Identification of quantitative trait loci associated with upper temperature tolerance in turbot, Scophthalmus maximus

Abstract Temperature tolerance is an important trait from both an economic and evolutionary perspective in fish. Because of difficulties with measurements, genome-wide selection using quantitative trait loci (QTLs) affecting Upper temperature tolerance may be an alternative for genetic improvement....

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Autores principales:	Aijun Ma, Zhihui Huang, Xin-an Wang, Yuhui Xu, Xiaoli Guo
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/6e4efc3384584cba92bd842f161940f1
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spelling	oai:doaj.org-article:6e4efc3384584cba92bd842f161940f12021-11-14T12:22:01ZIdentification of quantitative trait loci associated with upper temperature tolerance in turbot, Scophthalmus maximus10.1038/s41598-021-01062-32045-2322https://doaj.org/article/6e4efc3384584cba92bd842f161940f12021-11-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-01062-3https://doaj.org/toc/2045-2322Abstract Temperature tolerance is an important trait from both an economic and evolutionary perspective in fish. Because of difficulties with measurements, genome-wide selection using quantitative trait loci (QTLs) affecting Upper temperature tolerance may be an alternative for genetic improvement. Turbot Scophthalmus maximus (L.) is a cold-water marine fish with high economic value in Europe and Asia. The genetic bases of upper temperature tolerance (UTTs) traits have been rarely studied. In this study, we constructed a genetic linkage map of turbot using simple sequence repeats (SSRs) and single nucleotide polymorphism (SNP) markers. A total of 190 SSR and 8,123 SNP were assigned to 22 linkage groups (LGs) of a consensus map, which spanned 3,648.29 cM of the turbot genome, with an average interval of 0.44 cM. Moreover, we re-anchored genome sequences, allowing 93.8% physical sequences to be clustered into 22 turbot pseudo-chromosomes. A high synteny was observed between two assemblies from the literature. QTL mapping and validation analysis identified thirteen QLTs which are major effect QTLs, of these, 206 linked SNP loci, and two linked SSR loci were considered to have significant QTL effects. Association analysis for UTTs with 129 QTL markers was performed for different families, results showed that eight SNP loci were significantly correlated with UTT, which markers could be helpful in selecting thermal tolerant breeds of turbot. 1,363 gene sequences were genomically annotated, and 26 QTL markers were annotated. We believe these genes could be valuable candidates affecting high temperatures, providing valuable genomic resources for the study of genetic mechanisms regulating thermal stress. Similarly, they may be used in marker-assisted selection (MAS) programs to improve turbot performance.Aijun MaZhihui HuangXin-an WangYuhui XuXiaoli GuoNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-12 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Aijun Ma Zhihui Huang Xin-an Wang Yuhui Xu Xiaoli Guo Identification of quantitative trait loci associated with upper temperature tolerance in turbot, Scophthalmus maximus
description	Abstract Temperature tolerance is an important trait from both an economic and evolutionary perspective in fish. Because of difficulties with measurements, genome-wide selection using quantitative trait loci (QTLs) affecting Upper temperature tolerance may be an alternative for genetic improvement. Turbot Scophthalmus maximus (L.) is a cold-water marine fish with high economic value in Europe and Asia. The genetic bases of upper temperature tolerance (UTTs) traits have been rarely studied. In this study, we constructed a genetic linkage map of turbot using simple sequence repeats (SSRs) and single nucleotide polymorphism (SNP) markers. A total of 190 SSR and 8,123 SNP were assigned to 22 linkage groups (LGs) of a consensus map, which spanned 3,648.29 cM of the turbot genome, with an average interval of 0.44 cM. Moreover, we re-anchored genome sequences, allowing 93.8% physical sequences to be clustered into 22 turbot pseudo-chromosomes. A high synteny was observed between two assemblies from the literature. QTL mapping and validation analysis identified thirteen QLTs which are major effect QTLs, of these, 206 linked SNP loci, and two linked SSR loci were considered to have significant QTL effects. Association analysis for UTTs with 129 QTL markers was performed for different families, results showed that eight SNP loci were significantly correlated with UTT, which markers could be helpful in selecting thermal tolerant breeds of turbot. 1,363 gene sequences were genomically annotated, and 26 QTL markers were annotated. We believe these genes could be valuable candidates affecting high temperatures, providing valuable genomic resources for the study of genetic mechanisms regulating thermal stress. Similarly, they may be used in marker-assisted selection (MAS) programs to improve turbot performance.
format	article
author	Aijun Ma Zhihui Huang Xin-an Wang Yuhui Xu Xiaoli Guo
author_facet	Aijun Ma Zhihui Huang Xin-an Wang Yuhui Xu Xiaoli Guo
author_sort	Aijun Ma
title	Identification of quantitative trait loci associated with upper temperature tolerance in turbot, Scophthalmus maximus
title_short	Identification of quantitative trait loci associated with upper temperature tolerance in turbot, Scophthalmus maximus
title_full	Identification of quantitative trait loci associated with upper temperature tolerance in turbot, Scophthalmus maximus
title_fullStr	Identification of quantitative trait loci associated with upper temperature tolerance in turbot, Scophthalmus maximus
title_full_unstemmed	Identification of quantitative trait loci associated with upper temperature tolerance in turbot, Scophthalmus maximus
title_sort	identification of quantitative trait loci associated with upper temperature tolerance in turbot, scophthalmus maximus
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/6e4efc3384584cba92bd842f161940f1
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_version_	1718429232375267328

Identification of quantitative trait loci associated with upper temperature tolerance in turbot, Scophthalmus maximus

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