Coupling Genetic and Chemical Microbiome Profiling Reveals Heterogeneity of Archaeome and Bacteriome in Subsurface Biofilms That Are Dominated by the Same Archaeal Species

URN to cite this document:

urn:nbn:de:bvb:355-epub-304005 Copy

Probst, Alexander J. ; Birarda, Giovanni ; Holman, Hoi-Ying N. ; DeSantis, Todd Z. ; Wanner, Gerhard ; Andersen, Gary L. ; Perras, Alexandra K. ; Meck, Sandra ; Völkel, Jörg ; Bechtel, Hans A. ; Wirth, Reinhard ; Moissl-Eichinger, Christine

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Date of publication of this fulltext: 09 Jul 2014 11:50

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Details

Item type:	Article
Journal or Publication Title:	PLoS ONE
Publisher:	Public Library of Science
Volume:	9
Number of Issue or Book Chapter:	6
Page Range:	e99801
Date:	27 June 2014
Institutions:	Biology, Preclinical Medicine > Institut für Biochemie, Genetik und Mikrobiologie > Lehrstuhl für Mikrobiologie (Archaeenzentrum) > Prof. Dr. Michael Thomm
Projects:	Open Access Publizieren (DFG)
Identification Number:	Value Type 10.1371/journal.pone.0099801 DOI
Dewey Decimal Classification:	500 Science > 570 Life sciences
Status:	Published
Refereed:	Yes, this version has been refereed
Created at the University of Regensburg:	Yes
Item ID:	30400

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Abstract

Earth harbors an enormous portion of subsurface microbial life, whose microbiome flux across geographical locations remains mainly unexplored due to difficult access to samples. Here, we investigated the microbiome relatedness of subsurface biofilms of two sulfidic springs in southeast Germany that have similar physical and chemical parameters and are fed by one deep groundwater current. Due to ...

Abstract

Earth harbors an enormous portion of subsurface microbial life, whose microbiome flux across geographical locations
remains mainly unexplored due to difficult access to samples. Here, we investigated the microbiome relatedness of
subsurface biofilms of two sulfidic springs in southeast Germany that have similar physical and chemical parameters and are fed by one deep groundwater current. Due to their unique hydrogeological setting these springs provide accessible windows to subsurface biofilms dominated by the same uncultivated archaeal species, called SM1 Euryarchaeon.
Comparative analysis of infrared imaging spectra emonstrated great variations in archaeal membrane composition between biofilms of the two springs, suggesting different SM1 euryarchaeal strains of the same species at both aquifer outlets. This strain variation was supported by ultrastructural and metagenomic analyses of the archaeal biofilms, which included intergenic spacer region sequencing of the rRNA gene operon. At 16S rRNA gene level, PhyloChip G3 DNA microarray detected similar biofilm communities for archaea, but site-specific communities for bacteria. Both biofilms showed an enrichment of different deltaproteobacterial operational taxonomic units, whose families were, however, congruent as were their lipid spectra. Consequently, the function of the major proportion of the bacteriome appeared to be conserved across the geographic locations studied, which was confirmed by dsrB-directed quantitative PCR. Consequently, microbiome differences of these subsurface biofilms exist at subtle nuances for archaea (strain level variation) and at higher taxonomic levels for predominant bacteria without a substantial perturbation in bacteriome function. The results of this communication provide deep insight into the dynamics of subsurface microbial life and warrant its future investigation with
regard to metabolic and genomic analyses.

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