LOGO title
 Search Sinbase2.0

WWW SITE
 Welcome to Sinbase2.0

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 obtained 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 genomics data v1.0 into v2.0 and 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 sesame genomic data  from sesame genome data v1.0 to v2.0 and supplied detail information of genomic components based on the sesame genome 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: Sinbase2.0 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 development.

  • Proteomics Analysis: Sinbase2.0 supplied one proteomics analysis, 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 samples.

  • 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 to curate.

  • (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.

  • (2017-01-25) Intra-species 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.

 Genome Version
Version 2.0

 Summary
Genomics
Genes: 27,148
Repeats: 207,167
ncRNAs: 1,748
Functional Genomics
InterPro: 5,865
Gene Ontology: 1,780
KEGG: 122
Involved genes: 20,009
Genetics
SLAF Markers: 975
Bin Map Markers: 1,522
SSR Markers: 347
Comparative Genomics
Intra-species: 5 varities
Interspecies: 7 species
Genomic Variation
SNPs: 12,833,863
Accessions: 313
Transcriptomics
Waterlogging Stress: 22,509
Drought Stress: 21,577
Three Color Seeds: 22,250
Top Growth: 25,838
Seed Development: 22,095
Proteomics
Salt Stress: 4,956
Markers, Genes and QTLs
Functional Markers: 31
Functional Genes: 175
Functional QTLs: 54
 Statistics of Visitors

 

Copyright © 2017 Sesame Germplasm Resources Group, OCRI, CAAS, Admin: yujingyin@caas.cn