title: Distribution and ecological preferences of the freshwater lineage LimA (genus Limnohabitans) revealed by a new double hybridization approach.
abstract: The ecological relevance and factors shaping dynamics of Limnohabitans sp. have been largely studied by fluorescence in situ hybridization with a 16S rRNA probe targeting the R-BT group (lineages LimBCDE), but not lineage LimA. Consequently, ecology and distribution of LimA remained unknown. We developed a double hybridization strategy using a novel 23S rRNA probe specifically targeting LimA and LimE that in combination with the existing R-BT probe can discriminate LimA populations. This technique was applied for more than 1000 samples from 46 freshwater sites including long-term data sets from oligo-mesotrophic Lake Zurich, CH and meso-eutrophic Římov reservoir, CZ. LimA was ubiquitously distributed and highly abundant. Observed ecological preferences of LimA in Lake Zurich were in general similar to already reported for Limnohabitans with highest numbers in surface waters during growing seasons. Three times higher densities of LimA were detected in Římov reservoir, where they were significantly more abundant at the riverine zone especially after flood events that introduced fresh terrestrial DOM (dissolved organic matter). Moreover, statistical analyses of biological and physicochemical parameters obtained from small dynamic water bodies confirmed a correspondence between LimA and allochthonous DOM, in opposite to R-BT that was more related to algal primary production.
authors.affiliation: Institute of Hydrobiology, Aquatic Microbial Ecology, Biology Centre CAS, České Budějovice, Czech Republic.
authors.forename: Tanja
authors.initials: T
authors.lastname: Shabarova
authors.affiliation: Institute of Hydrobiology, Aquatic Microbial Ecology, Biology Centre CAS, České Budějovice, Czech Republic.
authors.forename: Vojtěch
authors.identifier: 0000-0002-9132-8321
authors.initials: V
authors.lastname: Kasalický
authors.affiliation: Institute of Hydrobiology, Aquatic Microbial Ecology, Biology Centre CAS, České Budějovice, Czech Republic.|Faculty of Science, University of South Bohemia, České Budějovice, Czech Republic.
authors.forename: Karel
authors.initials: K
authors.lastname: Šimek
authors.affiliation: Institute of Hydrobiology, Aquatic Microbial Ecology, Biology Centre CAS, České Budějovice, Czech Republic.
authors.forename: Jiří
authors.initials: J
authors.lastname: Nedoma
authors.affiliation: Institute of Hydrobiology, Aquatic Microbial Ecology, Biology Centre CAS, České Budějovice, Czech Republic.|Faculty of Science, University of South Bohemia, České Budějovice, Czech Republic.
authors.forename: Petr
authors.initials: P
authors.lastname: Znachor
authors.affiliation: Limnological Station, Department of Plant and Microbial Biology, University of Zurich, Kilchberg, Switzerland.
authors.forename: Thomas
authors.initials: T
authors.lastname: Posch
authors.affiliation: Limnological Station, Department of Plant and Microbial Biology, University of Zurich, Kilchberg, Switzerland.
authors.forename: Jakob
authors.initials: J
authors.lastname: Pernthaler
authors.affiliation: Institute of Hydrobiology, Aquatic Microbial Ecology, Biology Centre CAS, České Budějovice, Czech Republic.|Limnological Station, Department of Plant and Microbial Biology, University of Zurich, Kilchberg, Switzerland.
authors.forename: Michaela M
authors.initials: MM
authors.lastname: Salcher
mesh_terms: D042621:Comamonadaceae / Q000145:classification / Q000235:genetics / Q000302:isolation & purification*; D004463:Ecology; D017404:In Situ Hybridization, Fluorescence; D060106:Lakes / Q000032:analysis / Q000382:microbiology*; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D012621:Seasons
chemical_list: D012336:RNA, Ribosomal, 16S