ORCID Profile
0000-0003-2484-2897
Current Organisations
The University of Hong Kong
,
University of Oxford
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Publisher: Wiley
Date: 21-07-2022
DOI: 10.1111/MEC.16604
Abstract: Whole‐genome surveys of genetic ersity and geographic variation often yield unexpected discoveries of novel structural variation, which long‐read DNA sequencing can help clarify. Here, we report on whole‐genome phylogeography of a bird exhibiting 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 ergence 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 evolution around a triad of dynamic barriers around Pleistocene Lake Carpentaria between Australia and New Guinea. During this phylogeographic survey, we discovered a large (134 Mbp) neo‐Z chromosome and we explored its ersity, ergence 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 chromosome and in E. cyanotis , the ancestral pseudoautosomal region (PAR) appears nonrecombinant 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 ersity and faster population genetic differentiation compared with the ancestral‐Z. Yet, the new PAR (~17.4 Mbp) shows elevated ersity and reduced differentiation compared to autosomes, potentially resulting from introgression. In our case, long‐read sequencing helped clarify the genomic landscape of population ergence on autosomes and sex chromosomes in a species where prior knowledge of genome structure was still incomplete.
Publisher: Springer Science and Business Media LLC
Date: 21-09-2021
Publisher: Springer Science and Business Media LLC
Date: 06-06-2022
Publisher: Wiley
Date: 12-10-2009
DOI: 10.1111/J.1755-0998.2009.02759.X
Abstract: This article documents the addition of 512 microsatellite marker loci and nine pairs of Single Nucleotide Polymorphism (SNP) sequencing primers to the Molecular Ecology Resources Database. Loci were developed for the following species: Alcippe morrisonia morrisonia, Bashania fangiana, Bashania fargesii, Chaetodon vagabundus, Colletes floralis, Coluber constrictor flaviventris, Coptotermes gestroi, Crotophaga major, Cyprinella lutrensis, Danaus plexippus, Fagus grandifolia, Falco tinnunculus, Fletcherimyia fletcheri, Hydrilla verticillata, Laterallus jamaicensis coturniculus, Leavenworthia alabamica, Marmosops incanus, Miichthys miiuy, Nasua nasua, Noturus exilis, Odontesthes bonariensis, Quadrula fragosa, Pinctada maxima, Pseudaletia separata, Pseudoperonospora cubensis, Podocarpus elatus, Portunus trituberculatus, Rhagoletis cerasi, Rhinella schneideri, Sarracenia alata, Skeletonema marinoi, Sminthurus viridis, Syngnathus abaster, Uroteuthis (Photololigo) chinensis, Verticillium dahliae, Wasmannia auropunctata, and Zygochlamys patagonica. These loci were cross-tested on the following species: Chaetodon baronessa, Falco columbarius, Falco eleonorae, Falco naumanni, Falco peregrinus, Falco subbuteo, Didelphis aurita, Gracilinanus microtarsus, Marmosops paulensis, Monodelphis Americana, Odontesthes hatcheri, Podocarpus grayi, Podocarpus lawrencei, Podocarpus smithii, Portunus pelagicus, Syngnathus acus, Syngnathus typhle,Uroteuthis (Photololigo) edulis, Uroteuthis (Photololigo) duvauceli and Verticillium albo-atrum. This article also documents the addition of nine sequencing primer pairs and sixteen allele specific primers or probes for Oncorhynchus mykiss and Oncorhynchus tshawytscha these primers and assays were cross-tested in both species.
Publisher: Springer Science and Business Media LLC
Date: 03-2022
Publisher: Proceedings of the National Academy of Sciences
Date: 16-10-2023
Location: United Kingdom of Great Britain and Northern Ireland
No related grants have been discovered for Simon Yung Wa Sin.