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Phylogenetic Identification And In Situ Detection Of Individual Microbial Cells Without Cultivation.

R. Amann, W. Ludwig, K. Schleifer
Published 1995 · Biology, Medicine

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The frequent discrepancy between direct microscopic counts and numbers of culturable bacteria from environmental samples is just one of several indications that we currently know only a minor part of the diversity of microorganisms in nature. A combination of direct retrieval of rRNA sequences and whole-cell oligonucleotide probing can be used to detect specific rRNA sequences of uncultured bacteria in natural samples and to microscopically identify individual cells. Studies have been performed with microbial assemblages of various complexities ranging from simple two-component bacterial endosymbiotic associations to multispecies enrichments containing magnetotactic bacteria to highly complex marine and soil communities. Phylogenetic analysis of the retrieved rRNA sequence of an uncultured microorganism reveals its closest culturable relatives and may, together with information on the physicochemical conditions of its natural habitat, facilitate more directed cultivation attempts. For the analysis of complex communities such as multispecies biofilms and activated-sludge flocs, a different approach has proven advantageous. Sets of probes specific to different taxonomic levels are applied consecutively beginning with the more general and ending with the more specific (a hierarchical top-to-bottom approach), thereby generating increasingly precise information on the structure of the community. Not only do rRNA-targeted whole-cell hybridizations yield data on cell morphology, specific cell counts, and in situ distributions of defined phylogenetic groups, but also the strength of the hybridization signal reflects the cellular rRNA content of individual cells. From the signal strength conferred by a specific probe, in situ growth rates and activities of individual cells might be estimated for known species. In many ecosystems, low cellular rRNA content and/or limited cell permeability, combined with background fluorescence, hinders in situ identification of autochthonous populations. Approaches to circumvent these problems are discussed in detail.
This paper references
10.1002/CYTO.990090602
Flow cytometric detection of ribosomal RNA in suspended cells by fluorescent in situ hybridization.
J. G. Bauman (1988)
10.1128/JB.170.6.2506-2510.1988
Sulfur-oxidizing bacterial endosymbionts: analysis of phylogeny and specificity by 16S rRNA sequences.
D. Distel (1988)
10.1016/S0723-2020(11)80279-1
In situ Identification of Lactococci, Enterococci and Streptococci
C. Beimfohr (1993)
10.1128/JB.174.19.6317-6320.1992
Characterization of the gill symbiont of Thyasira flexuosa (Thyasiridae: Bivalvia) by use of polymerase chain reaction and 16S rRNA sequence analysis.
D. Distel (1992)
10.1128/JB.158.1.376-378.1984
Mycoplasmas (Mollicutes) have a low number of rRNA genes.
D. Amikam (1984)
10.1139/M80-052
Distribution of viable marine bacteria in neritic seawater around Japan.
K. Kogure (1980)
10.1056/NEJM199207303270501
Identification of the uncultured bacillus of Whipple's disease.
D. Relman (1992)
10.1128/AEM.59.8.2753-2757.1993
Detection of mRNA in streptomyces cells by whole-cell hybridization with digoxigenin-labeled probes.
D. Hahn (1993)
10.1128/AEM.58.10.3417-3418.1992
Differential amplification of rRNA genes by polymerase chain reaction.
A. L. Reysenbach (1992)
10.1016/0022-2836(81)90508-8
Gene organization and primary structure of a ribosomal RNA operon from Escherichia coli.
J. Brosius (1981)
10.1073/PNAS.89.12.5685
Archaea in coastal marine environments.
E. DeLong (1992)
10.1128/JB.174.15.5072-5078.1992
Occurrence of novel groups of the domain Bacteria as revealed by analysis of genetic material isolated from an Australian terrestrial environment.
W. Liesack (1992)
10.1016/S0074-7696(08)61275-9
Endonucleobiosis in ciliates
H. Görtz (1986)
10.1098/rspb.1993.0098
A molecular clock in endosymbiotic bacteria is calibrated using the insect hosts
N. Moran (1993)
Morphologically conspicuous sulfur-oxidizing eubacteria The prokaryotes
J W M Lariviere (1991)
10.1111/J.1574-695X.1993.TB00312.X
Fluorescence in situ hybridization for direct visualization of gram-negative anaerobes in subgingival plaque samples.
H. Gersdorf (1993)
10.1126/science.224.4647.409
Analysis of Hydrothermal Vent-Associated Symbionts by Ribosomal RNA Sequences
D. Stahl (1984)
Species-specific assessment of Mycobacterium leprae in skin biopsies by in situ hybridization and polymerase chain reaction.
J. Arnoldi (1992)
10.1128/JB.173.14.4371-4378.1991
Analysis of a marine picoplankton community by 16S rRNA gene cloning and sequencing.
T. M. Schmidt (1991)
10.1128/AEM.56.6.1919-1925.1990
Combination of 16S rRNA-targeted oligonucleotide probes with flow cytometry for analyzing mixed microbial populations.
R. Amann (1990)
10.1139/M84-049
Viable but nonrecoverable stage of Salmonella enteritidis in aquatic systems.
D. Roszak (1984)
The genera Mycoplasma, Ureaplasma, Acholeplasma, Anaeroplasma, and Asteroplasma, p. 1937–1959
S. Razin (1991)
Development and application of nucleic acid probes in bacterial systematics, p. 205–248
D. A. Stahl (1991)
Phylogenie und in-situ Nachweis nicht-kultivierbarer bakterieller Endosymbionten
N. Springer (1992)
Morphologically conspicuous sulfur-oxidizing eubacteria, p. 3934–3947
J.W.M. LaRiviere (1991)
Unpublished data
B Zarda
10.1111/J.1574-6968.1993.TB05806.X
Blooms of sequence‐specific culturable bacteria in the sea
A. Rehnstam (1993)
10.1128/AEM.59.5.1520-1525.1993
Probing activated sludge with oligonucleotides specific for proteobacteria: inadequacy of culture-dependent methods for describing microbial community structure.
M. Wagner (1993)
10.1016/0958-1669(92)90099-5
Methods of microbial identification, tracking and monitoring of function
D. Stahl (1992)
Ribosomal RNA based studies of natural microbial diversity and ecology Recent advances in microbial ecology
D A Stahl (1989)
Unpublished observations
W Ludwig
Identification and phylogeny of uncultured bacterial endosymbionts
R. Amann (1991)
10.1128/AEM.58.8.2571-2578.1992
Rapid in situ hybridization technique using 16S rRNA segments for detecting and differentiating the closely related gram-positive organisms Bacillus polymyxa and Bacillus macerans.
R. J. Jurtshuk (1992)
10.1126/SCIENCE.229.4708.49
A unique symbiosis in the gut of tropical herbivorous surgeonfish (acanthuridae: teleostei) from the red sea.
L. Fishelson (1985)
10.1038/330769A0
Optical trapping and manipulation of single cells using infrared laser beams
A. Ashkin (1987)
10.1038/345060A0
Genetic diversity in Sargasso Sea bacterioplankton
S. Giovannoni (1990)
10.1128/JB.176.2.388-394.1994
Rickettsial relative associated with male killing in the ladybird beetle (Adalia bipunctata).
J. Werren (1994)
Nucleic acid probes for the identification and in situ detection of pseudomonads
K H Schleifer (1992)
10.1016/s0140-6736(01)20693-x
Bacterial evolution.
C. Woese (1987)
10.1038/334519a0
Ribosomal RNA sequence shows Pneumocystis carinii to be a member of the Fungi
J. C. Edman (1988)
10.1007/978-3-662-13187-9_82
Morphologically Conspicuous Sulfur-Oxidizing Eubacteria
J. W. M. Riviére (1981)
10.1073/PNAS.90.21.9892
Occurrence of fragmented 16S rRNA in an obligate bacterial endosymbiont of Paramecium caudatum.
N. Springer (1993)
10.1096/fasebj.7.1.8422957
Ribosomal RNA: a key to phylogeny
G. Olsen (1993)
10.1016/S0723-2020(11)80121-9
Phylogenetic Oligodeoxynucleotide Probes for the Major Subclasses of Proteobacteria: Problems and Solutions
Werner Manz (1992)
Origin and properties of bacterial endosymbionts of aphids, whiteflies, and mealybugs
P. Baumann (1993)
10.4319/LO.1993.38.5.0924
Phylogenetic diversity of aggregate‐attached vs. free‐living marine bacterial assemblages
E. DeLong (1993)
NONCULTURE METHODS OF CELL IDENTIFICATION
W. Manz (1995)
10.1128/AEM.60.9.3112-3119.1994
Identifying members of the domain Archaea with rRNA-targeted oligonucleotide probes.
S. Burggraf (1994)
10.1126/SCIENCE.2448875
Primer-directed enzymatic amplification of DNA with a thermostable DNA polymerase.
R. Saiki (1988)
10.1128/AEM.54.5.1079-1084.1988
Use of phylogenetically based hybridization probes for studies of ruminal microbial ecology.
D. Stahl (1988)
10.1056/NEJM199012063232301
The agent of bacillary angiomatosis. An approach to the identification of uncultured pathogens.
D. Relman (1990)
10.1016/S0065-2911(08)60121-6
Magnetotactic bacteria: microbiology, biomineralization, palaeomagnetism and biotechnology.
S. Mann (1990)
Probing activated sludge with proteobacteria-specific oligonucleotides: inadequacy of culture-dependent methods for describing microbial community
M. Wagner (1993)
10.1073/PNAS.90.12.5695
Transovarial inheritance of endosymbiotic bacteria in clams inhabiting deep-sea hydrothermal vents and cold seeps.
S. Cary (1993)
10.1128/JCM.31.4.941-946.1993
Identification of Bacteroides forsythus in subgingival plaque from patients with advanced periodontitis.
H. Gersdorf (1993)
10.1128/AEM.56.9.2858-2865.1990
Use of oligodeoxynucleotide signature probes for identification of physiological groups of methylotrophic bacteria.
H. Tsien (1990)
10.1099/00221287-137-12-2823
Identification of single bacterial cells using digoxigenin-labelled, rRNA-targeted oligonucleotides.
B. Zarda (1991)
10.1099/00207713-43-3-461
Phylogenetic diversity of phytopathogenic mycoplasmalike organisms.
S. Namba (1993)
10.1099/00207713-42-1-166
How close is close: 16S rRNA sequence identity may not be sufficient to guarantee species identity.
G. Fox (1992)
10.1093/nar/21.13.3025
Compilation of small ribosomal subunit RNA structures
J. Neefs (1993)
10.1128/AEM.59.5.1303-1309.1993
Comparison of Nucleic Acid Hybridization and Fluorometry for Measurement of the Relationship between RNA/DNA Ratio and Growth Rate in a Marine Bacterium.
L. Kerkhof (1993)
10.1128/AEM.59.3.881-891.1993
Viability and isolation of marine bacteria by dilution culture: theory, procedures, and initial results.
D. K. Button (1993)
10.1128/JB.171.12.6455-6467.1989
A phylogenetic analysis of the mycoplasmas: basis for their classification.
William G. Weisburg (1989)
10.1038/NBT0786-623
Evolution, Ecology and Diagnosis: Unity in Variety
D. Stahl (1986)
10.1096/fasebj.7.1.8422969
Bacterial diversity in a soil sample from a subtropical Australian environment as determined by 16S rDNA analysis
E. Stackebrandt (1993)
10.1021/bk-1988-0379.ch029
Phylogenetically based studies of microbial ecosystem perturbation
D. Stahl (1988)
10.1111/j.1365-2818.1993.tb03371.x
Direct identification, and localization of Azospirillum in the rhizosphere of wheat using fluorescence‐labelled monoclonal antibodies and confocal scanning laser microscopy
M. Schloter (1993)
The study of microorganisms in situ progress and problems
T. Brock (1987)
10.1128/AEM.60.12.4461-4467.1994
Phylogenetic analysis of a highly specific association between ectosymbiotic, sulfur-oxidizing bacteria and a marine nematode.
M. Polz (1994)
10.1099/00221287-141-1-29
In situ identification of Legionellaceae using 16S rRNA-targeted oligonucleotide probes and confocal laser scanning microscopy.
Werner Manz (1995)
10.1016/0167-7012(91)90007-D
Amplification of 16S rRNA genes from culturable and nonculturable mollicutes
S. Deng (1991)
10.1073/PNAS.77.1.494
Phylogenetic analysis of the mycoplasmas.
C. Woese (1980)
10.1128/JB.172.2.762-770.1990
Fluorescent-oligonucleotide probing of whole cells for determinative, phylogenetic, and environmental studies in microbiology.
R. Amann (1990)
10.1016/S0723-2020(11)80122-0
Genus- and group-specific hybridization probes for determinative and environmental studies of sulfate-reducing bacteria
R. Devereux (1992)
10.1099/00221287-133-7-1969
Oligonucleotide probes complementary to variable regions of ribosomal RNA discriminate between Mycoplasma species.
U. Göbel (1987)
Development of a rapid method for detecting bacterial cells in situ using 16S rRNA-targeted probes.
E. Braun-Howland (1992)
10.1016/0167-7012(90)90002-N
Flow cytometric detection of yeast by in situ hybridization with a fluorescent ribosomal RNA probe
B. Bertin (1990)
10.1007/978-1-4615-8279-3_2
The Rumen Fermentation: A Model for Microbial Interactions in Anaerobic Ecosystems
M. Wolin (1979)
10.1128/AEM.59.8.2430-2436.1993
Measurement of rRNA Variations in Natural Communities of Microorganisms on the Southeastern U.S. Continental Shelf.
J. Kramer (1993)
10.3354/MEPS101193
Use of multiple 16S rRNA-targeted fluorescent probes to increase signal strength and measure cellular RNA from natural planktonic bacteria
S. Lee (1993)
10.1016/S0723-2020(11)80206-7
Aquifex pyrophilus gen. nov. sp. nov., Represents a Novel Group of Marine Hyperthermophilic Hydrogen-Oxidizing Bacteria
R. Huber (1992)
10.1128/JCM.30.2.265-274.1992
Characterization of a novel Rochalimaea species, R. henselae sp. nov., isolated from blood of a febrile, human immunodeficiency virus-positive patient.
R. Regnery (1992)
10.1111/J.1574-6968.1991.TB04434.X-I1
Direct amplification and sequencing of the 16S ribosomal DNA of an intracellular Legionella species recovered by amoebal enrichment from the sputum of a patient with pneumonia.
N. Fry (1991)
Chromosomal organization of rRNA operons in Bacillus subtilis.
E. Jarvis (1988)
10.1099/00221287-138-5-879
Detection of micro-organisms in soil after in situ hybridization with rRNA-targeted, fluorescently labelled oligonucleotides.
D. Hahn (1992)
10.1016/S0723-2020(11)80221-3
Species Specific Oligonucleotide Probe for the Identification of Streptococcus thermophilus
M. Ehrmann (1992)
10.1128/AEM.60.4.1232-1240.1994
Group-specific 16S rRNA hybridization probes to describe natural communities of methanogens.
L. Raskin (1994)
10.1128/AEM.59.5.1647-1655.1993
Application of rRNA-based probes for observing marine nanoplanktonic protists.
E. L. Lim (1993)
10.1128/JB.171.6.2970-2974.1989
Pea aphid symbiont relationships established by analysis of 16S rRNAs.
B. M. Unterman (1989)
10.1146/ANNUREV.MI.40.100186.002005
Microbial ecology and evolution: a ribosomal RNA approach.
G. Olsen (1986)
10.1128/AEM.49.6.1379-1384.1985
Characterization of a Yellowstone hot spring microbial community by 5S rRNA sequences.
D. Stahl (1985)
10.1016/0140-6736(91)90545-Z
Phylogeny of the Whipple's-disease-associated bacterium
K. Wilson (1991)
10.1038/362239A0
The largest bacterium
E. Angert (1993)
10.1128/AEM.55.7.1818-1822.1989
Selective Recovery of 16S rRNA Sequences from Natural Microbial Communities in the Form of cDNA.
R. Weller (1989)
10.1007/978-1-4615-8318-9_6
Are Solid Surfaces of Ecological Significance to Aquatic Bacteria
M. Fletcher (1982)
Phylogenetic stains: ribosomal RNA-based probes for the identification of single microbial cells
E. F. DeLong (1989)
10.1139/M79-063
A tentative direct microscopic method for counting living marine bacteria.
K. Kogure (1979)
10.1128/AEM.47.1.49-55.1984
Response of marine bacterioplankton to differential filtration and confinement.
R. Ferguson (1984)
10.1073/PNAS.82.13.4443
Mitochondrial origins.
D. Yang (1985)
Ribosomal RNA based studies of natural microbial diversity and ecology, p. 669–673
D. A. Stahl (1989)
10.1016/S0723-2020(11)80147-5
Phylogenetic Diversity and Identification of Nonculturable Magnetotactic Bacteria
S. Spring (1992)
Probing activated sludge with proteobacteria-specific oligonucleotides: inadequacy of culture-dependent methods for describing microbial community structure
M Wagner (1993)
Mitochondrial origins. Proc. Natl. Acad. Sci
D Yang (1985)
Development of a rapid method for detecting bacterial cells in situ using 16S rRNA-targeted probes.
Braun-Howland Eb (1992)
10.1016/S0723-2020(11)80133-5
Diversity Among Fibrobacter Isolates: Towards a Phylogenetic Classification
R. Amann (1992)
10.1146/ANNUREV.MI.46.100192.001251
Biodiversity as a source of innovation in biotechnology.
A. Bull (1992)
10.1128/AEM.59.11.3840-3849.1993
Distribution of sulfate-reducing bacteria, O2, and H2S in photosynthetic biofilms determined by oligonucleotide probes and microelectrodes.
N. Ramsing (1993)
10.1016/S0723-2020(85)80047-3
A phylogenetic definition of the major eubacterial taxa.
C. Woese (1985)
Optimizing fluorescent in situ hybridization of suspended cells with rRNA-targeted oligonucleotide probes for the flow cytometric identification of microorganisms
G Wallner (1993)
10.1128/AEM.59.8.2594-2601.1993
Estimating the growth rate of slowly growing marine bacteria from RNA content.
P. Kemp (1993)
10.1128/AEM.59.3.695-700.1993
Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA.
G. Muyzer (1993)
10.1128/AEM.58.9.3007-3011.1992
Identification of individual prokaryotic cells by using enzyme-labeled, rRNA-targeted oligonucleotide probes.
R. Amann (1992)
10.1128/AEM.58.7.2158-2163.1992
Dual staining of natural bacterioplankton with 4',6-diamidino-2-phenylindole and fluorescent oligonucleotide probes targeting kingdom-level 16S rRNA sequences.
R. E. Hicks (1992)
10.1111/J.1365-2427.1977.TB01659.X
The effect of environmental factors on estimated viable and total populations of planktonic bacteria in lakes and experimental enclosures
J. Jones (1977)
10.1038/NBT0985-817
Viable but Non-Culturable Vibrio cholerae and Related Pathogens in the Environment: Implications for Release of Genetically Engineered Microorganisms
R. Colwell (1985)
10.1099/00221287-139-2-371
A new polymorphic methanogen, closely related to Methanocorpusculum parvum, living in stable symbiosis within the anaerobic ciliate Trimyema sp.
B. Finlay (1993)
10.1111/J.1574-6941.1994.TB00063.X
Growth and in situ detection of a pathogenic Escherichia coli in biofilms of a heterotrophic water-bacterium by use of 16S- and 23S-rRNA- directed fluorescent oligonucleotide probes
U. Szewzyk (1994)
Development and application of oligonucleotide probes for identification of Lactococcus lactis subsp
M. Salama (1991)
Optimizing fluorescent in situ hybridization of suspended cells with rRNA-targeted oligonucleotide probes for the flow cytometric identification of microorganisms. Cytometry 14:136–143
G. Wallner (1993)
10.1007/BF00693759
Microbial diversity
A. Bull (1992)
10.1111/j.1365-2958.1993.tb01093.x
Isolation and characterization of full‐length chromosomes from non‐culturable plant‐pathogenic Mycoplasma‐like organisms
H. Neimark (1993)
10.1126/SCIENCE.2466341
Phylogenetic stains: ribosomal RNA-based probes for the identification of single cells.
E. DeLong (1989)
10.1128/AEM.57.6.1707-1713.1991
Phylogenetic analysis of a natural marine bacterioplankton population by rRNA gene cloning and sequencing.
T. B. Britschgi (1991)
10.4319/LO.1980.25.5.0943
The use of DAPI for identifying and counting aquatic microflora1
K. Porter (1980)
10.1146/ANNUREV.MI.39.100185.001541
Measurement of in situ activities of nonphotosynthetic microorganisms in aquatic and terrestrial habitats.
J. Staley (1985)
10.1038/345063A0
16S rRNA sequences reveal numerous uncultured microorganisms in a natural community
D. Ward (1990)
10.1099/00207713-44-2-330
Sequence determination of rRNA genes of pathogenic Vibrio species and whole-cell identification of Vibrio vulnificus with rRNA-targeted oligonucleotide probes.
R. Aznar (1994)
10.1128/AEM.60.3.792-800.1994
Development of an rRNA-targeted oligonucleotide probe specific for the genus Acinetobacter and its application for in situ monitoring in activated sludge.
M. Wagner (1994)
Phylum Karyoblastea, p. 167–185
J. M. Whatley (1989)
10.1126/science.259.5096.803
Multiple Evolutionary Origins of Magnetotaxis in Bacteria
E. DeLong (1993)
10.1007/978-1-4615-8291-5_6
The Immunofluorescence Approach in Microbial Ecology
B. Bohlool (1980)
NONCULTURE METHODS OF CELL IDENTIFICATION 167 on F ebuary 20
W. Manz (1995)
10.1016/B978-0-12-078405-9.50011-2
3 – THE GENUS SPIROPLASMA
D. Williamson (1989)
10.1038/363154A0
Bioluminescent symbionts of flashlight fishes and deep-sea anglerfishes form unique lineages related to the genus Vibrio
M. Haygood (1993)
Nucleic acid probes for the identification and in situ detection of pseudomonads, p. 127–134
K. H. Schleifer (1992)
10.1128/AEM.59.12.4152-4160.1993
Design and application of rRNA-targeted oligonucleotide probes for the dissimilatory iron- and manganese-reducing bacterium Shewanella putrefaciens.
T. DiChristina (1993)
Detection of mRNA in Streptomyces cells by in situ hybridization with digoxigenin-labeled probes
D. Hahn (1993)
The largest bacterium. Nature (London) 362:239–241
E. R. Angert (1993)
10.1099/00221287-140-10-2849
In situ probing of gram-positive bacteria with high DNA G+C content using 23S rRNA-targeted oligonucleotides.
C. Roller (1995)
10.1128/AEM.60.9.3228-3235.1994
Identification of Whole Fixed Bacterial Cells with Nonradioactive 23S rRNA-Targeted Polynucleotide Probes.
K. Trebesius (1994)
Phylum Karyoblastea
J M Whatley (1989)
Nucleic acid techniques in bacterial systematics
E. Stackebrandt (1991)
10.1073/PNAS.89.7.2699
16S rRNA phylogenetic analysis of the bacterial endosymbionts associated with cytoplasmic incompatibility in insects.
S. O'neill (1992)
10.1007/978-1-4684-7609-5_5
Ribosomal RNA Analysis of Microorganisms as They Occur in Nature
D. Ward (1992)
10.1146/ANNUREV.MI.37.100183.001043
Molecular systematics of prokaryotes.
K. Schleifer (1983)
10.1128/AEM.56.9.2927-2929.1990
Identification of lactococci and enterococci by colony hybridization with 23S rRNA-targeted oligonucleotide probes.
D. Betzl (1990)
10.1128/AEM.56.3.782-787.1990
High diversity in DNA of soil bacteria.
V. Torsvik (1990)
10.1128/AEM.60.4.1241-1248.1994
Quantification of methanogenic groups in anaerobic biological reactors by oligonucleotide probe hybridization.
L. Raskin (1994)
10.1099/00207713-41-4-566
Buchnera gen. nov. and Buchnera aphidicola sp. nov., a Taxon Consisting of the Mycetocyte-Associated, Primary Endosymbionts of Aphids
M. Munson (1991)
10.1007/978-1-4615-5817-0_2
Phylogenetic relationships of lactic acid bacteria
K. Schleifer (1995)
10.1093/nar/21.13.3021
The ribosomal database project
N. Larsen (1993)
The genus Spiroplasma, p. 1960– 1980 The prokaryotes
J G Tully (1991)
10.1128/AEM.59.7.2293-2298.1993
In situ identification of bacteria in drinking water and adjoining biofilms by hybridization with 16S and 23S rRNA-directed fluorescent oligonucleotide probes.
Werner Manz (1993)
10.1128/AEM.56.8.2572-2575.1990
Tangential flow filtration and preliminary phylogenetic analysis of marine picoplankton.
S. Giovannoni (1990)
10.1128/AEM.57.8.2376-2382.1991
Phylogenetic characterization and in situ localization of the bacterial symbiont of shipworms (Teredinidae: Bivalvia) by using 16S rRNA sequence analysis and oligodeoxynucleotide probe hybridization.
D. Distel (1991)
10.1128/JB.173.20.6321-6324.1991
Evidence for the establishment of aphid-eubacterium endosymbiosis in an ancestor of four aphid families.
M. Munson (1991)
10.1128/JB.170.2.720-726.1988
Phylogenetic group-specific oligodeoxynucleotide probes for identification of single microbial cells.
S. Giovannoni (1988)
10.1146/ANNUREV.MI.34.100180.003333
The genus Spiroplasma.
R. Whitcomb (1980)
Endonuclear symbionts in ciliates
Görtz (1983)
10.1016/S0723-2020(11)80058-5
Identification and in situ Detection of Gram-negative Filamentous Bacteria in Activated Sludge
M. Wagner (1994)
Unpublished observations
R I Amann
Whole cell hybridization probes for members of the cytophaga-flexibacterium-bacteroides (CFB) phylum
W Manz
10.1128/aem.59.5.1294-1302.1993
Phylogenetic diversity of subsurface marine microbial communities from the Atlantic and Pacific oceans.
J. Fuhrman (1995)
10.1099/00221287-19-3-592
Dependency on medium and temperature of cell size and chemical composition during balanced grown of Salmonella typhimurium.
M. Schaechter (1958)
10.1128/AEM.59.5.1607-1612.1993
Development of an oligonucleotide probe targeting 16S rRNA and its application for detection and quantitation of the ruminal bacterium Synergistes jonesii in a mixed-population chemostat.
C. McSweeney (1993)
10.1038/361066A0
Molecular identification of microorganisms associated with parthenogenesis
R. Stouthamer (1993)
10.1128/JB.174.21.6780-6788.1992
Ribosomes exist in large excess over the apparent demand for protein synthesis during carbon starvation in marine Vibrio sp. strain CCUG 15956.
K. Flärdh (1992)
10.1128/AEM.58.2.614-623.1992
Molecular and microscopic identification of sulfate-reducing bacteria in multispecies biofilms.
R. Amann (1992)
10.1099/00207713-43-3-533
Ileal symbiont intracellularis, an obligate intracellular bacterium of porcine intestines showing a relationship to Desulfovibrio species.
C. Gebhart (1993)
10.1016/B978-0-12-470207-3.50013-9
Detection of Viral Nucleic Acids by in Situ Hybridization
A. Haase (1984)
10.1099/00207713-41-1-82
Sarcobium lyticum gen. nov., sp. nov., an Obligate Intracellular Bacterial Parasite of Small Free-Living Amoebae†
W. Drozanski (1991)
Diversity among Fibrobacter isolates: towards a phylogenetic and habitatbased classification
R. I. Amann (1992)
NONCULTURE METHODS OF CELL IDENTIFICATION
(1995)
10.1128/AEM.59.7.2150-2160.1993
Isolation of Typical Marine Bacteria by Dilution Culture: Growth, Maintenance, and Characteristics of Isolates under Laboratory Conditions.
F. Schut (1993)
10.1111/J.1574-6968.1993.TB06289.X
Endosymbiotic purple non-sulphur bacteria in an anaerobic ciliated protozoon
T. Fenchel (1993)
10.1128/AEM.57.5.1313-1318.1991
Development and application of oligonucleotide probes for identification of Lactococcus lactis subsp. cremoris.
M. Salama (1991)
10.1111/j.1365-2958.1992.tb01352.x
Phylogenetic relationships among the agent of bacillary angiomatosis, Bartonella bacilliformis, and other alpha‐proteobacteria
D. Relman (1992)
10.1111/J.1550-7408.1977.TB05294.X
Anaerobiosis and symbiosis with bacteria in free-living ciliates.
T. Fenchel (1977)
10.1128/JB.163.1.75-81.1985
Phylogenetic analysis of the genera Thiobacillus and Thiomicrospira by 5S rRNA sequences.
D. J. Lane (1985)
10.1111/J.1574-6968.1992.TB05416.X
The phylogenetic status of Sarcobium lyticum, an obligate intracellular bacterial parasite of small amoebae.
N. Springer (1992)
10.1099/00207713-43-4-777
Proposals to unify the genera Bartonella and Rochalimaea, with descriptions of Bartonella quintana comb. nov., Bartonella vinsonii comb. nov., Bartonella henselae comb. nov., and Bartonella elizabethae comb. nov., and to remove the family Bartonellaceae from the order Rickettsiales.
D. J. Brenner (1993)
10.1099/00221287-138-7-1479
The use of rRNA sequences and fluorescent probes to investigate the phylogenetic positions of the anaerobic ciliate Metopus palaeformis and its archaeobacterial endosymbiont.
T. M. Embley (1992)
10.1016/S0723-2020(11)80313-9
The Genus Magnetospirillum gen. nov. Description of Magnetospirillum gryphiswaldense sp. nov. and Transfer of Aquaspirillum magnetotacticum to Magnetospirillum magnetotacticum comb. nov.
K. Schleifer (1991)
Identification of whole fixed bacterial cells with nonradioactive rRNAtargeted transcript probes
K Trebesius
The genera Mycoplasma
S Razin (1991)
Nucleic acid probes for the identification and in situ detection of pseudomonads, p. 127–134
K. H. Schleifer (1992)
10.1128/AEM.59.8.2397-2403.1993
Dominating role of an unusual magnetotactic bacterium in the microaerobic zone of a freshwater sediment.
S. Spring (1993)
10.1128/AEM.57.9.2640-2644.1991
Formation of nonculturable Vibrio vulnificus cells and its relationship to the starvation state.
J. Oliver (1991)
10.1073/PNAS.87.12.4576
Towards a natural system of organisms: proposal for the domains Archaea, Bacteria, and Eucarya.
C. Woese (1990)
10.1128/AEM.59.5.1354-1360.1993
Use of rRNA fluorescence in situ hybridization for measuring the activity of single cells in young and established biofilms.
L. Poulsen (1993)
10.1038/356148A0
Novel major archaebacterial group from marine plankton
A. Davis (1992)
10.1128/AEM.59.6.1709-1716.1993
Whole-Cell Hybridization of Frankia Strains with Fluorescence- or Digoxigenin-Labeled, 16S rRNA-Targeted Oligonucleotide Probes.
D. Hahn (1993)
10.1111/j.1574-6968.1992.tb05439.x
RNA sequence analysis shows that the symbionts in the ciliate Metopus contortus are polymorphs of a single methanogen species.
T. M. Embley (1992)
10.1016/S0723-2020(88)80020-1
International Committee on Systematic Bacteriology: Announcement of the Report of the Ad Hoc Committee on Reconciliation of Approaches to Bacterial Systematics
L. Wayne (1988)
Development and application of nucleic acid probes in bacterial systematics
D A Stahl (1991)
Identifying Archaea with rRNA-targeted oligonucleotide probes
S. Burggraf (1994)
Ribosomal RNA based studies of natural microbial diversity and ecology
D A Stahl (1989)
10.1002/CYTO.990140205
Optimizing fluorescent in situ hybridization with rRNA-targeted oligonucleotide probes for flow cytometric identification of microorganisms.
G. Wallner (1993)
10.1128/AEM.59.3.682-686.1993
Monitoring the enrichment and isolation of sulfate-reducing bacteria by using oligonucleotide hybridization probes designed from environmentally derived 16S rRNA sequences.
M. Kane (1993)
10.1002/CYTO.990110313
Cyanine dye labeling reagents--carboxymethylindocyanine succinimidyl esters.
P. L. Southwick (1990)
10.1128/MMBR.51.3.365-379.1987
Survival strategies of bacteria in the natural environment.
D. Roszak (1987)
10.1099/00207713-37-4-456
Polynucleobacter necessarius gen. nov., sp. nov., an Obligately Endosymbiotic Bacterium Living in the Cytoplasm of Euplotes aediculatus
K. Heckmann (1987)



This paper is referenced by
Biorremediación de suelos contaminados por hidrocarburos pesados y caracterización de comunidades microbianas implicadas
Salvador Lladó Fernández (2012)
10.1111/j.1348-0421.2002.tb02769.x
Fecal Microbial Diversity in a Strict Vegetarian as Determined by Molecular Analysis and Cultivation
H. Hayashi (2002)
Feeding to increase productivity and reduce greenhouse gas emissions
Athol Klieve (2008)
A quantitative and qualitative analysis of microbial community development during low-temperature anaerobic digestion of dairy wastewater
K. Białek (2012)
Test Plan for Composting Studies Involving Weight and Volume Reduction of Leaf and Stalk Biomass : DOWOTD TTP # SR 17
()
Characterizing the bacterial fish pathogen Flavobacterium columnare, and some factors affecting its pathogenicity
H. Kunttu (2010)
10.1021/es102725n
Tetracycline resistance genes persist at aquaculture farms in the absence of selection pressure.
M. Tamminen (2011)
10.1111/j.1472-765X.2004.01643.x
Rapid monitoring of microbial contamination on herbal medicines by fluorescent staining method
K. Nakajima (2005)
10.1533/9781845699284.2.162
Advances in microbiological quality control
J. Osborne (2010)
10.1007/10_2013_256
Starting up microbial enhanced oil recovery.
Michael Siegert (2014)
10.1007/s00248-008-9400-0
Epizoic Communities of Prokaryotes on Healthy and Diseased Scleractinian Corals in Lingayen Gulf, Philippines
M. Arboleda (2008)
10.12938/BIFIDUS1996.17.7
Quantitative measurements of intestinal ecology by digital image analysed microscopy
M. H. Wilkinson (1998)
10.1016/j.margen.2016.01.005
Salinity is the major factor influencing the sediment bacterial communities in a Mediterranean lagoonal complex (Amvrakikos Gulf, Ionian Sea).
C. Pavloudi (2016)
10.1016/S0021-8502(01)00179-3
Detection of airborne fungal spores sampled by rotating-arm and Hirst-type spore traps using polymerase chain reaction assays
C. Calderón (2002)
Degradation of Imidacloprid by Bacteria Isolated from Contaminated Sites
R. Arora (2012)
Environmental risk assessment of veterinary medicines used in Asian aquaculture
A. Rico (2014)
10.1016/J.ECSS.2010.01.023
Estuarine Nitrifiers: New Players, Patterns and Processes
A. Bernhard (2010)
Microbial diversity in the human mouth : dominant genera and their interactions
Stacey Victoria Fergusson (2010)
Aerobic and Anaerobic Oxidation of Methane in Sediments of Lake Constance
J. Deutzmann (2011)
10.1111/j.1462-2920.2010.02324.x
A comparative molecular analysis of water-filled limestone sinkholes in north-eastern Mexico.
J. Sahl (2011)
10.3390/md8030608
Marine Metagenomics: New Tools for the Study and Exploitation of Marine Microbial Metabolism
J. Kennedy (2010)
10.1111/j.1462-2920.2010.02360.x
Culturable Rhodobacter and Shewanella species are abundant in estuarine turbidity maxima of the Columbia River.
S. Bräuer (2011)
Is sarcoidosis a rickettsiosis?
C. B. Svendsen (2011)
10.1007/s00253-010-2828-4
Cloning and functional characterization of a novel endo-β-1,4-glucanase gene from a soil-derived metagenomic library
J. Liu (2010)
10.3724/SP.J.1226.2012.00484
Methods for extraction of microorganism DNA from glacier surface snow
Peiying (2012)
Rapid detection and quantification of Cercospora beticola in soil using PCR and ELISA assays
Abdallah Abdel-Megid Mohamad Ali (2012)
10.1002/9783527639861.CH3
Discovery of Enzymes
Wolfgang Aehle (2012)
Biodegradation of PAHs: analysis and stimulation of degrading bacterial populations / Biodegradación de HAPs: análisis y estimulación de poblaciones bacterianas degradadoras
Sara Gallego Blanco (2012)
10.1371/journal.pone.0044390
Pyrosequencing-Based Analysis of the Microbiome Associated with the Horn Fly, Haematobia irritans
A. Palavesam (2012)
10.1111/j.1574-6941.2012.01446.x
What we can learn from sushi: a review on seaweed-bacterial associations.
J. Hollants (2013)
10.1007/S10539-012-9356-9
Microbial diversity and the “lower-limit” problem of biodiversity
C. Malaterre (2013)
Gastrointestinal Tract Schaedler Flora in the Mouse Eight Microbial Species of the Altered Spatial Distribution and Stability of the
James G. Fox (2014)
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