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Exploration of fecal microbiota in newly diagnosed patients with inflammatory bowel disease using shotgun metagenomics

Fecha de publicación: Fecha Ahead of Print:

Autores de IIS La Fe

Participantes ajenos a IIS La Fe

  • Orejudo, M
  • Gómez, MJ
  • Riestra, S
  • Rivero, M
  • Gutiérrez, A
  • Rodríguez-Lago, I
  • Fernández-Salazar, L
  • Ceballos, D
  • Benítez, JM
  • Aguas, M
  • Bastón-Rey, I
  • Bermejo, F
  • Casanova, MJ
  • Lorente-Poyatos, RH
  • Ber, Y
  • Ginard, D
  • Esteve, M
  • de Francisco, R
  • García, MJ
  • Francés, R
  • Rodríguez, A
  • Suárez, NA
  • del Río, EG
  • Soto, P
  • Acosta, MBD
  • Guerra, I
  • Cruz, DH
  • Cajal, MD
  • Royo, V
  • Aceituno, M
  • Aldars-García, L
  • Garre, A
  • Ramírez, C
  • Soleto, I
  • Schuppe-Koistinen, I
  • Engstrand, L
  • Baldán-Martín, M
  • Sánchez-Cabo, F
  • Gisbert, JP
  • Chaparro, M

Grupos

Abstract

Introduction Dysbiosis is a key mechanism in inflammatory bowel disease (IBD) pathophysiology. Previous microbiota studies in IBD generally have involved patients treated with immunosuppressive agents, which can affect the results. We aimed to elucidate the fecal microbiota composition in newly diagnosed treatment-na & iuml;ve IBD patients.Methods Microbiota from stool samples were investigated using shotgun metagenomics sequencing and subsequent bioinformatics analysis.Results A total of 103 patients with Crohn's disease (CD), 144 with ulcerative colitis (UC), and 49 healthy controls (HC) were included. CD patients had significantly lower species-level diversity than those with UC and HC. CD subgroups with Ileocolonic location and stricturing behavior showed reduced diversity compared to HC. A negative correlation was observed between endoscopic severity and microbial diversity in CD patients. UC patients had similar microbial diversity to HC, which was unaffected by disease activity. Taxonomic abundance analysis revealed a tendency towards a higher relative abundance of Escherichia coli and a lower relative abundance of Faecalibacterium prausnitzii in IBD patients compared to HC. However, the most significant differences in these patients compared to HC were observed in less abundant species, such as Toxoplasma gondii, Gemella morbillorum, and several species of the Adlercreutzia genera. Functional analysis in these patients highlighted changes in carbohydrate and nucleotide pathways.Discussion Our data suggest that newly diagnosed CD patients show significant microbiota composition disparities compared to UC patients and HC. Microbiota differences in these patients are linked to dysbiosis, characterized by a reduction in beneficial genera such as Gemella and Adlercreutzia, and a rise in pathogenic species.

Copyright © 2025 Orejudo, Gómez, Riestra, Rivero, Gutiérrez, Rodríguez-Lago, Fernández-Salazar, Ceballos, Benítez, Aguas, Bastón-Rey, Bermejo, Casanova, Lorente-Poyatos, Ber, Ginard, Esteve, de Francisco, García, Francés, Rodríguez, Alcaide Suárez, Guerra del Río, Soto, Nos, Barreiro-de Acosta, Guerra, Hervías Cruz, Domínguez Cajal, Royo, Aceituno, Aldars-García, Garre, Ramírez, Soleto, Schuppe-Koistinen, Engstrand, Baldán-Martín, Sánchez-Cabo, Gisbert and Chaparro.

Datos de la publicación

ISSN/ISSNe:
2235-2988, 2235-2988

Frontiers in Cellular and Infection Microbiology  FRONTIERS MEDIA SA

Tipo:
Article
Páginas:
1595884-1595884
PubMed:
40667420
Factor de Impacto:
1,389 SCImago ℠
Cuartil:
Q1 SCImago ℠

Citas Recibidas en Web of Science: 4

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Keywords

  • inflammatory bowel disease; Crohn's disease; ulcerative colitis; microbiota; metagenomics; shotgun

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