Differential expression profile of miRNAs in porcine muscle and adipose tissue during development

Wang, Qi; Qi, Renli; Wang, Jing; Huang, Wenming; Wu, Yongjiang; Huang, Xiaofeng; Yang, Feiyun; Huang, Jinxiu

doi:10.1016/j.gene.2017.04.013

Cited by 31 publications

(28 citation statements)

References 57 publications

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“…From this study, four randomly selected individuals from AL and BI breeds were chosen for transcriptome analysis by RNA-seq. Currently, many RNA-seq experiments are performed at a low replication level and several publications suggest that a minimum of 2-3 replicates can be considered [44][45][46]. Selected AL pigs averaged a total of 155.0 days on trial with an average daily gain of 571.6 g/d while BI pigs averaged a total of 140.0 days on trial and an average daily gain of 619.4 g/d.…”

Section: Alentejano and Bísaro: Local Pig Breeds With Recognizable Mementioning

confidence: 99%

Comparative Transcriptomic Analysis of Subcutaneous Adipose Tissue from Local Pig Breeds

Albuquerque

Óvilo

Núñez

et al. 2020

Genes

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When compared to modern lean-type breeds, Portuguese local Alentejano (AL) and Bísaro (BI) pig breeds present a high potential for subcutaneous and intramuscular fat (IMF) deposition which contributes for better meat quality. The aim of this work was to explore the genome function to better understand the underlying physiological mechanisms associated with body fat accretion. Dorsal subcutaneous fat samples were collected at slaughter from adult animals (n = 4 for each breed) with~150 kg body weight. Total RNA was obtained and sequenced for transcriptome analysis using DESeq2. A total of 458 differentially expressed (DE) genes (q-value < 0.05) were identified, with 263 overexpressed in AL and 195 in BI. Key genes involved in de novo fatty acid biosynthesis, elongation and desaturation were upregulated in AL such as ACLY, FASN, ME1, ELOVL6 and SCD. A functional enrichment analysis of the DE genes was performed using Ingenuity Pathway Analysis. Cholesterol synthesis is suggested to be higher in AL via SREBF2, SCAP and PPARG, while lipolytic activity may be more active in BI through GH and AMPK signalling. Increased signalling of CD40 together with the predicted activation of INSIG1 and INSIG2 in BI suggests that this breed is more sensitive to insulin whereas the AL is less sensitive like the Iberian breed.Genes 2020, 11, 422 2 of 20 inherent genetic value for biodiversity, local breeds are used to produce high quality dry-cured meat products, representing an important role in local economies, culture and landscape as the basics of sustainable local pork chains [2,4].Alentejano (AL) and Bísaro (BI) are the two main Portuguese pig breeds. AL evolved from the primitive Sus scrofa mediterraneus, belongs to the Mediterranean group of breeds [5] and is genetically similar to the Iberian (IB) pig [6]. This breed is commonly raised in the south of Portugal and generally characterized by its light bone structure, black color, short and slim extremities and energetic nature [7]. A medium-sized pig, the AL grows at a low rate (except under the finishing phase "montanheira") and presents a low prolificacy [8]. On the other hand, its high and early adipogenic activity provides a meat and fat composition that is attractive for both fresh meat market and for processing high-grade sausage and dry cured products [9,10]. Traditionally, the AL pig is raised under extensive conditions in an integrated pastoral system ("montado") and during the fattening season is fed with acorns from the existing Quercus forests from October to February [5,7]. BI breed belongs to the Celtic group [5], sharing ancestors with highly productive breeds such as Large-White and Landrace. Production of BI is distributed throughout the north of Portugal, from the Tagus River to the northern border with Spain. It is characterized by its docile temperament, presenting a large body with large legs, head and shoulders. BI pig presents a higher prolificacy and productivity than AL, though lower than other genotypes with similar origins but raised under intensive ...

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Section: Alentejano and Bísaro: Local Pig Breeds With Recognizable Mementioning

confidence: 99%

Comparative Transcriptomic Analysis of Subcutaneous Adipose Tissue from Local Pig Breeds

Albuquerque

Óvilo

Núñez

et al. 2020

Genes

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“…; Wang et al . ). However, the differences in phenotypic traits and levels of miRNA expression between these Chinese breeds and Western commercial breeds remain unclear.…”

Section: Introductionmentioning

confidence: 97%

Comparison of microRNAs in adipose and muscle tissue from seven indigenous Chinese breeds and Yorkshire pigs

Liang

Wang

et al. 2019

Animal Genetics

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Summary Elucidation of the pig microRNAome is essential for interpreting functional elements of the genome and understanding the genetic architecture of complex traits. Here, we extracted small RNAs from skeletal muscle and adipose tissue, and we compared their expression levels between one Western breed (Yorkshire) and seven indigenous Chinese breeds. We detected the expression of 172 known porcine microRNAs (miRNAs) and 181 novel miRNAs. Differential expression analysis found 92 and 12 differentially expressed miRNAs in adipose and muscle tissue respectively. We found that different Chinese breeds shared common directional miRNA expression changes compared to Yorkshire pigs. Some miRNAs differentially expressed across multiple Chinese breeds, including ssc‐miR‐129‐5p, ssc‐miR‐30 and ssc‐miR‐150, are involved in adipose tissue function. Functional enrichment analysis revealed that the target genes of the differentially expressed miRNAs are associated mainly with signaling pathways rather than metabolic and biosynthetic processes. The miRNA–target gene and miRNA–phenotypic traits networks identified many hub miRNAs that regulate a large number of target genes or phenotypic traits. Specifically, we found that intramuscular fat content is regulated by the greatest number of miRNAs in muscle tissue. This study provides valuable new candidate miRNAs that will aid in the improvement of meat quality and production.

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“…High-throughput sequencing can provide precise data on miRNA expression levels. A few studies of miRNAs in porcine adipose tissue have been reported, including differences in miRNA expression between sexes [12], among breeds [13,14], at different developmental periods [15], and in relation to backfat thickness [16,17]. However, the functions and molecular regulatory mechanisms of miRNAs in pig fat deposition are not clearly understood.…”

Section: Introductionmentioning

confidence: 99%

Identification of Differentially Expressed MicroRNAs and Their Potential Target Genes in Adipose Tissue from Pigs with Highly Divergent Backfat Thickness

Xing

Zhao

Liu

et al. 2020

Animals

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Fatty traits are very important in pig production. However, the role of microRNAs (miRNAs) in fat deposition is not clearly understood. In this study, we compared adipose miRNAs from three full-sibling pairs of female Landrace pigs, with high and low backfat thickness, to investigate the associated regulatory network. We obtained an average of 17.29 million raw reads from six libraries, 62.27% of which mapped to the pig reference genome. A total of 318 pig miRNAs were detected among the samples. Among them, 18 miRNAs were differentially expressed (p-value < 0.05, |log2fold change| ≥ 1) between the high and low backfat groups; 6 were up-regulated and 12 were down-regulated. Functional enrichment of the predicted target genes of the differentially expressed miRNAs, indicated that these miRNAs were involved mainly in lipid and carbohydrate metabolism, and glycan biosynthesis and metabolism. Comprehensive analysis of the mRNA and miRNA transcriptomes revealed possible regulatory relationships for fat deposition. Negatively correlated mRNA–miRNA pairs included miR-137–PPARGC1A, miR-141–FASN, and miR-122-5p–PKM, indicating these interactions may be key regulators of fat deposition. Our findings provide important insights into miRNA expression patterns in the backfat tissue of pig and new insights into the regulatory mechanisms of fat deposition in pig.

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Differential expression profile of miRNAs in porcine muscle and adipose tissue during development

Cited by 31 publications

References 57 publications

Comparative Transcriptomic Analysis of Subcutaneous Adipose Tissue from Local Pig Breeds

Comparative Transcriptomic Analysis of Subcutaneous Adipose Tissue from Local Pig Breeds

Comparison of microRNAs in adipose and muscle tissue from seven indigenous Chinese breeds and Yorkshire pigs

Identification of Differentially Expressed MicroRNAs and Their Potential Target Genes in Adipose Tissue from Pigs with Highly Divergent Backfat Thickness

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