Female-specific genomic regions and molecular sex identification of the clearhead icefish (Protosalanx hyalocranius)
Abstract Background The clearhead icefish, Protosalanx hyalocranius, is an economically important fishery species in China. Since 1980s, P. hyalocranius was widely introduced into lakes and reservoirs of northern China for aquaculture. However, the lack of a rapid and cost-effective sex identificati...
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ftdatacite:10.6084/m9.figshare.c.5496360.v1 2023-05-15T16:42:06+02:00 Female-specific genomic regions and molecular sex identification of the clearhead icefish (Protosalanx hyalocranius) Xing, Teng-Fei Li, Yu-Long Liu, Jin-Xian 2021 https://dx.doi.org/10.6084/m9.figshare.c.5496360.v1 https://springernature.figshare.com/collections/Female-specific_genomic_regions_and_molecular_sex_identification_of_the_clearhead_icefish_Protosalanx_hyalocranius_/5496360/1 unknown figshare https://dx.doi.org/10.1186/s12864-021-07830-9 https://dx.doi.org/10.6084/m9.figshare.c.5496360 Creative Commons Attribution 4.0 International https://creativecommons.org/licenses/by/4.0/legalcode cc-by-4.0 CC-BY Genetics FOS Biological sciences Collection article 2021 ftdatacite https://doi.org/10.6084/m9.figshare.c.5496360.v1 https://doi.org/10.1186/s12864-021-07830-9 https://doi.org/10.6084/m9.figshare.c.5496360 2021-11-05T12:55:41Z Abstract Background The clearhead icefish, Protosalanx hyalocranius, is an economically important fishery species in China. Since 1980s, P. hyalocranius was widely introduced into lakes and reservoirs of northern China for aquaculture. However, the lack of a rapid and cost-effective sex identification method based on sex specific genetic markers has hindered study on sex determination mechanisms and breeding applications. Results Female-specific genomic regions were discovered by comparing whole genome re-sequencing data of both males and females. Two female-specific genomic regions larger than 50 bp were identified, and one (598 bp) contained a putative FOXI gene, which was paralogous to another FOXI gene with sex-associated SNPs. The two FOXI sequences displayed significant length difference with nine deletions of total length of 230 bp. This deletion-type structural variation could be easily and efficiently detected by traditional PCR and agarose gel electrophoresis with one 569 bp band for males and two bands (569 and 339 bp) for females, which were validated in 50 females and 40 males with known phenotypic sexes. Conclusions The results provided structural genomic evidence for the ZZ/ZW sex determination system in P. hyalocranius discovered in our previous study with association analysis of SNPs. Moreover, the female-specific markers and rapid and cost-effective PCR-based genetic sex identification method should have applications in further studies of sex determination mechanism for this species. Article in Journal/Newspaper Icefish DataCite Metadata Store (German National Library of Science and Technology) |
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topic |
Genetics FOS Biological sciences |
spellingShingle |
Genetics FOS Biological sciences Xing, Teng-Fei Li, Yu-Long Liu, Jin-Xian Female-specific genomic regions and molecular sex identification of the clearhead icefish (Protosalanx hyalocranius) |
topic_facet |
Genetics FOS Biological sciences |
description |
Abstract Background The clearhead icefish, Protosalanx hyalocranius, is an economically important fishery species in China. Since 1980s, P. hyalocranius was widely introduced into lakes and reservoirs of northern China for aquaculture. However, the lack of a rapid and cost-effective sex identification method based on sex specific genetic markers has hindered study on sex determination mechanisms and breeding applications. Results Female-specific genomic regions were discovered by comparing whole genome re-sequencing data of both males and females. Two female-specific genomic regions larger than 50 bp were identified, and one (598 bp) contained a putative FOXI gene, which was paralogous to another FOXI gene with sex-associated SNPs. The two FOXI sequences displayed significant length difference with nine deletions of total length of 230 bp. This deletion-type structural variation could be easily and efficiently detected by traditional PCR and agarose gel electrophoresis with one 569 bp band for males and two bands (569 and 339 bp) for females, which were validated in 50 females and 40 males with known phenotypic sexes. Conclusions The results provided structural genomic evidence for the ZZ/ZW sex determination system in P. hyalocranius discovered in our previous study with association analysis of SNPs. Moreover, the female-specific markers and rapid and cost-effective PCR-based genetic sex identification method should have applications in further studies of sex determination mechanism for this species. |
format |
Article in Journal/Newspaper |
author |
Xing, Teng-Fei Li, Yu-Long Liu, Jin-Xian |
author_facet |
Xing, Teng-Fei Li, Yu-Long Liu, Jin-Xian |
author_sort |
Xing, Teng-Fei |
title |
Female-specific genomic regions and molecular sex identification of the clearhead icefish (Protosalanx hyalocranius) |
title_short |
Female-specific genomic regions and molecular sex identification of the clearhead icefish (Protosalanx hyalocranius) |
title_full |
Female-specific genomic regions and molecular sex identification of the clearhead icefish (Protosalanx hyalocranius) |
title_fullStr |
Female-specific genomic regions and molecular sex identification of the clearhead icefish (Protosalanx hyalocranius) |
title_full_unstemmed |
Female-specific genomic regions and molecular sex identification of the clearhead icefish (Protosalanx hyalocranius) |
title_sort |
female-specific genomic regions and molecular sex identification of the clearhead icefish (protosalanx hyalocranius) |
publisher |
figshare |
publishDate |
2021 |
url |
https://dx.doi.org/10.6084/m9.figshare.c.5496360.v1 https://springernature.figshare.com/collections/Female-specific_genomic_regions_and_molecular_sex_identification_of_the_clearhead_icefish_Protosalanx_hyalocranius_/5496360/1 |
genre |
Icefish |
genre_facet |
Icefish |
op_relation |
https://dx.doi.org/10.1186/s12864-021-07830-9 https://dx.doi.org/10.6084/m9.figshare.c.5496360 |
op_rights |
Creative Commons Attribution 4.0 International https://creativecommons.org/licenses/by/4.0/legalcode cc-by-4.0 |
op_rightsnorm |
CC-BY |
op_doi |
https://doi.org/10.6084/m9.figshare.c.5496360.v1 https://doi.org/10.1186/s12864-021-07830-9 https://doi.org/10.6084/m9.figshare.c.5496360 |
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1766032555834867712 |