ArticleMolecular genetics and genomics : MGG2016
Genome-wide identification of novel genetic markers from RNA sequencing assembly of diverse Aegilops tauschii accessions.
Article in Molecular genetics and genomics : MGG, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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14 citing papers in PubMed, 28 citations in OpenAlex.
- Transcriptome variations in hybrids of wild emmer wheat (Triticum turgidum ssp. dicoccoides).BMC plant biology · 2024Article
- Drought-Tolerance QTLs Associated with Grain Yield and Related Traits in Spring Bread Wheat.Plants (Basel, Switzerland) · 2022Article
- RNA-Seq-based DNA marker analysis of the genetics and molecular evolution of Triticeae species.Functional & integrative genomics · 2021Review
- Cereal asparagine synthetase genes.The Annals of applied biology · 2021Article
- Appraisal of wheat genomics for gene discovery and breeding applications: a special emphasis on advances in Asia.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2020Review
- Diploid genome differentiation conferred by RNA sequencing-based survey of genome-wide polymorphisms throughout homoeologous loci in Triticum and Aegilops.BMC genomics · 2020Article
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- Genome-wide polymorphisms from RNA sequencing assembly of leaf transcripts facilitate phylogenetic analysis and molecular marker development in wild einkorn wheat.Molecular genetics and genomics : MGG · 2019Article
- Origin of wheat B-genome chromosomes inferred from RNA sequencing analysis of leaf transcripts from section Sitopsis species of Aegilops.DNA research : an international journal for rapid publication of reports on genes and genomes · 2019Article
- Development of Genome-Wide SNP Markers for Barley via Reference- Based RNA-Seq Analysis.Frontiers in plant science · 2019Article
- RNA Sequencing-Based Bulked Segregant Analysis Facilitates Efficient D-genome Marker Development for a Specific Chromosomal Region of Synthetic Hexaploid Wheat.International journal of molecular sciences · 2018Article
- RNA-seq analysis reveals considerable genetic diversity and provides genetic markers saturating all chromosomes in the diploid wild wheat relative Aegilops umbellulata.BMC plant biology · 2018Article
- Transcriptome analysis of the Chinese giant salamander (Genomics data · 2017Article
Corrections and comments
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Authors and funding
5 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The wild species in the Triticeae tribe are tremendous resources for crop breeding due to their abundant natural variation. However, their huge and highly repetitive genomes have hindered the establishment of physical maps and the completeness of their genome sequences. To develop molecular markers for the efficient utilization of their valuable traits while avoiding their genome complexity, we assembled RNA sequences of ten representative accessions of Aegilops tauschii, the progenitor of the wheat D genome, and estimated single nucleotide polymorphisms (SNPs) and insertions/deletions (indels). The deduced unigenes were anchored to the chromosomes of Ae. tauschii and barley. The SNPs and indels in the anchored unigenes, covering entire chromosomes, were sufficient for linkage map construction, even in combinations between the genetically closest accessions. Interestingly, the resolution of SNP and indel distribution on barley chromosomes was slightly higher than on Ae. tauschii chromosomes. Since barley chromosomes are regarded as virtual chromosomes of Triticeae species, our strategy allows capture of genetic markers arranged on the chromosomes in order based on the conserved synteny. The resolution of these genetic markers will be comparable to that of the Ae. tauschii whose draft genome sequence is available. Our procedure should be applicable to marker development for Triticeae species, which have no draft sequences available.
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