{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,18]],"date-time":"2026-08-18T00:44:45Z","timestamp":1787013885621,"version":"build-2736575974"},"reference-count":70,"publisher":"Wiley","issue":"6","license":[{"start":{"date-parts":[[2021,1,22]],"date-time":"2021-01-22T00:00:00Z","timestamp":1611273600000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/onlinelibrary.wiley.com\/termsAndConditions#vor"}],"content-domain":{"domain":["onlinelibrary.wiley.com"],"crossmark-restriction":true},"short-container-title":["Aliment Pharmacol Ther"],"published-print":{"date-parts":[[2021,3]]},"abstract":"<jats:title>Summary<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Background<\/jats:title>\n                    <jats:p>The reconstruction of metagenome\u2010assembled genomes (MAGs) has emerged as a powerful approach for combining the taxonomic and functional content of microbial populations.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Aim<\/jats:title>\n                    <jats:p>To use this new approach to highlight mechanisms linking gut microbiota to NAFLD severity<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Methods<\/jats:title>\n                    <jats:p>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\u2010abundances and tetranucleotide frequencies using Metabat v.0.32.4. Predicted protein\u2010coding 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.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Results<\/jats:title>\n                    <jats:p>Fifty\u2010four patients had NASH and 44 had significant fibrosis (F\u00a0\u2265\u00a02). Sequencing of DNA extracted from stools resulted in 13.8\u00a0+\u00a03.2 million paired\u2010end reads per sample. Of the 4,000 reconstructed MAGs, 220 in NASH patients, 192 in non\u2010NASH patients, 203 in F\u00a0\u2265\u00a02 patients and 230 in F0\u20101 patients had\u00a0&gt;\u00a070% completeness and\u00a0&lt;\u00a05% 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.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Conclusion<\/jats:title>\n                    <jats:p>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.<\/jats:p>\n                  <\/jats:sec>","DOI":"10.1111\/apt.16262","type":"journal-article","created":{"date-parts":[[2023,9,2]],"date-time":"2023-09-02T16:57:16Z","timestamp":1693673836000},"page":"722-732","update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":10,"title":["Cross\u2010linkage between bacterial taxonomy and gene 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