ArticleBiotechnology for biofuels2016
SorGSD: a sorghum genome SNP database.
Article in Biotechnology for biofuels, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 26 papers.
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Who cites it
26 citing papers in PubMed.
- Revisiting the Molecular Roadmap for Sugar Crops: Genome Reading, Trait Writing and Variety Redesigning.Plant biotechnology journal · 2026Review
- Review
- PPGV: a comprehensive database of peach population genome variation.BMC plant biology · 2024Article
- Article
- Multi-genome comprehensive identification of SSR/SV and development of molecular markers database to serve Sorghum bicolor (L.) breeding.BMC genomic data · 2023Article
- Recent advancements in the breeding of sorghum crop: current status and future strategies for marker-assisted breeding.Frontiers in genetics · 2023Review
- Review
- Progress and challenges in sorghum biotechnology, a multipurpose feedstock for the bioeconomy.Journal of experimental botany · 2022Review
- Genome-wide analyses using multi-locus models revealed marker-trait associations for major agronomic traits inFrontiers in plant science · 2022Article
- Omics for the Improvement of Abiotic, Biotic, and Agronomic Traits in Major Cereal Crops: Applications, Challenges, and Prospects.Plants (Basel, Switzerland) · 2021Review
- Sorghum's Whole-Plant Transcriptome and Proteome Responses to Drought Stress: A Review.Life (Basel, Switzerland) · 2021Review
- Sorghum breeding in the genomic era: opportunities and challenges.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2021Review
- Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2021.Nucleic acids research · 2021Article
- Genetic Diversity and Population Structure of Sorghum [Frontiers in plant science · 2021Article
- CottonGVD: A Comprehensive Genomic Variation Database for Cultivated Cottons.Frontiers in plant science · 2021Article
- QTG-Finder2: A Generalized Machine-Learning Algorithm for Prioritizing QTL Causal Genes in Plants.G3 (Bethesda, Md.) · 2020Article
- A Fast and Scalable Workflow for SNPs Detection in Genome Sequences Using Hadoop Map-Reduce.Genes · 2020Article
- BnaSNPDB: An interactive web portal for the efficient retrieval and analysis of SNPs among 1,007 rapeseed accessions.Computational and structural biotechnology journal · 2020Article
- Evaluation of Genetic Variation among Sorghum Varieties from Southwest China via Genome Resequencing.The plant genome · 2018Article
- Sweet Sorghum Originated through Selection ofThe Plant cell · 2018Article
Corrections and comments
- Erratum issued
Authors and funding
18 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundSorghum (Sorghum bicolor) is one of the most important cereal crops globally and a potential energy plant for biofuel production. In order to explore genetic gain for a range of important quantitative traits, such as drought and heat tolerance, grain yield, stem sugar accumulation, and biomass production, via the use of molecular breeding and genomic selection strategies, knowledge of the available genetic variation and the underlying sequence polymorphisms, is required.
resultsBased on the assembled and annotated genome sequences of Sorghum bicolor (v2.1) and the recently published sorghum re-sequencing data, ~62.9 M SNPs were identified among 48 sorghum accessions and included in a newly developed sorghum genome SNP database SorGSD (http://sorgsd.big.ac.cn). The diverse panel of 48 sorghum lines can be classified into four groups, improved varieties, landraces, wild and weedy sorghums, and a wild relative Sorghum propinquum. SorGSD has a web-based query interface to search or browse SNPs from individual accessions, or to compare SNPs among several lines. The query results can be visualized as text format in tables, or rendered as graphics in a genome browser. Users may find useful annotation from query results including type of SNPs such as synonymous or non-synonymous SNPs, start, stop of splice variants, chromosome locations, and links to the annotation on Phytozome (www.phytozome.net) sorghum genome database. In addition, general information related to sorghum research such as online sorghum resources and literature references can also be found on the website. All the SNP data and annotations can be freely download from the website.
conclusionsSorGSD is a comprehensive web-portal providing a database of large-scale genome variation across all racial types of cultivated sorghum and wild relatives. It can serve as a bioinformatics platform for a range of genomics and molecular breeding activities for sorghum and for other C4 grasses.
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