Evaluation of the denaturing gradient gel electrophoresis-apparatus as a parameter influencing soil microbial community fingerprinting

0349793 - BC 2011 RIV NL eng J - Journal Article
Ascher, J. - Ceccherini, M.T. - Chroňáková, Alica - Jirout, Jiří - Borgogni, F. - Elhottová, Dana - Šimek, Miloslav - Pietramellara, G.
Evaluation of the denaturing gradient gel electrophoresis-apparatus as a parameter influencing soil microbial community fingerprinting.
World Journal of Microbiology and Biotechnology. Roč. 26, č. 9 (2010), s. 1721-1726. ISSN 0959-3993. E-ISSN 1573-0972
R&D Projects: GA MŠMT LC06066; GA AV ČR IAA600660605
Institutional research plan: CEZ:AV0Z60660521
Keywords : cattle impact * DGGE * DGGE interfering factors
Subject RIV: EH - Ecology, Behaviour
Impact factor: 1.214, year: 2010

We compared two denaturing gradient gel electrophoresis (DGGE) systems-DCode (Biorad, Hercules, CA, USA) and PhorU (Ingeny, Leiden, NL), performing community level 16S and 18S rRNA gene fragment-PCR-DGGE with total DNA extracted from upland pasture soil used for outdoor cattle husbandry. The methodological evaluation of the DGGE apparatus as parameter influencing DGGE fingerprinting, based on cluster analysis of soil bacterial and fungal community fingerprints, was made in terms of the resulting information about microbial community structures and their response to different degrees of cattle impact. Although the comparative DGGE analysis with different DGGE systems provided similar clustering of microbial community structures in correlation with the degree of cattle impact, our results suggest the DGGE system to be a factor influencing DGGE analysis.
Permanent Link: http://hdl.handle.net/11104/0189942