High-throughput identification and diagnostics of pathogens and pests: Overview and practical recommendations.
community ecology
crop disease
forest pathology
high-throughput sequencing
metabarcoding
metagenomics
molecular diagnostics
plant pathogens
sentinel plantations
Journal
Molecular ecology resources
ISSN: 1755-0998
Titre abrégé: Mol Ecol Resour
Pays: England
ID NLM: 101465604
Informations de publication
Date de publication:
Jan 2019
Jan 2019
Historique:
received:
19
03
2018
revised:
01
08
2018
accepted:
28
08
2018
pubmed:
26
10
2018
medline:
6
3
2019
entrez:
26
10
2018
Statut:
ppublish
Résumé
High-throughput identification technologies provide efficient tools for understanding the ecology and functioning of microorganisms. Yet, these methods have been only rarely used for monitoring and testing ecological hypotheses in plant pathogens and pests in spite of their immense importance in agriculture, forestry and plant community dynamics. The main objectives of this manuscript are the following: (a) to provide a comprehensive overview about the state-of-the-art high-throughput quantification and molecular identification methods used to address population dynamics, community ecology and host associations of microorganisms, with a specific focus on antagonists such as pathogens, viruses and pests; (b) to compile available information and provide recommendations about specific protocols and workable primers for bacteria, fungi, oomycetes and insect pests; and (c) to provide examples of novel methods used in other microbiological disciplines that are of great potential use for testing specific biological hypotheses related to pathology. Finally, we evaluate the overall perspectives of the state-of-the-art and still evolving methods for diagnostics and population- and community-level ecological research of pathogens and pests.
Identifiants
pubmed: 30358140
doi: 10.1111/1755-0998.12959
pmc: PMC7379260
doi:
Types de publication
Journal Article
Review
Langues
eng
Sous-ensembles de citation
IM
Pagination
47-76Subventions
Organisme : Estonian Science Foundation
ID : FP1401
Organisme : Swedish Research Council
Informations de copyright
© 2018 The Authors. Molecular Ecology Resources Published by John Wiley & Sons Ltd.
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