Broiler Chicken Cecal Microbiome and Poultry Farming Productivity: A Meta-Analysis DOI Creative Commons
D. G. Deryabin,

Christina Lazebnik,

Ludmila Vlasenko

et al.

Microorganisms, Journal Year: 2024, Volume and Issue: 12(4), P. 747 - 747

Published: April 7, 2024

The cecal microbial community plays an important role in chicken growth and development via effective feed conversion essential metabolite production. aim of this study was to define the community’s variants chickens’ ceca explore most significant association between microbiome compositions poultry farming productivity. meta-analysis included original data from 8 control broiler groups fed with a standard basic diet 32 experimental supplemented various additives. Standard Illumina 16S-RNA gene sequencing technology used characterize microbiome. Zootechnical sets integrated European Production Effectiveness Factor (EPEF) were collected. Analysis bacterial taxa abundance co-occurrence microbiomes revealed two alternative patterns: Bacteroidota-dominated decreased alpha biodiversity; Bacillota-enriched, which Actinomycetota, Cyanobacteriota Thermodesulfobacteriota phyla members, increased biodiversity indices. Bacillota-enriched showed elevated total intake (especially due starter intake) final body weight, high EPEF values, while negatively associated results lay basis for growth-promoting supplementations, aimed at stimulation beneficial inhibition harmful patterns, where relevant metagenomic can be tool their selection.

Language: Английский

Gut bacteria alleviate smoking-related NASH by degrading gut nicotine DOI
Bo Chen, Lulu Sun,

Guangyi Zeng

et al.

Nature, Journal Year: 2022, Volume and Issue: 610(7932), P. 562 - 568

Published: Oct. 19, 2022

Language: Английский

Citations

112
Phylogenies of the 16S rRNA gene and its hypervariable regions lack concordance with core genome phylogenies DOI Creative Commons
Hayley B. Hassler,

Brett Probert,

Carson Paige Moore

et al.

Microbiome, Journal Year: 2022, Volume and Issue: 10(1)

Published: July 8, 2022

Abstract Background The 16S rRNA gene is used extensively in bacterial phylogenetics, species delineation, and now widely microbiome studies. However, the suffers from intragenomic heterogeneity, reports of recombination an unreliable phylogenetic signal are accumulating. Here, we compare core phylogenies to constructed using concatenations estimate strength for gene, its hypervariable regions, all genes at intra- inter-genus levels. Specifically, perform four intra-genus analyses ( Clostridium , n = 65; Legionella 47; Staphylococcus 36; Campylobacter 17) one analysis [41 genera human gut (31 families, 17 orders, 12 classes), 82]. Results At both taxonomic levels, was recombinant subject horizontal transfer. level, showed lowest levels concordance with genome phylogeny (50.7% average). Concordance regions lower still, entropy masking providing little no benefit. A major factor influencing SNP count, which a positive logarithmic association. Using this relationship, determined that 690 ± 110 SNPs were required 80% (average count 254). We also found wide range 16S-23S-5S operon copy number among genomes (1–27). whole markedly higher (73.8% — 10th out 49 loci); however, most concordant (V4, V3-V4, V1-V2) ranked third quartile (62.5 60.0%). Conclusions Ramifications poor performance far reaching. For example, addition incorrect species/strain delineation inference, it has potential confound community diversity metrics if information incorporated popular approaches such as Faith’s UniFrac. Our results highlight problematic nature these their use (along masking) discouraged. Lastly, strong metrics.

Language: Английский

Citations

100
Gut Parabacteroides merdae protects against cardiovascular damage by enhancing branched-chain amino acid catabolism DOI

Shanshan Qiao,

Chang Liu, Li Sun

et al.

Nature Metabolism, Journal Year: 2022, Volume and Issue: 4(10), P. 1271 - 1286

Published: Oct. 17, 2022

Language: Английский

Citations

97
Metabolite profiling of human‐originated Lachnospiraceae at the strain level DOI Creative Commons
Rashidin Abdugheni,

Wen‐Zhao Wang,

Yujing Wang

et al.

iMeta, Journal Year: 2022, Volume and Issue: 1(4)

Published: Oct. 13, 2022

Abstract The human gastrointestinal (GI) tract harbors diverse microbes, and the family Lachnospiraceae is one of most abundant widely occurring bacterial groups in GI tract. Beneficial adverse effects on host health were reported, but diversities at species/strain levels as well their metabolites have been, so far, not documented. In present study, we report collection 77 h uman‐originated L a ch nospiraceae sp ecies (please refer hLchsp, https://hgmb.nmdc.cn/subject/lachnospiraceae ) vitro metabolite profiles 110 strains ( https://hgmb.nmdc.cn/subject/lachnospiraceae/metabolites ). hLchsp produced 242 17 categories. larger categories alcohols (89), ketones (35), pyrazines (29), short (C2–C5), long (C > 5) chain acids (31), phenols (14), aldehydes other 30 compounds. Among them, 22 aromatic well‐known beneficial gut microbial metabolite, butyric acid, was generally by many strains, Agathobacter rectalis strain Lach‐101 Coprococcus comes NSJ‐173 top 2 acid producers, 331.5 310.9 mg/L vitro, respectively. Further analysis publicly available cohort‐based volatile‐metabolomic data sets feces revealed that over 30% prevailing volatile covered identified this study. This study provides resources together with metabolic for future studies host–microbe interactions developments novel probiotics or biotherapies.

Language: Английский

Citations

95
Microbial-host-isozyme analyses reveal microbial DPP4 as a potential antidiabetic target DOI
Kai Wang, Zhiwei Zhang,

Jing Hang

et al.

Science, Journal Year: 2023, Volume and Issue: 381(6657)

Published: Aug. 3, 2023

A mechanistic understanding of how microbial proteins affect the host could yield deeper insights into gut microbiota-host cross-talk. We developed an enzyme activity-screening platform to investigate microbiota-derived enzymes might influence physiology. discovered that dipeptidyl peptidase 4 (DPP4) is expressed by specific bacterial taxa microbiota. Microbial DPP4 was able decrease active glucagon like peptide-1 (GLP-1) and disrupt glucose metabolism in mice with a leaky gut. Furthermore, current drugs targeting human DPP4, including sitagliptin, had little effect on DPP4. Using high-throughput screening, we identified daurisoline-d4 (Dau-d4) as selective inhibitor improves tolerance diabetic mice.

Language: Английский

Citations

79
Gut symbionts alleviate MASH through a secondary bile acid biosynthetic pathway DOI Creative Commons
Qixing Nie, Xi Luo, Kai Wang

et al.

Cell, Journal Year: 2024, Volume and Issue: 187(11), P. 2717 - 2734.e33

Published: April 22, 2024

The gut microbiota has been found to play an important role in the progression of metabolic dysfunction-associated steatohepatitis (MASH), but mechanisms have not established. Here, by developing a click-chemistry-based enrichment strategy, we identified several microbial-derived bile acids, including previously uncharacterized 3-succinylated cholic acid (3-sucCA), which is negatively correlated with liver damage patients liver-tissue-biopsy-proven fatty disease (MAFLD). By screening human bacterial isolates, Bacteroides uniformis strains as effective producers 3-sucCA both vitro and vivo. activity-based protein purification identification, enzyme annotated β-lactamase B. responsible for biosynthesis. Furthermore, that lumen-restricted metabolite alleviates MASH promoting growth Akkermansia muciniphila. Together, our data offer new insights into microbiota-liver axis may be leveraged augment management MASH.

Language: Английский

Citations

76
Gut commensal Christensenella minuta modulates host metabolism via acylated secondary bile acids DOI
Chang Liu,

Meng‐Xuan Du,

Lisheng Xie

et al.

Nature Microbiology, Journal Year: 2024, Volume and Issue: 9(2), P. 434 - 450

Published: Jan. 17, 2024

Language: Английский

Citations

34
Lachnospiraceae are emerging industrial biocatalysts and biotherapeutics DOI Creative Commons
Tom Zaplana, Solange Miele, Andrew C. Tolonen

et al.

Frontiers in Bioengineering and Biotechnology, Journal Year: 2024, Volume and Issue: 11

Published: Jan. 4, 2024

The

Language: Английский

Citations

23
Selective utilization of medicinal polysaccharides by human gut Bacteroides and Parabacteroides species DOI Creative Commons
Zepeng Qu, Hongbin Liu,

Yang Ji

et al.

Nature Communications, Journal Year: 2025, Volume and Issue: 16(1)

Published: Jan. 14, 2025

Human gut Bacteroides and Parabacteroides species play crucial roles in human health are known for their capacity to utilize diverse polysaccharides. Understanding how these bacteria medicinal polysaccharides is foundational developing polysaccharides-based prebiotics drugs. Here, we systematically mapped the utilization profiles of 20 different by 28 species. The growth exhibited substantial variation across bacterial Ginseng promoted multiple species; contrast, Dendrobium selectively uniformis. This distinct profile was associated with genomic carbohydrate-active enzymes, rather than monosaccharides composition among Through comparative transcriptomics genetical manipulation, validated that polysaccharide locus PUL34_Bu enabled uniformis (i.e. glucomannan). In addition, found GH26 enzyme allowed plant-derived mannan. Overall, our results revealed selective provided insights into use engineering microbiome. authors characterize species, revealing variability responses, which they link differences enzymes.

Language: Английский

Citations

4
Characterization and description of Faecalibacterium butyricigenerans sp. nov. and F. longum sp. nov., isolated from human faeces DOI Creative Commons
Yuanqiang Zou, Xiaoqian Lin,

Wenbin Xue

et al.

Scientific Reports, Journal Year: 2021, Volume and Issue: 11(1)

Published: May 31, 2021

Exploiting a pure culture strategy to investigate the composition of human gut microbiota, two novel anaerobes, designated strains AF52-21T and CM04-06T, were isolated from faeces healthy Chinese donors characterized using polyphasic approach. The observed be gram-negative, non-motile, rod-shaped. Both grew optimally at 37 °C pH 7.0. Phylogenetic analysis based on 16S rRNA gene sequences revealed that clustered with species genus Faecalibacterium most closely related prausnitzii ATCC 27768T sequence similarity 97.18% 96.87%, respectively. isolates shared identity 98.69%. Draft genome sequencing was performed for generating sizes 2.85 Mbp 3.01 Mbp. calculated average nucleotide values between genomes CM04-06T compared 83.20% 82.54%, respectively, 90.09% when comparing CM04-06T. below previously proposed threshold (95-96%), supporting their recognition as in Faecalibacterium. genomic DNA G + C contents 57.77 mol% 57.51 mol%, Based phenotypic, chemotaxonomic phylogenetic characteristics, we conclude both represent new species, which names butyricigenerans sp. nov. (type strain = CGMCC 1.5206T DSM 103434T) longum 1.5208T 103432T) are proposed.

Language: Английский

Citations

62