Lipidomic and Transcriptomic Analysis of the Longissimus Muscle of Luchuan and Duroc Pigs

Zhang, Zhiwang; Liao, Qichao; Sun, Yu; Pan, Tingli; Liu, Siqi; Miao, Weiwei; Li, Yixing; Zhou, Lei; Xu, Guoqiang

doi:10.3389/fnut.2021.667622

Cited by 38 publications

(33 citation statements)

References 38 publications

(36 reference statements)

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“…In the present study, the difference between IMF and VAT at the lipid molecular level was mainly manifested in GPs (PC, PE, LPE, PG, PI, PS) and GLs (DG and TG), with IMF rich in GPs and VAT rich in GLs. This result was consistent with a previous report, which showed that the LDM of pigs contains a large GP content and upregulated PUFAs ( 29 ). The heterogeneity of lipid profiles in IMF and VAT could be associated with cell type and fat deposition rates ( 30 ).…”

Section: Discussionsupporting

confidence: 94%

“…According to the degree of impact on the metabolic pathway, GL and GP metabolisms were key metabolic pathways regulating lipid deposition. This result was similar to the findings reported for IMF deposition in pork ( 29 ). This was further supported by the GLs and GPs of significantly different lipids being mostly synthesized by the TG and GP pathways ( 9 ).…”

Section: Discussionsupporting

confidence: 92%

“…Lipid accumulation can be regulated by transcription, leading to different lipid profiles in tissues ( 35 ). Previous studies have shown that the differential deposition of IMF in pork might be caused by differences in fatty acid, GL, and GP metabolism pathways ( 29 , 36 ). In the present study, the transcriptome results showed that, among a total of 578 differentially expressed genes were screened, the expression of GL metabolism-related genes was significantly downregulated in LDM compared with VAT, while the opposite trend was observed for the expression of GP metabolism-related genes.…”

Section: Discussionmentioning

confidence: 99%

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Determination of the Heterogeneity of Intramuscular Fat and Visceral Adipose Tissue From Dezhou Donkey by Lipidomics and Transcriptomics Profiling

Zhu

Chai

et al. 2021

Front. Nutr.

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Intramuscular fat (IMF) and visceral adipose tissue (VAT) are both lipids, but have significantly different deposition processes. Furthermore, the heterogeneity of lipid molecular characteristics and mechanisms is unclear. Accordingly, this study used non-targeted lipidomics and transcriptomics to analyze the lipid profiles and metabolism of longissimus dorsi muscle (LDM) and VAT from donkeys. A total of 1,146 and 1,134 lipids belonging to 18 subclasses were identified in LDM and VAT, respectively, with LDM having higher glycerophospholipid (GP) and lower glycerolipid (GL) contents. Polyunsaturated fatty acids (PUFAs) were distributed preferentially at the sn-1 positions in triglycerides (TGs), and sn-2 positions in phosphatidylcholine (PC) and phosphatidylethanolamine (PE). The percentage PUFA content in TGs was significantly lower in LDM than in VAT, while the opposite trend was observed for PUFAs in PC and PE. A total of 110 different lipid molecules (72 downregulated and 38 upregulated) were identified in LDM compared with VAT, of which 11 were considered potential lipid markers. These different lipids were involved in 17 metabolic pathways, including GL and GP metabolisms. Of the 578 differentially expressed genes screened, 311 were downregulated and 267 were upregulated in LDM compared with VAT. Enriched ontology analysis of the differentially expressed genes mainly involved sphingolipid signaling pathways, and GP, GL, and sphingolipid metabolisms. Overall, lipidomics and transcriptomics indicated differences in lipid profiles and metabolism in LDM and VAT, providing new perspectives for the study of heterogeneity in IMF and VAT.

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Section: Discussionsupporting

confidence: 94%

Section: Discussionsupporting

confidence: 92%

Section: Discussionmentioning

confidence: 99%

See 1 more Smart Citation

Determination of the Heterogeneity of Intramuscular Fat and Visceral Adipose Tissue From Dezhou Donkey by Lipidomics and Transcriptomics Profiling

Zhu

Chai

et al. 2021

Front. Nutr.

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“…With the improvement of people's living standards, meat of increasingly high quality is pursued, and the meat from Duroc and other lean pigs can no longer meet the people's needs. Previous researchers have found that meat quality was related to muscle fiber characteristics and intramuscular fat content ( 3 , 4 ). The character of muscle fiber is an important factor affecting meat quality ( 5 , 6 ).…”

Section: Introductionmentioning

confidence: 99%

Integrative ATAC-seq and RNA-seq Analysis of the Longissimus Muscle of Luchuan and Duroc Pigs

Miao

Tang

et al. 2021

Front. Nutr.

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Luchuan pig is a typical obese pig breed in China, and the diameter and area of its longissimus dorsi muscle fibers are significantly smaller than those of Duroc (lean) pig. Skeletal muscle fiber characteristics are related to meat quality of livestock. There is a significant correlation between the quality of different breeds of pork and the characteristics of muscle fiber, which is an important factor affecting the quality of pork. The diameter and area of muscle fibers are related to muscle growth and development. Therefore, we used the assay for transposase-accessible chromatin using sequencing (ATAC-seq) and RNA sequencing (RNA-seq) analysis to investigate the potential mechanism underlying the difference in skeletal muscle growth and development between the two types of pigs. First, transposase-accessible chromatin was analyzed to map the landscape of open chromatin regions and transcription factor binding sites. We identified several transcription factors that potentially affected muscle growth and development, including TFAP4, MAX, NHLH1, FRX5, and TGIF1. We also found that transcription factors with basic helix-loop-helix structures had a preference for binding to genes involved in muscle development. Then, by integrating ATAC-seq and RNA-seq, we found that the Wnt signaling pathway, the mTOR signaling pathway, and other classical pathways regulate skeletal muscle development. In addition, some pathways that might regulate skeletal muscle growth, such as parathyroid hormone synthesis, secretion, and action, synthesis and degradation of ketone bodies, and the thyroid hormone signaling pathway, which were significantly enriched. After further study, we identified a number of candidate genes (ASNS, CARNS1, G0S2, PPP1R14C, and SH3BP5) that might be associated with muscle development. We also found that the differential regulation of chromatin openness at the level of some genes was contrary to the differential regulation at the level of transcription, suggesting that transcription factors and transcriptional repressors may be involved in the regulation of gene expression. Our study provided an in-depth understanding of the mechanism behind the differences in muscle fibers from two species of pig and provided an important foundation for further research on improving the quality of pork.

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“…Such data indicate that lipid species can be used for the differentiation of the meat quality of different pork samples, facilitating the determination of the geographical origin of meat. Zhang et al (2021b) performed lipidomics (UPLC-ESI-MS/MS) and transcriptomics analysis of the muscle of different breeds of pigs to reveal differences in intramuscular fat (IMF), and they found that Luchuan pigs showed significantly higher IMF content than Duroc pigs. Further, a total of 605 lipids were detected in 23 categories, including 211 TG, 95 PCs, 66 PEs, 46 DG, and 37 Cer.…”

Section: Application Of Lipidomics To Assess Food From Farm Animalsmentioning

confidence: 99%

A Comprehensive Review of Lipidomics and Its Application to Assess Food Obtained from Farm Animals

Song¹,

Cai²,

Song³

et al. 2022

Food Sci Anim Resour

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Lipids are one of the major macronutrients essential for adequate growth and maintenance of human health. Their structure is not only complex but also diverse, which makes systematic and holistic analyses challenging; consequently, little is known regarding the relationship between phenotype and mechanism of action. In recent years, rapid advancements have been made in the fields of lipidomics and bioinformatics. In comparison with traditional approaches, mass spectrometry-based lipidomics can rapidly identify as well as quantify >1,000 lipid species at the same time, facilitating comprehensive, robust analyses of lipids in tissues, cells, and body fluids. Accordingly, lipidomics is now being widely applied in various fields, particularly food and nutrition science. In this review, we discuss lipid classification, extraction techniques, and detection and analysis using lipidomics. We also cover how lipidomics is being used to assess food obtained from livestock and poultry. The information included herein should serve as a reference to determine how to characterize lipids in animal food samples, enhancing our understanding of the application of lipidomics in the field in animal husbandry.

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Lipidomic and Transcriptomic Analysis of the Longissimus Muscle of Luchuan and Duroc Pigs

Cited by 38 publications

References 38 publications

Determination of the Heterogeneity of Intramuscular Fat and Visceral Adipose Tissue From Dezhou Donkey by Lipidomics and Transcriptomics Profiling

Determination of the Heterogeneity of Intramuscular Fat and Visceral Adipose Tissue From Dezhou Donkey by Lipidomics and Transcriptomics Profiling

Integrative ATAC-seq and RNA-seq Analysis of the Longissimus Muscle of Luchuan and Duroc Pigs

A Comprehensive Review of Lipidomics and Its Application to Assess Food Obtained from Farm Animals

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