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Molecular Mapping of Putative Genomic Regions Controlling Fruit and Seed Morphology of Watermelon

The genetic regulatory basis of qualitative and quantitative phenotypes of watermelon is being investigated in different types of molecular and genetic breeding studies around the world. In this study, biparental F(2) mapping populations were developed over two experimental years, and the collected...

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Autores principales: Yang, Tiantian, Amanullah, Sikandar, Li, Shenglong, Cheng, Rui, Zhang, Chen, Zhao, Zhengxiang, Liu, Hongyu, Luan, Feishi, Wang, Xuezheng
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10650541/
https://www.ncbi.nlm.nih.gov/pubmed/37958737
http://dx.doi.org/10.3390/ijms242115755
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author Yang, Tiantian
Amanullah, Sikandar
Li, Shenglong
Cheng, Rui
Zhang, Chen
Zhao, Zhengxiang
Liu, Hongyu
Luan, Feishi
Wang, Xuezheng
author_facet Yang, Tiantian
Amanullah, Sikandar
Li, Shenglong
Cheng, Rui
Zhang, Chen
Zhao, Zhengxiang
Liu, Hongyu
Luan, Feishi
Wang, Xuezheng
author_sort Yang, Tiantian
collection PubMed
description The genetic regulatory basis of qualitative and quantitative phenotypes of watermelon is being investigated in different types of molecular and genetic breeding studies around the world. In this study, biparental F(2) mapping populations were developed over two experimental years, and the collected datasets of fruit and seed traits exhibited highly significant correlations. Whole-genome resequencing of comparative parental lines was performed and detected single nucleotide polymorphism (SNP) loci were converted into cleaved amplified polymorphic sequence (CAPS) markers. The screened polymorphic markers were genotyped in segregating populations and two genetic linkage maps were constructed, which covered a total of 2834.28 and 2721.45 centimorgan (cM) genetic lengths, respectively. A total of 22 quantitative trait loci (QTLs) for seven phenotypic traits were mapped; among them, five stable and major-effect QTLs (PC-8-1, SL-9-1, SWi-9-1, SSi-9-1, and SW-6-1) and four minor-effect QTLs (PC-2-1 and PC-2-2; PT-2-1 and PT-2-2; SL-6-1 and SSi-6-2; and SWi-6-1 and SWi-6-2) were observed with 3.77–38.98% PVE. The adjacent QTL markers showed a good fit marker-trait association, and a significant allele-specific contribution was also noticed for genetic inheritance of traits. Further, a total of four candidate genes (Cla97C09G179150, Cla97C09G179350, Cla97C09G180040, and Cla97C09G180100) were spotted in the stable colocalized QTLs of seed size linked traits (SL-9-1 and SWi-9-1) that showed non-synonymous type mutations. The gene expression trends indicated that the seed morphology had been formed in the early developmental stage and showed the genetic regulation of seed shape formation. Hence, we think that our identified QTLs and genes would provide powerful genetic insights for marker-assisted breeding aimed at improving the quality traits of watermelon.
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spelling pubmed-106505412023-10-30 Molecular Mapping of Putative Genomic Regions Controlling Fruit and Seed Morphology of Watermelon Yang, Tiantian Amanullah, Sikandar Li, Shenglong Cheng, Rui Zhang, Chen Zhao, Zhengxiang Liu, Hongyu Luan, Feishi Wang, Xuezheng Int J Mol Sci Article The genetic regulatory basis of qualitative and quantitative phenotypes of watermelon is being investigated in different types of molecular and genetic breeding studies around the world. In this study, biparental F(2) mapping populations were developed over two experimental years, and the collected datasets of fruit and seed traits exhibited highly significant correlations. Whole-genome resequencing of comparative parental lines was performed and detected single nucleotide polymorphism (SNP) loci were converted into cleaved amplified polymorphic sequence (CAPS) markers. The screened polymorphic markers were genotyped in segregating populations and two genetic linkage maps were constructed, which covered a total of 2834.28 and 2721.45 centimorgan (cM) genetic lengths, respectively. A total of 22 quantitative trait loci (QTLs) for seven phenotypic traits were mapped; among them, five stable and major-effect QTLs (PC-8-1, SL-9-1, SWi-9-1, SSi-9-1, and SW-6-1) and four minor-effect QTLs (PC-2-1 and PC-2-2; PT-2-1 and PT-2-2; SL-6-1 and SSi-6-2; and SWi-6-1 and SWi-6-2) were observed with 3.77–38.98% PVE. The adjacent QTL markers showed a good fit marker-trait association, and a significant allele-specific contribution was also noticed for genetic inheritance of traits. Further, a total of four candidate genes (Cla97C09G179150, Cla97C09G179350, Cla97C09G180040, and Cla97C09G180100) were spotted in the stable colocalized QTLs of seed size linked traits (SL-9-1 and SWi-9-1) that showed non-synonymous type mutations. The gene expression trends indicated that the seed morphology had been formed in the early developmental stage and showed the genetic regulation of seed shape formation. Hence, we think that our identified QTLs and genes would provide powerful genetic insights for marker-assisted breeding aimed at improving the quality traits of watermelon. MDPI 2023-10-30 /pmc/articles/PMC10650541/ /pubmed/37958737 http://dx.doi.org/10.3390/ijms242115755 Text en © 2023 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Yang, Tiantian
Amanullah, Sikandar
Li, Shenglong
Cheng, Rui
Zhang, Chen
Zhao, Zhengxiang
Liu, Hongyu
Luan, Feishi
Wang, Xuezheng
Molecular Mapping of Putative Genomic Regions Controlling Fruit and Seed Morphology of Watermelon
title Molecular Mapping of Putative Genomic Regions Controlling Fruit and Seed Morphology of Watermelon
title_full Molecular Mapping of Putative Genomic Regions Controlling Fruit and Seed Morphology of Watermelon
title_fullStr Molecular Mapping of Putative Genomic Regions Controlling Fruit and Seed Morphology of Watermelon
title_full_unstemmed Molecular Mapping of Putative Genomic Regions Controlling Fruit and Seed Morphology of Watermelon
title_short Molecular Mapping of Putative Genomic Regions Controlling Fruit and Seed Morphology of Watermelon
title_sort molecular mapping of putative genomic regions controlling fruit and seed morphology of watermelon
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10650541/
https://www.ncbi.nlm.nih.gov/pubmed/37958737
http://dx.doi.org/10.3390/ijms242115755
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