Transcriptomic analysis reveals specific metabolic pathways of enterohemorrhagic Escherichia coli O157:H7 in bovine digestive contents

Autor: Evelyne Forano, Audrey Segura, Olivier Bouchez, Pauline Auffret, Alexandra Durand, Christophe Klopp, Marine Bertoni, Yolande Bertin, Clémence Genthon
Přispěvatelé: Microbiologie Environnement Digestif Santé (MEDIS), INRA Clermont-Ferrand-Theix-Université Clermont Auvergne [2017-2020] (UCA [2017-2020]), Unité de Mathématiques et Informatique Appliquées de Toulouse (MIAT INRA), Institut National de la Recherche Agronomique (INRA), Génome et Transcriptome - Plateforme Génomique (GeT-PlaGe), Institut National de la Recherche Agronomique (INRA)-Plateforme Génome & Transcriptome (GET), Génopole Toulouse Midi-Pyrénées [Auzeville] (GENOTOUL), Institut National des Sciences Appliquées - Toulouse (INSA Toulouse), Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Ecole Nationale Vétérinaire de Toulouse (ENVT), Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut National des Sciences Appliquées - Toulouse (INSA Toulouse), Université Fédérale Toulouse Midi-Pyrénées-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Génopole Toulouse Midi-Pyrénées [Auzeville] (GENOTOUL), Université Fédérale Toulouse Midi-Pyrénées-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), INRA, INRA-Region Auvergne PhD fellowship 23000731, France Genomique National infrastructure ANR-10-INBS-09, Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université Toulouse III - Paul Sabatier (UT3), Institut National de la Recherche Agronomique (INRA)-Université Clermont Auvergne [2017-2020] (UCA [2017-2020]), Université de Toulouse (UT)-Université de Toulouse (UT)-Ecole Nationale Vétérinaire de Toulouse (ENVT), Université de Toulouse (UT)-Université de Toulouse (UT)-Institut National Polytechnique (Toulouse) (Toulouse INP), Université de Toulouse (UT)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université Toulouse III - Paul Sabatier (UT3), Université de Toulouse (UT)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Génopole Toulouse Midi-Pyrénées [Auzeville] (GENOTOUL), Université de Toulouse (UT)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)
Jazyk: angličtina
Rok vydání: 2018
Předmět:
0301 basic medicine
bovin
[SDV]Life Sciences [q-bio]
medicine.disease_cause
Bovine gastrointestinal tract
Ethanolamine
[MATH]Mathematics [math]
2. Zero hunger
Maltose transport
EHEC O157:H7
biology
RNA-seq
bovine gastrointestinal tract
metabolism
carbon sources
mucus-derived carbohydrates
ethanolamine
respiration
Respiration
H7 [EHEC O157]
medicine.anatomical_structure
Fucose transport
escherichia coli
Metabolic Networks and Pathways
Research Article
Biotechnology
lcsh:QH426-470
lcsh:Biotechnology
Cattle Diseases
Escherichia coli O157
Microbiology
03 medical and health sciences
Rumen
lcsh:TP248.13-248.65
Genetics
medicine
Animals
[INFO]Computer Science [cs]
Escherichia coli
tractus gastrointestinal
[SDV.GEN]Life Sciences [q-bio]/Genetics
Microbial Viability
Carbon sources
Gene Expression Profiling
transcriptomique
éthanolamine
Gene Expression Regulation
Bacterial
Metabolism
biology.organism_classification
Small intestine
Gastrointestinal Tract
lcsh:Genetics
Metabolic pathway
[SDV.GEN.GA]Life Sciences [q-bio]/Genetics/Animal genetics
030104 developmental biology
Hemolytic-Uremic Syndrome
Cattle
Mucus-derived carbohydrates
Energy Metabolism
Transcriptome
Bacteria
Zdroj: BMC Genomics
BMC Genomics, BioMed Central, 2018, 19 (1), ⟨10.1186/s12864-018-5167-y⟩
BMC Genomics 1 (19), . (2018)
BMC Genomics, 2018, 19 (1), ⟨10.1186/s12864-018-5167-y⟩
Bmc Genomics (1471-2164) (Bmc), 2018-10, Vol. 19, N. 1, P. 766 (19p.)
BMC Genomics, Vol 19, Iss 1, Pp 1-19 (2018)
ISSN: 1471-2164
DOI: 10.1186/s12864-018-5167-y⟩
Popis: Background The cattle gastrointestinal tract (GIT) is the main enterohemorrhagic Escherichia coli (EHEC) reservoir. In order to identify nutrients required for the survival or multiplication of EHEC in the bovine GIT, we compared the transcriptomes of the EHEC O157:H7 reference strain EDL933 cultured in vitro in bovine digestive contents (DCs) (rumen, small intestine and rectum) using RNA-sequencing. Results Gene expression profiles showed that EHEC EDL933 activated common but also specific metabolic pathways to survive in the different bovine DCs. Mucus-derived carbohydrates seem important in EHEC nutrition in posterior DCs (small intestine and rectum) but not in rumen content. Additional carbohydrates (xylose, ribose, mannitol, galactitol) as well as gluconeogenic substrates (aspartate, serine, glycerol) would also be used by EHEC as carbon and/or nitrogen sources all along the bovine GIT including the rumen. However, xylose, GalNac, ribose and fucose transport and/or assimilation encoding genes were over-expressed during incubation in rectum content compared with rumen and intestine contents, and genes coding for maltose transport were only induced in rectum. This suggests a role for these carbohydrates in the colonization of the cattle rectum, considered as the major site for EHEC multiplication. In contrast, the transcription of the genes associated with the assimilation of ethanolamine, an important nitrogen source for EHEC, was poorly induced in EHEC growing in rectum content, suggesting that ethanolamine is mainly assimilated in the cattle rumen and small intestine. Respiratory flexibility would also be required for EHEC survival because of the redundancy of dehydrogenases and reductases simultaneously induced in the bovine DCs, probably in response to the availability of electron donors and acceptors. Conclusion EHEC EDL933 showed a high flexibility in the activation of genes involved in respiratory pathways and assimilation of carbon and nitrogen sources, most of them from animal origin. This may allow the bacterium to adapt and survive in the various bovine GIT compartments. Obtaining a better understanding of EHEC physiology in bovine GIT is a key step to ultimately propose strategies to limit EHEC carriage and shedding by cattle. Electronic supplementary material The online version of this article (10.1186/s12864-018-5167-y) contains supplementary material, which is available to authorized users.
Databáze: OpenAIRE
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