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 308394
Title Extraction of ribosomal RNA and genomic DNA from soil for studying the diversity of the indigenous bacterial community
Author(s) Duarte, G.F.; Rosado, A.S.; Keijzer-Wolters, A.C.; Elsas, J.D. van
Source Journal of Microbiological Methods 32 (1998)1. - ISSN 0167-7012 - p. 21 - 29.
DOI https://doi.org/10.1016/S0167-7012(98)00004-9
Department(s) Research Institute for Plant Protection
Publication type Refereed Article in a scientific journal
Publication year 1998
Abstract A method for the indirect (cell extraction followed by nucleic acid extraction) isolation of bacterial ribosomal RNA (rRNA) and genomic DNA from soil was developed. The protocol allowed for the rapid parallel extraction of genomic DNA as well as small and large ribosomal subunit RNA from four soils of different texture. DNA and rRNA yields from these soils were 15-30 and 0.25-1.0 μg g-1 soil, respectively. Following different purification steps, the rRNA as well as genomic DNA extracts obtained were sufficiently pure for either reverse transcription and polymerase chain reaction (PCR) amplification, or direct PCR amplification. Using a set of universal bacterial primers based on conserved regions of the 16S rRNA sequence, both approaches yielded mixed target molecules for subsequent denaturing gradient gel electrophoresis fingerprinting of soil microbial diversity. The amplified rRNA-based bacterial diversity assessment was compared with diversity assessments based on amplified DNA in one selected soil. Results showed similarities as well as differences between the profiles generated on the basis of rRNA and those based on genomic DNA, which suggested that the bacterial communities defined on the basis of their genomic DNA contained variable amounts of rRNA. Copyright (C) 1998 Elsevier Science B.V.
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