Diversity and community of methanogens in the large intestine of finishing pigs

Mi, Jiandui; Peng, Haiyan; Wu, Yanjie; Wang, Yan; Liao, Xindi

doi:10.1186/s12866-019-1459-x

Cited by 25 publications

(35 citation statements)

References 36 publications

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“…In addition, a study by Kim et al found that the Prevotellaceae family is predominant at ten weeks of age [ 50 ], which was also observed in our study. Moreover, the temporal pattern of the composition and relative abundance of archaeal taxa is comparable with data from multiple studies [ 49 , 53 ].…”

Section: Discussionsupporting

confidence: 75%

Impact of Yeast-Derived β-Glucans on the Porcine Gut Microbiota and Immune System in Early Life

et al. 2020

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Piglets are susceptible to infections in early life and around weaning due to rapid environmental and dietary changes. A compelling target to improve pig health in early life is diet, as it constitutes a pivotal determinant of gut microbial colonization and maturation of the host’s immune system. In the present study, we investigated how supplementation of yeast-derived β-glucans affects the gut microbiota and immune function pre- and post-weaning, and how these complex systems develop over time. From day two after birth until two weeks after weaning, piglets received yeast-derived β-glucans or a control treatment orally and were subsequently vaccinated against Salmonella Typhimurium. Faeces, digesta, blood, and tissue samples were collected to study gut microbiota composition and immune function. Overall, yeast-derived β-glucans did not affect the vaccination response, and only modest effects on faecal microbiota composition and immune parameters were observed, primarily before weaning. This study demonstrates that the pre-weaning period offers a ‘window of opportunity’ to alter the gut microbiota and immune system through diet. However, the observed changes were modest, and any long-lasting effects of yeast-derived β-glucans remain to be elucidated.

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Section: Discussionsupporting

confidence: 75%

Impact of Yeast-Derived β-Glucans on the Porcine Gut Microbiota and Immune System in Early Life

et al. 2020

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“…The archaeal composition based on metagenomics was different from that revealed by 16s rRNA or mcrA genes. Mi and colleagues found that the genus Methanobrevibacter was the dominant archaeal taxon with an average relative abundance of 57% in the large intestine of nishing pigs [19]. Furthermore, Methanobrevibacter was also reported as the overwhelmingly dominant archaeal genus and accounted for 95.01-100% of all archaeal reads in pigs in other studies [17,18].…”

Section: Discussionmentioning

confidence: 97%

The diversity, composition, and metabolic pathways of archaea in pigs

Deng

Wei

et al. 2021

Preprint

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Background Archaea are an essential class of gut microorganisms in humans and animals. Despite the substantial progress in gut microbiome research in the last decade, most studies have focused on bacteria, and little is known about archaea in mammals. To this end, we investigated the composition, diversity, and functional potential of gut archaeal communities in pigs by re-analyzing a published metagenomic dataset from the NCBI Sequence Read Archive (SRA) database. Results A total of 276 fecal samples from three countries: China (n = 76), Denmark (n = 100), and France (n = 100) were used in this study. For alpha diversity (Shannon Index) of the archaeal communities, Chinese pigs were less diverse than Danish and French pigs (P < 0.001). Consistently, Chinese pigs also possessed different archaeal community structures from the other two groups based on the Bray-Curtis distance matrix. Methanobrevibacter was the most dominant archaeal genus in Chinese pigs (44.94%) and French pigs (15.41%), while Candidatus Methanomethylophilus was the most predominant in Danish pigs (15.71%). At the species level, the relative abundance of Candidatus Methanomethylophilus alvus, Natrialbaceae archaeon XQ INN 246, and Methanobrevibacter gottschalkii were greatest in Danish, French, and Chinese pigs with a relative abundance of 14.32%, 11.67%, and 16.28%, respectively. In terms of metabolic potential, the top three pathways in the archaeal communities included the MetaCyc pathway related to the biosynthesis of L-valine, L-isoleucine, and isobutanol. Interestingly, the pathway related to hydrogen consumption (METHANOGENESIS-PWY) was only observed in archaeal reads, while the pathways participating in hydrogen production (FERMENTATION-PWY and PWY4LZ-257) were only detected in bacterial reads. Archaeal communities also possessed CAZyme gene families, with the top five being: AA3, GH43, GT2, AA6, and CE9. In terms of antibiotic resistance genes (ARGs), the class of multidrug resistance was the most abundant ARG, accounting for 87.41% of archaeal ARG hits. Conclusions Our study reveals the diverse composition and metabolic functions of archaea in pigs, suggesting that archaea might play important roles in swine nutrition and metabolism.

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“…The archaeal composition based on metagenomics was different from that revealed by 16s rRNA or mcrA genes. Mi and colleagues found that the genus Methanobrevibacter was the dominant archaeal taxon with an average relative abundance of 57% in the large intestine of finishing pigs [19]. Furthermore, Methanobrevibacter was also reported as the overwhelmingly dominant archaeal genus and accounted for 95.01%-100% of all archaeal reads in pigs in other studies [17,18].…”

Section: Discussionmentioning

confidence: 97%

The Diversity, Composition, and Metabolic Pathways of Archaea in Pigs

Deng¹,

Li²,

Wei³

et al. 2021

Preprint

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Archaea are an essential class of gut microorganisms in humans and animals. Despite the substantial progress in gut microbiome research in the last decade, most studies have focused on bacteria, and little is known about archaea in mammals. In this study, we investigated the composition, diversity, and functional potential of gut archaeal communities in pigs by re-analyzing a published metagenomic dataset including a total of 276 fecal samples from three countries: China (n=76), Denmark (n=100), and France (n=100). For alpha diversity (Shannon Index) of the archaeal communities, Chinese pigs were less diverse than Danish and French pigs (P<0.001). Consistently, Chinese pigs also possessed different archaeal community structures from the other two groups based on the Bray-Curtis distance matrix. Methanobrevibacter was the most dominant archaeal genus in Chinese pigs (44.94%) and French pigs (15.41%), while Candidatus Methanomethylophilus was the most predominant in Danish pigs (15.71%). At the species level, the relative abundance of Candidatus Methanomethylophilus alvus, Natrialbaceae archaeon XQ INN 246, and Methanobrevibacter gottschalkii were greatest in Danish, French, and Chinese pigs with a relative abundance of 14.32%, 11.67%, and 16.28%, respectively. In terms of metabolic potential, the top three pathways in the archaeal communities included the MetaCyc pathway related to the biosynthesis of L-valine, L-isoleucine, and isobutanol. Interestingly, the pathway related to hydrogen consumption (METHANOGENESIS-PWY) was only observed in archaeal reads, while the pathways participating in hydrogen production (FERMENTATION-PWY and PWY4LZ-257) were only detected in bacterial reads. Archaeal communities also possessed CAZyme gene families, with the top five being: AA3, GH43, GT2, AA6, and CE9. In terms of antibiotic resistance genes (ARGs), the class of multidrug resistance was the most abundant ARG, accounting for 87.41% of archaeal ARG hits. Our study reveals the diverse composition and metabolic functions of archaea in pigs, suggesting that archaea might play important roles in swine nutrition and metabolism.

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Diversity and community of methanogens in the large intestine of finishing pigs

Cited by 25 publications

References 36 publications

Impact of Yeast-Derived β-Glucans on the Porcine Gut Microbiota and Immune System in Early Life

Impact of Yeast-Derived β-Glucans on the Porcine Gut Microbiota and Immune System in Early Life

The diversity, composition, and metabolic pathways of archaea in pigs

The Diversity, Composition, and Metabolic Pathways of Archaea in Pigs

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