Identification of hundreds of conserved and nonconserved human microRNAs

Bentwich, Isaac; Avniel, Amir; Karov, Yael; Aharonov, Ranit; Gilad, Shlomit; Barad, Omer; Barzilai, Adi; Einat, Paz; Einav, Uri; Meiri, Eti; Sharon, Eilon; Spector, Yael; Bentwich, Zvi

doi:10.1038/ng1590

Cited by 1,694 publications

(1,353 citation statements)

References 17 publications

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“…mir-363, mir-454b, and mir-490 (Bentwich et al, 2005;Chen et al, 2005); we also cloned mir-455*, which is generated from the other arm of the recently published mir-455 gene Chen et al, 2005) but has not been found in other species (Supplementary Table S3). Finally, one of the short RNAs was identified as mir-143, which was a known miRNA in mammals that had not been annotated in the chicken genome, although 19 of 22 nt were identical with mismatches at the 1st, 21st, and 22nd positions (Supplementary Table S3).…”

Section: Characterization Of Chicken Mirnasmentioning

confidence: 99%

FGF‐4 signaling is involved in mir‐206 expression in developing somites of chicken embryos

Sweetman

Rathjen

Jefferson

et al. 2006

Developmental Dynamics

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The microRNAs (miRNAs) are recently discovered short, noncoding RNAs, that regulate gene expression in metazoans. We have cloned short RNAs from chicken embryos and identified five new chicken miRNA genes. Genome analysis identified 17 new chicken miRNA genes based on sequence homology to previously characterized mouse miRNAs. Developmental Northern blots of chick embryos showed increased accumulation of most miRNAs analyzed from 1.5 days to 5 days except, the stem cell-specific mir-302, which was expressed at high levels at early stages and then declined. In situ analysis of mature miRNAs revealed the restricted expression of mir-124 in the central nervous system and of mir-206 in developing somites, in particular the developing myotome. In addition, we investigated how miR-206 expression is controlled during somite development using bead implants. These experiments demonstrate that fibroblast growth factor (FGF) -mediated signaling negatively regulates the initiation of mir-206 gene expression. This may be mediated through the effects of FGF on somite differentiation. These data provide the first demonstration that developmental signaling pathways affect miRNA expression. Thus far, miRNAs have not been studied extensively in chicken embryos, and our results show that this system can complement other model organisms to investigate the regulation of many other miRNAs. Developmental Dynamics 235:2185-2191, 2006.

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Section: Characterization Of Chicken Mirnasmentioning

confidence: 99%

FGF‐4 signaling is involved in mir‐206 expression in developing somites of chicken embryos

Sweetman

Rathjen

Jefferson

et al. 2006

Developmental Dynamics

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“…miRNAs are an evolutionarily conserved class of non‐coding small RNAs that have a length of approximately 19 ~23 nucleotides and play a crucial part in the post‐transcriptional regulation of gene expression (Bartel 2004, 2009; Bentwich et al. 2005; Lewis et al. 2005).…”

Section: Introductionmentioning

confidence: 99%

“…The mature miRNAs regulate the gene expression through binding the 3′‐untranslated region (3′‐UTR) of its target gene, resulting in either reduced protein translation or degradation of the mRNA (Bartel 2004, 2009; Bentwich et al. 2005; Lewis et al. 2005).…”

Section: Introductionmentioning

confidence: 99%

MicroRNA regulation in an animal model of acute ocular hypertension

Wang

Valiente‐Soriano

Nadal-Nicolás

et al. 2016

Acta Ophthalmologica

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PurposeTo analyse miRNA regulation in a rat model of acute ocular hypertension (AOH).MethodsAcute ocular hypertension (AOH) was induced in the left eye of adult albino rats by inserting a cannula connected with a saline container into the anterior chamber. The contralateral eye served as a control. Seven days later, animals were killed. Retinas were used either for quantitative analysis of retinal ganglion cells (RGCs) and microglial cells or for miRNA array hybridization, qRT‐PCR and Western blotting.ResultsAnatomically, AOH caused axonal degeneration, a significant loss of RGCs and a significant increase in microglial cells in the ganglion cell layer. The miRNAs microarray analysis revealed 31 differentially expressed miRNAs in the AOH versus control group, and the regulation of 12 selected microRNAs was further confirmed by qRT‐PCR. Bioinformatic analysis indicates that several signalling pathways are putatively regulated by the validated miRNAs. Of particular interest was the inflammatory pathway signalled by mitogen‐activated protein kinases (MAPKs). In agreement with the in silico analysis, p38 MAP kinase, tumour necrosis factor‐alpha (TNF‐α) and iNOS proteins were significantly upregulated in the AOH retinas.ConclusionsAcute IOP elevation led to changes in the expression of miRNAs, whose target genes were associated with the regulation of microglia‐mediated neuroinflammation or neural apoptosis. Addressing miRNAs in the process of retinal ischaemia and optic nerve damage in association with high IOP elevation may open new avenues in preventing retinal ganglion cell apoptosis and may serve as target for future therapeutic regimen in acute ocular hypertension and retinal ischaemic conditions.

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“…3 Strongly conserved among distantly related organisms, miRNAs are involved in a variety of biologic processes, including cell cycle regulation, differentiation, development, metabolism, neuronal patterning and aging. 4 It has been estimated that the human genome contains about 1000 miRNAs 5 and that they could regulate nearly 30% of human genes. 6 Genetic variants including single-nucleotide polymorphisms (SNPs) or mutations in miRNAs may alter miRNA expression and/or maturation.…”

Section: Introductionmentioning

confidence: 99%

Common genetic variants in pre-microRNAs are associated with risk of coal workers' pneumoconiosis

et al. 2009

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microRNAs (miRNAs) are an abundant class of small noncoding RNA molecules thought to be involved in biological functions, including embryonic development, chromosome architecture, cell proliferation and apoptosis. We hypothesized that common variants in the miRNAs are associated with risk of coal workers' pneumoconiosis (CWP). In a case-control study of 496 CWP patients and 513 control subjects frequency matched by exposure years and work types, we genotyped four single-nucleotide polymorphisms (SNPs) (rs2910164, rs2292832, rs11614913 and rs3746444) in pre-miRNAs (miR-146a, miR-149, miR196a2 and miR-499) and assessed the associations with risk of CWP. A significantly increased risk of CWP was found for the miR-149 rs2292832 TT genotype (odds ratio (OR), 1.31; 95% confidence interval (CI), 1.01-1.69), compared with the CT/CC genotypes, and this increased risk was evident among subgroups of those aged X68 years (OR¼1.52, 95% CI¼1.03-2.25), dust exposure X26 years (OR¼1.42, 95% CI¼1.04-1.93) and ever smokers (OR¼1.48, 95% CI¼1.00-2.20). Furthermore, a significant association was observed between the genotypes and patients with stages II and III (OR¼1.50, 95% CI¼1.05-2.14 for stage II, and OR¼3.33, 95% CI¼1.67-6.65 for stage III). These results suggest that miR-149 rs2292832 polymorphism is involved in susceptibility to developing CWP.

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Identification of hundreds of conserved and nonconserved human microRNAs

Cited by 1,694 publications

References 17 publications

FGF‐4 signaling is involved in mir‐206 expression in developing somites of chicken embryos

FGF‐4 signaling is involved in mir‐206 expression in developing somites of chicken embryos

MicroRNA regulation in an animal model of acute ocular hypertension

Common genetic variants in pre-microRNAs are associated with risk of coal workers' pneumoconiosis

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