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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...
Autores principales: | , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2019
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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. |
format | Online Article Text |
id | pubmed-6764101 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2019 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
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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