Open AccessEffect of DNA Extraction Method on the Apparent Microbial Diversity of Soil
Author(s) -
Oezguel Inceoglu,
Eelco Frans Hoogwout,
Patrick Hill,
Jan Dirk van Elsas
Publication year - 2010
Publication title -
applied and environmental microbiology
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.552
H-Index - 324
eISSN - 1070-6291
pISSN - 0099-2240
DOI - 10.1128/aem.02715-09
Subject(s) - dna extraction , extraction (chemistry) , soil microbiology , dna , diversity (politics) , biology , microorganism , soil bacteria , environmental science , soil water , environmental chemistry , biological system , computational biology , chemistry , bacteria , genetics , ecology , chromatography , polymerase chain reaction , gene , sociology , anthropology
Four extraction methods, including a novel one, were compared for their efficiencies in producing DNA from three contrasting agricultural soils. Molecular analyses (PCR-denaturing gradient gel electrophoresis [DGGE] and clone libraries) focusing on different microbial groups were used as assessment criteria. Per soil, the DNA yields differed between extraction methods. Clear effects of method on apparent richness and community structure were found. Actinobacterial diversity based on soil DNA produced by two divergent methods revealed that a hitherto-undescribed group was obtained by the novel method.