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Fluorescence In Situ Hybridization and Catalyzed Reporter Deposition for the Identification of Marine Bacteria
The enhanced fluorescence intensities and signal-to-background ratios make CARD-FISH superior to FISH with directly labeled oligonucleotides for the staining of bacteria with low rRNA content in the marine environment. Expand
Comparative 16S rRNA Analysis of Lake Bacterioplankton Reveals Globally Distributed Phylogenetic Clusters Including an Abundant Group of Actinobacteria
A combination of phylogenetic analysis and FISH was used to reveal 16 globally distributed sequence clusters and to confirm the broad distribution, abundance, and high biomass of members of the class Actinobacteria in freshwater ecosystems. Expand
Contribution of Archaea to Total Prokaryotic Production in the Deep Atlantic Ocean
ABSTRACT Fluorescence in situ hybridization (FISH) in combination with polynucleotide probes revealed that the two major groups of planktonic Archaea (Crenarchaeota and Euryarchaeota) exhibit aExpand
Predation on prokaryotes in the water column and its ecological implications
  • J. Pernthaler
  • Biology, Medicine
  • Nature Reviews Microbiology
  • 1 July 2005
The oxic realms of freshwater and marine environments are zones of high prokaryotic mortality, and aquatic bacteria have developed various antipredator strategies that range from simply 'outrunning' protists to the production of highly effective cytotoxins. Expand
Culturability and In Situ Abundance of Pelagic Bacteria from the North Sea
The culturability of abundant members of the domain bacteria in North Sea bacterioplankton was investigated by a combination of various cultivation strategies and cultivation-independent 16S rRNA-based techniques and predicted a limit to the isolation of unculturable marine bacteria, particularly the gamma-proteobacterial SAR86 cluster. Expand
Fluorescence in situ hybridization (FISH) with rRNA-targeted oligonucleotide probes
This chapter discusses the fluorescence in situ hybridization (FISH) with rRNA-targeted oligonucleotide probes, and describes probe designing and testing, and numerous aspects and applications of this method are discussed. Expand
Combining Catalyzed Reporter Deposition-Fluorescence In Situ Hybridization and Microautoradiography To Detect Substrate Utilization by Bacteria and Archaea in the Deep Ocean
CARD-FISH protocol was refined for the detection of marine Archaea by replacing the lysozyme permeabilization treatment with proteinase K, which resulted in about twofold-higher detection rates for Archaea in deep waters. Expand
Actinobacterial 16S rRNA genes from freshwater habitats cluster in four distinct lineages.
Within the freshwater lineages, groups of essentially identical sequence types were retrieved from geographically distant aquatic systems with strikingly different hydrological and limnological characteristics, which points to the necessity to investigate genotypic variability, in situ abundances and activities of these Actinobacteria in freshwater plankton in greater detail by cultivation-independent techniques. Expand
Isolation of Novel Pelagic Bacteria from the German Bight and Their Seasonal Contributions to Surface Picoplankton
ABSTRACT We tested new strategies for the isolation of abundant bacteria from coastal North Sea surface waters, which included reducing by several orders of magnitude the concentrations of inorganicExpand
Latitudinal distribution of prokaryotic picoplankton populations in the Atlantic Ocean.
The distribution of 11 marine bacterial and archaeal phyla in three different water layers along a transect across the Atlantic Ocean from South Africa to the UK during boreal spring was determined to ascertain changes in picoplankton composition in the euphotic and twilight zones at an ocean basin scale. Expand