Identification of quantitative trait loci underlying five major agronomic traits of soybean in three biparental populations by specific length amplified fragment sequencing (SLAF-seq)
Flowering time, plant height, branch number, node numbers of main stem and pods per plant are important agronomic traits related to photoperiodic sensitivity, plant type and yield of soybean, which are controlled by multiple genes or quantitative trait loci (QTL). The main purpose of this study is t...
| Main Authors: | , , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
PeerJ Inc.
2021-12-01
|
| Series: | PeerJ |
| Subjects: | |
| Online Access: | https://peerj.com/articles/12416.pdf |
| _version_ | 1797425762192588800 |
|---|---|
| author | Bo Hu Yuqiu Li Hongyan Wu Hong Zhai Kun Xu Yi Gao Jinlong Zhu Yuzhuo Li Zhengjun Xia |
| author_facet | Bo Hu Yuqiu Li Hongyan Wu Hong Zhai Kun Xu Yi Gao Jinlong Zhu Yuzhuo Li Zhengjun Xia |
| author_sort | Bo Hu |
| collection | DOAJ |
| description | Flowering time, plant height, branch number, node numbers of main stem and pods per plant are important agronomic traits related to photoperiodic sensitivity, plant type and yield of soybean, which are controlled by multiple genes or quantitative trait loci (QTL). The main purpose of this study is to identify new QTL for five major agronomic traits, especially for flowering time. Three biparental populations were developed by crossing cultivars from northern and central China. Specific loci amplified fragment sequencing (SLAF-seq) was used to construct linkage map and QTL mapping was carried out. A total of 10 QTL for flowering time were identified in three populations, some of which were related to E1 and E2 genes or the other reported QTL listed in Soybase. In the Y159 population (Xudou No.9 × Kenfeng No.16), QTL for flowering time on chromosome 4, qFT4_1 and qFT4_2 were new. Compared with the QTL reported in Soybase, 1 QTL for plant height (PH), 3 QTL for branch number (BR), 5 QTL for node numbers of main stem, and 3 QTL for pods per plant were new QTL. Major E genes were frequently detected in different populations indicating that major the E loci had a great effect on flowering time and adaptation of soybean. Therefore, in order to further clone minor genes or QTL, it may be of great significance to carefully select the genotypes of known loci. These results may lay a foundation for fine mapping and clone of QTL/genes related to plant-type, provided a basis for high yield breeding of soybean. |
| first_indexed | 2024-03-09T08:20:54Z |
| format | Article |
| id | doaj.art-93c64c86de824e4389724601457a143f |
| institution | Directory Open Access Journal |
| issn | 2167-8359 |
| language | English |
| last_indexed | 2024-03-09T08:20:54Z |
| publishDate | 2021-12-01 |
| publisher | PeerJ Inc. |
| record_format | Article |
| series | PeerJ |
| spelling | doaj.art-93c64c86de824e4389724601457a143f2023-12-02T21:50:16ZengPeerJ Inc.PeerJ2167-83592021-12-019e1241610.7717/peerj.12416Identification of quantitative trait loci underlying five major agronomic traits of soybean in three biparental populations by specific length amplified fragment sequencing (SLAF-seq)Bo Hu0Yuqiu Li1Hongyan Wu2Hong Zhai3Kun Xu4Yi Gao5Jinlong Zhu6Yuzhuo Li7Zhengjun Xia8Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Harbin, ChinaKey Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Harbin, ChinaKey Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Harbin, ChinaKey Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Harbin, ChinaKey Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Harbin, ChinaKey Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Harbin, ChinaKey Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Harbin, ChinaKey Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Harbin, ChinaKey Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Harbin, ChinaFlowering time, plant height, branch number, node numbers of main stem and pods per plant are important agronomic traits related to photoperiodic sensitivity, plant type and yield of soybean, which are controlled by multiple genes or quantitative trait loci (QTL). The main purpose of this study is to identify new QTL for five major agronomic traits, especially for flowering time. Three biparental populations were developed by crossing cultivars from northern and central China. Specific loci amplified fragment sequencing (SLAF-seq) was used to construct linkage map and QTL mapping was carried out. A total of 10 QTL for flowering time were identified in three populations, some of which were related to E1 and E2 genes or the other reported QTL listed in Soybase. In the Y159 population (Xudou No.9 × Kenfeng No.16), QTL for flowering time on chromosome 4, qFT4_1 and qFT4_2 were new. Compared with the QTL reported in Soybase, 1 QTL for plant height (PH), 3 QTL for branch number (BR), 5 QTL for node numbers of main stem, and 3 QTL for pods per plant were new QTL. Major E genes were frequently detected in different populations indicating that major the E loci had a great effect on flowering time and adaptation of soybean. Therefore, in order to further clone minor genes or QTL, it may be of great significance to carefully select the genotypes of known loci. These results may lay a foundation for fine mapping and clone of QTL/genes related to plant-type, provided a basis for high yield breeding of soybean.https://peerj.com/articles/12416.pdfSoybeanQTLSLAF-seqGenetic mapFlowering time |
| spellingShingle | Bo Hu Yuqiu Li Hongyan Wu Hong Zhai Kun Xu Yi Gao Jinlong Zhu Yuzhuo Li Zhengjun Xia Identification of quantitative trait loci underlying five major agronomic traits of soybean in three biparental populations by specific length amplified fragment sequencing (SLAF-seq) PeerJ Soybean QTL SLAF-seq Genetic map Flowering time |
| title | Identification of quantitative trait loci underlying five major agronomic traits of soybean in three biparental populations by specific length amplified fragment sequencing (SLAF-seq) |
| title_full | Identification of quantitative trait loci underlying five major agronomic traits of soybean in three biparental populations by specific length amplified fragment sequencing (SLAF-seq) |
| title_fullStr | Identification of quantitative trait loci underlying five major agronomic traits of soybean in three biparental populations by specific length amplified fragment sequencing (SLAF-seq) |
| title_full_unstemmed | Identification of quantitative trait loci underlying five major agronomic traits of soybean in three biparental populations by specific length amplified fragment sequencing (SLAF-seq) |
| title_short | Identification of quantitative trait loci underlying five major agronomic traits of soybean in three biparental populations by specific length amplified fragment sequencing (SLAF-seq) |
| title_sort | identification of quantitative trait loci underlying five major agronomic traits of soybean in three biparental populations by specific length amplified fragment sequencing slaf seq |
| topic | Soybean QTL SLAF-seq Genetic map Flowering time |
| url | https://peerj.com/articles/12416.pdf |
| work_keys_str_mv | AT bohu identificationofquantitativetraitlociunderlyingfivemajoragronomictraitsofsoybeaninthreebiparentalpopulationsbyspecificlengthamplifiedfragmentsequencingslafseq AT yuqiuli identificationofquantitativetraitlociunderlyingfivemajoragronomictraitsofsoybeaninthreebiparentalpopulationsbyspecificlengthamplifiedfragmentsequencingslafseq AT hongyanwu identificationofquantitativetraitlociunderlyingfivemajoragronomictraitsofsoybeaninthreebiparentalpopulationsbyspecificlengthamplifiedfragmentsequencingslafseq AT hongzhai identificationofquantitativetraitlociunderlyingfivemajoragronomictraitsofsoybeaninthreebiparentalpopulationsbyspecificlengthamplifiedfragmentsequencingslafseq AT kunxu identificationofquantitativetraitlociunderlyingfivemajoragronomictraitsofsoybeaninthreebiparentalpopulationsbyspecificlengthamplifiedfragmentsequencingslafseq AT yigao identificationofquantitativetraitlociunderlyingfivemajoragronomictraitsofsoybeaninthreebiparentalpopulationsbyspecificlengthamplifiedfragmentsequencingslafseq AT jinlongzhu identificationofquantitativetraitlociunderlyingfivemajoragronomictraitsofsoybeaninthreebiparentalpopulationsbyspecificlengthamplifiedfragmentsequencingslafseq AT yuzhuoli identificationofquantitativetraitlociunderlyingfivemajoragronomictraitsofsoybeaninthreebiparentalpopulationsbyspecificlengthamplifiedfragmentsequencingslafseq AT zhengjunxia identificationofquantitativetraitlociunderlyingfivemajoragronomictraitsofsoybeaninthreebiparentalpopulationsbyspecificlengthamplifiedfragmentsequencingslafseq |