Staff Publications

Staff Publications

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    'Staff publications' is the digital repository of Wageningen University & Research

    'Staff publications' contains references to publications authored by Wageningen University staff from 1976 onward.

    Publications authored by the staff of the Research Institutes are available from 1995 onwards.

    Full text documents are added when available. The database is updated daily and currently holds about 240,000 items, of which 72,000 in open access.

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Record number 358562
Title Community structure of actively growing bacterial populations in plant pathogen suppressive soil
Author(s) Hjort, K.; Lembke, A.; Speksnijder, A.G.C.L.; Smalla, K.; Jansson, J.K.
Source Microbial Ecology 53 (2007)3. - ISSN 0095-3628 - p. 399 - 413.
DOI https://doi.org/10.1007/s00248-006-9120-2
Department(s) Biointeracties and Plant Health
Publication type Refereed Article in a scientific journal
Publication year 2007
Keyword(s) gradient gel-electrophoresis - 16s ribosomal-rna - bromodeoxyuridine immunocapture - plasmodiophora-brassicae - molecular-cloning - microbial ecology - chitinase gene - fungi - identification - amplification
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
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