Genomes and Genes
Summary: A class in the phylum PROTEOBACTERIA comprised of chemoheterotrophs and chemoautotrophs which derive nutrients from decomposition of organic material.
Publications232 found, 100 shown here
- Ammonia-oxidizing bacteria: a model for molecular microbial ecologyG A Kowalchuk
Netherlands Institute of Ecology, Centre for Terrestrial Ecology, Boterhoeksestraat 48, P O Box 40, Heteren, 6666 ZG, The Netherlands
Annu Rev Microbiol 55:485-529. 2001....
- Diversity of ammonia monooxygenase operon in autotrophic ammonia-oxidizing bacteriaJeanette M Norton
Department of Plants, Soils and Biometeorology, Utah State University, Logan, UT 84322 4820, USA
Arch Microbiol 177:139-49. 2002..Electronic supplementary material to this paper can be obtained by using the Springer LINK server located at http://dx.doi.org/10.1007/s00203-001-0369-z...
- Methylibium petroleiphilum gen. nov., sp. nov., a novel methyl tert-butyl ether-degrading methylotroph of the BetaproteobacteriaCindy H Nakatsu
Department of Agronomy, Purdue University, West Lafayette, IN 47907 2054, USA
Int J Syst Evol Microbiol 56:983-9. 2006..Analysis of the 16S rRNA gene sequence indicated that this bacterium was a member of the class Betaproteobacteria in the Sphaerotilus-Leptothrix group...
- An interdependent metabolic patchwork in the nested symbiosis of mealybugsJohn P McCutcheon
Center for Insect Science, University of Arizona, Tucson, AZ 85721, USA
Curr Biol 21:1366-72. 2011..an unnamed gammaproteobacteria, for which we propose the name Candidatus Moranella endobia, lives inside the betaproteobacteria Candidatus Tremblaya princeps ...
- Phylogenetic validation of the genera Angomonas and Strigomonas of trypanosomatids harboring bacterial endosymbionts with the description of new species of trypanosomatids and of proteobacterial symbiontsMarta M G Teixeira
Department of Parasitology, ICB, University of Sao Paulo USP, Sao Paulo, 05508 000, SP, Brazil
Protist 162:503-24. 2011..analyses based on 16S rDNA and ITS rDNA sequences demonstrated that all of the endosymbionts belonged to the Betaproteobacteria and revealed three new species...
- Legume-nodulating betaproteobacteria: diversity, host range, and future prospectsPrasad Gyaneshwar
Department of Biological Sciences, University of Wisconsin Milwaukee, Milwaukee, WI, USA
Mol Plant Microbe Interact 24:1276-88. 2011..Alphaproteobacteria, some legumes, such as those in the large genus Mimosa, are nodulated predominantly by betaproteobacteria in the genera Burkholderia and Cupriavidus...
- Acidovorax-like symbionts in the nephridia of earthwormsAndreas Schramm
Department of Ecological Microbiology, University of Bayreuth, D 95440 Bayreuth, Germany
Environ Microbiol 5:804-9. 2003..Given the close phylogenetic relationship of the symbionts to proteolytic, free-living Acidovorax species, they may indeed play a role in protein degradation during nitrogen excretion by earthworms...
- Abundance of ammonia-oxidizing archaea and bacteria along an estuarine salinity gradient in relation to potential nitrification ratesAnne E Bernhard
Department of Biology, Connecticut College, New London, Connecticut, USA
Appl Environ Microbiol 76:1285-9. 2010..However, AOA abundance did not correlate with potential nitrification rates. This lack of correlation may be due to methodological limitations or alternative energy sources...
- Nodulation of legumes by members of the beta-subclass of ProteobacteriaL Moulin
Laboratoire des Symbioses Tropicales et Méditerranéennes, IRD INRA CIRAD ENSAM Baillarguet, Montpellier, France
Nature 411:948-50. 2001..Here we report the identification of proteobacteria from the beta-subclass that nodulate legumes. This finding shows that the ability to establish a symbiosis with legumes is more widespread in bacteria than anticipated to date...
- Broad habitat range of the phylogenetically narrow R-BT065 cluster, representing a core group of the Betaproteobacterial genus LimnohabitansKarel Simek
Biology Centre AS CR, Hydrobiological Institute, Ceske Budejovice, Czech Republic
Appl Environ Microbiol 76:631-9. 2010The distribution of the phylogenetically narrow R-BT065 cluster (Betaproteobacteria) in 102 freshwater lakes, reservoirs, and various ponds located in central Europe (a total of 122 samples) was examined by using a cluster-specific ..
- Biology bacteriocyte-associated endosymbionts of plant sap-sucking insectsPaul Baumann
Microbiology Section, University of California, Davis, California 95616, USA
Annu Rev Microbiol 59:155-89. 2005....
- Biphenyl-metabolizing bacteria in the rhizosphere of horseradish and bulk soil contaminated by polychlorinated biphenyls as revealed by stable isotope probingOndrej Uhlik
Department of Biochemistry and Microbiology, Faculty of Food and Biochemical Technology, Institute of Chemical Technology Prague, Technicka 3, 166 28 Prague 6, Czech Republic
Appl Environ Microbiol 75:6471-7. 2009..to derive carbon from biphenyl in this nutrient-amended microcosm-based study belonged mostly to the class Betaproteobacteria and were identified as Achromobacter spp., Variovorax spp., Methylovorus spp., or Methylophilus spp...
- Bioenergetic models for acetate and phosphate transport in bacteria important in enhanced biological phosphorus removalLuke C Burow
Advanced Wastewater Management Centre, The University of Queensland, St Lucia, QLD 4072, Australia
Environ Microbiol 10:87-98. 2008..Activity of a high-velocity Pst system in Accumulibacter spp. may further explain its ability to compete strongly in EBPR...
- Structure and function of the microbial community in a full-scale enhanced biological phosphorus removal plantYunhong Kong
Department of Biotechnology, Chemistry and Environmental Engineering, Aalborg University, DK 9000 Aalborg, Denmark
Microbiology 153:4061-73. 2007..that six hitherto undescribed probe-defined groups within the phylum Bacteroidetes (two groups), and classes Betaproteobacteria (two groups) and Gammaproteobacteria (two groups), were relatively abundant (>1% of total biovolume) in the ..
- Alga-derived substrates select for distinct Betaproteobacterial lineages and contribute to niche separation in Limnohabitans strainsKarel Simek
Biology Centre of the Academy of Sciences of the Czech Republic, Hydrobiological Institute v v i, Na Sadkach 7, CZ 37005 Ceske Budejovice, Czech Republic
Appl Environ Microbiol 77:7307-15. 2011We examined the proportions of major Betaproteobacteria subgroups within bacterial communities in diverse nonaxenic, monospecific cultures of algae or cyanobacteria: four species of cryptophyta (genera Cryptomonas and Rhodomonas), four ..
- Structure, function, and evolution of the Thiomonas spp. genomeFlorence Arsène-Ploetze
Genetique Moleculaire, Génomique et Microbiologie, UMR7156 CNRS and Université de Strasbourg, Strasbourg, France
PLoS Genet 6:e1000859. 2010..Our results suggest that the Thiomonas genome has evolved through the gain or loss of genomic islands and that this evolution is influenced by the specific environmental conditions in which the strains live...
- Carbon and arsenic metabolism in Thiomonas strains: differences revealed diverse adaptation processesChristopher G Bryan
Genetique Moleculaire, Génomique et Microbiologie, UMR 7156 CNRS and Université de Strasbourg, Strasbourg, France
BMC Microbiol 9:127. 2009..Ynys1 and T. perometabolis are not. Moreover, T. arsenivorans and 3As present interesting physiological traits, in particular that these strains are able to use As(III) as an electron donor...
- Limnohabitans curvus gen. nov., sp. nov., a planktonic bacterium isolated from a freshwater lakeMartin W Hahn
Institute for Limnology, Austrian Academy of Sciences, Mondseestrasse 9, A 5310 Mondsee, Austria
Int J Syst Evol Microbiol 60:1358-65. 2010..analysis of 16S rRNA gene sequences revealed the affiliation of the strain with the family Comamonadaceae (Betaproteobacteria); however, the phylogenetic position of the strain did not support an affiliation to any previously ..
- Grassland management regimens reduce small-scale heterogeneity and species diversity of beta-proteobacterial ammonia pxidizer populationsGordon Webster
Department of Molecular and Cell Biology, Institute of Medical Sciences, University of Aberdeen, Foresterhill, Aberdeen, AB25 2ZD, United Kingdom
Appl Environ Microbiol 68:20-30. 2002..The results therefore demonstrate significant effects of soil management on diversity and heterogeneity of ammonia oxidizer populations that are related to similar changes in relevant soil characteristics...
- Influence of top-down and bottom-up manipulations on the R-BT065 subcluster of beta-proteobacteria, an abundant group in bacterioplankton of a freshwater reservoirKarel Simek
Hydrobiological Institute of the Academy of Sciences of the Czech Republic, Na Sadkach 7, CZ 37005 Ceske Budejovice, Czech Republic
Appl Environ Microbiol 71:2381-90. 2005..In contrast, increasing protistan bacterivory yielded lower proportions of R-BT065-positive and HNA bacteria substituted by increasing proportions of the class Actinobacteria, which profited from the enhanced protistan bacterivory...
- Infection dynamics of coexisting beta- and gammaproteobacteria in the nested endosymbiotic system of mealybugsMarie Kono
Institute for Biological Resources and Functions, National Institute of Advanced Industrial Science and Technology, Tsukuba 305 8566, Japan
Appl Environ Microbiol 74:4175-84. 2008..e., "Candidatus Tremblaya princeps," and formed a compact clade in the Betaproteobacteria. Meanwhile, the latter bacterium was related to the gamma-endosymbionts of other mealybugs but belonged to ..
- Members of a readily enriched beta-proteobacterial clade are common in surface waters of a humic lakeUlrike Burkert
Leibniz Institute of Freshwater Ecology and Inland Fisheries, Berlin, Germany
Appl Environ Microbiol 69:6550-9. 2003..We suggest that the pelagic microbial community of the studied system harbors two major components with fundamentally different growth strategies...
- Physiological and taxonomic description of the novel autotrophic, metal oxidizing bacterium, Pseudogulbenkiania sp. strain 2002Karrie A Weber
Department of Plant and Microbial Biology, University of California, Berkeley, CA 94720, USA
Appl Microbiol Biotechnol 83:555-65. 2009..gene sequence placed strain 2002 in a clade within the family Neisseriaceae in the order Nessieriales of the Betaproteobacteria 99.3% similar to Pseudogulbenkiania subflava. Similar to P...
- Radiolabelled proteomics to determine differential functioning of Accumulibacter during the anaerobic and aerobic phases of a bioreactor operating for enhanced biological phosphorus removalMargaret Wexler
School of Biological Sciences, University of East Anglia, Norwich NR4 7TJ, UK
Environ Microbiol 11:3029-44. 2009..We hypothesize that this is associated with increased anaerobic phospholipid membrane biosynthesis, to accommodate intracellular polyhydroxyalkanoate granules...
- Tetrathiobacter kashmirensis gen. nov., sp. nov., a novel mesophilic, neutrophilic, tetrathionate-oxidizing, facultatively chemolithotrophic betaproteobacterium isolated from soil from a temperate orchard in Jammu and Kashmir, IndiaWriddhiman Ghosh
Department of Microbiology, Bose Institute, Kolkata 700 054, India
Int J Syst Evol Microbiol 55:1779-87. 2005..strains, which revealed a high degree of similarity (> or =99%) among them and placed the cluster in the 'Betaproteobacteria'. The strains showed low levels (93.5-95...
- Proton motive force generation from stored polymers for the uptake of acetate under anaerobic conditionsAaron M Saunders
Advanced Wastewater Management Centre, The University of Queensland, St Lucia, Queensland, Australia
FEMS Microbiol Lett 274:245-51. 2007..Stored polymers were used to generate the PMF -Accumulibacter used phosphate efflux through the Pit transporter, while Competibacter generated a PMF by proton efflux through the ATPase and fumarate reductase in the reductive TCA cycle...
- Microbial distribution of Accumulibacter spp. and Competibacter spp. in aerobic granules from a lab-scale biological nutrient removal systemRomain Lemaire
Advanced Water Management Centre, The University of Queensland, St Lucia, Brisbane, Australia
Environ Microbiol 10:354-63. 2008..was responsible for denitrification in this SBR. This is undesirable for SNDPR as savings in carbon demand cannot be fulfilled with phosphorus removal and denitrification being achieved by different groups of bacteria...
- Diversity of bacteria growing in natural mineral water after bottlingAlexander Loy
Abteilung für Mikrobielle Okologie, Institut für Okologie und Naturschutz, Universitat Wien, Althanstr 14, A 1090 Vienna, Austria
Appl Environ Microbiol 71:3624-32. 2005..that Gammaproteobacteria are the most important bacterial components of natural mineral water in bottles, Betaproteobacteria dominated the growing bacterial community and accounted for 80 to 98% of all bacteria detected by FISH in ..
- Obtaining highly enriched cultures of Candidatus Accumulibacter phosphates through alternating carbon sourcesHuabing Lu
Advanced Wastewater Management Centre AWMC, The University of Queensland, St Lucia, Brisbane 4072, Australia
Water Res 40:3838-48. 2006..This feeding strategy is recommended for future studies focused on describing the physiology and biochemistry of Accumulibacter, where a highly-enriched culture of this organism is of high importance...
- Simultaneous nitrification, denitrification, and phosphorus removal from nutrient-rich industrial wastewater using granular sludgeGulsum Yilmaz
Advanced Water Management Centre AWMC, The University of Queensland, St Lucia, QLD 4072, Australia
Biotechnol Bioeng 100:529-41. 2008....
- The bacterial community composition of the surface microlayer in a high mountain lakePaul Hörtnagl
Laboratory of Aquatic Photobiology and Plankton Ecology, Institute of Ecology, University of Innsbruck, Innsbruck, Austria
FEMS Microbiol Ecol 73:458-67. 2010..The bacterial community of the SML and the ULW was dominated by Betaproteobacteria and Actinobacteria...
- Contrasting ability to take up leucine and thymidine among freshwater bacterial groups: implications for bacterial production measurementsMaria Teresa Perez
Laboratory of Aquatic Photobiology and Plankton Ecology, Institute of Ecology, University of Innsbruck, Technikerstrasse 25, 6020 Innsbruck, Austria
Environ Microbiol 12:74-82. 2010..When a saturating substrate concentration in combination with a short incubation was used, 80-90% of Betaproteobacteria and 67-79% of Actinobacteria were positive for leucine uptake, whereas thymidine was taken up by < 10% of ..
- Low intraspecific diversity in a polynucleobacter subcluster population numerically dominating bacterioplankton of a freshwater pondMartin W Hahn
Institute for Limnology, Austrian Academy of Sciences, Mondseestrasse 9, A 5310 Mondsee, Austria
Appl Environ Microbiol 71:4539-47. 2005..methods were combined to investigate the microdiversity of a Polynucleobacter subcluster population (Betaproteobacteria) numerically dominating the bacterioplankton of a small, humic freshwater pond...
- Correlation of the abundance of betaproteobacteria on mineral surfaces with mineral weathering in forest soilsC Lepleux
INRA, UMR 1136 INRA Nancy Université Interactions Arbres Micro organismes, Centre INRA de Nancy, Champenoux, France
Appl Environ Microbiol 78:7114-9. 2012..16S rRNA gene sequences revealed a significant correlation between apatite dissolution and the abundance of betaproteobacteria on apatite surfaces, suggesting a role for the bacteria belonging to this phylum in mineral weathering...
- Betaproteobacteria dominance and diversity shifts in the bacterial community of a PAH-contaminated soil exposed to phenanthreneFlorence Martin
CEA, DSV, iRTSV, Laboratoire de Chimie et Biologie des Metaux, Grenoble, France
Environ Pollut 162:345-53. 2012..At 337 ppm, PAH degraders became dominated after 5 days by Betaproteobacteria, including novel Acidovorax, Rhodoferax and Hydrogenophaga members, and unknown bacteria related to ..
- Regulation of photosynthesis genes in Rubrivivax gelatinosus: transcription factor PpsR is involved in both negative and positive controlAnne Soisig Steunou
Centre de Génétique Moléculaire CNRS UPR 2167, 91198 Gif sur Yvette, France
J Bacteriol 186:3133-42. 2004..Inspection of the putative PpsR-binding consensus sequences revealed significant differences that may explain the different levels of expression of the two genes studied...
- Distribution of typical freshwater bacterial groups is associated with pH, temperature, and lake water retention timeEva S Lindström
Limnology Department of Ecology and Evolution, Evolutionary Biology Centre, Uppsala University, Norbyv 20, SE 75236 Uppsala, Sweden
Appl Environ Microbiol 71:8201-6. 2005..Within the beta subdivision of the Proteobacteria (Betaproteobacteria), as well as within the divisions Actinobacteria and Verrucomicrobia, different subgroups were associated ..
- Oxidation of arsenite by Thiomonas strains and characterization of Thiomonas arsenivorans sp. novFabienne Battaglia-Brunet
BRGM, Environment and Process Division, Biotechnology Unit, 2 av Claude Guillemin, 45060, Orléans cedex 02, France
Antonie Van Leeuwenhoek 89:99-108. 2006..intermedia showed less than 50% homology. On the basis of phylogenetic and phenotypic characteristics, strain b6(T) (DSM 16361(T), LMG 22795(T)) is proposed as the type strain of the new species Thiomonas arsenivorans, sp. nov...
- Spatio-temporal niche separation of planktonic Betaproteobacteria in an oligo-mesotrophic lakeMichaela M Salcher
Department of Limnology, Institute of Plant Biology, University of Zurich, Seestrasse 187, CH 8802 Kilchberg, Switzerland
Environ Microbiol 10:2074-86. 2008We investigated the diversity of planktonic Betaproteobacteria and the seasonal population changes of betaproteobacterial taxa in an oligo-mesotrophic lake (Piburger See, Austria)...
- Evidence for bacteriophage activity causing community and performance changes in a phosphorus-removal activated sludgeJeremy J Barr
Advanced Water Management Centre AWMC, The University of Queensland UQ, Brisbane, QLD, Australia
FEMS Microbiol Ecol 74:631-42. 2010..These findings suggest that bacteriophage may play a significant role in determining the structure and function of bacterial communities in activated sludges...
- Metagenomic analysis of two enhanced biological phosphorus removal (EBPR) sludge communitiesHector Garcia Martin
DOE Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, California 94598, USA
Nat Biotechnol 24:1263-9. 2006..The present study provides a much needed blueprint for a systems-level understanding of EBPR and illustrates that metagenomics enables detailed, often novel, insights into even well-studied biological systems...
- Metatranscriptomic array analysis of 'Candidatus Accumulibacter phosphatis'-enriched enhanced biological phosphorus removal sludgeShaomei He
Department of Civil and Environmental Engineering, University of Wisconsin at Madison, Madison, WI 53706, USA
Environ Microbiol 12:1205-17. 2010..Nitrous oxide reductase was among the very few Accumulibacter genes upregulated in the anaerobic sample, suggesting that its expression is likely induced by the deprivation of oxygen...
- An Acanthamoeba sp. containing two phylogenetically different bacterial endosymbiontsEva Heinz
Department of Microbial Ecology, Faculty of Life Sciences, University of Vienna, A 1090 Vienna, Austria
Environ Microbiol 9:1604-9. 2007..16S rRNA sequence analysis assigned these symbionts to the candidate genus Procabacter (Betaproteobacteria) and the genus Parachlamydia (Chlamydiae) respectively...
- Polyphosphate kinase from activated sludge performing enhanced biological phosphorus removalKatherine D McMahon
Department of Civil Engineering, University of California at Berkeley, Berkeley, California 94720 1460, USA
Appl Environ Microbiol 68:4971-8. 2002..The purified PPK has a specific activity comparable to that of other PPKs, has a requirement for Mg(2+), and does not appear to operate in reverse. PPK activity was found mainly in the particulate fraction of lysed sludge microorganisms...
- Organization and expression of photosynthesis genes and operons in anoxygenic photosynthetic proteobacteriaSylviane Liotenberg
CNRS, Centre de Genetique Moleculaire, UPR 2167, Gif sur Yvette, F 91198, France
Environ Microbiol 10:2267-76. 2008..genes involved in photosynthesis were found clustered and organized in operons in photosynthetic Alpha- and Betaproteobacteria. The discovery of Gammaproteobacteria with a conserved photosynthetic gene cluster revives the questions on ..
- Mealybug beta-proteobacterial endosymbionts contain gamma-proteobacterial symbiontsC D von Dohlen
Present address LDN, NICHD, National Institutes of Health, MSC 4480, 9000 Rockville Pike, Bethesda, Maryland 20892, USA
Nature 412:433-6. 2001..Thus, gamma-Proteobacteria live symbiotically inside beta-Proteobacteria. This is the first report, to our knowledge, of an intracellular symbiosis involving two species of bacteria...
- Changes in the community structure and activity of betaproteobacterial ammonia-oxidizing sediment bacteria along a freshwater-marine gradientThomas E Freitag
School of Biological Sciences, University of Aberdeen, Cruickshank Building, St Machar Drive, Aberdeen AB24 3UU, UK
Environ Microbiol 8:684-96. 2006..No sequence with similarity to the Nitrosospira cluster 1 clade was recovered during SIP analysis. The potential role of Nitrosospira cluster 1 in autotrophic ammonia oxidation therefore remains uncertain...
- Analysis of ammonia-oxidizing bacteria from hypersaline Mono Lake, California, on the basis of 16S rRNA sequencesB B Ward
Institute of Marine Sciences, University of California, Santa Cruz, California, USA
Appl Environ Microbiol 66:2873-81. 2000..Primers specific for Nitrosococcus oceanus, a marine ammonia-oxidizing bacterium in the gamma subdivision of the Proteobacteria, did not amplify target from any samples...
- Secondary (gamma-Proteobacteria) endosymbionts infect the primary (beta-Proteobacteria) endosymbionts of mealybugs multiple times and coevolve with their hostsMyLo Ly Thao
Microbiology Section, University of California Davis, Davis, CA 95616 8665, USA
Appl Environ Microbiol 68:3190-7. 2002..princeps" are useful in inferring the phylogeny of their mealybug hosts...
- Detailed phylogeny of ammonia-oxidizing bacteria determined by rDNA sequences and DNA homology valuesA Aakra
Laboratory of Microbial Gene Technology, Department of Chemistry and Biotechnology, Agricultural University of Norway, As
Int J Syst Evol Microbiol 51:2021-30. 2001..This observation will probably be important for the interpretation of results from studies of natural diversity of AOB...
- A small population of planktonic Flavobacteria with disproportionally high growth during the spring phytoplankton bloom in a prealpine lakeMichael Zeder
Limnological Station Kilchberg, University of Zurich, Zurich, Switzerland
Environ Microbiol 11:2676-86. 2009..Incorporation of BrdU was low in Betaproteobacteria (2 +/- 1%), indicating that these bacteria did not incorporate the tracer...
- Bacterial endosymbiont localization in Hyalesthes obsoletus, the insect vector of Bois noir in Vitis viniferaElena Gonella
Dipartimento di Valorizzazione e Protezione delle Risorse Agroforestali, Via Leonardo da Vinci 44, 10095 Grugliasco, Italy
Appl Environ Microbiol 77:1423-35. 2011..A high infection rate (81%) was also shown for another symbiont belonging to the Betaproteobacteria, designated the HO1-V symbiont...
- Heterotrophic symbionts of phototrophic consortia: members of a novel diverse cluster of Betaproteobacteria characterized by a tandem rrn operon structureKristina R Pfannes
Bereich Mikrobiologie, Department Biologie I, Ludwig Maximilians Universitat Munchen, Maria Ward Str 1a, D 80638 München, Germany
Environ Microbiol 9:2782-94. 2007..We discovered a diverse and previously unknown subgroup of Betaproteobacteria in the chemoclines of freshwater lakes. This group was absent in other freshwater and soil samples...
- Dechloromonas denitrificans sp. nov., Flavobacterium denitrificans sp. nov., Paenibacillus anaericanus sp. nov. and Paenibacillus terrae strain MH72, N2O-producing bacteria isolated from the gut of the earthworm Aporrectodea caliginosaMarcus A Horn
Department of Ecological Microbiology, University of Bayreuth, Germany
Int J Syst Evol Microbiol 55:1255-65. 2005..nov., Flavobacterium denitrificans sp. nov. and Paenibacillus anaericanus sp. nov., respectively. MH72 is considered a new strain of Paenibacillus terrae...
- Biofilms of As(III)-oxidising bacteria: formation and activity studies for bioremediation process developmentC Michel
BRGM, 3 avenue C Guillemin, BP36009, 45060, Orleans cedex 2, France
Appl Microbiol Biotechnol 77:457-67. 2007....
- Assimilation of polysaccharides and glucose by major bacterial groups in the Delaware EstuaryHila Elifantz
College of Marine Studies, University of Delaware, Lewes, DE 19958, USA
Appl Environ Microbiol 71:7799-805. 2005..In contrast, various bacterial groups dominated the assimilation of EPS. Actinobacteria and Betaproteobacteria contributed the most in the freshwater section, whereas Cytophaga-like bacteria and Alpha- and ..
- Confirmation of Thiomonas delicata (formerly Thiobacillus delicatus) as a distinct species of the genus Thiomonas Moreira and Amils 1997 with comments on some species currently assigned to the genusYoko Katayama
Department of Environmental and Natural Resource Science, Graduate School of Agriculture, Tokyo University of Agriculture and Technology, Fuchu, Tokyo, Japan, and Department of Microbiology, King s College and St Thomas Hospitals, London, UK
Int J Syst Evol Microbiol 56:2553-7. 2006..An emended formal description of Thiomonas delicata is given. The status of Thiomonas cuprina DSM 5495T as a member of the genus is reconsidered...
- Identification, characterization, and classification of genes encoding perchlorate reductaseKelly S Bender
Department of Microbiology, Southern Illinois University, Carbondale, IL 62901, USA
J Bacteriol 187:5090-6. 2005..The separation of perchlorate reductase as an activity distinct from chlorate reductase was further supported by DNA hybridization analysis of (per)chlorate- and chlorate-reducing strains using the pcrA gene as a probe...
- Evaluation of PCR primer selectivity and phylogenetic specificity by using amplification of 16S rRNA genes from betaproteobacterial ammonia-oxidizing bacteria in environmental samplesPilar Junier
Ecole Polytechnique Federale de Lausanne, CH 1015 Lausanne, Switzerland
Appl Environ Microbiol 74:5231-6. 2008The effect of primer specificity for studying the diversity of ammonia-oxidizing betaproteobacteria (betaAOB) was evaluated...
- Ecophysiological differences of betaproteobacterial populations in two hydrochemically distinct compartments of a subtropical lagoonCecilia Alonso
Limnological Station, Institute of Plant Biology, Seestr 187, CH 8802 Kilchberg, Switzerland
Environ Microbiol 11:867-76. 2009We studied the population sizes and substrate incorporation patterns of three phylogenetic groups of Betaproteobacteria in a coastal subtropical lagoon that is characterized by a sharp transition from humic freshwater to turbid brackish ..
- 16S rRNA and amoA-based phylogeny of 12 novel betaproteobacterial ammonia-oxidizing isolates: extension of the dataset and proposal of a new lineage within the nitrosomonadsUlrike Purkhold
Lehrstuhl fur Mikrobiologie, Technische Universitat Munchen, D 85350 Freising, Germany
Int J Syst Evol Microbiol 53:1485-94. 2003..In addition, 17 environmentally retrieved 16S rRNA gene sequences not assigned previously and all originating exclusively from marine or estuarine sites clearly belong to this lineage...
- Arsenite oxidase aox genes from a metal-resistant beta-proteobacteriumDaniel Muller
Laboratoire de Dynamique, Evolution et Expression des Génomes de Micro Organismes, FRE2326 Université Louis Pasteur CNRS, 67083 Strasbourg Cedex, France
J Bacteriol 185:135-41. 2003....
- Effects of temperature and fertilizer on activity and community structure of soil ammonia oxidizersSharon Avrahami
Max Planck Institut fur terrestrische Mikrobiologie, Karl von Frisch Str, 35043 Marburg, Germany
Environ Microbiol 5:691-705. 2003..Obviously, ammonia oxidizers are able to adapt to soil conditions by changes in the community structure if sufficient time (several weeks) is available...
- High similarity between bacterioneuston and airborne bacterial community compositions in a high mountain lake areaAnna Hervas
Group of Limnology Department of Continental Ecology, Centre d Estudis Avançats de Blanes, CEAB CSIC, Accés Cala St Francesc, Blanes, Girona, Spain
FEMS Microbiol Ecol 67:219-28. 2009..We did not detect unusual taxa in the neuston but rather very common and widespread bacterial groups. Betaproteobacteria and Actinobacteria accounted for >75% of the community composition...
- Cultivation-based and molecular approaches to characterisation of terrestrial and aquatic nitrifiersJames I Prosser
Department of Molecular and Cell Biology, Institute of Medical Sciences, University of Aberdeen, Foresterhill, UK
Antonie Van Leeuwenhoek 81:165-79. 2002....
- An arsenic(III)-oxidizing bacterial population: selection, characterization, and performance in reactorsF Battaglia-Brunet
BRGM, Environment and Process Division, Biotechnology Unit, Orleans, France
J Appl Microbiol 93:656-67. 2002..To select an autotrophic arsenic(III)-oxidizing population, named CASO1, and to evaluate the performance of the selected bacteria in reactors...
- Relationship of temporal and spatial variabilities of ammonia-oxidizing bacteria to nitrification rates in Monterey Bay, CaliforniaG D O'Mullan
Department of Ecology and Evolutionary Biology, Princeton University, Princeton, NJ 08544, USA
Appl Environ Microbiol 71:697-705. 2005..Although significant genetic variation was detected in AOB populations from both vertical and temporal samples, no significant correlation was detected between diversity and environmental variables or the rate of nitrification...
- Anaerobic benzene oxidation coupled to nitrate reduction in pure culture by two strains of DechloromonasJ D Coates
Department of Microbiology, Southern Illinois University, Carbondale 62901, USA
Nature 411:1039-43. 2001..This is the first example, to our knowledge, of an organism of any type that can oxidize benzene anaerobically, and we demonstrate the potential applicability of these organisms to the treatment of contaminated environments...
- Reassessment of the phylogenetic relationships of Thiomonas cuprinaDonovan P Kelly
Department of Biological Sciences, University of Warwick, Coventry CV4 7AL, UK
Int J Syst Evol Microbiol 57:2720-4. 2007..The properties of these three species are re-evaluated, and emended descriptions are provided for the genus Thiomonas and the species Thiomonas cuprina...
- Methyloversatilis universalis gen. nov., sp. nov., a novel taxon within the Betaproteobacteria represented by three methylotrophic isolatesMarina G Kalyuzhnaya
Department of Chemical Engineering, University of Washington, Seattle, WA 98195, USA
Int J Syst Evol Microbiol 56:2517-22. 2006..85-100%, but was below 94% with other members of the Betaproteobacteria, indicating that the isolates represent a novel taxon...
- Identification of genes and proteins involved in the pleiotropic response to arsenic stress in Caenibacter arsenoxydans, a metalloresistant beta-proteobacterium with an unsequenced genomeChristine Carapito
LSMBO, Laboratoire de Spectrométrie de Masse Bio Organique ECPM, Bâtiment R5, 67087 Strasbourg, France CNRS UMR 7509 Université Louis Pasteur, Strasbourg, France
Biochimie 88:595-606. 2006....
- Macroscopic streamer growths in acidic, metal-rich mine waters in north wales consist of novel and remarkably simple bacterial communitiesKevin B Hallberg
School of Biological Sciences, University of Wales, Bangor LL57 2UW, United Kingdom
Appl Environ Microbiol 72:2022-30. 2006....
- Obligate bacterial endosymbionts of Acanthamoeba spp. related to the beta-Proteobacteria: proposal of 'Candidatus Procabacter acanthamoebae' gen. nov., sp. novMatthias Horn
Lehrstuhl fur Mikrobiologie, Technische Universitat Munchen, Freising, Germany
Int J Syst Evol Microbiol 52:599-605. 2002....
- Comparative in silico analysis of PCR primers suited for diagnostics and cloning of ammonia monooxygenase genes from ammonia-oxidizing bacteriaPilar Junier
Ecole Polytechnique Federale de Lausanne, Lausanne, Switzerland
FEMS Microbiol Ecol 64:141-52. 2008..Additionally, new primers to amplify the almost complete amoCAB operon of AOB belonging to Betaproteobacteria (betaproteobacterial AOB), a primer pair for DGGE analysis of amoA and specific primers for ..
- Denitrifying degradation of dimethyl phthalateDa Wei Liang
Department of Civil Engineering, The University of Hong Kong, Pokfulam Road, Hong Kong, China
Appl Microbiol Biotechnol 74:221-9. 2007..They clustered into a group in the alpha-subdivision of Proteobacteria most closely related to denitrifier Bradyrhizobium japonicum USDA110 and several environmental clones...
- Low nitrification rates in acid Scots pine forest soils are due to pH-related factorsR A Nugroho
Institute of Ecological Science, Faculty of Earth and Life Sciences, Vrije Universiteit, De Boelelaan 1085, 1081 HV, Amsterdam, The Netherlands
Microb Ecol 53:89-97. 2007..Our study suggests that low nitrification rates in acidic Scots pine forest soils are due to pH-related factors. Nitrosospira cluster 2 detected in these soils is presumably a urease-positive cluster type of AOB...
- Identification and quantification of uncultivated Proteobacteria associated with pyrene degradation in a bioreactor treating PAH-contaminated soilDavid R Singleton
Department of Environmental Sciences and Engineering School of Public Health, CB 7431, University of North Carolina, Chapel Hill, NC 27599 7431, USA
Environ Microbiol 8:1736-45. 2006..These data indicate that the primary pyrene degraders in the bioreactor were uncultivated, low-abundance beta- and gamma-Proteobacteria not previously associated with pyrene degradation...
- Culturable psychrotrophic bacterial communities in raw milk and their proteolytic and lipolytic traitsElionora Hantsis-Zacharov
Department of Evolutionary and Environmental Biology, Faculty of Science and Science Education, University of Haifa, Mount Carmel, Haifa 31905, Israel
Appl Environ Microbiol 73:7162-8. 2007..The four minor classes were Alphaproteobacteria, Betaproteobacteria, Flavobacteria, and Sphingobacteria...
- Description of Pelomonas aquatica sp. nov. and Pelomonas puraquae sp. nov., isolated from industrial and haemodialysis waterMargarita Gomila
Area Microbiologia, Departament de Biologia, Universitat de les Illes Balears, and Institut Mediterrani d Estudis Avançats CSIC UIB, 07122 Palma de Mallorca, Illes Balears, Spain
Int J Syst Evol Microbiol 57:2629-35. 2007..Phylogenetic analysis based on 16S rRNA gene sequences indicated that these isolates belonged to the class Betaproteobacteria and were related to the genus Pelomonas, with 16S rRNA gene sequence similarities higher than 99% with the ..
- Chitinilyticum aquatile gen. nov., sp. nov., a chitinolytic bacterium isolated from a freshwater pond used for Pacific white shrimp cultureShu Chen Chang
Department of Food Science and Technology, Tajen University, 20 Weishin Rd, Yanpu Shiang, Pingtung City 907, Taiwan, Republic of China
Int J Syst Evol Microbiol 57:2854-60. 2007..analysis of the 16S rRNA gene sequence revealed a clear affiliation of the proposed bacterium to the Betaproteobacteria, most closely related to Chitinibacter tainanensis S1(T), Deefgea rivuli WB 3...
- Methylibium fulvum sp. nov., a member of the Betaproteobacteria isolated from ginseng field soil, and emended description of the genus MethylibiumMin Ho Yoon
Department of BioEnvironmental Chemistry, College of Agriculture and Life Sciences, Chungnam National University, Daejeon 305 764, Republic of Korea
Int J Syst Evol Microbiol 57:2062-6. 2007..Comparative 16S rRNA gene sequence analysis showed that strain Gsoil 322(T) belongs to the class Betaproteobacteria and was most closely related to Methylibium petroleiphilum ATCC BAA-1232(T) (97.5 % sequence similarity)...
- "Bring to lab" of 19 novel species among 60 isolates retrieved from a freshwater pondJaeho Song
Division of Biology and Ocean Sciences, Inha University, Incheon 402 751, Korea
J Microbiol Biotechnol 17:168-75. 2007..the novel species, the majority of the strains (20 strains) were affiliated with the Alphaproteobacteria and Betaproteobacteria. The remaining 7 strains were affiliated with the Gammaproteobacteria, Firmicutes, Actinobacteria, and ..
- Methylibium subsaxonicum spec. nov., a betaproteobacterium Isolated from a hardwater rivuletErko Stackebrandt
German Collection of Microorganisms and Cell Cultures GmbH, Inhoffenstr Braunschweig, Germany
Curr Microbiol 56:298-305. 2008..16S rRNA gene sequence analysis indicated that the isolate was placed within the genus Methylibium, class Betaproteobacteria, distantly related to the type strain Methylibium petroleiphilum LMG 22953(T) (97...
- Undibacterium pigrum gen. nov., sp. nov., isolated from drinking waterPeter Kampfer
Institut fur Angewandte Mikrobiologie, Justus Liebig Universitat Giessen, D 35392 Giessen, Germany
Int J Syst Evol Microbiol 57:1510-5. 2007..and 16S rRNA gene sequence similarities, both strains clearly belong to the family Oxalobacteraceae of the Betaproteobacteria. 16S rRNA gene sequence similarities with members of the most closely related genera of this group (..
- Diversity of aquatic prokaryotic communities in the Cuatro Cienegas basinAna E Escalante
Departamento de Ecologia Evolutiva, Instituto de Ecologia, Universidad Nacional Autonoma de Mexico, Mexico
FEMS Microbiol Ecol 65:50-60. 2008..The most abundant phylotypes were Gamma- and Betaproteobacteria, and extreme halophiles...
- Leeia oryzae gen. nov., sp. nov., isolated from a rice field in KoreaJee Min Lim
Korea Research Institute of Bioscience and Biotechnology, 52 Oeundong, Yusong, Daejeon 305 333, Republic of Korea
Int J Syst Evol Microbiol 57:1204-8. 2007..showed that strain HW7(T) forms a distinct lineage with respect to closely related genera within the class Betaproteobacteria and that the levels of 16S rRNA gene sequence similarity with respect to the type species of related genera ..
- The evolution of class 1 integrons and the rise of antibiotic resistanceMichael Gillings
Department of Biological Sciences, Macquarie University, Sydney, NSW 2109, Australia
J Bacteriol 190:5095-100. 2008..We now show that class 1 integrons can be found on the chromosomes of nonpathogenic soil and freshwater Betaproteobacteria. Here they exhibit structural and sequence diversity, an absence of antibiotic resistance genes, and a ..
- Stable isotope probing with 15N2 reveals novel noncultivated diazotrophs in soilDaniel H Buckley
Department of Crop and Soil Sciences, 705 Bradfield Hall, Cornell University, Ithaca, NY 14853, USA
Appl Environ Microbiol 73:3196-204. 2007..the Rhizobiales while the other two represent deeply divergent lineages of noncultivated bacteria within the Betaproteobacteria and Actinobacteria, respectively...
- Isolation and characterization of bacteria capable of tolerating the extreme conditions of clean room environmentsMyron T La Duc
Biotechnology and Planetary Protection Group, M S 89, Jet Propulsion Laboratory, California Institute of Technology, Pasadena, CA 91109, USA
Appl Environ Microbiol 73:2600-11. 2007....
- Rubrivivax benzoatilyticus sp. nov., an aromatic, hydrocarbon-degrading purple betaproteobacteriumCh V Ramana
Department of Plant Sciences, School of Life Sciences, University of Hyderabad, PO Central University, Hyderabad 500 046, India
Int J Syst Evol Microbiol 56:2157-64. 2006..On the basis of 16S rRNA gene sequence analysis, strain JA2(T) was shown to belong to the class Betaproteobacteria, related to Rubrivivax gelatinosus (99 % sequence similarity)...
- Diversity of alpha-halocarboxylic acid dehalogenases in bacteria isolated from a pristine soil after enrichment and selection on the herbicide 2,2-dichloropropionic acid (Dalapon)Julian R Marchesi
Cardiff School of Biosciences, Main Building, Cardiff University, PO Box 915, UK
Environ Microbiol 5:48-54. 2003..Isolates DA2 and DA4 contained putative silent dehalogenases. The investigation highlighted the endemic nature of these genes in pristine environments and how diverse these were even from spatially close samples...
- Identification of active methylotroph populations in an acidic forest soil by stable-isotope probingStefan Radajewski
Department of Biological Sciences, University of Warwick, Coventry CV4 7AL, UK
Microbiology 148:2331-42. 2002..Results from the (13)CH(3)OH and (13)CH(4) SIP experiments thus provide a rational basis for further investigations into the ecology of methylotroph populations in situ...
- Analysis of microbial diversity in oligotrophic microbial fuel cells using 16S rDNA sequencesNguyet Thu Phung
Water Environment and Remediation Research Center, Korea Institute of Science and Technology, 39 1, Hawolgok dong, Sungbuk Gu, Seoul 136 791, Republic of Korea
FEMS Microbiol Lett 233:77-82. 2004..Nearly complete 16S rDNA was amplified and sequenced. Over 80% of the clones were Proteobacteria. Betaproteobacteria were the dominant clones (46.2%) in MFCs fed with river water, and about 64...
- Community structure of ammonia-oxidizing bacteria within anoxic marine sedimentsThomas E Freitag
Department of Molecular and Cell Biology, Institute of Medical Sciences, University of Aberdeen, Foresterhill, Aberdeen AB25 2ZD, Scotland, UK
Appl Environ Microbiol 69:1359-71. 2003....
- A molecular systematic survey of cultured microbial associates of deep-water marine invertebratesKaren Sfanos
Division of Biomedical Marine Research, Harbor Branch Oceanographic Institution, 5600 U S Hwy 1 Fort Pierce, FL 34946, USA
Syst Appl Microbiol 28:242-64. 2005..The results of this research will be available online as a searchable taxonomic database (www.hboi.edu/dbmr/dbmr_hbmmd.html)...
- Autotrophic ammonia-oxidizing bacteria contribute minimally to nitrification in a nitrogen-impacted forested ecosystemFiona L Jordan
Department of Environmental Science, University of California, Riverside, CA 92521, USA
Appl Environ Microbiol 71:197-206. 2005....
- Paucibacter toxinivorans gen. nov., sp. nov., a bacterium that degrades cyclic cyanobacterial hepatotoxins microcystins and nodularinJarkko Rapala
Finnish Environment Institute, PO Box 140, Fin 00251 Helsinki, Finland
Int J Syst Evol Microbiol 55:1563-8. 2005..nov., sp. nov. is proposed. The type strain is 2C20(T) (=DSM 16998(T)=HAMBI 2767(T)=VYH 193597(T))...
- Isolation and characterization of bacteria capable of degrading phenol and reducing nitrate under low-oxygen conditionsSeung Hun Baek
Department of Biological Sciences, Korean Advanced Institute of Science and Technology, 373 1 Kusong Dong, Yusong gu, Taejon 305 701, Republic of Korea
Curr Microbiol 47:462-6. 2003..In the case of the remaining eight strains, nitrate reduction was inhibited by 10 mM sodium azide. Of these strains, seven were placed into the gamma-subclass of Proteobacteria...
- Caldimonas taiwanensis sp. nov., a amylase producing bacterium isolated from a hot springWen Ming Chen
Department of Seafood Science, National Kaohsiung Marine University, No 142, Hai Chuan Rd Nan Tzu, Kaohsiung City 811, Taiwan
Syst Appl Microbiol 28:415-20. 2005..Its DNA base ratio was 65.9 mol% G + C. We propose to classify strain On1(T) (= BCRC 17405T = LMG 22827T) as Caldimonas taiwanensis sp. nov...
- Thiobacter subterraneus gen. nov., sp. nov., an obligately chemolithoautotrophic, thermophilic, sulfur-oxidizing bacterium from a subsurface hot aquiferHisako Hirayama
Subground Animalcule Retrieval SUGAR Project, Japan Agency for Marine Earth Science and Technology JAMSTEC, 2 15 Natsushima cho, Yokosuka 237 0061, Japan
Int J Syst Evol Microbiol 55:467-72. 2005..On the basis of its physiological and molecular properties, strain C55T (=JCM12421T=DSM 16629T=ATCC BAA-941T) is proposed as the type strain of Thiobacter subterraneus gen. nov., sp. nov...
- Characterization of four olive-mill-wastewater indigenous bacterial strains capable of aerobically degrading hydroxylated and methoxylated monocyclic aromatic compoundsDiana Di Gioia
DICASM, Faculty of Engineering, University of Bologna, Viale Risorgimento 2, 40136 Bologna, Italy
Arch Microbiol 178:208-17. 2002..These features make them excellent candidates for removing the low-molecular-weight phenolic compounds persisting in the effluent following anaerobic digestion of OMWs...
- Genome biology of Francisella tularensis populationsAndrew Benson; Fiscal Year: 2005....
- Butane metabolism in Pseudomonas butanovoraDaniel Arp; Fiscal Year: 2006..Studies of parallel pathways will be relevant to other metabolic pathways where toxic metabolites are necessarily produced as part of the metabolism of a growth supporting substrate. ..