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Statements

Subject Item
n2:RIV%2F60077344%3A_____%2F13%3A00392317%21RIV14-AV0-60077344
rdf:type
n3:Vysledek skos:Concept
dcterms:description
Among abundant freshwater Betaproteobacteria, only few groups are considered to be of central ecological importance. One of them is the well-studied genus Limnohabitans and mainly its R-BT subcluster, investigated previously mainly by fluorescence in situ hybridization methods. We designed, based on sequences from a large Limnohabitans culture collection, 18 RLBH (Reverse Line Blot Hybridization) probes specific for different groups within the genus Limnohabitans by targeting diagnostic sequences on their 16 S-23 S rRNA ITS regions. The developed probes covered in sum 92% of the available isolates. This set of probes was applied to environmental DNA originating from 161 different European standing freshwater habitats to reveal the microdiversity (intra-genus) patterns of the Limnohabitans genus along a pH gradient. Habitats differed in various physicochemical parameters, and represented a very broad range of standing freshwater habitats. The Limnohabitans microdiversity, assessed as number of RLBH-defined groups detected, increased significantly along the gradient of rising pH of habitats. 14 out of 18 probes returned detection signals that allowed predictions on the distribution of distinct Limnohabitans groups. Most probe-defined Limnohabitans groups showed preferences for alkaline habitats, one for acidic, and some seemed to lack preferences. Complete niche-separation was indicated for some of the probe-targeted groups. Moreover, bimodal distributions observed for some groups of Limnohabitans, suggested further niche separation between genotypes within the same probe-defined group. The results of our study do not support the hypothesis that the wide ecological distribution of Limnohabitans in standing freshwater habitats results from generalist adaptations of these bacteria. Instead, our observations suggest that the genus Limnohabitans, as well as its R-BT subgroup, represent ecologically heterogeneous taxa, which underwent pronounced ecological diversification. Among abundant freshwater Betaproteobacteria, only few groups are considered to be of central ecological importance. One of them is the well-studied genus Limnohabitans and mainly its R-BT subcluster, investigated previously mainly by fluorescence in situ hybridization methods. We designed, based on sequences from a large Limnohabitans culture collection, 18 RLBH (Reverse Line Blot Hybridization) probes specific for different groups within the genus Limnohabitans by targeting diagnostic sequences on their 16 S-23 S rRNA ITS regions. The developed probes covered in sum 92% of the available isolates. This set of probes was applied to environmental DNA originating from 161 different European standing freshwater habitats to reveal the microdiversity (intra-genus) patterns of the Limnohabitans genus along a pH gradient. Habitats differed in various physicochemical parameters, and represented a very broad range of standing freshwater habitats. The Limnohabitans microdiversity, assessed as number of RLBH-defined groups detected, increased significantly along the gradient of rising pH of habitats. 14 out of 18 probes returned detection signals that allowed predictions on the distribution of distinct Limnohabitans groups. Most probe-defined Limnohabitans groups showed preferences for alkaline habitats, one for acidic, and some seemed to lack preferences. Complete niche-separation was indicated for some of the probe-targeted groups. Moreover, bimodal distributions observed for some groups of Limnohabitans, suggested further niche separation between genotypes within the same probe-defined group. The results of our study do not support the hypothesis that the wide ecological distribution of Limnohabitans in standing freshwater habitats results from generalist adaptations of these bacteria. Instead, our observations suggest that the genus Limnohabitans, as well as its R-BT subgroup, represent ecologically heterogeneous taxa, which underwent pronounced ecological diversification.
dcterms:title
Patterns of Limnohabitans microdiversity across a large set of freshwater habitats as revealed by reverse line blot hybridization Patterns of Limnohabitans microdiversity across a large set of freshwater habitats as revealed by reverse line blot hybridization
skos:prefLabel
Patterns of Limnohabitans microdiversity across a large set of freshwater habitats as revealed by reverse line blot hybridization Patterns of Limnohabitans microdiversity across a large set of freshwater habitats as revealed by reverse line blot hybridization
skos:notation
RIV/60077344:_____/13:00392317!RIV14-AV0-60077344
n3:predkladatel
n17:ico%3A60077344
n4:aktivita
n18:P n18:I
n4:aktivity
I, P(GAP504/10/0566), P(GEEEF/10/E011)
n4:cisloPeriodika
3
n4:dodaniDat
n5:2014
n4:domaciTvurceVysledku
n10:4562275 n10:7194536 n10:2409135 n10:6252591
n4:druhVysledku
n19:J
n4:duvernostUdaju
n6:S
n4:entitaPredkladatele
n12:predkladatel
n4:idSjednocenehoVysledku
95550
n4:idVysledku
RIV/60077344:_____/13:00392317
n4:jazykVysledku
n14:eng
n4:klicovaSlova
Limnohabitans; microdiversity; habitats; hybridization
n4:klicoveSlovo
n8:habitats n8:microdiversity n8:Limnohabitans n8:hybridization
n4:kodStatuVydavatele
US - Spojené státy americké
n4:kontrolniKodProRIV
[45924F8CE897]
n4:nazevZdroje
PLoS ONE
n4:obor
n16:DA
n4:pocetDomacichTvurcuVysledku
4
n4:pocetTvurcuVysledku
5
n4:projekt
n11:GEEEF%2F10%2FE011 n11:GAP504%2F10%2F0566
n4:rokUplatneniVysledku
n5:2013
n4:svazekPeriodika
8
n4:tvurceVysledku
Šimek, Karel Kasalický, Vojtěch Hahn, M. W. Jezberová, Jitka Jezbera, Jan
n4:wos
000316252500028
s:issn
1932-6203
s:numberOfPages
10
n15:doi
10.1371/journal.pone.0058527