Characterization of a Y-specific duplication/insertion of the anti-Mullerian hormone type II receptor gene based on a chromosome-scale genome assembly of yellow perch, Perca flavescens.
amhr2
long-reads sequencing
sex-determination
transforming growth factor beta
whole genome sequencing
yellow perch
Journal
Molecular ecology resources
ISSN: 1755-0998
Titre abrégé: Mol Ecol Resour
Pays: England
ID NLM: 101465604
Informations de publication
Date de publication:
Mar 2020
Mar 2020
Historique:
received:
01
09
2019
revised:
20
12
2019
accepted:
24
12
2019
pubmed:
7
1
2020
medline:
10
10
2020
entrez:
7
1
2020
Statut:
ppublish
Résumé
Yellow perch, Perca flavescens, is an ecologically and economically important species native to a large portion of the northern United States and southern Canada and is also a promising candidate species for aquaculture. However, no yellow perch reference genome has been available to facilitate improvements in both fisheries and aquaculture management practices. By combining Oxford Nanopore Technologies long-reads, 10X Genomics Illumina short linked reads and a chromosome contact map produced with Hi-C, we generated a high-continuity chromosome-scale yellow perch genome assembly of 877.4 Mb. It contains, in agreement with the known diploid chromosome yellow perch count, 24 chromosome-size scaffolds covering 98.8% of the complete assembly (N50 = 37.4 Mb, L50 = 11). We also provide a first characterization of the yellow perch sex determination locus that contains a male-specific duplicate of the anti-Mullerian hormone type II receptor gene (amhr2by) inserted at the proximal end of the Y chromosome (chromosome 9). Using this sex-specific information, we developed a simple PCR genotyping assay which accurately differentiates XY genetic males (amhr2by
Identifiants
pubmed: 31903688
doi: 10.1111/1755-0998.13133
pmc: PMC7050324
mid: NIHMS1066721
doi:
Substances chimiques
Fish Proteins
0
Receptors, Peptide
0
Receptors, Transforming Growth Factor beta
0
anti-Mullerian hormone receptor
0
Banques de données
GENBANK
['SCKG00000000']
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
531-543Subventions
Organisme : NIGMS NIH HHS
ID : R35 GM139635
Pays : United States
Organisme : NIH HHS
ID : R01 GM085318
Pays : United States
Organisme : CRB-Anim "Centre de Ressources Biologiques pour les animaux domestiques"
Organisme : Agence Nationale de la Recherche
ID : ANR-13-ISV7-0005
Organisme : NIH HHS
ID : R01 OD011116
Pays : United States
Organisme : NIGMS NIH HHS
ID : R01 GM085318
Pays : United States
Organisme : FEAMP "Fonds européen pour les affaires maritimes et la pêche"
Organisme : Great Lakes Fishery Commission
ID : 2018_CHR_44072
Organisme : Agence Nationale de la Recherche
ID : ANR-10-INBS-09
Informations de copyright
© 2020 John Wiley & Sons Ltd.
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