Multi-Year QTL Mapping and RNA-seq Reveal Candidate Genes for Early Floret-Opening Time in <i>Japonica</i> Rice
Floret-opening time (FOT) refers to the time between florets opening and closing within a day, and is a crucial agricultural trait for reproductive development, thermal tolerance and hybrid breeding in rice. However, little is known about the genetic basis and genes controlling FOT in rice. Here, we...
| Main Authors: | , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
MDPI AG
2023-04-01
|
| Series: | Agriculture |
| Subjects: | |
| Online Access: | https://www.mdpi.com/2077-0472/13/4/859 |
| _version_ | 1797606759020363776 |
|---|---|
| author | Xiaozhou Hu Guoliang Chen Rui Zhang Mengxuan Xu Ling Zhao Hailong Tang Jinlong Ni Ming Zhou |
| author_facet | Xiaozhou Hu Guoliang Chen Rui Zhang Mengxuan Xu Ling Zhao Hailong Tang Jinlong Ni Ming Zhou |
| author_sort | Xiaozhou Hu |
| collection | DOAJ |
| description | Floret-opening time (FOT) refers to the time between florets opening and closing within a day, and is a crucial agricultural trait for reproductive development, thermal tolerance and hybrid breeding in rice. However, little is known about the genetic basis and genes controlling FOT in rice. Here, we report the genetic mapping and transcriptome analysis of FOT in the <i>japonica</i> rice cultivar G23. Combining the QTLseqr and GradedPool-seq (GPS) methods, we located a major quantitative trait locus (QTL), <i>qFOT6</i>, on chromosome 6 in multiple years and under different environments. Integrating RNA-seq analysis, we selected 13 potential candidate genes in the <i>qFOT6</i> interval that might be associated with FOT in G23. Taken together, our work uncovers a major QTL and potential candidate genes for FOT in rice, thus providing invaluable clues for rice breeding. |
| first_indexed | 2024-03-11T05:20:35Z |
| format | Article |
| id | doaj.art-1c859ae92ce447639b2380a49acac724 |
| institution | Directory Open Access Journal |
| issn | 2077-0472 |
| language | English |
| last_indexed | 2024-03-11T05:20:35Z |
| publishDate | 2023-04-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Agriculture |
| spelling | doaj.art-1c859ae92ce447639b2380a49acac7242023-11-17T17:54:30ZengMDPI AGAgriculture2077-04722023-04-0113485910.3390/agriculture13040859Multi-Year QTL Mapping and RNA-seq Reveal Candidate Genes for Early Floret-Opening Time in <i>Japonica</i> RiceXiaozhou Hu0Guoliang Chen1Rui Zhang2Mengxuan Xu3Ling Zhao4Hailong Tang5Jinlong Ni6Ming Zhou7State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, ChinaChina National Seed Group Co., Ltd., Beijing 100031, ChinaState Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, ChinaState Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, ChinaInstitute of Food Crops, Jiangsu Academy of Agricultural Sciences, Nanjing 210014, ChinaChina National Seed Group Co., Ltd., Beijing 100031, ChinaRice Research Institute, Anhui Academy of Agricultural Sciences, Hefei 230031, ChinaState Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, ChinaFloret-opening time (FOT) refers to the time between florets opening and closing within a day, and is a crucial agricultural trait for reproductive development, thermal tolerance and hybrid breeding in rice. However, little is known about the genetic basis and genes controlling FOT in rice. Here, we report the genetic mapping and transcriptome analysis of FOT in the <i>japonica</i> rice cultivar G23. Combining the QTLseqr and GradedPool-seq (GPS) methods, we located a major quantitative trait locus (QTL), <i>qFOT6</i>, on chromosome 6 in multiple years and under different environments. Integrating RNA-seq analysis, we selected 13 potential candidate genes in the <i>qFOT6</i> interval that might be associated with FOT in G23. Taken together, our work uncovers a major QTL and potential candidate genes for FOT in rice, thus providing invaluable clues for rice breeding.https://www.mdpi.com/2077-0472/13/4/859floret-opening timequantitative trait locustranscriptomerice breeding |
| spellingShingle | Xiaozhou Hu Guoliang Chen Rui Zhang Mengxuan Xu Ling Zhao Hailong Tang Jinlong Ni Ming Zhou Multi-Year QTL Mapping and RNA-seq Reveal Candidate Genes for Early Floret-Opening Time in <i>Japonica</i> Rice Agriculture floret-opening time quantitative trait locus transcriptome rice breeding |
| title | Multi-Year QTL Mapping and RNA-seq Reveal Candidate Genes for Early Floret-Opening Time in <i>Japonica</i> Rice |
| title_full | Multi-Year QTL Mapping and RNA-seq Reveal Candidate Genes for Early Floret-Opening Time in <i>Japonica</i> Rice |
| title_fullStr | Multi-Year QTL Mapping and RNA-seq Reveal Candidate Genes for Early Floret-Opening Time in <i>Japonica</i> Rice |
| title_full_unstemmed | Multi-Year QTL Mapping and RNA-seq Reveal Candidate Genes for Early Floret-Opening Time in <i>Japonica</i> Rice |
| title_short | Multi-Year QTL Mapping and RNA-seq Reveal Candidate Genes for Early Floret-Opening Time in <i>Japonica</i> Rice |
| title_sort | multi year qtl mapping and rna seq reveal candidate genes for early floret opening time in i japonica i rice |
| topic | floret-opening time quantitative trait locus transcriptome rice breeding |
| url | https://www.mdpi.com/2077-0472/13/4/859 |
| work_keys_str_mv | AT xiaozhouhu multiyearqtlmappingandrnaseqrevealcandidategenesforearlyfloretopeningtimeinijaponicairice AT guoliangchen multiyearqtlmappingandrnaseqrevealcandidategenesforearlyfloretopeningtimeinijaponicairice AT ruizhang multiyearqtlmappingandrnaseqrevealcandidategenesforearlyfloretopeningtimeinijaponicairice AT mengxuanxu multiyearqtlmappingandrnaseqrevealcandidategenesforearlyfloretopeningtimeinijaponicairice AT lingzhao multiyearqtlmappingandrnaseqrevealcandidategenesforearlyfloretopeningtimeinijaponicairice AT hailongtang multiyearqtlmappingandrnaseqrevealcandidategenesforearlyfloretopeningtimeinijaponicairice AT jinlongni multiyearqtlmappingandrnaseqrevealcandidategenesforearlyfloretopeningtimeinijaponicairice AT mingzhou multiyearqtlmappingandrnaseqrevealcandidategenesforearlyfloretopeningtimeinijaponicairice |