Integrated LC/MS-based lipidomics and transcriptomics analyses revealed lipid composition heterogeneity between pectoralis intramuscular fat and abdominal fat and its regulatory mechanism in chicken

Wang, Dandan; Qin, Panpan; Zhang, Ke; Wang, Yangyang; Guo, Yulong; Zhimin, Cheng; Li, Zhuanjian; Tian, Yadong; Kang, Xiangtao; Li, Hong; Liu, Xiaojun

doi:10.1016/j.foodres.2023.113083

Cited by 9 publications

(3 citation statements)

References 39 publications

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“…By combining the results of DEGs with DARs, we identified the upregulation of TMEM164 in the CC group at D21. TMEM164 , a member of the transmembrane protein ( TMEM ) family [ 74 ], has been reported in the regulation of positive regulation of intramuscular fat deposition in pectoral muscle of chicken [ 75 ]. But there were no previous studies in TMEM164 and muscle development.…”

Section: Discussionmentioning

confidence: 99%

Transcriptomic and epigenomic landscapes of muscle growth during the postnatal period of broilers

Gu,

Huang,

Jie

et al. 2024

J Animal Sci Biotechnol

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Background Broilers stand out as one of the fastest-growing livestock globally, making a substantial contribution to animal meat production. However, the molecular and epigenetic mechanisms underlying the rapid growth and development of broiler chickens are still unclear. This study aims to explore muscle development patterns and regulatory networks during the postnatal rapid growth phase of fast-growing broilers. We measured the growth performance of Cornish (CC) and White Plymouth Rock (RR) over a 42-d period. Pectoral muscle samples from both CC and RR were randomly collected at day 21 after hatching (D21) and D42 for RNA-seq and ATAC-seq library construction. Results The consistent increase in body weight and pectoral muscle weight across both breeds was observed as they matured, with CC outpacing RR in terms of weight at each stage of development. Differential expression analysis identified 398 and 1,129 genes in the two dimensions of breeds and ages, respectively. A total of 75,149 ATAC-seq peaks were annotated in promoter, exon, intron and intergenic regions, with a higher number of peaks in the promoter and intronic regions. The age-biased genes and breed-biased genes of RNA-seq were combined with the ATAC-seq data for subsequent analysis. The results spotlighted the upregulation of ACTC1 and FDPS at D21, which were primarily associated with muscle structure development by gene cluster enrichment. Additionally, a noteworthy upregulation of MUSTN1, FOS and TGFB3 was spotted in broiler chickens at D42, which were involved in cell differentiation and muscle regeneration after injury, suggesting a regulatory role of muscle growth and repair. Conclusions This work provided a regulatory network of postnatal broiler chickens and revealed ACTC1 and MUSTN1 as the key responsible for muscle development and regeneration. Our findings highlight that rapid growth in broiler chickens triggers ongoing muscle damage and subsequent regeneration. These findings provide a foundation for future research to investigate the functional aspects of muscle development.

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Section: Discussionmentioning

confidence: 99%

Transcriptomic and epigenomic landscapes of muscle growth during the postnatal period of broilers

Gu,

Huang,

Jie

et al. 2024

J Animal Sci Biotechnol

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“…The intramuscular fat (IMF) content was determined using the Soxhlet (2014) extraction method [35]. For the high groups (G43wHM) and low IMF groups (G43wLM) of the Gushi chicken, refer to the description of Wang et al (2023) [36]. The non-targeted lipidomic data and transcriptome data of pectoral muscles from 43-week-old Gushi hens with high IMF (n = 8) and low IMF (n = 8) content were obtained from our previously reported information [37].…”

Section: Phenotype Data Collectionmentioning

confidence: 99%

STC2 Inhibits Hepatic Lipid Synthesis and Correlates with Intramuscular Fatty Acid Composition, Body Weight and Carcass Traits in Chickens

Cao,

Jia,

Xing

et al. 2024

Animals

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Stanniocalcin 2 (STC2) is a secreted glycoprotein involved in multiple biological processes. To systemically study the biological role of STC2 in chickens, phylogenetic tree analysis and conservation analysis were conducted. Association analysis between variations in the STC2 gene and the economic traits of Gushi-Anka F2 was conducted. The tissue expression patterns of STC2 expression in different chicken tissues and liver at different stages were detected. The biological role of STC2 in chicken liver was investigated through overexpression and interfering methods in the LMH cell line. Correlation analyses between STC2 expression and lipid components were conducted. (1) The phylogenetic tree displayed that chicken STC2 is most closely related with Japanese quail and most distantly related with Xenopus tropicalis. STC2 has the same identical conserved motifs as other species. (2) rs9949205 (T > C) found in STC2 intron was highly significantly correlated with chicken body weight at 0, 2, 4, 6, 8, 10 and 12 weeks (p < 0.01). Extremely significant correlations of rs9949205 with semi-evisceration weight (SEW), evisceration weight (EW), breast muscle weight (BMW), leg muscle weight (LMW), liver weight and abdominal fat weight (AFW) were revealed (p < 0.01). Significant associations between rs9949205 and abdominal fat percentage, liver weight rate, breast muscle weight rate and leg muscle weight rate were also found (p < 0.05). Individuals with TT or TC genotypes had significantly lower abdominal fat percentage and liver weight rate compared to those with the CC genotype, while their body weight and other carcass traits were higher. (3) STC2 showed a high expression level in chicken liver tissue, which significantly increased with the progression of age (p < 0.05). STC2 was observed to inhibit the content of lipid droplets, triglycerides (TG) and cholesterol (TC), as well the expression level of genes related to lipid metabolism in LMH cells. (4) Correlation analysis showed that the STC2 gene was significantly correlated with 176 lipids in the breast muscle (p < 0.05) and mainly enriched in omega-3 and omega-6 unsaturated fatty acids. In conclusion, the STC2 gene in chicken might potentially play a crucial role in chicken growth and development, as well as liver lipid metabolism and muscle lipid deposition. This study provides a scientific foundation for further investigation into the regulatory mechanism of the STC2 gene on lipid metabolism and deposition in chicken liver.

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“…Полногеномные исследования ассоциаций (genome-wide association study, GWAS) однонуклеотидных полиморфизмов (single nucleotide polymorphism, SNP) с экономически значимыми признаками позволяют эффективно идентифицировать связанные с их проявлением гены-кандидаты (23). У кур по сравнению с другими видами сельскохозяйственной птицы генетические механизмы, связанные с жировым обменом и интенсивностью отложения жира, изучены более подробно (24,25), идентифицированы SNPs и гены-кандидаты, детерминирующие отложение как внутримышечного, так и брюшного (абдоминального) жира (26)(27)(28). В отношении перепелов такие данные ограничены (29).…”

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IDENTIFICATION OF SNPs AND CANDIDATE GENES ASSOCIATED WITH ABDOMINAL FAT DEPOSITION IN QUAILS (Coturnix japonica)

Volkova

2023

S-h. biol.

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Интенсивность отложения жира, в том числе абдоминального, -один из важных показателей, характеризующих как мясную продуктивность и качество продукции, так и общее здоровье сельскохозяйственной птицы. Этот признак положительно коррелирует с быстрым ростом птицы и в значительной степени зависит не только от условий кормления и содержания, но и от генетических факторов. В основном данные о генетических механизмах, обусловливающих жировой обмен и интенсивность отложения жира, получены на курах, идентифицированы SNPs и геныкандидаты, детерминирующие отложение как внутримышечного, так и брюшного (абдоминального) жира. Число подобных исследований на перепелах относительно невелико. К настоящему времени в специальной литературе недостаточно информации о локусах количественных признаков (QTL), достоверно связанных с показателями жирового обмена у перепелов. В представленной работе впервые сообщается о выявленных SNPs, с высокой достоверностью (p < 0,00001) ассоциированных с интенсивностью отложения абдоминального жира у 8-недельных перепелов из F2 модельной ресурсной популяции. В области выявленных SNPs установлены гены-кандидаты, достоверно связанные с этим признаком. Целью работы были поиск SNPs и идентификация генов-кандидатов, связанных с отложением абдоминального жира у перепелов. Исследования проводили на самцах F2 модельной ресурсной популяции (n = 146), полученной при скрещивании двух контрастных по скорости роста и мясным качествам пород -японских (медленный рост) и техасских (быстрый рост) перепелов. Особей F2 генотипировали методом GBS (genotyping-by-sequencing, генотипирование посредством секвенирования). Для выявления ассоциаций между данными полногеномного генотипирования и количеством абдоминального жира использовали программное обеспечение PLINK 1.9 с принятыми ограничениями (geno 0,1; mind 0,1; maf 0,05). В качестве порогового критерия достоверности установили p < 0,00001. Полученная F2 ресурсная популяция перепелов характеризовалась высокой вариабельностью по содержанию абдоминального жира в туше. В возрасте 56 сут этот показатель варьировал от 0,01 до 10,46 г и составил в среднем 2,41±0,16 г. На основании проведенного GWAS-анализа (genome-wide association study) идентифицировали 29 SNPs и 11 генов-кандидатов, находящихся в областях расположения этих SNPs, которые ассоциированы с отложением абдоминального жира у перепелов.

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Integrated LC/MS-based lipidomics and transcriptomics analyses revealed lipid composition heterogeneity between pectoralis intramuscular fat and abdominal fat and its regulatory mechanism in chicken

Cited by 9 publications

References 39 publications

Transcriptomic and epigenomic landscapes of muscle growth during the postnatal period of broilers

Transcriptomic and epigenomic landscapes of muscle growth during the postnatal period of broilers

STC2 Inhibits Hepatic Lipid Synthesis and Correlates with Intramuscular Fatty Acid Composition, Body Weight and Carcass Traits in Chickens

IDENTIFICATION OF SNPs AND CANDIDATE GENES ASSOCIATED WITH ABDOMINAL FAT DEPOSITION IN QUAILS (Coturnix japonica)

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