ArticleBMC genomics2011
Discovery of barley miRNAs through deep sequencing of short reads.
Article in BMC genomics, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 59 papers, 1 of them a synthesis that pooled it.
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Who cites it
59 citing papers in PubMed, 1 synthesis or guideline pooled it, 124 citations in OpenAlex.
- What Do We Know about Barley miRNAs?International journal of molecular sciences · 2022Pooled it
- Article
- Comprehensive, integrative genomic analysis of microRNA expression profiles in different tissues of two wheat cultivars with different traits.Functional & integrative genomics · 2022Article
- Rapid sequence and functional diversification of a miRNA superfamily targeting calcium signaling components in seed plants.The New phytologist · 2022Article
- Genome-wide analysis of microRNA156 and its targets, the genes encoding SQUAMOSA promoter-binding protein-like (SPL) transcription factors, in the grass family Poaceae.Journal of Zhejiang University. Science. B · 2021Article
- Identification and molecular characterization of miRNAs and their target genes associated with seed development through small RNA sequencing in chickpea.Functional & integrative genomics · 2021Article
- Genome-Wide Identification of RNA Silencing-Related Genes and Their Expressional Analysis in Response to Heat Stress in Barley (Biomolecules · 2020Article
- Identification of miRNAs and Their Response to Cold Stress inBiomolecules · 2019Article
- Article
- miR172 downregulates the translation of cleistogamy 1 in barley.Annals of botany · 2018Article
- microRNAs participate in gene expression regulation and phytohormone cross-talk in barley embryo during seed development and germination.BMC plant biology · 2017Article
- Plant dehydrins: shedding light on structure and expression patterns of dehydrin gene family in barley.Journal of plant research · 2017Article
- Drought-inducible expression of Hv-miR827 enhances drought tolerance in transgenic barley.Functional & integrative genomics · 2017Article
- Transcriptome-Wide Analysis ofFrontiers in plant science · 2017Article
- Novel Insights into miRNA Regulation of Storage Protein Biosynthesis during Wheat Caryopsis Development under Drought Stress.Frontiers in plant science · 2017Article
- Identification of novel miRNAs from drought tolerant rice variety Nagina 22.Scientific reports · 2016Article
- Genome-wide identification of microRNAs in pomegranate (Punica granatum L.) by high-throughput sequencing.BMC plant biology · 2016Article
- Article
- Identification of Rapeseed MicroRNAs Involved in Early Stage Seed Germination under Salt and Drought Stresses.Frontiers in plant science · 2016Article
- Dissecting miRNAs in Wheat D Genome Progenitor, Aegilops tauschii.Frontiers in plant science · 2016Article
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
backgroundMicroRNAs are important components of the regulatory network of biological systems and thousands have been discovered in both animals and plants. Systematic investigations performed in species with sequenced genomes such as Arabidopsis, rice, poplar and Brachypodium have provided insights into the evolutionary relationships of this class of small RNAs among plants. However, miRNAs from barley, one of the most important cereal crops, remain unknown.
resultsWe performed a large scale study of barley miRNAs through deep sequencing of small RNAs extracted from leaves of two barley cultivars. By using the presence of miRNA precursor sequences in related genomes as one of a number of supporting criteria, we identified up to 100 miRNAs in barley. Of these only 56 have orthologs in wheat, rice or Brachypodium that are known to be expressed, while up to 44 appear to be specifically expressed in barley.
conclusionsOur study, the first large scale investigation of small RNAs in barley, has identified up to 100 miRNAs. We demonstrate that reliable identification of miRNAs via deep sequencing in a species whose genome has not been sequenced requires a more careful analysis of sequencing errors than is commonly performed. We devised a read filtering procedure for dealing with errors. In addition, we found that the use of a large dataset of almost 35 million reads permits the use of read abundance distributions along putative precursor sequences as a practical tool for isolating miRNAs in a large background of reads originating from other non-coding and coding RNAs. This study therefore provides a generic approach for discovering novel miRNAs where no genome sequence is available.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.