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Sinbase 2.0: An Updated Database to Study Multi-Omics in Sesamum indicum

Sesame is one of the oldest oil crops in the world and is widely grown in the tropical and subtropical areas of Asia, Africa and America. Upon the completion of the sesame reference genome version 1.0, we launched Sinbase 1.0 as an integrated database for genomic and bioinformatics analyses. Recentl...

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Detalles Bibliográficos
Autores principales: Wang, Liwen, Yu, Jingyin, Zhang, Yanxin, You, Jun, Zhang, Xiurong, Wang, Linhai
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7911383/
https://www.ncbi.nlm.nih.gov/pubmed/33573226
http://dx.doi.org/10.3390/plants10020272
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author Wang, Liwen
Yu, Jingyin
Zhang, Yanxin
You, Jun
Zhang, Xiurong
Wang, Linhai
author_facet Wang, Liwen
Yu, Jingyin
Zhang, Yanxin
You, Jun
Zhang, Xiurong
Wang, Linhai
author_sort Wang, Liwen
collection PubMed
description Sesame is one of the oldest oil crops in the world and is widely grown in the tropical and subtropical areas of Asia, Africa and America. Upon the completion of the sesame reference genome version 1.0, we launched Sinbase 1.0 as an integrated database for genomic and bioinformatics analyses. Recently, an upgraded version (version 2.0) of the genome sequence was released. In addition, large numbers of multi-omics data have been generated on sesame, but a comprehensive database that integrates these resources for the community has been lacking until now. Here, we developed an interactive and comprehensive sesame multi-omics database, Sinbase 2.0, which provides information of the sesame updated genome containing 13 chromosomes, 3 genetic linkage maps, 5 intra- and 6 inter-species comparative genomics, 1 genomic variation analysis, 5 transcriptome data, 1 proteome, 31 functional markers, 175 putative functional genes, and 54 QTLs detected for important agronomic traits. Moreover, Sinbase 2.0 has been enriched with novel user-friendly computational tools. All datasets of Sinbase 2.0 can be downloaded online conveniently. Sinbase 2.0 will be updated regularly with new available sesame multi-omics data and can be accessed freely via Sinbase 2.—Sesame Muti-Omics Database. We expect that Sinbase 2.0, similarly to the previous version, will continue to make a major contribution to advance sesame research towards a better understanding of its biology and genetic improvement, as well as comparative genomics and evolutionary biology.
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spelling pubmed-79113832021-02-28 Sinbase 2.0: An Updated Database to Study Multi-Omics in Sesamum indicum Wang, Liwen Yu, Jingyin Zhang, Yanxin You, Jun Zhang, Xiurong Wang, Linhai Plants (Basel) Article Sesame is one of the oldest oil crops in the world and is widely grown in the tropical and subtropical areas of Asia, Africa and America. Upon the completion of the sesame reference genome version 1.0, we launched Sinbase 1.0 as an integrated database for genomic and bioinformatics analyses. Recently, an upgraded version (version 2.0) of the genome sequence was released. In addition, large numbers of multi-omics data have been generated on sesame, but a comprehensive database that integrates these resources for the community has been lacking until now. Here, we developed an interactive and comprehensive sesame multi-omics database, Sinbase 2.0, which provides information of the sesame updated genome containing 13 chromosomes, 3 genetic linkage maps, 5 intra- and 6 inter-species comparative genomics, 1 genomic variation analysis, 5 transcriptome data, 1 proteome, 31 functional markers, 175 putative functional genes, and 54 QTLs detected for important agronomic traits. Moreover, Sinbase 2.0 has been enriched with novel user-friendly computational tools. All datasets of Sinbase 2.0 can be downloaded online conveniently. Sinbase 2.0 will be updated regularly with new available sesame multi-omics data and can be accessed freely via Sinbase 2.—Sesame Muti-Omics Database. We expect that Sinbase 2.0, similarly to the previous version, will continue to make a major contribution to advance sesame research towards a better understanding of its biology and genetic improvement, as well as comparative genomics and evolutionary biology. MDPI 2021-01-30 /pmc/articles/PMC7911383/ /pubmed/33573226 http://dx.doi.org/10.3390/plants10020272 Text en © 2021 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Wang, Liwen
Yu, Jingyin
Zhang, Yanxin
You, Jun
Zhang, Xiurong
Wang, Linhai
Sinbase 2.0: An Updated Database to Study Multi-Omics in Sesamum indicum
title Sinbase 2.0: An Updated Database to Study Multi-Omics in Sesamum indicum
title_full Sinbase 2.0: An Updated Database to Study Multi-Omics in Sesamum indicum
title_fullStr Sinbase 2.0: An Updated Database to Study Multi-Omics in Sesamum indicum
title_full_unstemmed Sinbase 2.0: An Updated Database to Study Multi-Omics in Sesamum indicum
title_short Sinbase 2.0: An Updated Database to Study Multi-Omics in Sesamum indicum
title_sort sinbase 2.0: an updated database to study multi-omics in sesamum indicum
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7911383/
https://www.ncbi.nlm.nih.gov/pubmed/33573226
http://dx.doi.org/10.3390/plants10020272
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