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Genome assembly of ...
Genome assembly of the basket willow, Salix viminalis, reveals earliest stages of sex chromosome expansion
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- Almeida, Pedro (author)
- UCL, Dept Genet Evolut & Environm, London, England
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- Proux-Wéra, Estelle (author)
- Stockholms universitet,Institutionen för biokemi och biofysik,Science for Life Laboratory (SciLifeLab),Stockholm Univ, Dept Biochem & Biophys, Sci Life Lab, Natl Bioinformat Infrastruct Sweden, Stockholm, Sweden
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- Churcher, Allison M (author)
- Umeå universitet,Institutionen för molekylärbiologi (Teknisk-naturvetenskaplig fakultet),Umeå Univ, Dept Mol Biol, Sci Life Lab, Natl Bioinformat Infrastruct Sweden, Umeå, Sweden
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- Soler, Lucile (author)
- Uppsala universitet,Institutionen för medicinsk biokemi och mikrobiologi,Science for Life Laboratory, SciLifeLab,National Bioinformatics Infrastructure Sweden
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- Dainat, Jacques (author)
- Uppsala universitet,Institutionen för medicinsk biokemi och mikrobiologi,Science for Life Laboratory, SciLifeLab,National Bioinformatics Infrastructure Sweden
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- Pucholt, Pascal (author)
- Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Uppsala universitet,Reumatologi,Swedish Univ Agr Sci, Uppsala BioCtr, Linnean Ctr Plant Biol, Dept Plant Biol, Uppsala, Sweden,Institutionen för växtbiologi,Department of Plant Biology
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- Nordlund, Jessica (author)
- Uppsala universitet,Molekylär medicin,Science for Life Laboratory, SciLifeLab,National Genomics Infrastructure
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- Martin, Tom (author)
- Uppsala universitet,Institutionen för medicinska vetenskaper,Science for Life Laboratory, SciLifeLab
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- Rönnberg Wästljung, Ann-Christin (author)
- Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för växtbiologi,Department of Plant Biology
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- Nystedt, Björn, 1978- (author)
- Uppsala universitet,Molekylär evolution,Science for Life Laboratory, SciLifeLab,National Bioinformatics Infrastructure Sweden
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- Berlin, Sofia (author)
- Swedish Univ Agr Sci, Uppsala BioCtr, Linnean Ctr Plant Biol, Dept Plant Biol, Uppsala, Sweden
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- Mank, Judith E. (author)
- UCL, Dept Genet Evolut & Environm, London, England; Univ British Columbia, Dept Zool, Vancouver, BC, Canada; Univ British Columbia, Biodivers Res Ctr, Vancouver, BC, Canada
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(creator_code:org_t)
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- 2020-06-30
- 2020
- English.
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In: BMC Biology. - : Springer Science and Business Media LLC. - 1741-7007. ; 18:1
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https://urn.kb.se/re...
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Abstract
Subject headings
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- BackgroundSex chromosomes have evolved independently multiple times in eukaryotes and are therefore considered a prime example of convergent genome evolution. Sex chromosomes are known to emerge after recombination is halted between a homologous pair of chromosomes, and this leads to a range of non-adaptive modifications causing gradual degeneration and gene loss on the sex-limited chromosome. However, the proximal causes of recombination suppression and the pace at which degeneration subsequently occurs remain unclear.ResultsHere, we use long- and short-read single-molecule sequencing approaches to assemble and annotate a draft genome of the basket willow, Salix viminalis, a species with a female heterogametic system at the earliest stages of sex chromosome emergence. Our single-molecule approach allowed us to phase the emerging Z and W haplotypes in a female, and we detected very low levels of Z/W single-nucleotide divergence in the non-recombining region. Linked-read sequencing of the same female and an additional male (ZZ) revealed the presence of two evolutionary strata supported by both divergence between the Z and W haplotypes and by haplotype phylogenetic trees. Gene order is still largely conserved between the Z and W homologs, although the W-linked region contains genes involved in cytokinin signaling regulation that are not syntenic with the Z homolog. Furthermore, we find no support across multiple lines of evidence for inversions, which have long been assumed to halt recombination between the sex chromosomes.ConclusionsOur data suggest that selection against recombination is a more gradual process at the earliest stages of sex chromosome formation than would be expected from an inversion and may result instead from the accumulation of transposable elements. Our results present a cohesive understanding of the earliest genomic consequences of recombination suppression as well as valuable insights into the initial stages of sex chromosome formation and regulation of sex differentiation.
Subject headings
- NATURVETENSKAP -- Biologi -- Genetik (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Genetics (hsv//eng)
- NATURVETENSKAP -- Biologi -- Evolutionsbiologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Evolutionary Biology (hsv//eng)
- LANTBRUKSVETENSKAPER -- Bioteknologi med applikationer på växter och djur -- Genetik och förädling inom lantbruksvetenskap (hsv//swe)
- AGRICULTURAL SCIENCES -- Agricultural Biotechnology -- Genetics and Breeding in Agricultural Sciences (hsv//eng)
- NATURVETENSKAP -- Biologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences (hsv//eng)
Keyword
- Sex chromosomes
- W-chromosome
- Recombination suppression
- Willow
- Salix
Publication and Content Type
- ref (subject category)
- art (subject category)
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- By the author/editor
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Almeida, Pedro
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Proux-Wéra, Este ...
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Churcher, Alliso ...
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Soler, Lucile
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Dainat, Jacques
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Pucholt, Pascal
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show more...
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Nordlund, Jessic ...
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Martin, Tom
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Rönnberg Wästlju ...
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Nystedt, Björn, ...
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Berlin, Sofia
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Mank, Judith E.
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- About the subject
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Biological Scien ...
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and Genetics
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Biological Scien ...
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and Evolutionary Bio ...
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- AGRICULTURAL SCIENCES
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AGRICULTURAL SCI ...
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and Agricultural Bio ...
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and Genetics and Bre ...
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Biological Scien ...
- Articles in the publication
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BMC Biology
- By the university
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Uppsala University
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Umeå University
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Stockholm University
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Swedish University of Agricultural Sciences