Transcriptional insights into key genes and pathways controlling muscle lipid metabolism in broiler chickens

Liu, Lu; Liu, Xiaojing; Cui, Huanxian; Liu, Ranran; Zhao, Guiping; Wen, Jie

doi:10.1186/s12864-019-6221-0

Cited by 72 publications

(61 citation statements)

References 63 publications

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“…The content of IMF, TG, and TCHO was conducted as reported previously [22]. The IMF content of the pectoralis major muscle was determined by extraction with anhydrous ether in a Soxhlet apparatus [23], and expressed as a percentage of the dry weight of the muscle sample.…”

Section: Phenotype Measurementmentioning

confidence: 99%

Effect of Divergent Selection for Intramuscular Fat Content on Muscle Lipid Metabolism in Chickens

Liu

Cui

Xing

et al. 2019

Animals

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Simple Summary: Intramuscular fat is an important factor affecting meat quality and consumer acceptance. Appropriate increases in the intramuscular fat content contribute to the improvement of meat quality, and genetic selection is an effective method to increase the intramuscular fat content in chickens. In this study, chicken lines divergently selected for their intramuscular fat content were used to investigate the mechanisms behind differential intramuscular fat deposition. These results found in this study may contribute to the improvement of meat quality in chickens.Abstract: Intramuscular fat (IMF)-an important factor affecting meat quality-can be appropriately increased by genetic selection. Chicken lines divergently selected for IMF content were used in this study to investigate the mechanisms behind differential IMF deposition. Sixty 15th generation chickens were genotyped using the IASCHICK 55K single nucleotide polymorphism (SNP) chip. After quality control, 59 chickens and 36,893 SNPs were available for subsequent analysis. Population structure assessment indicated that the lines were genetically differentiated. Based on the top 1% paired fixation index values, three pathways were significantly (p < 0.05) enriched, and nine genes were considered candidate genes for differential IMF deposition. Differences between the lines in the expressions of representative genes involved in the above pathways were detected in 16th generation chickens. This study suggests that genetic selection for increased IMF in the pectoralis major muscle may enhance fatty acid synthesis, transport, and esterification, and reduce triglyceride hydrolysis. The peroxisome proliferator-activated receptor (PPAR) signaling pathway, glycerolipid metabolism, and fatty acid degradation pathway may have contributed to the differences in IMF deposition between the lines. These results contribute to the understanding of the genetic mechanisms behind IMF deposition, and the improvement of chicken meat quality.

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Section: Phenotype Measurementmentioning

confidence: 99%

Effect of Divergent Selection for Intramuscular Fat Content on Muscle Lipid Metabolism in Chickens

Liu

Cui

Xing

et al. 2019

Animals

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“…Further, the expression levels of some classical genes were veri ed by qRT-PCR. These representative lipid metabolism related genes mainly involved in intracellular fat decomposition (DGKH, DGKQ, and DGKD) [21,22], extracellular fat decomposition (LPL) [23], fatty acid synthesis (ELOVL1, ELOVL6, FADS1L1, FADS6, SCD, and SCD5) [22][23][24][25], fatty acid transport (FABP3 and FABP4) [26,27], fat maintenance (CIDEC, MOGAT1, PLIN3, and PLIN4) [28][29][30][31] and adipocyte differentiation (PPARG, RBP7, and RXRG) [32,33]. The correlation analysis on data of RNA-seq and qRT-PCR showed that they had a strong positive correlation, which con rmed the accuracy of RNA-seq data.…”

Section: Discussionmentioning

confidence: 99%

Identification of Differentially Expressed Genes for Lipid Metabolism in Dedifferentiated Preadipocytes from Different Tissues of Chicken

Ma¹,

Luo²,

Liu³

et al. 2020

Preprint

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Background: The body distribution with high intramuscular fat and low abdominal fat is ideal goal for broiler breeding. Preadipocytes with different origins have differences in metabolism and gene expression. This transcriptome analysis of intramuscular preadipocytes (DIMPs) and adipose tissue-derived preadipocytes (DAFPs) is aim to explore the characteristics in lipid deposition of different chicken preadipocytes by dedifferentiation in vitro. Results: Compared to DIMFPs, the lipid content was increased (P <0.05) in DAFPs after two days with 100% confluence. Moreover, 66 DEGs of lipid metabolism were screened, which are involved in the adipocyte differentiation, fatty acid transport and fatty acid synthesis, lipid stabilization, and lipolysis. Among them, the representative CEBPA, DGKH, DGKQ, DGKD, FADS1L1, SCD, SCD5, and PPARG were down-regulated, but CIDEC, ELOVL1, ELOVL6, FABP3, FABP4, FADS6, LPL, MOGAT1, PLIN3, PLIN4, RBP7, and RXRG genes were up-regulated (P < 0.05 or P < 0.01) in the DAFPs, showing the same pattern with the lipid content. Based on the known DEGs, the well-known pathways affecting lipid metabolism (MAPK-, TGF beta-, Calcium-, PPAR signaling pathway) were enriched, which may also contribute to the regulation of lipid deposition. Conclusions: Our data suggest that the difference of lipid deposition between DIMPs and DAFPs of chicken in vitro. The lipid content was significantly increased in DAFPs by the up-regulation of genes on cellular uptake of fatty acids through medication of MAPK-, TGF beta-, Calcium-, and PPAR signaling pathways. These findings provide new insights into the regulation of tissue-specific fat deposition and optimizing body fat distribution in broilers.

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“…Among them, eight pathways were related to lipid deposition and metabolism, including alpha-Linolenic acid metabolism (ko00592), FoxO signaling pathway (ko04068), Biosynthesis of unsaturated fatty acids (ko01040), Cell adhesion molecules (ko04514), Phosphonate and phosphinate metabolism (ko00440), Ether lipid metabolism (ko00565), Tight junction (ko04530) and Arachidonic acid metabolism (ko00590). Although some pathways were not signi cantly enriched, such as PPAR, Wnt, AMPK and mTOR signaling pathways, these pathways still played an important role in lipid deposition [31,[34][35][36]. Overall, the KEGG enrichment analysis of target genes revealed 16 critical pathways with 17 target genes (Table 3).…”

Section: Comprehensive Analysis Of Candidate Lncrnas and Mrnasmentioning

confidence: 99%

“…As the target gene of miR-132-3p, UCP2 can regulate the differentiation of sheep precursor fat cells [30]. RNA-seq on the broiler pectoralis major muscles has revealed that ADIPOQ and CIDEC were key genes involved in lipid deposition [31]. SOCS2 can also act as a regulator of adipocyte size [32].…”

Section: Identi Cation Of Differentially Expressed Mrnas and Lncrnasmentioning

confidence: 99%

Identification and co-expression analysis of long noncoding RNAs and mRNAs involved in the deposition of intramuscular fat in Aohan fine-wool sheep

Han

Liu

et al. 2020

Preprint

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Background: Intramuscular fat (IMF) content has become one of the most important indicators for measuring meat quality, and levels of IMF are affected by various genes. Long non-coding RNAs (lncRNAs) are widely expressed non-coding RNAs that play an important regulatory role in a variety of biological processes; however, research on the lncRNAs involved in sheep IMF deposition is still in its infancy. Aohan fine-wool sheep (AFWS), one of China's most important meat-hair, dual-purpose sheep breed, provides a great model for studying the role of lncRNAs in the regulation of IMF deposition. We identified lncRNAs by RNA sequencing in longissimus dorsi muscle (LDM) samples of sheep at two ages: 2 months (Mth-2) and 12 months (Mth-12). Results: We identified a total of 26,247 genes and 6,935 novel lncRNAs in LDM samples of sheep. Among these, 606 mRNAs and 408 lncRNAs were differentially expressed. We then compared the structural characteristics of lncRNAs and mRNAs. We obtained target genes of differentially expressed lncRNAs (DELs) and performed enrichment analyses using Gene Ontology (GO) and the Kyoto Encyclopedia of Genes and Genomes (KEGG). We found that target mRNAs were primarily enriched in lipid metabolism, lipid transport, regulation of primary metabolic processes and developmental pathways. Based on the results of important KEGG pathways, we obtained six candidate lncRNAs that potentially regulate lipid deposition and constructed an lncRNA-mRNA co-expression network that included MSTRG.792.1- SCD , MSTRG.8227.1- ACAA2 , MSTRG.10679.1- FADS2 , MSTRG.21942.1- PLA2G4E , MSTRG.21380.1- FZD4 and MSTRG.9270.1- ULK1 . We speculated that these candidate lncRNAs might play a role by regulating the expression of target genes. We randomly selected five mRNAs and five lncRNAs to verify the accuracy of the sequencing data by qRT-PCR. Conclusions: Our study provided a list of the lncRNAs and mRNAs related to intramuscular lipid deposition in sheep and laid a foundation for future research on regulatory mechanisms.

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Transcriptional insights into key genes and pathways controlling muscle lipid metabolism in broiler chickens

Cited by 72 publications

References 63 publications

Effect of Divergent Selection for Intramuscular Fat Content on Muscle Lipid Metabolism in Chickens

Effect of Divergent Selection for Intramuscular Fat Content on Muscle Lipid Metabolism in Chickens

Identification of Differentially Expressed Genes for Lipid Metabolism in Dedifferentiated Preadipocytes from Different Tissues of Chicken

Identification and co-expression analysis of long noncoding RNAs and mRNAs involved in the deposition of intramuscular fat in Aohan fine-wool sheep

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