用宏基因组组装基因组解析肠道菌群与NAFLD的关系
创作:orchid 审核:兵兵 02月04日
  • 纳入96个NAFLD患者,其中NASH 54例,中重度肝纤维化 44例(F≥2);
  • 在4000个重建的宏基因组组装基因组(MAG)中,来自NASH、非NASH、F≥2和F0-1患者的分别有220、192、203和230个MAG的完整性>70%且污染<5%;
  • 这些MAG中,有28个直系同源组与NASH相关、33个与显著纤维化相关、7个与NASH和显著纤维化均相关;
  • NAFLD的严重程度与某些肠道菌群的硫化氢生成、柠檬酸盐转运、半纤维素降解、醛生成和维生素B12合成等功能有关。
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兵兵
研究采用NAFLD患者的粪便样本,基于宏基因组组装基因组方法,探究了肠道菌群在非酒精性脂肪肝病(NAFLD)发生、发展中的作用。研究结果显示,肠道内特定菌群及其所呈现的功能与非酒精性脂肪肝炎(NASH)及肝纤维化的发生有关。
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Cross‐linkage between bacterial taxonomy and gene functions: a study of metagenome‐assembled genomes of Gut Microbiota in adult non‐alcoholic fatty liver disease

细菌分类学与基因功能之间的相互联系:成人非酒精性脂肪肝病肠道菌群的宏基因组组装基因组研究

10.1111/apt.16262

01-22, Article

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Background: The reconstruction of metagenome‐assembled genomes (MAGs) has emerged as a powerful approach for combining the taxonomic and functional content of microbial populations.
Aim: To use this new approach to highlight mechanisms linking gut microbiota to NAFLD severity
Methods: Stool samples were collected from 96 NAFLD patients on the day of liver biopsy. Shotgun DNA sequencing of the gut microbiota was performed on an Illumina HiSeq3000 system. Contigs were binned into MAGs according to their co‐abundances and tetranucleotide frequencies using Metabat v.0.32.4. Predicted protein‐coding genes were clustered in orthologous groups (OGs) with DIAMOND against the EggNOG v4.5 database. Liver biopsies were read in accordance with the NASH CRN classification.
Results: Fifty‐four patients had NASH and 44 had significant fibrosis (F ≥ 2). Sequencing of DNA extracted from stools resulted in 13.8 + 3.2 million paired‐end reads per sample. Of the 4,000 reconstructed MAGs, 220 in NASH patients, 192 in non‐NASH patients, 203 in F ≥ 2 patients and 230 in F0‐1 patients had > 70% completeness and < 5% contamination. Within these MAGs, 28 OGs were associated with NASH, 33 with significant fibrosis, and seven with both NASH and significant fibrosis. The study of MAGs showed associations between NAFLD severity and some gut bacteria with microbiota functions related to hydrogen sulfide production, citrate transport, hemicellulose degradation, aldehyde production and vitamin B12 synthesis.
Conclusion: Using new metagenomics methods, our study unveils potential mechanisms by which certain bacteria from the gut microbiota could protect or contribute to the development of NASH and liver fibrosis in NAFLD.

First Authors:
Clemence M Canivet

Correspondence Authors:
Jerome Boursier

All Authors:
Clemence M Canivet,Norma David,Helene Pailhoriès,Martial Briand,Cynthia D Guy,Olivier Bouchez,Gilles Hunault,Lionel Fizanne,Adrien Lannes,Frederic Oberti,Isabelle Fouchard,Paul Calès,Anna Mae Diehl,Matthieu Barret,Jerome Boursier

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