ArticleFunctional & integrative genomics2016
Synteny and comparative analysis of miRNA retention, conservation, and structure across Brassicaceae reveals lineage- and sub-genome-specific changes.
Article in Functional & integrative genomics, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed, 29 citations in OpenAlex.
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- Comprehensive analysis of 1R- and 2R-MYBs reveals novel genic and protein features, complex organisation, selective expansion and insights into evolutionary tendencies.Functional & integrative genomics · 2022Article
- A prescient evolutionary model for genesis, duplication and differentiation of MIR160 homologs in Brassicaceae.Molecular genetics and genomics : MGG · 2021Article
- Characterization of microRNAs from neem (3 Biotech · 2021Article
- Sequence and functional analysis of MIR319 promoter homologs from Brassica juncea reveals regulatory diversification and altered expression under stress.Molecular genetics and genomics : MGG · 2021Article
- Functional Similarity and Difference amongGenes · 2019Article
- Comparative genomics reveals origin of MIR159A-MIR159B paralogy, and complexities of PTGS interaction between miR159 and target GA-MYBs in Brassicaceae.Molecular genetics and genomics : MGG · 2019Article
- Microsynteny analysis to understand evolution and impact of polyploidization on MIR319 family within Brassicaceae.Development genes and evolution · 2018Article
- Highly preserved roles of Brassica MIR172 in polyploid Brassicas: ectopic expression of variants of Brassica MIR172 accelerates floral transition.Molecular genetics and genomics : MGG · 2018Article
- Systematic analysis and comparison of the PHD-Finger gene family in Chinese pear (Pyrus bretschneideri) and its role in fruit development.Functional & integrative genomics · 2018Article
- Exploration of miRNAs and target genes of cytoplasmic male sterility line in cotton during flower bud development.Functional & integrative genomics · 2018Article
- Sequence and functional characterization of MIRNA164 promoters from Brassica shows copy number dependent regulatory diversification among homeologs.Functional & integrative genomics · 2018Article
- An improved method for rapid analysis of promoters using modified sonication-assisted transient assay.3 Biotech · 2018Article
- Evaluation Expression of Microrna-93 and Integrin Β8 in Different Types of Glioma TumorsAsian Pacific journal of cancer prevention : APJCP · 2017Article
- BnDGAT1s Function Similarly in Oil Deposition and Are Expressed with Uniform Patterns in Tissues ofFrontiers in plant science · 2017Article
- Characterization and Function of MicroRNAFrontiers in plant science · 2017Article
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The recent availability of genome sequences together with syntenic block information for Brassicaceae offers an opportunity to study microRNA (miRNA) evolution across this family. We employed a synteny-based comparative genomics strategy to unambiguously identify miRNA homologs from the genome sequence of members of Brassicaceae. Such an analysis of miRNA across Brassicaceae allowed us to classify miRNAs as conserved, lineage-, karyotype- and sub-genome-specific. The differential loss of miRNA from sub-genomes in polyploid genomes of Brassica rapa and Brassica oleracea shows that miRNA also follows the rules of gene fractionation as observed in the case of protein-coding genes. The study of mature and miR* region of precursors revealed instances of in-dels and SNPs which reflect the evolutionary history of the genomes. High level of conservation in miR* regions in some cases points to their functional relevance which needs to be further investigated. We further show that sequence and length variability in precursor sequences can affect the free energy and foldback structure of miRNA which may ultimately affect their biogenesis and expression in the biological system.
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