List of references at probeBase

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Reference title Pubmed-ID
Sulfur-metabolizing bacterial populations in microbial mats of the Nakabusa hot spring, Japan. Kubo K, Knittel K, Amann R, Fukui M, Matsuura K. Systematic and applied microbiology. 2011. 21353426
What's new is old: resolving the identity of Leptothrix ochracea using single cell genomics, pyrosequencing and FISH. Fleming EJ, Langdon AE, Martinez-Garcia M, Stepanauskas R, Poulton NJ, Masland ED, Emerson D. PloS one. 2011. 21437234
Polyhydroxybutyrate production from lactate using a mixed microbial culture. Jiang Y, Marang L, Kleerebezem R, Muyzer G, van Loosdrecht MC. Biotechnology and bioengineering. 2011. 21455932
Transitions in bacterial communities along the 2000?km salinity gradient of the Baltic Sea. Herlemann DP, Labrenz M, Jürgens K, Bertilsson S, Waniek JJ, Andersson AF. The ISME journal. 2011. 21472016
Design of species-specific oligonucleotide probes for the detection of Bacteroides and Parabacteroides by fluorescence in situ hybridization and their application to the analysis of mouse caecal Bacteroides-Parabacteroides microbiota. Momose Y, Park SH, Miyamoto Y, Itoh K. Journal of applied microbiology. 2011. 21535330
Identification of a novel acetate-utilizing bacterium belonging to Synergistes group 4 in anaerobic digester sludge. Ito T, Yoshiguchi K, Ariesyady HD, Okabe S. The ISME journal. 2011. 21562600
Biodiversity and emerging biogeography of the neutrophilic iron-oxidizing Zetaproteobacteria. McAllister SM, Davis RE, McBeth JM, Tebo BM, Emerson D, Moyer CL. Applied and environmental microbiology. 2011. 21666021
Illumina-based analysis of microbial community diversity. Degnan PH, Ochman H. The ISME journal. 2012. 21677692
Specific detection of viable Listeria monocytogenes in Spanish wastewater treatment plants by Fluorescent In Situ Hybridization and PCR. Moreno Y, Ballesteros L, García-Hernández J, Santiago P, González A, Ferrús MA. Water research. 2011. 21762946
Barcoded primers used in multiplex amplicon pyrosequencing bias amplification. Berry D, Ben Mahfoudh K, Wagner M, Loy A. Applied and environmental microbiology. 2011. 21890669
Rapid identification of the animal pathogens Streptococcus uberis and Arcanobacterium pyogenes by fluorescence in situ hybridization (FISH). Werckenthin C, Gey A, Straubinger RK, Poppert S. Veterinary microbiology. 2012. 22033042
Rapid detection of rRNA group I pseudomonads in contaminated metalworking fluids and biofilm formation by fluorescent in situ hybridization. Saha R, Donofrio RS, Goeres DM, Bagley ST. Applied microbiology and biotechnology. 2012. 22042232
In situ identification of keratin-hydrolyzing organisms in swine manure inoculated anaerobic digesters. Xia Y, Massé DI, McAllister TA, Beaulieu C, Talbot G, Kong Y, Seviour R. FEMS microbiology ecology. 2011. 22066513
Identification of Chromera velia by fluorescence in situ hybridization. Morin-Adeline V, Foster C, Slapeta J. FEMS microbiology letters. 2012. 22211939
In situ identification of carboxymethyl cellulose-digesting bacteria in the rumen of cattle fed alfalfa or triticale. Kong Y, Xia Y, Seviour R, He M, McAllister T, Forster R. FEMS microbiology ecology. 2012. 22224860
Establishment of characteristic gut bacteria during development of the honeybee worker. Martinson VG, Moy J, Moran NA. Applied and environmental microbiology. 2012. 22307297
Molecular identification of rickettsial endosymbionts in the non-phagotrophic volvocalean green algae. Kawafune K, Hongoh Y, Hamaji T, Nozaki H. PloS one. 2012. 22363720
Molecular and physiological approaches to understand the ecology of methanol degradation during the biofiltration of air streams. Barcón T, Alonso-Gutiérrez J, Omil F. Chemosphere. 2012. 22386929
Role of nitrogen fixation in the autecology of Polaromonas naphthalenivorans in contaminated sediments. Hanson BT, Yagi JM, Jeon CO, Madsen EM. Environmental microbiology. 2012. 22497673
Betaproteobacterial symbionts of the ciliate Euplotes: origin and tangled evolutionary path of an obligate microbial association. Vannini C, Ferrantini F, Ristori A, Verni F, Petroni G. Environmental microbiology. 2012. 22533449
A CARD-FISH protocol for the identification and enumeration of cyanobacterial akinetes in lake sediments. Ramm J, Lupu A, Hadas O, Ballot A, Rücker J, Wiedner C, Sukenik A. FEMS microbiology ecology. 2012. 22537189
Phylotype-level 16S rRNA analysis reveals new bacterial indicators of health state in acute murine colitis. Berry D, Schwab C, Milinovich G, Reichert J, Ben Mahfoudh K, Decker T, Engel M, Hai B, Hainzl E, Heider S, Kenner L, Müller M, Rauch I, Strobl B, Wagner M, Schleper C, Urich T, Loy A. The ISME journal. 2012. 22572638
Identification of glucose-fermenting bacteria in a full-scale enhanced biological phosphorus removal plant by stable isotope probing. Nielsen JL, Nguyen H, Meyer RL, Nielsen PH. Microbiology (Reading, England). 2012. 22575897
Nitrification expanded: discovery, physiology and genomics of a nitrite-oxidizing bacterium from the phylum Chloroflexi. Sorokin DY, Lücker S, Vejmelkova D, Kostrikina NA, Kleerebezem R, Rijpstra WI, Damsté JS, Le Paslier D, Muyzer G, Wagner M, van Loosdrecht MC, Daims H. The ISME journal. 2012. 22763649
Evaluation of marine bacteroidetes-specific primers for microbial diversity and dynamics studies. Díez-Vives C, Gasol JM, Acinas SG. Microbial ecology. 2012. 22805741