ArticleScientific reports2016
Analysis of single nucleotide polymorphisms based on RNA sequencing data of diverse bio-geographical accessions in barley.
Article in Scientific reports, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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12 citing papers in PubMed, 24 citations in OpenAlex.
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- Genomic traces of Japanese malting barley breeding in two modern high-quality cultivars, 'Sukai Golden' and 'Sachiho Golden'.Breeding science · 2023Article
- Direct inference and control of genetic population structure from RNA sequencing data.Communications biology · 2023Article
- Evolution of weedy giant ragweed (Ecology and evolution · 2022Article
- Discovery of DNA polymorphisms via genome-resequencing and development of molecular markers between two barley cultivars.Plant cell reports · 2022Article
- Time Course RNA-seq Reveals Soybean Responses against Root-Lesion Nematode and Resistance Players.Plants (Basel, Switzerland) · 2022Article
- Natural variation and improved genome annotation of the emerging biofuel crop field pennycress (Thlaspi arvense).G3 (Bethesda, Md.) · 2022Article
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- Transcriptomic and presence/absence variation in the barley genome assessed from multi-tissue mRNA sequencing and their power to predict phenotypic traits.BMC genomics · 2019Article
- Development of Genome-Wide SNP Markers for Barley via Reference- Based RNA-Seq Analysis.Frontiers in plant science · 2019Article
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Authors and funding
7 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Barley is one of the founder crops of Old world agriculture and has become the fourth most important cereal worldwide. Information on genome-scale DNA polymorphisms allows elucidating the evolutionary history behind domestication, as well as discovering and isolating useful genes for molecular breeding. Deep transcriptome sequencing enables the exploration of sequence variations in transcribed sequences; such analysis is particularly useful for species with large and complex genomes, such as barley. In this study, we performed RNA sequencing of 20 barley accessions, comprising representatives of several biogeographic regions and a wild ancestor. We identified 38,729 to 79,949 SNPs in the 19 domesticated accessions and 55,403 SNPs in the wild barley and revealed their genome-wide distribution using a reference genome. Genome-scale comparisons among accessions showed a clear differentiation between oriental and occidental barley populations. The results based on population structure analyses provide genome-scale properties of sub-populations grouped to oriental, occidental and marginal groups in barley. Our findings suggest that the oriental population of domesticated barley has genomic variations distinct from those in occidental groups, which might have contributed to barley's domestication.
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