Matrix-Assisted Laser Desorption Ionization (MALDI)-Time of Flight Mass Spectrometry- and MALDI Biotyper-Based Identification of Cultured Biphenyl-Metabolizing Bacteria from Contaminated Horseradish Rhizosphere Soil

0368927 - ÚOCHB 2012 RIV US eng J - Journal Article
Uhlík, Ondřej - Strejček, M. - Junková, P. - Šanda, Miloslav - Hroudová, Miluše - Vlček, Čestmír - Macková, Martina - Macek, Tomáš
Matrix-Assisted Laser Desorption Ionization (MALDI)-Time of Flight Mass Spectrometry- and MALDI Biotyper-Based Identification of Cultured Biphenyl-Metabolizing Bacteria from Contaminated Horseradish Rhizosphere Soil.
Applied and Environmental Microbiology. Roč. 77, č. 19 (2011), s. 6858-6866. ISSN 0099-2240. E-ISSN 1098-5336
Grant - others:GA MŠk(CZ) ME09024; GA ČR(CZ) GA525/09/1058; GA MŠk(CZ) 2B06156
Program: GA; 2B
Institutional research plan: CEZ:AV0Z40550506; CEZ:AV0Z50520514
Keywords : MALDI-TOF MS * bioremediation * MALDI Biotyper * bacterial identification
Subject RIV: CC - Organic Chemistry
Impact factor: 3.829, year: 2011

Bacteria that are able to utilize biphenyl as a sole source of carbon were extracted and isolated from polychlorinated biphenyl (PCB)-contaminated soil vegetated by horseradish. Isolates were identified using matrix-assisted laser desorption ionization-time of flight mass spectrometry (MALDI-TOF MS). The usage of MALDI Biotyper for the classification of isolates was evaluated and compared to 16S rRNA gene sequence analysis. A wide spectrum of bacteria was isolated, with Arthrobacter, Serratia, Rhodococcus, and Rhizobium being predominant. Arthrobacter isolates also represented the most diverse group. The use of MALDI Biotyper in many cases permitted the identification at the level of species, which was not achieved by 16S rRNA gene sequence analyses. However, some isolates had to be identified by 16S rRNA gene analyses if MALDI Biotyper-based identification was at the level of probable or not reliable identification, usually due to a lack of reference spectra included in the database. Overall, this study shows the possibility of using MALDI-TOF MS and MALDI Biotyper for the fast and relatively nonlaborious identification/classification of soil isolates. At the same time, it demonstrates the dominant role of employing 16S rRNA gene analyses for the identification of recently isolated strains that can later fill the gaps in the protein-based identification databases.
Permanent Link: http://hdl.handle.net/11104/0203130