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Comparative Anterior Pituitary miRNA and mRNA Expression Profiles of Bama Minipigs and Landrace Pigs Reveal Potential Molecular Network Involved in Animal Postnatal Growth.

Ye RS, Li M, Qi QE, Cheng X, Chen T, Li CY, Wang SB, Shu G, Wang LN, Zhu XT, Jiang QY, Xi QY, Zhang YL - PLoS ONE (2015)

Bottom Line: As an ideal model for animal postnatal growth studies, the Bama minipig is characterized as having a lower growth performance and fewer individual differences compared with larger pig breeds.Pathways analysis indicated that 32 pathways significantly differed in the two breeds.Importantly, two GH-regulation-signalling pathways, cAMP and inositol 1, 4, 5-triphosphate (IP3), and multiple GH-secretion-related transcripts were significantly down-regulated in Bama minipigs.

View Article: PubMed Central - PubMed

Affiliation: Chinese National Engineering Research Center for Breeding Swine Industry, SCAU-Alltech Research Joint Alliance, Guandong Provincial Key Lab of Agro-Animal Genomics And Molecular Breeding, College of Animal Science, South China Agricultural University, Guangzhou, 510642, China.

ABSTRACT
The anterior pituitary is the most important endocrine organ modulating animal postnatal growth, mainly by controlling growth hormone (GH) gene transcription, synthesis, and secretion. As an ideal model for animal postnatal growth studies, the Bama minipig is characterized as having a lower growth performance and fewer individual differences compared with larger pig breeds. In this study, anterior pituitaries from Bama minipig and Landrace pig were used for miRNA and mRNA expression profile analysis using miRNA microarrays and mRNA-seq. Consequently, a total of 222 miRNAs and 12,909 transcripts were detected, and both miRNAs and mRNAs in the two breeds showed high correlation (r > 0.97). Additionally, 41 differentially expressed miRNAs and 2,254 transcripts were identified. Pathways analysis indicated that 32 pathways significantly differed in the two breeds. Importantly, two GH-regulation-signalling pathways, cAMP and inositol 1, 4, 5-triphosphate (IP3), and multiple GH-secretion-related transcripts were significantly down-regulated in Bama minipigs. Moreover, TargetScan and RNAHybrid algorithms were used for predicting differentially expressed miRNAs (DE miRNAs) and differentially expressed mRNAs (DE mRNAs) interaction. By examining their fold-changes, interestingly, most DE miRNA-DE mRNA target pairs (63.68-71.33%) presented negatively correlated expression pattern. A possible network among miRNAs, mRNAs, and GH-regulation pathways was also proposed. Among them, two miRNA-mRNA interactions (Y-47 targets FSHB; ssc-miR-133a-3p targets GNAI3) were validated by dual-luciferase assay. These data will be helpful in understanding the possible molecular mechanisms involved in animal postnatal growth.

No MeSH data available.


Related in: MedlinePlus

mRNA (transcripts) expression and distribution.(A) mRNA numbers of the two pig breeds. (B) Scatter plots of mRNA expression; r represents the correlation between Bama minipigs and Landrace pigs and the red dot GH1 was the most abundant transcript in both pig breeds. (C) The average expression level and proportion of mRNAs in the anterior pituitary. (D) The mRNA numbers of the two pig breeds at different expression levels. YB and YC indicate Bama minipigs and Landrace pigs, respectively.
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pone.0131987.g003: mRNA (transcripts) expression and distribution.(A) mRNA numbers of the two pig breeds. (B) Scatter plots of mRNA expression; r represents the correlation between Bama minipigs and Landrace pigs and the red dot GH1 was the most abundant transcript in both pig breeds. (C) The average expression level and proportion of mRNAs in the anterior pituitary. (D) The mRNA numbers of the two pig breeds at different expression levels. YB and YC indicate Bama minipigs and Landrace pigs, respectively.

Mentions: In this study, the anterior pituitary mRNA expressions was analysed using mRNA-seq, taking into account only those genes with average RPKM greater than zero; 12,909 porcine transcripts were detected in the two pig breeds (Fig 3A). Correlation analysis of the overall gene-expression levels among the two breeds indicated that the anterior pituitary transcriptomes of the two breeds was quite similar (Pearson’s correlation coefficient, r = 0.984 in Bama minipigs and Landrace pigs) (Fig 3B); 10,610 transcripts were commonly expressed among the breeds, and 482 and 1,817 were breed-specific in Bama minipigs and Landrace pigs respectively (S4 Table). Interestingly, most were expressed at a low number of reads, suggesting that these transcripts are generally expressed at a low level in the anterior pituitary and are hard to detect. Such transcripts were often filtered out and excluded from further differentially expressed transcript analysis.


Comparative Anterior Pituitary miRNA and mRNA Expression Profiles of Bama Minipigs and Landrace Pigs Reveal Potential Molecular Network Involved in Animal Postnatal Growth.

Ye RS, Li M, Qi QE, Cheng X, Chen T, Li CY, Wang SB, Shu G, Wang LN, Zhu XT, Jiang QY, Xi QY, Zhang YL - PLoS ONE (2015)

mRNA (transcripts) expression and distribution.(A) mRNA numbers of the two pig breeds. (B) Scatter plots of mRNA expression; r represents the correlation between Bama minipigs and Landrace pigs and the red dot GH1 was the most abundant transcript in both pig breeds. (C) The average expression level and proportion of mRNAs in the anterior pituitary. (D) The mRNA numbers of the two pig breeds at different expression levels. YB and YC indicate Bama minipigs and Landrace pigs, respectively.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4489742&req=5

pone.0131987.g003: mRNA (transcripts) expression and distribution.(A) mRNA numbers of the two pig breeds. (B) Scatter plots of mRNA expression; r represents the correlation between Bama minipigs and Landrace pigs and the red dot GH1 was the most abundant transcript in both pig breeds. (C) The average expression level and proportion of mRNAs in the anterior pituitary. (D) The mRNA numbers of the two pig breeds at different expression levels. YB and YC indicate Bama minipigs and Landrace pigs, respectively.
Mentions: In this study, the anterior pituitary mRNA expressions was analysed using mRNA-seq, taking into account only those genes with average RPKM greater than zero; 12,909 porcine transcripts were detected in the two pig breeds (Fig 3A). Correlation analysis of the overall gene-expression levels among the two breeds indicated that the anterior pituitary transcriptomes of the two breeds was quite similar (Pearson’s correlation coefficient, r = 0.984 in Bama minipigs and Landrace pigs) (Fig 3B); 10,610 transcripts were commonly expressed among the breeds, and 482 and 1,817 were breed-specific in Bama minipigs and Landrace pigs respectively (S4 Table). Interestingly, most were expressed at a low number of reads, suggesting that these transcripts are generally expressed at a low level in the anterior pituitary and are hard to detect. Such transcripts were often filtered out and excluded from further differentially expressed transcript analysis.

Bottom Line: As an ideal model for animal postnatal growth studies, the Bama minipig is characterized as having a lower growth performance and fewer individual differences compared with larger pig breeds.Pathways analysis indicated that 32 pathways significantly differed in the two breeds.Importantly, two GH-regulation-signalling pathways, cAMP and inositol 1, 4, 5-triphosphate (IP3), and multiple GH-secretion-related transcripts were significantly down-regulated in Bama minipigs.

View Article: PubMed Central - PubMed

Affiliation: Chinese National Engineering Research Center for Breeding Swine Industry, SCAU-Alltech Research Joint Alliance, Guandong Provincial Key Lab of Agro-Animal Genomics And Molecular Breeding, College of Animal Science, South China Agricultural University, Guangzhou, 510642, China.

ABSTRACT
The anterior pituitary is the most important endocrine organ modulating animal postnatal growth, mainly by controlling growth hormone (GH) gene transcription, synthesis, and secretion. As an ideal model for animal postnatal growth studies, the Bama minipig is characterized as having a lower growth performance and fewer individual differences compared with larger pig breeds. In this study, anterior pituitaries from Bama minipig and Landrace pig were used for miRNA and mRNA expression profile analysis using miRNA microarrays and mRNA-seq. Consequently, a total of 222 miRNAs and 12,909 transcripts were detected, and both miRNAs and mRNAs in the two breeds showed high correlation (r > 0.97). Additionally, 41 differentially expressed miRNAs and 2,254 transcripts were identified. Pathways analysis indicated that 32 pathways significantly differed in the two breeds. Importantly, two GH-regulation-signalling pathways, cAMP and inositol 1, 4, 5-triphosphate (IP3), and multiple GH-secretion-related transcripts were significantly down-regulated in Bama minipigs. Moreover, TargetScan and RNAHybrid algorithms were used for predicting differentially expressed miRNAs (DE miRNAs) and differentially expressed mRNAs (DE mRNAs) interaction. By examining their fold-changes, interestingly, most DE miRNA-DE mRNA target pairs (63.68-71.33%) presented negatively correlated expression pattern. A possible network among miRNAs, mRNAs, and GH-regulation pathways was also proposed. Among them, two miRNA-mRNA interactions (Y-47 targets FSHB; ssc-miR-133a-3p targets GNAI3) were validated by dual-luciferase assay. These data will be helpful in understanding the possible molecular mechanisms involved in animal postnatal growth.

No MeSH data available.


Related in: MedlinePlus