ArticlePloS one2013
Unique and conserved microRNAs in wheat chromosome 5D revealed by next-generation sequencing.
Article in PloS one, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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Who cites it
27 citing papers in PubMed.
- An3 Biotech · 2025Article
- The CaCA superfamily genes in Saccharum: comparative analysis and their functional implications in response to biotic and abiotic stress.BMC genomics · 2021Article
- Pan-Genome miRNomics inPlants (Basel, Switzerland) · 2021Article
- Novel approaches on identification of conserved miRNAs for broad-spectrum Potyvirus control measures.Molecular biology reports · 2021Article
- Transcriptome-wide identification and characterization of microRNAs responsive to phosphate starvation in Populus tomentosa.Functional & integrative genomics · 2019Article
- Discovery and profiling of small RNAs from Puccinia triticina by deep sequencing and identification of their potential targets in wheat.Functional & integrative genomics · 2019Article
- Chromosome-based survey sequencing reveals the genome organization of wild wheat progenitor Triticum dicoccoides.Plant biotechnology journal · 2018Article
- TaMIR1139: a wheat miRNA responsive to Pi-starvation, acts a critical mediator in modulating plant tolerance to Pi deprivation.Plant cell reports · 2018Article
- Article
- Identification and characterization of durum wheat microRNAs in leaf and root tissues.Functional & integrative genomics · 2017Article
- Wheat miRNA ancestors: evident by transcriptome analysis of A, B, and D genome donors.Functional & integrative genomics · 2017Article
- Water-deficit stress-responsive microRNAs and their targets in four durum wheat genotypes.Functional & integrative genomics · 2017Article
- A large-scale chromosome-specific SNP discovery guideline.Functional & integrative genomics · 2017Article
- Article
- The miRNAome of durum wheat: isolation and characterisation of conserved and novel microRNAs and their target genes.BMC genomics · 2016Article
- Synteny and comparative analysis of miRNA retention, conservation, and structure across Brassicaceae reveals lineage- and sub-genome-specific changes.Functional & integrative genomics · 2016Article
- Dissecting miRNAs in Wheat D Genome Progenitor, Aegilops tauschii.Frontiers in plant science · 2016Article
- Identification and Comparative Analysis of microRNA in Wheat (Triticum aestivum L.) Callus Derived from Mature and Immature Embryos during In vitro Culture.Frontiers in plant science · 2016Article
- A Comprehensive Prescription for Plant miRNA Identification.Frontiers in plant science · 2016Article
- Root precursors of microRNAs in wild emmer and modern wheats show major differences in response to drought stress.Functional & integrative genomics · 2015Article
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4 authors.
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Abstract
MicroRNAs are a class of short, non-coding, single-stranded RNAs that act as post-transcriptional regulators in gene expression. miRNA analysis of Triticum aestivum chromosome 5D was performed on 454 GS FLX Titanium sequences of flow-sorted chromosome 5D with a total of 3,208,630 good quality reads representing 1.34x and 1.61x coverage of the short (5DS) and long (5DL) arms of the chromosome respectively. In silico and structural analyses revealed a total of 55 miRNAs; 48 and 42 miRNAs were found to be present on 5DL and 5DS respectively, of which 35 were common to both chromosome arms, while 13 miRNAs were specific to 5DL and 7 miRNAs were specific to 5DS. In total, 14 of the predicted miRNAs were identified in wheat for the first time. Representation (the copy number of each miRNA) was also found to be higher in 5DL (1,949) compared to 5DS (1,191). Targets were predicted for each miRNA, while expression analysis gave evidence of expression for 6 out of 55 miRNAs. Occurrences of the same miRNAs were also found in Brachypodium distachyon and Oryza sativa genome sequences to identify syntenic miRNA coding sequences. Based on this analysis, two other miRNAs: miR1133 and miR167 were detected in B. distachyon syntenic region of wheat 5DS. Five of the predicted miRNA coding regions (miR6220, miR5070, miR169, miR5085, miR2118) were experimentally verified to be located to the 5D chromosome and three of them : miR2118, miR169 and miR5085, were shown to be 5D specific. Furthermore miR2118 was shown to be expressed in Chinese Spring adult leaves. miRNA genes identified in this study will expand our understanding of gene regulation in bread wheat.
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