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MicroRNA expression profiling of lactating mammary gland in divergent phenotype swine breeds.

Peng J, Zhao JS, Shen YF, Mao HG, Xu NY - Int J Mol Sci (2015)

Bottom Line: Many miRNAs were detected as significantly differentially expressed between the two libraries.These findings suggest that miRNA expression patterns may contribute significantly to target mRNA regulation and influence mammary gland development and peak lactation performance.The data we obtained provide useful information about the roles of miRNAs in the biological processes of lactation and the mechanisms of target gene expression and regulation.

View Article: PubMed Central - PubMed

Affiliation: College of Animal Sciences, Zhejiang University, Hangzhou 310058, China. pennypeng1987@163.com.

ABSTRACT
MicroRNA (miRNA) plays a key role in development and specific biological processes, such as cell proliferation, differentiation, and apoptosis. Extensive studies of mammary miRNAs have been performed in different species and tissues. However, little is known about porcine mammary gland miRNAs. In this study, we report the identification and characterization of miRNAs in the lactating mammary gland in two distinct pig breeds, Jinhua and Yorkshire. Many miRNAs were detected as significantly differentially expressed between the two libraries. Among the differentially expressed miRNAs, many are known to be related to mammary gland development and lactation by interacting with putative target genes in previous studies. These findings suggest that miRNA expression patterns may contribute significantly to target mRNA regulation and influence mammary gland development and peak lactation performance. The data we obtained provide useful information about the roles of miRNAs in the biological processes of lactation and the mechanisms of target gene expression and regulation.

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Reads obtained from RX_J and RX_Y libraries. Raw reads obtained from RX_J library (A) and RX_Y library (B). Mappable reads obtained from RX_J library (C) and RX_Y library (D). Group 1: Reads mapped to porcine miRNAs in miRbase and mapped to porcine genome; Group 2: Reads unmapped to porcine miRNAs in miRbase but mapped to porcine genome; Group 3: Reads unmapped to porcine genome; Group 4: Reads unmapped to porcine mammalian miRNAs in miRbase.
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ijms-16-01448-f002: Reads obtained from RX_J and RX_Y libraries. Raw reads obtained from RX_J library (A) and RX_Y library (B). Mappable reads obtained from RX_J library (C) and RX_Y library (D). Group 1: Reads mapped to porcine miRNAs in miRbase and mapped to porcine genome; Group 2: Reads unmapped to porcine miRNAs in miRbase but mapped to porcine genome; Group 3: Reads unmapped to porcine genome; Group 4: Reads unmapped to porcine mammalian miRNAs in miRbase.

Mentions: Two miRNA libraries were constructed using small RNA isolated from porcine mammary glands and sequenced using an Illumina Hiseq2500. A data analysis flowchart of the study is shown in Figure S1. A total of 20,167,190 raw reads from the RX_J library and 19,898,648 raw reads from the RX_Y library were obtained (Figure 2A,B). The ratio of RX_J/RX_Y was 101.3%, indicating that the two libraries were well represented. After filtering low-quality reads and adaptor sequences, 19,426,468 and 18,702,492 mappable reads were obtained from the RX_J and RX_Y libraries, respectively (Figure 2C,D). Next, the small RNAs were classified into different categories according to their annotations. After filtering reads mapped to the mRNA, RFam, or repbase, there were 8,688,717 and 5,548,775 reads representing 44.7% and 29.7% of the total mappable reads in RX_J and RX_Y libraries mapped to the porcine miRs in miRBase version 19.0, respectively.


MicroRNA expression profiling of lactating mammary gland in divergent phenotype swine breeds.

Peng J, Zhao JS, Shen YF, Mao HG, Xu NY - Int J Mol Sci (2015)

Reads obtained from RX_J and RX_Y libraries. Raw reads obtained from RX_J library (A) and RX_Y library (B). Mappable reads obtained from RX_J library (C) and RX_Y library (D). Group 1: Reads mapped to porcine miRNAs in miRbase and mapped to porcine genome; Group 2: Reads unmapped to porcine miRNAs in miRbase but mapped to porcine genome; Group 3: Reads unmapped to porcine genome; Group 4: Reads unmapped to porcine mammalian miRNAs in miRbase.
© Copyright Policy
Related In: Results  -  Collection

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Show All Figures
getmorefigures.php?uid=PMC4307312&req=5

ijms-16-01448-f002: Reads obtained from RX_J and RX_Y libraries. Raw reads obtained from RX_J library (A) and RX_Y library (B). Mappable reads obtained from RX_J library (C) and RX_Y library (D). Group 1: Reads mapped to porcine miRNAs in miRbase and mapped to porcine genome; Group 2: Reads unmapped to porcine miRNAs in miRbase but mapped to porcine genome; Group 3: Reads unmapped to porcine genome; Group 4: Reads unmapped to porcine mammalian miRNAs in miRbase.
Mentions: Two miRNA libraries were constructed using small RNA isolated from porcine mammary glands and sequenced using an Illumina Hiseq2500. A data analysis flowchart of the study is shown in Figure S1. A total of 20,167,190 raw reads from the RX_J library and 19,898,648 raw reads from the RX_Y library were obtained (Figure 2A,B). The ratio of RX_J/RX_Y was 101.3%, indicating that the two libraries were well represented. After filtering low-quality reads and adaptor sequences, 19,426,468 and 18,702,492 mappable reads were obtained from the RX_J and RX_Y libraries, respectively (Figure 2C,D). Next, the small RNAs were classified into different categories according to their annotations. After filtering reads mapped to the mRNA, RFam, or repbase, there were 8,688,717 and 5,548,775 reads representing 44.7% and 29.7% of the total mappable reads in RX_J and RX_Y libraries mapped to the porcine miRs in miRBase version 19.0, respectively.

Bottom Line: Many miRNAs were detected as significantly differentially expressed between the two libraries.These findings suggest that miRNA expression patterns may contribute significantly to target mRNA regulation and influence mammary gland development and peak lactation performance.The data we obtained provide useful information about the roles of miRNAs in the biological processes of lactation and the mechanisms of target gene expression and regulation.

View Article: PubMed Central - PubMed

Affiliation: College of Animal Sciences, Zhejiang University, Hangzhou 310058, China. pennypeng1987@163.com.

ABSTRACT
MicroRNA (miRNA) plays a key role in development and specific biological processes, such as cell proliferation, differentiation, and apoptosis. Extensive studies of mammary miRNAs have been performed in different species and tissues. However, little is known about porcine mammary gland miRNAs. In this study, we report the identification and characterization of miRNAs in the lactating mammary gland in two distinct pig breeds, Jinhua and Yorkshire. Many miRNAs were detected as significantly differentially expressed between the two libraries. Among the differentially expressed miRNAs, many are known to be related to mammary gland development and lactation by interacting with putative target genes in previous studies. These findings suggest that miRNA expression patterns may contribute significantly to target mRNA regulation and influence mammary gland development and peak lactation performance. The data we obtained provide useful information about the roles of miRNAs in the biological processes of lactation and the mechanisms of target gene expression and regulation.

Show MeSH