Genome‐scale identification of mi<scp>RNA</scp>–<scp>mRNA</scp> and mi<scp>RNA</scp>–lnc<scp>RNA</scp> interactions in domestic animals

Li, A; Zhang, J; Zhou, Zhongyin; Wang, L; Sun, Xiao; Liu, Y

doi:10.1111/age.12329

Cited by 18 publications

(9 citation statements)

References 18 publications

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“…Nevertheless, the expressions of the genes related to protein secretion were up‐regulated in the domestic silkworm (Fang et al ., ). A previous study on pigs indicated that lncRNAs might have taken part in the formation of the domestication trait (Zhou et al ., ; Li et al ., ). Thus, comparison of lncRNAs in the silk gland between the domestic and wild silkworms would provide some insights into the molecular mechanisms of silk yield improvement in the domestic silkworm.…”

Section: Discussionmentioning

confidence: 97%

“…Domestication accelerates the phenotypic variation between domestic organisms and their wild progenitors. Previous studies have shown that lncRNAs can also take part in this process (Zhou et al ., ; Li et al ., ). For example, linc‐sscg2561 may contribute to phenotypic variation in emotional behavior, including aggressive behavior and reduced fear of humans during domestication of the pig (Zhou et al ., ).…”

Section: Introductionmentioning

confidence: 99%

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Identification and comparison of long non‐coding RNAs in the silk gland between domestic and wild silkworms

et al. 2017

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Under long-term artificial selection, the domestic silkworm (Bombyx mori) has increased its silk yield tremendously in comparison with its wild progenitor, Bombyx mandarina. However, the molecular mechanism of silk yield increase is still unknown. Comparative analysis of long non-coding RNAs (lncRNAs) may provide some insights into understanding this phenotypic variation. In this study, using RNA sequencing technology data of silk gland in domestic and wild silkworms, we identified 599 lncRNAs in the silk gland of the silkworm. Compared with protein-coding genes, the silk gland lncRNA genes tend to have fewer exon numbers, shorter transcript length and lower GC-content. Moreover, we found that three lncRNA genes are significantly and differentially expressed between domestic and wild silkworms. The potential targets of two differentially expressed lncRNAs (DELs) (dw4sg_0040 and dw4sg_0483) and the expression-correlated genes with the two DELs are mainly enriched in the related processes of silk protein translation. This implies that these DELs may affect the phenotypic variation in silk yield between the domestic and wild silkworms through the post-transcriptional regulation of silk protein.

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Section: Discussionmentioning

confidence: 97%

Section: Introductionmentioning

confidence: 99%

Identification and comparison of long non‐coding RNAs in the silk gland between domestic and wild silkworms

et al. 2017

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“…Li et al . first predicted genome-wide miRNA-mRNA and miRNA-lncRNA interactions in chicken, pigs and cows using the sequencing data from public databases, and found many SNPs located in miRNAs that may affect the interactions between miRNAs and mRNAs 49 . Li et al .…”

Section: Discussionmentioning

confidence: 99%

Using RNA sequencing to identify putative competing endogenous RNAs (ceRNAs) potentially regulating fat metabolism in bovine liver

Liang

Han

et al. 2017

Sci Rep

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RNA sequencing has been extensively used to study specific gene expression patterns to discover potential key genes related to complex traits of interest in animals. Of note, a new regulatory mechanism builds a large-scale regulatory network among transcriptome, where lncRNAs act as competing endogenous RNAs (ceRNAs) to sponge miRNAs to regulate the expression of miRNA target genes post-transcriptionally. In this study, we sequenced the cDNA and sRNA libraries of nine liver samples from three Holstein cows during dry period, early lactation, and peak of lactation with HiSeq platform. As a result, we identified 665 genes, 57 miRNAs and 33 lncRNAs that displayed differential expression patterns across periods. Subsequently, a total of 41ceRNA pairs (lncRNA-mRNA) sharing 11 miRNAs were constructed including 30 differentially expressed genes. Importantly, 12 among them were presented in our large metabolic networks, and predicted to influence the lipid metabolism through insulin, PI3K-Akt, MAPK, AMPK, mTOR, and PPAR signaling pathways, thus, these genes were considered as the most promising candidates for milk fat formation. To our knowledge, this is first investigation to profile the ceRNA regulatory networks of liver transcriptome that could affect milk fat synthesis in bovine, providing a new view of the regulatory mechanism of RNAs.

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“…To elucidate the underlying molecular mechanisms by which LINC00461 expedites BC cell migration and invasion, we applied miRanda algorithms (Memorial Sloan-Kettering Cancer Center, New York, NY) described previously 20 to predict the potential targets of LINC00461 ( Figure 4A). To elucidate the underlying molecular mechanisms by which LINC00461 expedites BC cell migration and invasion, we applied miRanda algorithms (Memorial Sloan-Kettering Cancer Center, New York, NY) described previously 20 to predict the potential targets of LINC00461 ( Figure 4A).…”

Section: Linc00461 Interacts With Mir-30a-5p In Bc Cellsmentioning

confidence: 99%

“…Accumulating evidence has revealed that lncRNAs act as miRNA sponges to participate the carcinogenesis and progression of a wide range of human neoplasms. To elucidate the underlying molecular mechanisms by which LINC00461 expedites BC cell migration and invasion, we applied miRanda algorithms (Memorial Sloan-Kettering Cancer Center, New York, NY) described previously 20 to predict the potential targets of LINC00461 ( Figure 4A). MiR-30a-5p, frequently reported to be implicated in multiple types of human cancers, was selected as a target of LINC00461 in BC cells.…”

Section: Linc00461 Interacts With Mir-30a-5p In Bc Cellsmentioning

confidence: 99%

LINC00461 promotes cell migration and invasion in breast cancer through miR‐30a‐5p/integrin β3 axis

Dong

Qian

Chen

et al. 2019

J of Cellular Biochemistry

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Mounting evidence has demonstrated that long noncoding RNAs (lncRNAs) are dysregulated and implicated in the occurrence and development of a wide range of human malignancies. LINC00461, a novel cancer‐related lncRNA, has been reported to be highly expressed and serve as oncogene in glioma; however, its biological role in breast cancer (BC) remains obscure. This study aimed to explore the role of LINC00461 in BC and elucidate the potential molecular mechanisms involved. In the current study, LINC00461 was found to be significantly upregulated in both BC tissues and cell lines. Besides, we found that high LINC00461 expression was associated with TNM stage and differentiation. Furthermore, functional studies demonstrated that LINC00461 expedited BC cell migration and invasion. Notably, LINC00461 was observed to enhance the expression of vimentin and zinc‐finger E‐box binding homeobox factor 1, suppress the expression of E‐cadherin, and promote the activation of extracellular signal‐regulated kinase and AKT signaling pathways. Mechanical investigations revealed that LINC00461 positively modulated integrin β3 (ITGB3) expression as miR‐30a‐5p sponge in BC cells. Taken together, LINC00461 exerts an oncogenic role in BC through miR‐30a‐5p/ITGB3 axis. Our data indicate that LINC00461 may be used to be a novel candidate therapeutic target and a valuable diagnostic biomarker for BC.

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Genome‐scale identification of miRNA–mRNA and miRNA–lncRNA interactions in domestic animals

Cited by 18 publications

References 18 publications

Identification and comparison of long non‐coding RNAs in the silk gland between domestic and wild silkworms

Identification and comparison of long non‐coding RNAs in the silk gland between domestic and wild silkworms

Using RNA sequencing to identify putative competing endogenous RNAs (ceRNAs) potentially regulating fat metabolism in bovine liver

LINC00461 promotes cell migration and invasion in breast cancer through miR‐30a‐5p/integrin β3 axis

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