Effect of host genetics and gut microbiome on fat deposition traits in pigs

Wang, Yuan; Zhou, Ping; Zhou, Xiang; Fu, Ming; Wang, Tengfei; Liu, Zuhong; Wang, Zhiquan; Liu, Bang

doi:10.3389/fmicb.2022.925200

Cited by 8 publications

(7 citation statements)

References 44 publications

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“…Metagenome sequencing allows an in-depth investigation of the effects of a single microbiota effect or host-microbiome interaction on the growth, health, and production performance of the host [127][128][129], which has great potential to dissect complex animal traits. To date, only two studies related to porcine fat deposition and feed conversion traits have been reported [115,130]. MWAS reveals that Anaeroplasma, Paraprevotella, Pasteurella, and Streptococcus abundances were significantly associated with the percentage of leaf fat, and Sharpea and Helicobacter abundance exhibited significant associations with intramuscular fat [130].…”

Section: Metagenome-wide Association Studiesmentioning

confidence: 99%

“…To date, only two studies related to porcine fat deposition and feed conversion traits have been reported [115,130]. MWAS reveals that Anaeroplasma, Paraprevotella, Pasteurella, and Streptococcus abundances were significantly associated with the percentage of leaf fat, and Sharpea and Helicobacter abundance exhibited significant associations with intramuscular fat [130]. However, only a limited number of operational taxonomic units has been found to be associated with residual feed intake (RFI), feed conversion ratio, daily feed intake, and back fat thickness [115].…”

Section: Metagenome-wide Association Studiesmentioning

confidence: 99%

“…Moreover, it has been gradually realized that metabolites and the microbiome, not only genomic variants, can be directly associated with traits and an expanded gene GENOME-WIDE ASSOCIATION STUDY IN FARM ANIMALS catalog (pig integrated gene catalog, PIGC) has been established spanning extensive sample sources by deep metagenomic sequencing [197]. Therefore, mGWAS and MWAS are tentatively applied in the study of the mechanisms underlying fat and growth traits [115,120,130].…”

Section: Pigsmentioning

confidence: 99%

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Research progress and applications of genome‐wide association study in farm animals

Tan

Fahey

et al. 2023

Animal Research and One Health

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Exploring the genetic loci underlying economic traits is foundational for innovation in modern animal breeding technology. Genome‐wide association studies (GWAS) have been valid and commonly used tools to dissect the genomic variants associated with phenotypes for the past ∼20 years and have contributed to our understanding of genetic and molecular bases of various traits. Here, we comprehensively review the recent research progress on GWAS methods. We highlight the methodological advancements enabled by the combination of new proteome, transcriptome, epigenome, and metagenome information and multi‐omics analysis algorithms. The advances in GWAS investigations of chickens, pigs, cattle, and other animals during the last 5 years are also described. Finally, we discuss the current applications of GWAS in cutting‐edge breeding technologies and overall future perspectives of the post‐GWAS era.

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Section: Metagenome-wide Association Studiesmentioning

confidence: 99%

Section: Metagenome-wide Association Studiesmentioning

confidence: 99%

Section: Pigsmentioning

confidence: 99%

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Research progress and applications of genome‐wide association study in farm animals

Tan

Fahey

et al. 2023

Animal Research and One Health

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“…Exploring the joint contribution of the host genome and the gut microbiome to complex traits has recently received much attention. For example, several studies have demonstrated the potential value of the microbiome in predicting obesity in humans (Rothschild et al., 2018 ), fat deposition and feed efficiency in chickens (Wen et al., 2019 , 2021 ), milk fatty acid composition in dairy cows (Buitenhuis et al., 2019 ; Zang et al., 2022 ), and fat deposition and performance traits in pigs (Aliakbari et al., 2022 ; Wang, Zhou, et al., 2022 ). Moreover, combining gut microbiome and host genome data could significantly improve the prediction accuracy for complex traits (Perez‐Enciso et al., 2021 ; Rothschild et al., 2018 ).…”

Section: Variance Partitioning Analyses Have Revealed That Meat Quali...mentioning

confidence: 99%

Emerging perspectives in the gut–muscle axis: The gut microbiota and its metabolites as important modulators of meat quality

Wen,

Wang,

et al. 2023

Microbial Biotechnology

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Animal breeding has made great genetic progress in increasing carcass weight and meat yield in recent decades. However, these improvements have come at the expense of meat quality. As the demand for meat quantity continues to rise, the meat industry faces the great challenge of maintaining and even increasing product quality. Recent research, including traditional statistical analyses and gut microbiota regulation research, has demonstrated that the gut microbiome exerts a considerable effect on meat quality, which has become increasingly intriguing in farm animals. Microbial metabolites play crucial roles as substrates or signalling factors to distant organs, influencing meat quality either beneficially or detrimentally. Interventions targeting the gut microbiota exhibit excellent potential as natural ways to foster the conversion of myofibres and promote intramuscular fat deposition. Here, we highlight the emerging roles of the gut microbiota in various dimensions of meat quality. We focus particularly on the effects of the gut microbiota and gut‐derived molecules on muscle fibre metabolism and intramuscular fat deposition and attempt to summarize the potential underlying mechanisms.

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“…Interestingly, the amplicon sequence variant of several genera (including Vibrio anaerobic , Bacillus mimicus , Bacillus cereus , Bacillus faecalis , and Lactobacillus ) is significantly correlated with feed efficiency, and this effect exists at different growth stages in monogastric animals [ 13 ]. Microbes regulate numerous biological functions of the host [ 14 ], and numerous studies have shown that microbes regulate fat deposition in animals [ 15 , 16 ]. Thus, animals with different phenotypes may have their specific microbiota characteristics in the gastrointestinal tract at the genetic level.…”

Section: Introductionmentioning

confidence: 99%

Rumen and Fecal Microbiota Characteristics of Qinchuan Cattle with Divergent Residual Feed Intake

Zhou

Yang

et al. 2023

Microorganisms

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Residual feed intake (RFI) is one of the indicators of feed efficiency. To investigate the microbial characteristics and differences in the gastrointestinal tract of beef cattle with different RFI, a metagenome methodology was used to explore the characteristics of the rumen and fecal microbiota in 10 Qinchuan cattle (five in each of the extremely high and extremely low RFI groups). The results of taxonomic annotation revealed that Bacteroidetes and Firmicutes were the most dominant phyla in rumen and feces. Prevotella was identified as a potential biomarker in the rumen of the LRFI group by the LEfSe method, while Turicibacter and Prevotella might be potential biomarkers of the HRFI and LRFI group in feces, respectively. Functional annotation revealed that the microbiota in the rumen of the HRFI group had a greater ability to utilize dietary polysaccharides and dietary protein. Association analysis of rumen microbes (genus level) with host genes revealed that microbiota including Prevotella, Paraprevotella, Treponema, Oscillibacter, and Muribaculum, were significantly associated with differentially expressed genes regulating RFI. This study discovered variances in the microbial composition of rumen and feces of beef cattle with different RFIs, demonstrating that differences in microbes may play a critical role in regulating the bovine divergent RFI phenotype variations.

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Effect of host genetics and gut microbiome on fat deposition traits in pigs

Cited by 8 publications

References 44 publications

Research progress and applications of genome‐wide association study in farm animals

Research progress and applications of genome‐wide association study in farm animals

Emerging perspectives in the gut–muscle axis: The gut microbiota and its metabolites as important modulators of meat quality

Rumen and Fecal Microbiota Characteristics of Qinchuan Cattle with Divergent Residual Feed Intake

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