Sesame (Sesamum indicum L.; family Pedaliaceae; order
Lamiales) is an ancient and important oilseed crop grown widely in
tropical and subtropical areas. With the development of high
throughput sequencing technology, scientists in plant community
different kinds of multi-omics biological big data, which provide an
important opportunity for researchers to study important traits or
phenotypes related biological issues through multi-omics. Here,
we updated sesame
v1.0 into v2.0
included information of functional genomics, comparative genomics,
genetics, transcriptomics, as well as proteomics. We integarted these
multi-omics data to develop sesame multi-omics
database, Sinbase2.0, which will provide multiple layers analysis for
in-depth data mining in sesame genome. Well-organized multi-omics data, as well as
multiple in-house and customized tools for interactive
visualization, are freely available through user-friendly web
interface. Accompanied by
the generation of multi-omics data of sesame, Sinbase2.0
will be updated regularly.
Sesame Multi-Omics Analysis
Genomics Analysis: We updated the
sesamegenomic data from sesame genome data v1.0 to
v2.0 and supplied detail information of genomic
components based on the sesamegenome data v2.0.
Genetics Linkage Analysis: Sinbase2.0 supplied
three types of sesame genetics linkage analysis including SLAF,
SSR and Bin map. Sinbase2.0 supplied 975 SLAF and 347 SSR markers, as
well as a bin map containing 1522 bins.
Comparative Genomics Analysis:
supplied intra-species and interspecies comparative genomics
analysis. For intra-species comparative analysis, Sinbase2.0 supplied
comparative genomics analysis between S. indicum
var. Zhongzhi13 with four genome-sequenced varities, including
S. indicum var. Yuzhi11, Swetha, Baizhima and
Mishuozhima. For interspecies comparative analysis, Sinbase2.0
supplied comparative genomics analysis among
Arabidopsis thaliana, Oryza sativa, Sorghum
bicolor, Solanum lycopersicum, Solanum tuberosum
and Vitis vinifera with S. indicum.
Genomic Variation Analysis: Sinbase2.0
supplied genomic variation analysis about single nucleotide
polymorphisms among natural population composed by 313 sesame
accessions from all over the world. In this natural population,
we detected 12,833,863 single nucleotide polymorphisms sites
located on sesame genome based on population genomics analysis
of 313 sesame accessions from all over the world.
Transcriptomics Analysis: Sinbase2.0 supplied five transcriptomics analysis, including
waterlogging resistance, drought tolerance, three color seeds,
determinate and indeterminate growth habits and seed
Proteomics Analysis: Sinbase2.0 supplied one
which was salty tolerance of sesame salty sensitive and
tolerance samples. For the upstream and downstream proteins,
Sinbase2.0 supplied protein-protein interactive networks of
differentially expressed proteins among within and between
Markers, Genes and QTLs: Sinbase2.0 supplied
functional markers, genes and quantitative trait locus (QTLs)
covering the coloration, disease, growth cycle, morphological
characteristics, yield component, oil content and component, and
stress in sesame.
News in Sinbase2.0
(2017-08-20) Sinbase2.0 was online.
(2017-06-28) Sesame proteomics analysis were finished
(2017-05-01) Four projects of sesame transcriptomics
analysis were finished to curate.
(2017-03-18) Three projects of sesame transcriptomics
analysis were finished to curate.
comparative genomics analysis was finished.
(2016-12-15) Interspecies comparative
genomics analysis was finished.
(2016-10-07) Sesamum indicum
genome was updated.
How to cite
Linhai Wang, Qiuju Xia, Yanxin Zhang, Xiaodong
Zhu, Xiaofeng Zhu, Donghua Li, Xuemei Ni, Yuan Gao, Haitao
Xiang, Xin Wei, Jingyin Yu, Zhiwu Quan* and Xiurong Zhang*.
Updated sesame genome assembly and fine mapping of plant height
and seed coat color QTLs using a new high-density genetic map.
BMC Genomics 2016, 17:31, doi: 10.1186/s12864-015-2316-4.