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RiceRelativesGD: a genomic database of rice relatives for rice research

Rice (Oryza sativa L.) is one of the most important crops worldwide. Its relatives, including phylogenetically related species of rice and paddy weeds with a similar ecological niche, can provide crucial genetic resources (such as resistance to biotic and abiotic stresses and high photosynthetic eff...

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Autores principales: Mao, Lingfeng, Chen, Meihong, Chu, Qinjie, Jia, Lei, Sultana, Most Humaira, Wu, Dongya, Kong, Xiangdong, Qiu, Jie, Ye, Chu-Yu, Zhu, Qian-Hao, Chen, Xi, Fan, Longjiang
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6764101/
https://www.ncbi.nlm.nih.gov/pubmed/31560050
http://dx.doi.org/10.1093/database/baz110
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author Mao, Lingfeng
Chen, Meihong
Chu, Qinjie
Jia, Lei
Sultana, Most Humaira
Wu, Dongya
Kong, Xiangdong
Qiu, Jie
Ye, Chu-Yu
Zhu, Qian-Hao
Chen, Xi
Fan, Longjiang
author_facet Mao, Lingfeng
Chen, Meihong
Chu, Qinjie
Jia, Lei
Sultana, Most Humaira
Wu, Dongya
Kong, Xiangdong
Qiu, Jie
Ye, Chu-Yu
Zhu, Qian-Hao
Chen, Xi
Fan, Longjiang
author_sort Mao, Lingfeng
collection PubMed
description Rice (Oryza sativa L.) is one of the most important crops worldwide. Its relatives, including phylogenetically related species of rice and paddy weeds with a similar ecological niche, can provide crucial genetic resources (such as resistance to biotic and abiotic stresses and high photosynthetic efficiency) for rice research. Although many rice genomic databases have been constructed, a database providing large-scale curated genomic data from rice relatives and offering specific gene resources is still lacking. Here, we present RiceRelativesGD, a user-friendly genomic database of rice relatives. RiceRelativesGD integrates large-scale genomic resources from 2 cultivated rice and 11 rice relatives, including 208 321 specific genes and 13 643 genes related to photosynthesis and responsive to external stimuli. Diverse bioinformatics tools are embedded in the database, which allow users to search, visualize and download the information of interest. To our knowledge, this is the first genomic database providing a centralized genetic resource of rice relatives. RiceRelativesGD will serve as a significant and comprehensive knowledgebase for the rice community.
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spelling pubmed-67641012019-10-02 RiceRelativesGD: a genomic database of rice relatives for rice research Mao, Lingfeng Chen, Meihong Chu, Qinjie Jia, Lei Sultana, Most Humaira Wu, Dongya Kong, Xiangdong Qiu, Jie Ye, Chu-Yu Zhu, Qian-Hao Chen, Xi Fan, Longjiang Database (Oxford) Original Article Rice (Oryza sativa L.) is one of the most important crops worldwide. Its relatives, including phylogenetically related species of rice and paddy weeds with a similar ecological niche, can provide crucial genetic resources (such as resistance to biotic and abiotic stresses and high photosynthetic efficiency) for rice research. Although many rice genomic databases have been constructed, a database providing large-scale curated genomic data from rice relatives and offering specific gene resources is still lacking. Here, we present RiceRelativesGD, a user-friendly genomic database of rice relatives. RiceRelativesGD integrates large-scale genomic resources from 2 cultivated rice and 11 rice relatives, including 208 321 specific genes and 13 643 genes related to photosynthesis and responsive to external stimuli. Diverse bioinformatics tools are embedded in the database, which allow users to search, visualize and download the information of interest. To our knowledge, this is the first genomic database providing a centralized genetic resource of rice relatives. RiceRelativesGD will serve as a significant and comprehensive knowledgebase for the rice community. Oxford University Press 2019-09-27 /pmc/articles/PMC6764101/ /pubmed/31560050 http://dx.doi.org/10.1093/database/baz110 Text en © The Author(s) 2019. Published by Oxford University Press. http://creativecommons.org/licenses/by/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Original Article
Mao, Lingfeng
Chen, Meihong
Chu, Qinjie
Jia, Lei
Sultana, Most Humaira
Wu, Dongya
Kong, Xiangdong
Qiu, Jie
Ye, Chu-Yu
Zhu, Qian-Hao
Chen, Xi
Fan, Longjiang
RiceRelativesGD: a genomic database of rice relatives for rice research
title RiceRelativesGD: a genomic database of rice relatives for rice research
title_full RiceRelativesGD: a genomic database of rice relatives for rice research
title_fullStr RiceRelativesGD: a genomic database of rice relatives for rice research
title_full_unstemmed RiceRelativesGD: a genomic database of rice relatives for rice research
title_short RiceRelativesGD: a genomic database of rice relatives for rice research
title_sort ricerelativesgd: a genomic database of rice relatives for rice research
topic Original Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6764101/
https://www.ncbi.nlm.nih.gov/pubmed/31560050
http://dx.doi.org/10.1093/database/baz110
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