genes related to tool behaviour in New Caledonian and Hawaiian crows

Dussex, N., Kutschera, V. E., Wiberg, R. A. W., Parker, D. J., Hunt, G. R., Gray, R. D., et al. (2020). A genome-wide investigation of adaptive signatures in protein-coding genes related to tool behaviour in New Caledonian and Hawaiian crows. Molecular Ecology, n/a(n/a): 15775. doi:10.1111/mec.15775.

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Appendix S1 (Supplementary material)
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 Creators:
Dussex, Nicolas, Author
Kutschera, Verena E., Author
Wiberg, R. Axel W., Author
Parker, Darren J., Author
Hunt, Gavin R., Author
Gray, Russell D.1, Author              
Rutherford, Kim, Author
Abe, Hideaki, Author
Fleischer, Robert C., Author
Ritchie, Michael G., Author
Rutz, Christian, Author
Wolf, Jochen B. W., Author              
Gemmell, Neil J., Author
Affiliations:
1Linguistic and Cultural Evolution, Max Planck Institute for the Science of Human History, Max Planck Society, ou_2074311              

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Free keywords: corvids, genomics, selection, tool use
 Abstract: Abstract Very few animals habitually manufacture and use tools. It has been suggested that advanced tool behaviour co-evolves with a suite of behavioural, morphological and life history traits. In fact, there are indications for such an adaptive complex in tool-using crows (genus Corvus species). Here, we sequenced the genomes of two habitually tool-using and ten non-tool-using crow species to search for genomic signatures associated with a tool-using lifestyle. Using comparative genomic and population genetic approaches, we screened for signals of selection in protein-coding genes in the tool-using New Caledonian and Hawaiian crows. While we detected signals of recent selection in New Caledonian crows near genes associated with bill morphology, our data indicate that genetic changes in these two lineages are surprisingly subtle, with little evidence at present for convergence. We explore the biological explanations for these findings, such as the relative roles of gene regulation and protein-coding changes, as well as the possibility that statistical power to detect selection in recently diverged lineages may have been insufficient. Our study contributes to a growing body of literature aiming to decipher the genetic basis of recently evolved complex behaviour.

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Language(s): eng - English
 Dates: 2020-12-11
 Publication Status: Published online
 Pages: -
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 Table of Contents: 1 Introduction
2 Materials and methods
2.1 Sampling and genome sequencing
2.2 Reference genomes and annotation
2.3 Short reads processing and protein-coding gene sets generation
2.4 Phylogenetic tree reconstruction
2.5 Tests of positive selection
2.6 Pathway and biological function analysis
2.7 Population genomic analyses in Corvus moneduloides and Corvus woodfordi
3 Results
3.1 Comparison of reference genome assemblies and annotations
3.2 Phylogenetic relationships
3.3 Phylogeny-based tests of positive selection
3.4 McDonald–Kreitman tests
3.5 GO term over-representation analysis
3.6 Comparative population genomics in a toolusing and a non-tool-using crow species
4 Discussion
 Rev. Type: Peer
 Identifiers: DOI: 10.1111/mec.15775
Other: shh2828
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Title: Molecular Ecology
Source Genre: Journal
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Publ. Info: Oxford : Blackwell Science
Pages: - Volume / Issue: n/a (n/a) Sequence Number: 15775 Start / End Page: - Identifier: ISSN: 0962-1083
CoNE: https://pure.mpg.de/cone/journals/resource/954925580119