High quality draft genome sequence of Bacteroides barnesiae type strain BL2T (DSM 18169T) from chicken caecum

Sakamoto, Mitsuo; Lapidus, Alla; Han, James; Trong, Stephan; Haynes, Matthew; Reddy, T. B. K.; Mikhailova, Natalia; Pati, Amrita; Ivanova, Natalia; Pukall, Rüdiger; Markowitz, Victor; Woyke, Tanja; Klenk, Hans‐Peter; Kyrpides, Nikos C.; Ohkuma, Moriya

doi:10.1186/s40793-015-0045-6

Cited by 7 publications

(9 citation statements)

References 36 publications

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“…34 They also play an important role against pathogenic microorganisms in the gut microbiota of broiler chickens. 34 Ruminococcaceae members were considered as beneficial autochthonous taxa in the gut microbiota of broilers with strong ability in degradation of diverse polysaccharides and fibers, especially in the cellulose and other highly recalcitrant polysaccharides, then producing organic acids to provide energy for the intestinal epithelium and host. 32,35 Numerous studies demonstrated that the relative abundance of Ruminococcaceae was positively associated with improved growth performance and feed efficiency, as well as intestinal morphology and barrier of broiler chickens.…”

Section: Discussionmentioning

confidence: 99%

Dietary medium‐chain 1‐monoglycerides modulates the community and function of cecal microbiota of broilers

Liu

Guo

et al. 2021

J Sci Food Agric

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BACKGROUND: Medium-chain monoglycerides (MGs) are a group of 1-monoglycerides of medium-chain fatty acids with strong antibacterial activity, which may influence the gut microbiota in the diet of broilers. The present study evaluated the effects of mixed MGs on the community and function of gut microbiota in broilers. A total of 528 newly hatched male yellow feathered broiler chicks were weighed and randomly assigned into four groups, including a basal diet (CON), a basal diet containing 300 mg kg −1 MG (MG300), 450 mg kg −1 MG (MG450), or 600 mg kg −1 MG (MG600). RESULTS:The cecal acetic acid, propionic acid, butyric acid, isobutyric acid, isovaleric acid and total short-chain fatty acid of broilers in the MG-containing groups were notably increased compared with the CON group. Dietary MG selectively increased the relative abundance of Bifidobacteriaceae, Bacteroides and an unclassified genus of Lachnospiraceae family, but decreased the proportion of an unclassified genus of Barnesiellaceae and a norank genus of Flavobacteriaceae family in the cecum of broilers. Functional prediction revealed that MG supplementation enriched the microbial gene abundance of amino acid metabolism and carbohydrate metabolism, while depleted the gene abundance of fat metabolism and energy metabolism. Moreover, the modulation of gut microbiota by MG supplementation was closely correlated with the alteration of muscle amino acids. CONCLUSION: Dietary MGs altered the gut microbiota community structure and metabolites, and modulated the gene abundance of microbial metabolism pathways in the cecum of broilers, which may further influence the growth performance, nutrient utilization and meat quality of the host.

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Section: Discussionmentioning

confidence: 99%

Dietary medium‐chain 1‐monoglycerides modulates the community and function of cecal microbiota of broilers

Liu

Guo

et al. 2021

J Sci Food Agric

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“…This suggested that our study provides the rst-evidence-in-chickens for the majority (81/125) of these species (Additional File 4, Supplementary Table 3). Examples include: Jeotgalicoccus halophilus, rst isolated from the traditional fermented seafood, Jeotgal [77]; Aliicoccus persicus, rst isolated from a hypersaline lake [78]; and Bacteroides reticulotermitis, rst isolated from the gut of a termite [79]. A search of PubMed with the species name and the terms "humans" and infection" suggests that nearly 40% of these known species have been associated with human infection, highlighting the role of the chicken gut as a source of zoonotic pathogens.…”

Section: Analysis Of Bacterial Metagenomic Species Primarily Using Tmentioning

confidence: 99%

A Genomic Blueprint of the Chicken Gut Microbiome

Gilroy¹,

Ray²,

Getino³

et al. 2020

Preprint

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Background: The chicken is the most abundant food animal in the world. However, despite its importance, the chicken gut microbiome remains largely undefined. Here, we exploit culture-independent and culture-dependent approaches to deliver a genomic blueprint of this complex microbial community. Results: We performed metagenomic sequencing of fifty chicken faecal samples from two breeds and analysed these, alongside all (n=582) relevant publicly available chicken metagenomes, to cluster over 20 million non-redundant genes and to construct over 5,500 metagenome-assembled bacterial genomes. In addition, we recovered nearly 600 bacteriophage genomes This represents the most comprehensive view of the chicken gut associated microbiome to date, encompassing dozens of novel candidate bacterial genera and hundreds of novel candidate species. Keen to provide a stable, clear and memorable nomenclature for novel species, we devised a scalable combinatorial system for the creation of hundreds of well-formed Latin binomials. We cultured bacterial isolates from faeces to deliver 282 whole genome sequences, incorporating thirty novel species, together with three species from the genus Escherichia, including the newly named species Escherichia whittamii.Conclusions: Our metagenomic and culture-based analyses provide new insights into the bacterial, archaeal and bacteriophage components of the chicken gut microbiome. The resulting datasets expand the known diversity of the chicken gut microbiome and provides a key resource for future high-resolution taxonomic and functional studies on the chicken gut microbiome.

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“…This suggested that our study provides the rst-evidence-in-chickens for the majority (81/125) of these species (Table S14). Examples include: Jeotgalicoccus halophilus, rst isolated from the traditional fermented seafood, Jeotgal [77]; Aliicoccus persicus, rst isolated from a hypersaline lake [78]; and Bacteroides reticulotermitis, rst isolated from the gut of a termite [79]..…”

Section: Remarkable Microbial Genome Diversity In the Chicken Gutmentioning

confidence: 99%

A Genomic Census of the Chicken Gut Microbiome using Metagenomics and Culture

Gilroy¹,

Ray²,

Getino³

et al. 2020

Preprint

View full text Add to dashboard Cite

Background. The chicken is the most abundant food animal in the world. However, despite its importance, the chicken gut microbiome remains largely undefined. Here, we exploit culture-independent and culture-dependent approaches to deliver a genomic blueprint of this complex microbial community.Results. We performed metagenomic sequencing of fifty chicken faecal samples from two breeds and analysed these, alongside all (n=582) relevant publicly available chicken metagenomes, to cluster over 20 million non-redundant genes and to construct over 5,500 metagenome-assembled bacterial genomes. In addition, we recovered nearly 600 bacteriophage genomes This represents the most comprehensive view of the chicken gut associated microbiome to date, encompassing dozens of novel candidate bacterial genera and hundreds of novel candidate species. Keen to provide a stable, clear and memorable nomenclature for novel species, we devised a scalable combinatorial system for the creation of hundreds of well-formed Latin binomials. We cultured and genome-sequenced bacterial isolates from faeces, documenting thirty novel species, together with three species from the genus Escherichia, including the newly named species Escherichia whittamii.Conclusions. Our metagenomic and culture-based analyses provide new insights into the bacterial, archaeal and bacteriophage components of the chicken gut microbiome. The resulting datasets expand the known diversity of the chicken gut microbiome and provides a key resource for future high-resolution taxonomic and functional studies on the chicken gut microbiome.

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High quality draft genome sequence of Bacteroides barnesiae type strain BL2T (DSM 18169T) from chicken caecum

Cited by 7 publications

References 36 publications

Dietary medium‐chain 1‐monoglycerides modulates the community and function of cecal microbiota of broilers

Dietary medium‐chain 1‐monoglycerides modulates the community and function of cecal microbiota of broilers

A Genomic Blueprint of the Chicken Gut Microbiome

A Genomic Census of the Chicken Gut Microbiome using Metagenomics and Culture

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