Identification and verification of microRNA in wheat (Triticum aestivum)

Jin, Weibo; Li, Nannan; Zhang, Bin; Wu, Fuyong; Li, Wuju; Guo, Aizhen; Deng, Zhiyong

doi:10.1007/s10265-007-0139-3

Cited by 78 publications

(52 citation statements)

References 10 publications

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“…Considering that computational approaches or high-throughput sequencing have identified many wheat miRNAs, the mature sequences of the 34 identified miRNAs were compared with published data for miRNAs (Yao et al, 2007;Dryanova et al, 2008;Jin et al, 2008;�an et al, 2009;Wei et al, 2009). BLAST results show that 27 miRNAs have identical sequence with previously reported miRNAs in wheat.…”

Section: Identification Of Conserved Mirnas In Wheatmentioning

confidence: 99%

Identification and characterization of conserved microRNAs and their target genes in wheat (Triticum aestivum)

Yin¹,

Shen²

2010

Genet. Mol. Res.

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ABSTRACT. MicroRNAs (miRNAs) are non-coding small RNAs that regulate gene expression by translational repression or transcript degradation. A large number of miRNAs have been identified from model plant species; however, the character of conserved miRNAs is poorly understood. We studied 42 miRNA families that are conserved within the plant kingdom, using the miRBase database. Some conserved miRNA families were found to be preferentially expressed in dicots relative to monocots, especially miR403, miR472 and miR479. Using an improved homology search-based approach and the conserved miRNAs as the query set, 34 conserved miRNAs and the miR482 family were identified in wheat. Forty-six wheat mRNAs were predicted as their putative target genes. Most conserved wheat miRNAs were found to retain homologous target interactions and have analogous molecular functions. The miR172 displayed a wheat-specific function and was found to have an additional target interaction with succinyl-CoA ligase. We concluded that although miRNAs are conserved, the expression and function of some have drifted during long periods of plant evolution.

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Section: Identification Of Conserved Mirnas In Wheatmentioning

confidence: 99%

Identification and characterization of conserved microRNAs and their target genes in wheat (Triticum aestivum)

Yin¹,

Shen²

2010

Genet. Mol. Res.

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“…15 As of now, comparative genomics-based approach has been used in the identification and characterization of miRNAs at genome-wide scale in various plant species including soybean, 14 strawberry, 15 cotton, 16 wheat, 17 potato, 18 apple, 19,20 Solanaceae, 21 switchgrass, 22 citrus, 23 field mustard, 24 and Chinese cabbage, 25 etc. According to the latest release of miRBase (Release 20, June 2013), a sum of 7398 miRNAs from 72 diverse plant species belonging to the kingdom Viridiplantae have been identified.…”

Section: Introductionmentioning

confidence: 99%

In silico identification and characterization of conserved miRNAs and their target genes in sweet potato (Ipomoea batatasL.) Expressed Sequence Tags (ESTs)

Dehury¹,

Panda

Sahu³

et al. 2013

Plant Signaling & Behavior

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“…These 2 methods have been used to identify hundreds of miRNAs in several plant species, including the model plant Arabidopsis thaliana (AlvesJunior et al, 2009;Buhtz et al, 2008;Jagadeeswaran et al, 2009;Jin et al, 2008;Klevebring et al, 2009;Song et al, 2009;Sunkar et al, 2005;2008;Szittya et al, 2008;Xie et al, 2007;Zhang et al, 2006b;2007a;2008). Recently, many miRNAs have been shown to regulate a wide range of biological functions of plants.…”

Section: Introductionmentioning

confidence: 99%

Identification of Potential microRNAs and Their Targets in Brassica rapa L.

Dhandapani

Ramchiary

Pavlidis

et al. 2011

Molecules and Cells

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MicroRNAs (miRNAs) are recently discovered, noncoding, small regulatory RNA molecules that negatively regulate gene expression. Although many miRNAs are identified and validated in many plant species, they remain largely unknown in Brassica rapa (AA 2n =, 20). B. rapa is an important Brassica crop with wide genetic and morphological diversity resulting in several subspecies that are largely grown for vegetables, oilseeds, and fodder crop production. In this study, we identified 186 miRNAs belonging to 55 families in B. rapa by using comparative genomics. The lengths of identified mature and pre-miRNAs ranged from 18 to 22 and 66 to 305 nucleotides, respectively. Comparison of 4 nucleotides revealed that uracil is the predominant base in the first position of B. rapa miRNA, suggesting that it plays an important role in miRNA-mediated gene regulation. Overall, adenine and guanine were predominant in mature miRNAs, while adenine and uracil were predominant in pre-miRNA sequences. One DNA sequence producing both sense and antisense mature miRNAs belonging to the BrMiR 399 family, which differs by 1 nucleotide at the, 20 th position, was identified. In silico analyses, using previously established methods, predicted 66 miRNA target mRNAs for 33 miRNA families. The majority of the target genes were transcription factors that regulate plant growth and development, followed by a few target genes that are involved in fatty acid metabolism, glycolysis, biotic and abiotic stresses, and other cellular processes. Northern blot and qRT-PCR analyses of RNA samples prepared from different B. rapa tissues for 17 miRNA families revealed that miRNAs are differentially expressed both quantitatively and qualitatively in different tissues of B. rapa.

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Identification and verification of microRNA in wheat (Triticum aestivum)

Cited by 78 publications

References 10 publications

Identification and characterization of conserved microRNAs and their target genes in wheat (Triticum aestivum)

Identification and characterization of conserved microRNAs and their target genes in wheat (Triticum aestivum)

In silico identification and characterization of conserved miRNAs and their target genes in sweet potato (Ipomoea batatasL.) Expressed Sequence Tags (ESTs)

Identification of Potential microRNAs and Their Targets in Brassica rapa L.

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