Labile sex chromosomes in the Australian freshwater fish family Percichthyidae.
Percichthyidae
draft genome
molecular sexing
sex determination
transcription factor SOX1b
transcriptome
Journal
Molecular ecology resources
ISSN: 1755-0998
Titre abrégé: Mol Ecol Resour
Pays: England
ID NLM: 101465604
Informations de publication
Date de publication:
May 2022
May 2022
Historique:
revised:
24
11
2021
received:
09
02
2021
accepted:
29
11
2021
pubmed:
5
12
2021
medline:
7
4
2022
entrez:
4
12
2021
Statut:
ppublish
Résumé
Sex-specific ecology has management implications, but rapid sex-chromosome turnover in fishes hinders sex-marker development for monomorphic species. We used annotated genomes and reduced-representation sequencing data for two Australian percichthyids, Macquarie perch Macquaria australasica and golden perch M. ambigua, and whole genome resequencing for 50 Macquarie perch of each sex, to identify sex-linked loci and develop an affordable sexing assay. In silico pool-seq tests of 1,492,004 Macquarie perch SNPs revealed that a 275-kb scaffold was enriched for gametologous loci. Within this scaffold, 22 loci were sex-linked in a predominantly XY system, with females being homozygous for the X-linked allele at all 22, and males having the Y-linked allele at >7. Seven XY-gametologous loci (all males, but no females, are heterozygous or homozygous for the male-specific allele) were within a 146-bp region. A PCR-RFLP sexing assay targeting one Y-linked SNP, tested in 66 known-sex Macquarie perch and two of each sex of three confamilial species, plus amplicon sequencing of 400 bp encompassing the 146-bp region, revealed that the few sex-linked positions differ between species and between Macquarie perch populations. This indicates sex-chromosome lability in Percichthyidae, supported by nonhomologous scaffolds containing sex-linked loci for Macquarie- and golden perches. The present resources facilitate genomic research in Percichthyidae, including formulation of hypotheses about candidate genes of interest such as transcription factor SOX1b that occurs in the 275-kb scaffold ~38 kb downstream of the 146-bp region containing seven XY-gametologous loci. Sex-linked markers will be useful for determining genetic sex in some populations and studying sex chromosome turnover.
Identifiants
pubmed: 34863023
doi: 10.1111/1755-0998.13569
doi:
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
1639-1655Subventions
Organisme : ACTEW Corporation (now Icon Water)
Organisme : Department of Sustainability and Environment
Organisme : Department of Environment, Land, Water and Planning, State Government of Victoria
Organisme : Commonwealth Environmental Water Office, Australian Government
Organisme : Diversity Arrays Technology
Organisme : Department of Biodiversity, Conservation and Attractions (Western Australia)
Organisme : Zoos Victoria
Organisme : Environment, Planning & Sustainable Development Directorate (ACT Government)
Organisme : Fisheries Victoria
Organisme : Australian Research Council
ID : LP110200017
Organisme : Australian Research Council
ID : LP160100482
Organisme : Melbourne Water
Informations de copyright
© 2021 John Wiley & Sons Ltd.
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