Identification and validation of a major QTL for kernel length in bread wheat based on two F3 biparental populations

Xie, Xinlin; Li, Shuiqin; Liu, Huan; Xu, Qiang; Tang, Huaping; Mu, Yang; Deng, Mei; Jiang, Qiantao; Chen, Guoyue; Qi, Pengfei; Li, Wei; Pu, Zhien; Habib, Ahsan; Wei, Yuming; Zheng, Youliang; Lan, Xiujin; Ma, Jian

doi:10.1186/s12864-022-08608-3

Cited by 8 publications

(4 citation statements)

References 57 publications

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“…Within agriculture, KASP markers are extensively used for multiple purposes, including germplasm resource identification, genetic relationship research, molecular marker-assisted breeding, genetic map construction and gene mapping. KASP has been applied to locate candidate genes for yield traits such as heading date, plant height, and thousand grain weight ( Xiong et al., 2021 ; Xie et al., 2022 ); quality traits such as the color and shape of vegetables, fruits and other crops ( Cheng et al., 2021 ; Shen et al., 2021 ); and genes of biotic and abiotic ( Wang et al., 2018 ; Liu et al., 2020 ). In the current study, we developed two KASP markers S14_5147797 and S18_53902767 associated with drought tolerance ( Figure 6 ).…”

Section: Discussionmentioning

confidence: 99%

Development of KASP markers assisted with soybean drought tolerance in the germination stage based on GWAS

Jia,

Zhou,

Xiong

et al. 2024

Front. Plant Sci.

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Soybean [Glycine max(L.)Merr.] is a leading oil-bearing crop and cultivated globally over a vast scale. The agricultural landscape in China faces a formidable challenge with drought significantly impacting soybean production. In this study, we treated a natural population of 264 Chinese soybean accessions using 15% PEG-6000 and used GR, GE, GI, RGR, RGE, RGI and ASFV as evaluation index. Using the ASFV, we screened 17 strong drought-tolerant soybean germplasm in the germination stage. Leveraging 2,597,425 high-density SNP markers, we conducted Genome-Wide Association Studies (GWAS) and identified 92 SNPs and 9 candidate genes significantly associated with drought tolerance. Furthermore, we developed two KASP markers for S14_5147797 and S18_53902767, which closely linked to drought tolerance. This research not only enriches the pool of soybean germplasm resources but also establishes a robust foundation for the molecular breeding of drought tolerance soybean varieties.

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Section: Discussionmentioning

confidence: 99%

Development of KASP markers assisted with soybean drought tolerance in the germination stage based on GWAS

Jia,

Zhou,

Xiong

et al. 2024

Front. Plant Sci.

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“…In addition, BSA-seq may be combined with KASP marker-based fine mapping for the rapid and efficient identification of QTLs linked to target traits. This combined approach has been widely applied to identify QTLs for agronomic traits in diverse crops, including plant height in rice [ 25 ], powdery mildew resistance in melon [ 26 ], kernel length in wheat [ 27 ], and sucrose content in peanut [ 18 ].…”

Section: Introductionmentioning

confidence: 99%

Identification of two major QTLs for pod shell thickness in peanut (Arachis hypogaea L.) using BSA-seq analysis

Liu,

Zheng,

Sun

et al. 2024

BMC Genomics

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Background Pod shell thickness (PST) is an important agronomic trait of peanut because it affects the ability of shells to resist pest infestations and pathogen attacks, while also influencing the peanut shelling process. However, very few studies have explored the genetic basis of PST. Results An F2 segregating population derived from a cross between the thick-shelled cultivar Yueyou 18 (YY18) and the thin-shelled cultivar Weihua 8 (WH8) was used to identify the quantitative trait loci (QTLs) for PST. On the basis of a bulked segregant analysis sequencing (BSA-seq), four QTLs were preliminarily mapped to chromosomes 3, 8, 13, and 18. Using the genome resequencing data of YY18 and WH8, 22 kompetitive allele-specific PCR (KASP) markers were designed for the genotyping of the F2 population. Two major QTLs (qPSTA08 and qPSTA18) were identified and finely mapped, with qPSTA08 detected on chromosome 8 (0.69-Mb physical genomic region) and qPSTA18 detected on chromosome 18 (0.15-Mb physical genomic region). Moreover, qPSTA08 and qPSTA18 explained 31.1–32.3% and 16.7–16.8% of the phenotypic variation, respectively. Fifteen genes were detected in the two candidate regions, including three genes with nonsynonymous mutations in the exon region. Two molecular markers (Tif2_A08_31713024 and Tif2_A18_7198124) that were developed for the two major QTL regions effectively distinguished between thick-shelled and thin-shelled materials. Subsequently, the two markers were validated in four F2:3 lines selected. Conclusions The QTLs identified and molecular markers developed in this study may lay the foundation for breeding cultivars with a shell thickness suitable for mechanized peanut shelling.

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“…In addition, BSA-seq may be combined with KASP markerbased ne mapping for the rapid and e cient identi cation of QTLs linked to target traits. This combined approach has been widely applied to identify QTLs for agronomic traits in diverse crops, including plant height in rice [25], powdery mildew resistance in melon [26], kernel length in wheat [27], and sucrose content in peanut [18].…”

Section: Introductionmentioning

confidence: 99%

Identification of two major QTLs for pod shell thickness in peanut (Arachis hypogaea L.) using BSA-seq analysis

Liu,

Zheng,

Sun

et al. 2023

Preprint

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Background Pod shell thickness (PST) is an important agronomic trait of peanut because it affects the ability of shells to resist pest infestations and pathogen attacks, while also influencing the peanut shelling process. However, very few studies have explored the genetic basis of PST. Results An F2 segregating population derived from a cross between the thick-shelled cultivar Yueyou 18 (YY18) and the thin-shelled cultivar Weihua 8 (WH8) was used to identify the quantitative trait loci (QTLs) for PST. On the basis of a bulked segregant analysis sequencing (BSA-seq), four QTLs were preliminarily mapped to chromosomes 3, 8, 13, and 18. Using the genome resequencing data of YY18 and WH8, 22 kompetitive allele-specific PCR (KASP) markers were designed for the genotyping of the F2 population. Two major QTLs (qPSTA08 and qPSTA18) were identified and finely mapped, with qPSTA08 detected on chromosome 8 (0.69-Mb physical genomic region) and qPSTA18 detected on chromosome 18 (0.15-Mb physical genomic region). Moreover, qPSTA08 and qPSTA18 explained 31.1–32.3% and 16.7–16.8% of the phenotypic variation, respectively. Fifteen genes were detected in the two candidate regions, including three genes with nonsynonymous mutations in the exon region. Two molecular markers (Tif2_A08_31713024 and Tif2_A18_7198124) that were developed for the two major QTL regions effectively distinguished between thick-shelled and thin-shelled materials. Conclusions The QTLs identified and molecular markers developed in this study may contribute to molecular marker-assisted breeding and lay the foundation for breeding cultivars with a shell thickness suitable for mechanized peanut shelling.

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Identification and validation of a major QTL for kernel length in bread wheat based on two F3 biparental populations

Cited by 8 publications

References 57 publications

Development of KASP markers assisted with soybean drought tolerance in the germination stage based on GWAS

Development of KASP markers assisted with soybean drought tolerance in the germination stage based on GWAS

Identification of two major QTLs for pod shell thickness in peanut (Arachis hypogaea L.) using BSA-seq analysis

Identification of two major QTLs for pod shell thickness in peanut (Arachis hypogaea L.) using BSA-seq analysis

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