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- Publisher Website: 10.1111/mec.16604
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Article: Whole-genome phylogeography of the Blue-faced honeyeater (Entomyzon cyanotis) and discovery and characterization of a neo-Z chromosome
Title | Whole-genome phylogeography of the Blue-faced honeyeater (Entomyzon cyanotis) and discovery and characterization of a neo-Z chromosome |
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Authors | |
Issue Date | 2022 |
Citation | Molecular Ecology, 2022 How to Cite? |
Abstract | Whole-genome surveys of genetic diversity and geographic variation often yield un- expected discoveries of novel structural variation, which long-read DNA sequencing can help clarify. Here, we report on whole-genome phylogeography of a bird exhib- iting classic vicariant geographies across Australia and New Guinea, the blue-faced honeyeater (Entomyzon cyanotis), and the discovery and characterization of a novel neo-Z chromosome by long-read sequencing. Using short-read genome-wide SNPs, we inferred population divergence events within E. cyanotis across the Carpentarian and other biogeographic barriers during the Pleistocene (~0.3–1.7 Ma). Evidence for introgression between nonsister populations supports a hypothesis of reticulate evo- lution around a triad of dynamic barriers around Pleistocene Lake Carpentaria be- tween Australia and New Guinea. During this phylogeographic survey, we discovered a large (134 Mbp) neo-Z chromosome and we explored its diversity, divergence and introgression landscape. We show that, as in some sylvioid passerine birds, a fusion occurred between chromosome 5 and the Z chromosome to form a neo-Z chromo- some; and in E. cyanotis, the ancestral pseudoautosomal region (PAR) appears non- recombinant between Z and W, along with most of the fused chromosome 5. The added recombination-suppressed portion of the neo-Z (~37.2 Mbp) displays reduced diversity and faster population genetic differentiation compared with the ancestral-Z. Yet, the new PAR (~17.4 Mbp) shows elevated diversity and reduced differentiation compared to autosomes, potentially resulting from introgression. In our case, long- read sequencing helped clarify the genomic landscape of population divergence on autosomes and sex chromosomes in a species where prior knowledge of genome structure was still incomplete. |
Persistent Identifier | http://hdl.handle.net/10722/322639 |
ISI Accession Number ID |
DC Field | Value | Language |
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dc.contributor.author | Burley, JT | - |
dc.contributor.author | Orzechowski, SCM | - |
dc.contributor.author | Sin, YW | - |
dc.contributor.author | Edwards, SV | - |
dc.date.accessioned | 2022-11-14T08:28:51Z | - |
dc.date.available | 2022-11-14T08:28:51Z | - |
dc.date.issued | 2022 | - |
dc.identifier.citation | Molecular Ecology, 2022 | - |
dc.identifier.uri | http://hdl.handle.net/10722/322639 | - |
dc.description.abstract | Whole-genome surveys of genetic diversity and geographic variation often yield un- expected discoveries of novel structural variation, which long-read DNA sequencing can help clarify. Here, we report on whole-genome phylogeography of a bird exhib- iting classic vicariant geographies across Australia and New Guinea, the blue-faced honeyeater (Entomyzon cyanotis), and the discovery and characterization of a novel neo-Z chromosome by long-read sequencing. Using short-read genome-wide SNPs, we inferred population divergence events within E. cyanotis across the Carpentarian and other biogeographic barriers during the Pleistocene (~0.3–1.7 Ma). Evidence for introgression between nonsister populations supports a hypothesis of reticulate evo- lution around a triad of dynamic barriers around Pleistocene Lake Carpentaria be- tween Australia and New Guinea. During this phylogeographic survey, we discovered a large (134 Mbp) neo-Z chromosome and we explored its diversity, divergence and introgression landscape. We show that, as in some sylvioid passerine birds, a fusion occurred between chromosome 5 and the Z chromosome to form a neo-Z chromo- some; and in E. cyanotis, the ancestral pseudoautosomal region (PAR) appears non- recombinant between Z and W, along with most of the fused chromosome 5. The added recombination-suppressed portion of the neo-Z (~37.2 Mbp) displays reduced diversity and faster population genetic differentiation compared with the ancestral-Z. Yet, the new PAR (~17.4 Mbp) shows elevated diversity and reduced differentiation compared to autosomes, potentially resulting from introgression. In our case, long- read sequencing helped clarify the genomic landscape of population divergence on autosomes and sex chromosomes in a species where prior knowledge of genome structure was still incomplete. | - |
dc.language | eng | - |
dc.relation.ispartof | Molecular Ecology | - |
dc.title | Whole-genome phylogeography of the Blue-faced honeyeater (Entomyzon cyanotis) and discovery and characterization of a neo-Z chromosome | - |
dc.type | Article | - |
dc.identifier.email | Sin, YW: sinyw@hku.hk | - |
dc.identifier.authority | Sin, YW=rp02377 | - |
dc.identifier.doi | 10.1111/mec.16604 | - |
dc.identifier.hkuros | 342320 | - |
dc.identifier.isi | WOS:000828508300001 | - |