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Allelic variation of the rice blast resistance gene Pid3 in cultivated rice worldwide
In this study, the re-sequencing data from 3,000 rice genomes project (3 K RGP) was used to analyze the allelic variation at the rice blast resistance (R) Pid3 locus. A total of 40 haplotypes were identified based on 71 nucleotide polymorphic sites among 2621 Pid3 homozygous alleles in the 3k genome...
Autores principales: | , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2017
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5583387/ https://www.ncbi.nlm.nih.gov/pubmed/28871108 http://dx.doi.org/10.1038/s41598-017-10617-2 |
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author | Lv, Qiming Huang, Zhiyuan Xu, Xiao Tang, Li Liu, Hai Wang, Chunchao Zhou, Zhuangzhi Xin, Yeyun Xing, Junjie Peng, Zhirong Li, Xiaobing Zheng, Tianqing Zhu, Lihuang |
author_facet | Lv, Qiming Huang, Zhiyuan Xu, Xiao Tang, Li Liu, Hai Wang, Chunchao Zhou, Zhuangzhi Xin, Yeyun Xing, Junjie Peng, Zhirong Li, Xiaobing Zheng, Tianqing Zhu, Lihuang |
author_sort | Lv, Qiming |
collection | PubMed |
description | In this study, the re-sequencing data from 3,000 rice genomes project (3 K RGP) was used to analyze the allelic variation at the rice blast resistance (R) Pid3 locus. A total of 40 haplotypes were identified based on 71 nucleotide polymorphic sites among 2621 Pid3 homozygous alleles in the 3k genomes. Pid3 alleles in most japonica rice accessions were pseudogenes due to premature stop mutations, while those in most indica rice accessions were identical to the functional haplotype Hap_6, which had a similar resistance spectrum as the previously reported Pid3 gene. By sequencing and CAPS marker analyzing the Pid3 alleles in widespread cultivars in China, we verified that Hap_6 had been widely deployed in indica rice breeding of China. Thus, we suggest that the priority for utilization of the Pid3 locus in rice breeding should be on introducing the functional Pid3 alleles into japonica rice cultivars and the functional alleles of non-Hap_6 haplotypes into indica rice cultivars for increasing genetic diversity. |
format | Online Article Text |
id | pubmed-5583387 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2017 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-55833872017-09-06 Allelic variation of the rice blast resistance gene Pid3 in cultivated rice worldwide Lv, Qiming Huang, Zhiyuan Xu, Xiao Tang, Li Liu, Hai Wang, Chunchao Zhou, Zhuangzhi Xin, Yeyun Xing, Junjie Peng, Zhirong Li, Xiaobing Zheng, Tianqing Zhu, Lihuang Sci Rep Article In this study, the re-sequencing data from 3,000 rice genomes project (3 K RGP) was used to analyze the allelic variation at the rice blast resistance (R) Pid3 locus. A total of 40 haplotypes were identified based on 71 nucleotide polymorphic sites among 2621 Pid3 homozygous alleles in the 3k genomes. Pid3 alleles in most japonica rice accessions were pseudogenes due to premature stop mutations, while those in most indica rice accessions were identical to the functional haplotype Hap_6, which had a similar resistance spectrum as the previously reported Pid3 gene. By sequencing and CAPS marker analyzing the Pid3 alleles in widespread cultivars in China, we verified that Hap_6 had been widely deployed in indica rice breeding of China. Thus, we suggest that the priority for utilization of the Pid3 locus in rice breeding should be on introducing the functional Pid3 alleles into japonica rice cultivars and the functional alleles of non-Hap_6 haplotypes into indica rice cultivars for increasing genetic diversity. Nature Publishing Group UK 2017-09-04 /pmc/articles/PMC5583387/ /pubmed/28871108 http://dx.doi.org/10.1038/s41598-017-10617-2 Text en © The Author(s) 2017 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/. |
spellingShingle | Article Lv, Qiming Huang, Zhiyuan Xu, Xiao Tang, Li Liu, Hai Wang, Chunchao Zhou, Zhuangzhi Xin, Yeyun Xing, Junjie Peng, Zhirong Li, Xiaobing Zheng, Tianqing Zhu, Lihuang Allelic variation of the rice blast resistance gene Pid3 in cultivated rice worldwide |
title | Allelic variation of the rice blast resistance gene Pid3 in cultivated rice worldwide |
title_full | Allelic variation of the rice blast resistance gene Pid3 in cultivated rice worldwide |
title_fullStr | Allelic variation of the rice blast resistance gene Pid3 in cultivated rice worldwide |
title_full_unstemmed | Allelic variation of the rice blast resistance gene Pid3 in cultivated rice worldwide |
title_short | Allelic variation of the rice blast resistance gene Pid3 in cultivated rice worldwide |
title_sort | allelic variation of the rice blast resistance gene pid3 in cultivated rice worldwide |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5583387/ https://www.ncbi.nlm.nih.gov/pubmed/28871108 http://dx.doi.org/10.1038/s41598-017-10617-2 |
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