Dataset Information

Association Study on the Regulation of Muscle Development-Related Genes, Proteins, and Metabolites in Different Parts by Gastrointestinal Flora During Various Developmental Stages of Liaoning Cashmere Goats

ABSTRACT:

Introduction: Muscle growth and development in Liaoning cashmere goats (a dual-purpose breed for cashmere and meat) and its regulation by intestinal flora are key to improving meat production, yet relevant molecular mechanisms remain unclear.

Objectives: To reveal the molecular mechanism of muscle growth and development in Liaoning cashmere goats and the regulatory role of intestinal flora, thereby improving their meat production performance.

Methods: Muscle tissues (intercostal, hindlimb biceps femoris, longissimus dorsi) and digestive contents (rumen, small intestine, cecum, feces) from goats at 6, 12, 18 months were collected. Transcriptomics, proteomics, metabolomics, 16S rRNA sequencing, and multi-omics integration analysis were used.

Results: HBFM exhibited optimal development at 12 months of age, which was influenced by g_Lachnospiraceae_NK3A20_group in the small intestine. The HOXC10 gene drove myocyte proliferation, while the MYL3 gene and its encoded protein synergistically participated in muscle physiological changes, involving the cAMP signaling pathway. LDM development was more active at 12 months, regulated by g_Christensenellaceae_R-7_group in the rumen and cecum, leading to significant expression of the MEF2A gene and MYH6 protein. Additionally, the COL1A1/COL1A2 genes participated in intramuscular fat deposition through purine metabolism. ICM showed vigorous early proliferation at 6 months, regulated by g_Aeriscardovia in the small intestine, which promoted high expression of Actin. L-malic acid and L-serine affected muscle growth and water-holding capacity in this region. At 18 months, the GDI protein influenced fat deposition in ICM through the cofactor biosynthesis pathway. Multi-omics integration analysis revealed that microorganisms such as g_norank_f_UCG-011 were significantly associated with numerous metabolites, and genes like FKBP5 synergistically regulated muscle development with proteins such as Actin.

Conclusion: The development of different muscle parts in Liaoning cashmere goats is coordinately regulated by specific genes, proteins, metabolites, and intestinal flora, providing key targets for targeted breeding to improve meat production performance.

INSTRUMENT(S): Liquid Chromatography MS - positive - HILIC, Liquid Chromatography MS - negative - HILIC

PROVIDER: MTBLS12972 | MetaboLights | 2025-10-30

REPOSITORIES: MetaboLights

ACCESS DATA

Dataset's files

Source:

			Action	DRS
	a_MTBLS12972_LC-MS_negative_hilic_metabolite_profiling.txt	Txt
	a_MTBLS12972_LC-MS_positive_hilic_metabolite_profiling.txt	Txt
	i_Investigation.txt	Txt
	m_MTBLS12972_LC-MS_negative_hilic_metabolite_profiling_v2_maf.tsv	Tabular
	m_MTBLS12972_LC-MS_positive_hilic_metabolite_profiling_v2_maf.tsv	Tabular

Items per page:

1 - 5 of 6

Similar Datasets

Project description:Studies exploring the transcriptome of stress and its effects on meat quality are very limited, particularly in goats. Fifty-four male Spanish goats (8-mo old; BW = 29.7 ± 2.03 kg) were randomly subjected to one of three treatments (TRT; n = 18 goats / treatment): (i) transported for 180 min, (ii) transported for 30 min, or (iii) held in pens (control) to analyze the transcriptome of stress and meat quality in goats using RNA-seq technology. Blood samples were collected before and after treatment, and meat samples were collected after humane slaughter for stress hormone, meat quality (Longissimus dorsi), and transcriptomic analysis. Plasma epinephrine concentrations were higher (P < 0.01) in 180 min and 30 min groups compared to the control group; however, norepinephrine concentrations were not affected by the treatment. Muscle glycogen concentrations (15 min postmortem) were lower (P < 0.01) in both 30 min and 180 min groups compared to the control group. Calpastatin levels were higher (P < 0.01) in 180 min and 30 min groups than the control group. Warner-Bratzler shear force values of loin chops were the highest in the 180 min group (4 ± 0.15, kg), lowest in the control group (3.51 ± 0.10, kg), and intermediate in the 30 min group (3.78 ± 0.09, kg; P < 0.01) both at day 1 and day 6 aging time. Additionally, desmin levels of day 6 samples were lowest in the control group, highest in 180 min group, and intermediate in 30 min group (P < 0.05). RNA-seq results showed that a total of 10,633 genes were differentially expressed (5,194 up regulated; 5,439 down regulated) among all comparisons (blood and day 1 and day 6 muscle samples). Among these differentially expressed genes (DEGs), KLF9, AMPK, FOXO3, PTX3, GADD45, PTPN1, CASP7, MAPK4, HSPA12A, and JAK-STAT were probably associated with the effects of stress on skeletal muscle proteins and involved in biological process such as cellular response to corticosteroid stimulus, endoplasmic reticulum stress, insulin resistance, DNA repair, apoptosis, MAPK cascade and regulation of proteolysis. The KEGG analysis revealed that AMPK and JAK-SAT signaling pathways and autophagy were among the top 20 enriched pathways in our treatment comparisons. The results provide an understanding of the genes and pathways involved in stress responses and related changes in postmortem muscle metabolism and meat quality characteristics in goats.

Project description:Background: Mycobacterium avium subsp. paratuberculosis (M. paratuberculosis) is the causative agent of Johne’s disease, a chronic enteric infection of ruminants. Infection occurs within the first few months of life but remains subclinical for an average of 2-5 years. Current diagnostics to detect early subclinical infections lack diagnostic sensitivity, which hinders disease control resulting in significant economic losses to the dairy industry worldwide. The pathophysiology of early infection with M. paratuberculosis is still not well understood and represents a key hurdle towards the development of better diagnostics. Methods: The present study employed a large-scale RNA-Sequencing technology to better understand early stages of M. paratuberculosis infection and immunization. Specifically, gene expression profiles of peripheral blood mononuclear cells (PBMCs) from infected and vaccinated goats were compared to controls. Results: The transcriptome of the control goats revealed a large number of genes (N = 226, 1018, 1714, 1133) that were differentially expressed compared to the M. paratuberculosis-infected goats, goats vaccinated with live attenuated or inactivated vaccines, and goats both vaccinated and infected. Bioinformatics evaluation of the differentially expressed genes indicated the regulation of a large number of genes with immunity and inflammatory functions including IL-18BP, IFN-γ, IL-17A, NOS2, LIPG and IL-22. Interestingly, a large number of goat genes (N=667) were regulated whether live or inactivated vaccine were used. Some of the regulated genes (e.g. IL-17A, IFN-g) continued its unique transcriptional profile up to 12 months post-challenge. Conclusions: Overall, transcriptome analysis of infected and/or immunized goats identified potential targets for developing early diagnostics for Johne’s disease and a potential approach to differentiate infected from vaccinated animals. A similar approach could be used to analyze later stages of Johne’s disease or other chronic infections.

Dataset Information

Association Study on the Regulation of Muscle Development-Related Genes, Proteins, and Metabolites in Different Parts by Gastrointestinal Flora During Various Developmental Stages of Liaoning Cashmere Goats

Dataset's files

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets