Intestinibaculum porci gen. nov., sp. nov., a new member of the family Erysipelotrichaceae isolated from the small intestine of a swine

Kim, Ji Sun; Choe, Hanna; Lee, Yu Ri; Kim, Kyung Mo; Park, Doo-Sang

doi:10.1007/s12275-019-8631-8

Cited by 15 publications

(13 citation statements)

References 39 publications

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“…The elevated relative abundance of M. elsdenii (a lactate utilizer [42]) in the LMY sheep re ects its enrichment in the rumen of LMY sheep, as reported by Kamke J,et al [8]. In addition, our result showed that I. porci, which is a lactate producer recently isolated from the intestine of swine [43], was substantially more predominant in the LMY sheep than in the HMY sheep (21.5% vs. 1.5%). Kamke J, et al [8] reported that the LMY rumen was highly enriched with Sharpea azabuensis, which was initially isolated from the feces of thoroughbred horses and produced lactate [44].…”

Section: Discussionsupporting

confidence: 86%

“…S. azabuensis and I. porci are within the same order (Erysipelotrichales), and they share 91% similarity in their 16S rRNA gene sequences [43]. They also share the major fermentation product, lactic acid [43,44]. Thus, even though the study presented here did not identify any MAGs (> 70% complete) that could be assigned to S. azabuensis, the enrichment of lactateproducing bacteria of the Erysipelotrichales in the rumen of the LMY sheep was consistent in both studies.…”

Section: Discussionsupporting

confidence: 65%

“…The classi cation based on 16S rRNA gene sequences vs. MAGs might also be a reason for the discrepancy. S. azabuensis and I. porci are within the same order (Erysipelotrichales), and they share 91% similarity in their 16S rRNA gene sequences [43]. They also share the major fermentation product, lactic acid [43,44].…”

Section: Discussionmentioning

confidence: 99%

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Metagenome-Predicted Growth Rate And Metatranscriptomic Analysis Reveal A Slow Growth Rate Of And High Butyrate Formation By Faecalibacterium Prausnitzii In The Rumen Of Low Methane-Emitting Sheep

Zhang

Lin

2022

Preprint

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Background: Methane emissions from ruminants contribute to global warming and lead to energy loss from the ingested feed. Reducing methane emissions while increasing feed efficiency is one of the most important challenges facing the livestock industry. Previous studies have reported differences in lactate-metabolizing bacteria in the rumen between low-methane yield (LMY) and high-methane yield (HMY) sheep. It was hypothesized that methane emissions might also be related to the growth of certain bacteria. The objective of this study was to investigate the correlation between the growth and metabolism of rumen bacteria and methane emissions in sheep.Results: The growth rates of 21 species-level and 12 genera-level rumen bacterial populations were predicted based on the peak-to-trough ratio of their metagenomic sequences that were generated from two groups of sheep differing in methane yield (LMY vs. HMY). The growth rate of Faecalibacterium prausnitzii was found to be significantly different between the LMY sheep and the HMY sheep. The relative abundance of F. prausnitzii was significantly lower in the LMY sheep than the HMY sheep, whereas the relative abundance of Intestinibaculum porci and Megasphaera elsdenii was significantly higher in the LMY sheep than the HMY sheep. Metatranscriptomic analysis showed that in the LMY sheep the expression of energy-related genes of F. prausnitzii, including those involved in butyrate production, was significantly upregulated compared to the HMY sheep. Conclusions: The current study revealed a negative association between the growth rate of F. prausnitzii in the rumen and methane yield in sheep and between the growth rate of F. prausnitzii and the expression of its genes involved in energy metabolism including butyrate production. Our result also showed enrichment of lactate-producing bacteria (i.e., I. porci) and lactate-utilizing bacteria (i.e., M. elsdenii) in the LMY sheep. Together with the reported metabolic response of F. prausnitzii to lactic acid bacteria, our study corroborates the association between lactate-metabolizing bacteria and methane emissions via promoting butyrate production. M. elsdenii, I. porci, and F. prausnitzii may serve as biomarkers of methane yield from sheep, and possibly other ruminants.

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Section: Discussionsupporting

confidence: 86%

Section: Discussionsupporting

confidence: 65%

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Metagenome-Predicted Growth Rate And Metatranscriptomic Analysis Reveal A Slow Growth Rate Of And High Butyrate Formation By Faecalibacterium Prausnitzii In The Rumen Of Low Methane-Emitting Sheep

Zhang

Lin

2022

Preprint

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“…However, little information has been known about the functional capacities of Erysipelotrichaceae strains metabolizing carbohydrates. Although several strains of Erysipelotrichaceae have been isolated from the feces, oral cavity, and gastrointestinal tract of mammals [ 21 ], most of the members from Erysipelotrichaceae have not been cultured, and their genomic and functional information have not yet been elucidated [ 16 ].…”

Section: Introductionmentioning

confidence: 99%

Isolation and genomic characterization of five novel strains of Erysipelotrichaceae from commercial pigs

Liu

Zhou

et al. 2021

BMC Microbiol

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Background Members of the Erysipelotrichaceae family have a high abundance in the intestinal tract of mammals, and have been reported to be associated with host metabolic disorders and inflammatory diseases. In our previous study, we found that the abundance of Erysipelotrichaceae strains in the cecum was associated with the concentration of N-acetylgalactosamine (GalNAc). However, only a few members of Erysipelotrichaceae have been isolated and cultured, and their main characteristics, genomic information and the functional capacity of carbohydrate metabolism remain unknown. Results In this study, we tested 10 different kinds of commercially available media and successfully isolated five Erysipelotrichaceae strains from healthy porcine feces. The five isolates were Gram-positive, and their colonies on Gifu anaerobic medium (GAM) or modified GAM were approximately 0.25–1.0 mm in diameter, and they were circular, white, convex, moist, translucent, and contained colony margins. These isolates were subjected to Oxford Nanopore and Illumina whole-genome sequencing, genome assembly, and annotation. Based on whole-genome sequences, the five strains belong to Erysipelotrichaceae bacterium OH741_COT-311, Eubacterium sp. AM28–29, and Faecalitalea cylindroides. The GC content of the five strains ranged from 34.1 to 37.37%. Functional annotation based on the Kyoto encyclopedia of genes and genomes pathways revealed tens to hundreds of strain-specific proteins among different strains, and even between the strains showing high 16S rRNA gene sequence identity. Prediction analysis of carbohydrate metabolism revealed different capacities for metabolizing carbohydrate substrates among Erysipelotrichaceae strains. We identified that genes related to the GalNAc metabolism pathway were enriched in the genomes of all five isolates and 16 Erysipelotrichaceae strains downloaded from GenBank, suggesting the importance of GalNAc metabolism in Erysipelotrichaceae strains. Polysaccharide utilization loci (PUL) analysis revealed that the strains of Erysipelotrichaceae may have the ability to utilize plant polysaccharides. Conclusions The present study not only reports the successful isolation of novel Erysipelotrichaceae strains that enrich the cultured strains of Erysipelotrichaceae, but also provided the genome information of Erysipelotrichaceae strains for further studying the function roles of Erysipelotrichaceae in host phenotypes.

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“…The family Erysipelotrichaceae, proposed by Verbarg et al [1], now comprises 25 genera (https://lpsn.dsmz.de/family/erysipelotrichaceae). The species listed in the family Erysipelotrichaceae are generally characterized to be Gram-stain-variable, non-sporeforming, rod-shaped, straight or slightly curved, or irregularly shaped, facultatively anaerobic, anaerobic or microaerophilic, and catalase-negative [2][3][4][5][6][7][8][9][10][11][12][13][14]. Most of the species in the family Erysipelotrichaceae can be isolated from human and animal intestine, such as canine faeces [2,3], pig intestine [4][5][6], murine intestine [7][8][9], chicken caecum [10] and human excrement [11][12][13][14].…”

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confidence: 99%

Copranaerobaculum intestinale gen. nov., sp. nov., a novel anaerobic bacterium isolated from human faeces

Feng

Chang

et al. 2022

International Journal of Systematic and Evolutionary Microbiology

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A novel obligate anaerobic organism, designated DONG20-135T, was isolated from human faeces collected in Beijing, PR China. Cells were Gram-stain-negative, rod-shaped, non-motile and non-spore-forming. Growth occurred at 25‒45 °C (optimum, 30‒35 °C), a pH range of 6–9 (optimum, pH 8) and in the presence of 0‒3.5 % (w/v) NaCl (optimum, 0.5‒1.5 %). The major fatty acids were C16 : 0, C18 : 1 ω9c and C10 : 0, the polar lipid profile consisted of diphosphatidylglycerol, phosphatidylglycerol, four glycolipids, six aminolipids, three aminophospholipids and four unidentified lipids. No respiratory quinones were detected. The cell-wall peptidoglycan of the strain was A1γ type, containing meso-diaminopimelic acid. The 16S rRNA gene sequences shared a lower identity (<92.7 % similarity) with the described species. The phylogenetic tree based on 16S rRNA gene sequences and the protein-concatamer tree showed that strain DONG20-135T formed a distinct lineage within the family Erysipelotrichaceae . The genomic DNA G + C content was 42.2 mol%. Based on the results of phenotypic, chemotaxonomic and genomic analyses, strain DONG20-135T represents a novel genus of the family Erysipelotrichaceae , for which the name Copranaerobaculum intestinale gen. nov., sp. nov. is proposed (=KCTC 15868T=CGMCC 1.17357T).

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Intestinibaculum porci gen. nov., sp. nov., a new member of the family Erysipelotrichaceae isolated from the small intestine of a swine

Cited by 15 publications

References 39 publications

Metagenome-Predicted Growth Rate And Metatranscriptomic Analysis Reveal A Slow Growth Rate Of And High Butyrate Formation By Faecalibacterium Prausnitzii In The Rumen Of Low Methane-Emitting Sheep

Metagenome-Predicted Growth Rate And Metatranscriptomic Analysis Reveal A Slow Growth Rate Of And High Butyrate Formation By Faecalibacterium Prausnitzii In The Rumen Of Low Methane-Emitting Sheep

Isolation and genomic characterization of five novel strains of Erysipelotrichaceae from commercial pigs

Copranaerobaculum intestinale gen. nov., sp. nov., a novel anaerobic bacterium isolated from human faeces

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