Further fine mapping and candidate gene prediction for a new restoring fertility gene Rf(fa) in rice
Rf(fa), a new restoring fertility gene in rice, was previously located to a large region on Chromosome 10. The large number of genes within the region made cloning of Rf(fa) difficult. To perform the cloning and further elucidate the molecular mechanism, we reconstructed a mapping segregation popula...
| Main Authors: | , , , , , , |
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| Format: | Article |
| Language: | English |
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Czech Academy of Agricultural Sciences
2022-12-01
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| Series: | Czech Journal of Genetics and Plant Breeding |
| Subjects: | |
| Online Access: | https://cjgpb.agriculturejournals.cz/artkey/cjg-202301-0005_further-fine-mapping-and-candidate-gene-prediction-for-a-new-restoring-fertility-gene-rf-fa-in-rice.php |
| _version_ | 1797897035522768896 |
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| author | Yu Li Xiaomi Chen Tao Lan Jing Zhang Ziheng Chen Wenting Yang Xinmei Lin |
| author_facet | Yu Li Xiaomi Chen Tao Lan Jing Zhang Ziheng Chen Wenting Yang Xinmei Lin |
| author_sort | Yu Li |
| collection | DOAJ |
| description | Rf(fa), a new restoring fertility gene in rice, was previously located to a large region on Chromosome 10. The large number of genes within the region made cloning of Rf(fa) difficult. To perform the cloning and further elucidate the molecular mechanism, we reconstructed a mapping segregation population (BC1F1) of 12 000 plants. Using the population and polymorphism of simple sequence repeat (SSR) molecular markers, we finally mapped Rf(fa) between the two SSR molecular markers MM2000 and RM25658, within a 78.87 kb region. By de novo sequencing of a restoring line of CMS-FA hybrid rice, we obtained the genomic sequence of the mapping region, which provided the basis for the prediction of the candidate gene(s) of the target gene and for the comparison of genomic sequence differences between wild and cultivated rice. Within the mapping region, the genomic sequence of the wild rice was significantly different from that of cultivated rice. There were ten genes in the final mapping region. A pentatricopeptide repeat (PPR) protein gene was predicted as the candidate gene of Rf(fa). Our results laid a solid foundation for the final cloning and molecular mechanism analysis of the gene. The identified molecular markers tightly linked to Rf(fa) will facilitate the marker assisted selection in breeding of CMS-FA hybrid rice. |
| first_indexed | 2024-04-10T07:51:11Z |
| format | Article |
| id | doaj.art-a157e18fdbfa43b0b42d5f3ff6e47048 |
| institution | Directory Open Access Journal |
| issn | 1212-1975 1805-9325 |
| language | English |
| last_indexed | 2024-04-10T07:51:11Z |
| publishDate | 2022-12-01 |
| publisher | Czech Academy of Agricultural Sciences |
| record_format | Article |
| series | Czech Journal of Genetics and Plant Breeding |
| spelling | doaj.art-a157e18fdbfa43b0b42d5f3ff6e470482023-02-23T10:12:37ZengCzech Academy of Agricultural SciencesCzech Journal of Genetics and Plant Breeding1212-19751805-93252022-12-01591435310.17221/49/2022-CJGPBcjg-202301-0005Further fine mapping and candidate gene prediction for a new restoring fertility gene Rf(fa) in riceYu Li0Xiaomi Chen1Tao Lan2Jing Zhang3Ziheng Chen4Wenting Yang5Xinmei Lin6Key Laboratory of Ministry of Education for Genetics, Breeding and Multiple Utilization of Crops, Fujian Agriculture and Forestry University, Fuzhou, P.R. ChinaKey Laboratory of Ministry of Education for Genetics, Breeding and Multiple Utilization of Crops, Fujian Agriculture and Forestry University, Fuzhou, P.R. ChinaKey Laboratory of Ministry of Education for Genetics, Breeding and Multiple Utilization of Crops, Fujian Agriculture and Forestry University, Fuzhou, P.R. ChinaCollege of Agronomy, Fujian Agriculture and Forestry University, Fuzhou, P.R. ChinaCollege of Agronomy, Fujian Agriculture and Forestry University, Fuzhou, P.R. ChinaJinshan College, Fujian Agriculture and Forestry University, Fuzhou, P.R. ChinaJinshan College, Fujian Agriculture and Forestry University, Fuzhou, P.R. ChinaRf(fa), a new restoring fertility gene in rice, was previously located to a large region on Chromosome 10. The large number of genes within the region made cloning of Rf(fa) difficult. To perform the cloning and further elucidate the molecular mechanism, we reconstructed a mapping segregation population (BC1F1) of 12 000 plants. Using the population and polymorphism of simple sequence repeat (SSR) molecular markers, we finally mapped Rf(fa) between the two SSR molecular markers MM2000 and RM25658, within a 78.87 kb region. By de novo sequencing of a restoring line of CMS-FA hybrid rice, we obtained the genomic sequence of the mapping region, which provided the basis for the prediction of the candidate gene(s) of the target gene and for the comparison of genomic sequence differences between wild and cultivated rice. Within the mapping region, the genomic sequence of the wild rice was significantly different from that of cultivated rice. There were ten genes in the final mapping region. A pentatricopeptide repeat (PPR) protein gene was predicted as the candidate gene of Rf(fa). Our results laid a solid foundation for the final cloning and molecular mechanism analysis of the gene. The identified molecular markers tightly linked to Rf(fa) will facilitate the marker assisted selection in breeding of CMS-FA hybrid rice.https://cjgpb.agriculturejournals.cz/artkey/cjg-202301-0005_further-fine-mapping-and-candidate-gene-prediction-for-a-new-restoring-fertility-gene-rf-fa-in-rice.phpfertility restorergene fine mappingprediction of candidate gene(s)rice |
| spellingShingle | Yu Li Xiaomi Chen Tao Lan Jing Zhang Ziheng Chen Wenting Yang Xinmei Lin Further fine mapping and candidate gene prediction for a new restoring fertility gene Rf(fa) in rice Czech Journal of Genetics and Plant Breeding fertility restorer gene fine mapping prediction of candidate gene(s) rice |
| title | Further fine mapping and candidate gene prediction for a new restoring fertility gene Rf(fa) in rice |
| title_full | Further fine mapping and candidate gene prediction for a new restoring fertility gene Rf(fa) in rice |
| title_fullStr | Further fine mapping and candidate gene prediction for a new restoring fertility gene Rf(fa) in rice |
| title_full_unstemmed | Further fine mapping and candidate gene prediction for a new restoring fertility gene Rf(fa) in rice |
| title_short | Further fine mapping and candidate gene prediction for a new restoring fertility gene Rf(fa) in rice |
| title_sort | further fine mapping and candidate gene prediction for a new restoring fertility gene rf fa in rice |
| topic | fertility restorer gene fine mapping prediction of candidate gene(s) rice |
| url | https://cjgpb.agriculturejournals.cz/artkey/cjg-202301-0005_further-fine-mapping-and-candidate-gene-prediction-for-a-new-restoring-fertility-gene-rf-fa-in-rice.php |
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