RRC ID 15518
著者 Hjort K, Lembke A, Speksnijder A, Smalla K, Jansson JK.
タイトル Community structure of actively growing bacterial populations in plant pathogen suppressive soil.
ジャーナル Microb Ecol
Abstract The bacterial community in soil was screened by using various molecular approaches for bacterial populations that were activated upon addition of different supplements. Plasmodiophora brassicae spores, chitin, sodium acetate, and cabbage plants were added to activate specific bacterial populations as an aid in screening for novel antagonists to plant pathogens. DNA from growing bacteria was specifically extracted from the soil by bromodeoxyuridine immunocapture. The captured DNA was fingerprinted by terminal restriction fragment length polymorphism (T-RFLP). The composition of the dominant bacterial community was also analyzed directly by T-RFLP and by denaturing gradient gel electrophoresis (DGGE). After chitin addition to the soil, some bacterial populations increased dramatically and became dominant both in the total and in the actively growing community. Some of the emerging bands on DGGE gels from chitin-amended soil were sequenced and found to be similar to known chitin-degrading genera such as Oerskovia, Kitasatospora, and Streptomyces species. Some of these sequences could be matched to specific terminal restriction fragments on the T-RFLP output. After addition of Plasmodiophora spores, an increase in specific Pseudomonads could be observed with Pseudomonas-specific primers for DGGE. These results demonstrate the utility of microbiomics, or a combination of molecular approaches, for investigating the composition of complex microbial communities in soil.
巻・号 53(3)
ページ 399-413
公開日 2007-4-1
DOI 10.1007/s00248-006-9120-2
PMID 16944345
MeSH Bacteria / genetics Bacteria / growth & development* Base Sequence Biodiversity Brassica Bromodeoxyuridine / analysis Bromodeoxyuridine / metabolism Chitin / metabolism Chitin / pharmacology Cluster Analysis Ecosystem* Electrophoresis, Agar Gel / methods Fungi / drug effects Fungi / pathogenicity Fungi / physiology* Molecular Sequence Data Plant Diseases / microbiology* Plant Roots / microbiology Polymorphism, Restriction Fragment Length Pseudomonas / drug effects Pseudomonas / growth & development RNA, Ribosomal, 16S / genetics Sodium Acetate / pharmacology Soil Microbiology* Spores, Fungal
IF 3.356
引用数 47
WOS 分野 MARINE & FRESHWATER BIOLOGY ECOLOGY MICROBIOLOGY
リソース情報
一般微生物 JCM 3001 JCM 3230