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Front Cell Infect Microbiol. 2014 Mar 5;4:29. doi: 10.3389/fcimb.2014.00029. eCollection 2014.

Shifting the paradigm from pathogens to pathobiome: new concepts in the light of meta-omics.

Author information

1
INRA, UMR BIPAR (Enva/Anses) USC INRA Maisons-Alfort, France.
2
CIRAD, UMR CMAEE Petit-Bourg, Guadeloupe, France ; INRA, UMR 1309 CMAEE Montpellier, France ; INRA, Université de Toulouse, INP, ENVT, UMR 1225, IHAP Toulouse, France.
3
INRA, UMR CBGP (INRA/IRD/Cirad/Montpellier SupAgro) Montferrier-sur-Lez, France.
4
INRA, Institut de Recherche en Horticulture et Semences, UMR 1345 Angers, France.
5
INRA, UMR 1290, BIOGER-CPP, INRA AgroParis Tech Thiverval-Grignon, France.
6
INRA, UMR 1253 STLO Rennes, France.
7
Agrocampus Ouest, UMR 1253 STLO Rennes, France ; INRA, UMR 1333 DGIMI Montpellier, France.
8
INRA, UMR 1319, Micalis Jouy-en-Josas, France.
9
CIRAD/UMR BGPI TA A54/K Montpellier Cedex 5, France.
10
UMR 1332 Biologie du Fruit et Pathologie, INRA Villenave d'Ornon Cedex, France.
11
UMR 1332 Biologie du Fruit et Pathologie, Université de Bordeaux Villenave d'Ornon Cedex, France.

Abstract

The concept of pathogenesis has evolved considerably over recent years, and the scenario "a microbe + virulence factors = disease" is probably far from reality in a number of cases. Actual pathogens have extremely broad biological diversity and are found in all major groups of microorganisms (viruses, bacteria, fungi, protozoa…). Their pathogenicity results from strong and often highly specific interactions they have with either their microbial environment, hosts and/or arthropod vectors. In this review, we explore the contribution of metagenomic approaches toward understanding pathogens within the context of microbial communities. With this broader view, we discussed the concept of "pathobiome" and the research questions that this raises.

KEYWORDS:

interactions; microbial ecosystem; next generation sequencing

PMID:
24634890
PMCID:
PMC3942874
DOI:
10.3389/fcimb.2014.00029
[Indexed for MEDLINE]
Free PMC Article

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