-
1
-
-
0025294528
-
Combination of 16S rRNA-targeted oligonucleotide probes with flow cytometry for analyzing mixed microbial populations
-
Amann RI, Binder BJ, Olson RJ, Chisholm SW, Devereux R & Stahl DA (1990) Combination of 16S rRNA-targeted oligonucleotide probes with flow cytometry for analyzing mixed microbial populations. Appl Environ Microbiol 56: 1919-1925.
-
(1990)
Appl Environ Microbiol
, vol.56
, pp. 1919-1925
-
-
Amann, R.I.1
Binder, B.J.2
Olson, R.J.3
Chisholm, S.W.4
Devereux, R.5
Stahl, D.A.6
-
2
-
-
79957828767
-
Comprehensive and relaxed search for oligonucleotide signatures in hierarchically clustered sequence datasets
-
Supplementary material
-
Bader KC, Grothoff C & Meier H (2011) Comprehensive and relaxed search for oligonucleotide signatures in hierarchically clustered sequence datasets. Bioinformatics 27: 1546-1554 Supplementary material is available at http://www.lrr.in.tum.de/~cassis/supplementary_material/section_3_5.html.
-
(2011)
Bioinformatics
, vol.27
, pp. 1546-1554
-
-
Bader, K.C.1
Grothoff, C.2
Meier, H.3
-
3
-
-
84858295522
-
High frequency ultrasound pretreatment for sludge anaerobic digestion: effect on floc structure and microbial population
-
Braguglia CM, Gagliano MC & Rossetti S (2012) High frequency ultrasound pretreatment for sludge anaerobic digestion: effect on floc structure and microbial population. Bioresour Technol 110: 43-49.
-
(2012)
Bioresour Technol
, vol.110
, pp. 43-49
-
-
Braguglia, C.M.1
Gagliano, M.C.2
Rossetti, S.3
-
4
-
-
84863666750
-
A computational investigation on the connection between dynamics properties of ribosomal proteins and ribosome assembly
-
Burton B, Zimmermann MT, Jernigan RL & Wang Y (2012) A computational investigation on the connection between dynamics properties of ribosomal proteins and ribosome assembly. PLoS Comput Biol 8: e1002530.
-
(2012)
PLoS Comput Biol
, vol.8
, pp. e1002530
-
-
Burton, B.1
Zimmermann, M.T.2
Jernigan, R.L.3
Wang, Y.4
-
5
-
-
84891165404
-
Protease complement of the thermophilic bacterium Coprothermobacter proteolyticus
-
Arabina HR & Tran Q-N, eds. ISBN: Las Vegas, NV
-
Cai H, Gu J & Wang Y (2011). Protease complement of the thermophilic bacterium Coprothermobacter proteolyticus. Proceeding of the International Conference on Bioinformatics and Computational Biology BIOCOMP'11 (Arabina HR & Tran Q-N, eds), pp. 18-21. ISBN: Las Vegas, NV Avalaible at http://www.lidi.info.unlp.edu.ar/WorldComp2011-Mirror/BIC5011.pdf.
-
(2011)
Proceeding of the International Conference on Bioinformatics and Computational Biology BIOCOMP'11
, pp. 18-21
-
-
Cai, H.1
Gu, J.2
Wang, Y.3
-
6
-
-
0041422440
-
Alteration of DNA adenine methylase (Dam) activity in Pasteurella multocida causes increased spontaneous mutation frequency and attenuation in mice
-
Chen L (2003) Alteration of DNA adenine methylase (Dam) activity in Pasteurella multocida causes increased spontaneous mutation frequency and attenuation in mice. Microbiology 149: 2283-2290.
-
(2003)
Microbiology
, vol.149
, pp. 2283-2290
-
-
Chen, L.1
-
7
-
-
51549104658
-
Applicability of random cloning method to analyze microbial community in full-scale anaerobic digesters
-
Cheon J, Hidaka T, Mori S, Koshikawa H & Tsuno H (2008) Applicability of random cloning method to analyze microbial community in full-scale anaerobic digesters. J Biosci Bioeng 106: 134-140.
-
(2008)
J Biosci Bioeng
, vol.106
, pp. 134-140
-
-
Cheon, J.1
Hidaka, T.2
Mori, S.3
Koshikawa, H.4
Tsuno, H.5
-
8
-
-
33644959684
-
An update and optimisation of oligonucleotide probes targeting methanogenic Archaea for use in fluorescence in situ hybridisation (FISH)
-
Crocetti G, Murto M & Björnsson L (2006) An update and optimisation of oligonucleotide probes targeting methanogenic Archaea for use in fluorescence in situ hybridisation (FISH). J Microbiol Methods 65: 194-201.
-
(2006)
J Microbiol Methods
, vol.65
, pp. 194-201
-
-
Crocetti, G.1
Murto, M.2
Björnsson, L.3
-
9
-
-
0242496945
-
Degradation of stable RNA in bacteria
-
Deutscher MP (2003) Degradation of stable RNA in bacteria. J Biol Chem 278: 45041-45044.
-
(2003)
J Biol Chem
, vol.278
, pp. 45041-45044
-
-
Deutscher, M.P.1
-
10
-
-
23644448438
-
RNA secondary structure prediction by centroids in a Boltzmann weighted ensemble
-
Ding Y, Chan CY & Lawrence CE (2005) RNA secondary structure prediction by centroids in a Boltzmann weighted ensemble. RNA 11: 1157-1166.
-
(2005)
RNA
, vol.11
, pp. 1157-1166
-
-
Ding, Y.1
Chan, C.Y.2
Lawrence, C.E.3
-
11
-
-
0033855457
-
Unlabeled helper oligonucleotides increase the in situ accessibility to 16S rRNA of fluorescently labeled oligonucleotide probes
-
Fuchs BM, Glöckner FO, Wulf J & Amann R (2000) Unlabeled helper oligonucleotides increase the in situ accessibility to 16S rRNA of fluorescently labeled oligonucleotide probes. Appl Environ Microbiol 66: 3603-3607.
-
(2000)
Appl Environ Microbiol
, vol.66
, pp. 3603-3607
-
-
Fuchs, B.M.1
Glöckner, F.O.2
Wulf, J.3
Amann, R.4
-
12
-
-
84879468475
-
Reduced temperature hydrolysis at 134 °C before thermophilic anaerobic digestion of waste activated sludge at increasing organic load
-
Gianico A, Braguglia CM, Cesarini R & Mininni G (2013) Reduced temperature hydrolysis at 134 °C before thermophilic anaerobic digestion of waste activated sludge at increasing organic load. Bioresour Technol 143: 96-103.
-
(2013)
Bioresour Technol
, vol.143
, pp. 96-103
-
-
Gianico, A.1
Braguglia, C.M.2
Cesarini, R.3
Mininni, G.4
-
13
-
-
0042063940
-
Affinity of ribosomal protein S8 from mesophilic and (hyper)thermophilic archaea and bacteria for 16S rRNA correlates with the growth temperatures of the organisms
-
Gruber T, Köhrer C, Lung B, Shcherbakov D & Piendl W (2003) Affinity of ribosomal protein S8 from mesophilic and (hyper)thermophilic archaea and bacteria for 16S rRNA correlates with the growth temperatures of the organisms. FEBS Lett 549: 123-128.
-
(2003)
FEBS Lett
, vol.549
, pp. 123-128
-
-
Gruber, T.1
Köhrer, C.2
Lung, B.3
Shcherbakov, D.4
Piendl, W.5
-
14
-
-
44949223675
-
Detection of active butyrate-degrading microorganisms in methanogenic sludges by RNA-based stable isotope probing
-
Hatamoto M, Imachi H, Yashiro Y, Ohashi A & Harada H (2008) Detection of active butyrate-degrading microorganisms in methanogenic sludges by RNA-based stable isotope probing. Appl Environ Microbiol 74: 3610-3614.
-
(2008)
Appl Environ Microbiol
, vol.74
, pp. 3610-3614
-
-
Hatamoto, M.1
Imachi, H.2
Yashiro, Y.3
Ohashi, A.4
Harada, H.5
-
15
-
-
84885066588
-
Methanosarcinaceae and acetate-oxidizing pathways dominate in high-rate thermophilic anaerobic digestion of waste-activated sludge
-
Ho DP, Jensen PD & Batstone DJ (2013) Methanosarcinaceae and acetate-oxidizing pathways dominate in high-rate thermophilic anaerobic digestion of waste-activated sludge. Appl Environ Microbiol 79: 6491-6500.
-
(2013)
Appl Environ Microbiol
, vol.79
, pp. 6491-6500
-
-
Ho, D.P.1
Jensen, P.D.2
Batstone, D.J.3
-
16
-
-
31844432266
-
Effect of inoculum conditioning on hydrogen fermentation and pH effect on bacterial community relevant to hydrogen production
-
Kawagoshi Y, Hino N, Fujimoto A, Nakao M, Fujita Y, Sugimura S & Furukawa K (2005) Effect of inoculum conditioning on hydrogen fermentation and pH effect on bacterial community relevant to hydrogen production. J Biosci Bioeng 100: 524-530.
-
(2005)
J Biosci Bioeng
, vol.100
, pp. 524-530
-
-
Kawagoshi, Y.1
Hino, N.2
Fujimoto, A.3
Nakao, M.4
Fujita, Y.5
Sugimura, S.6
Furukawa, K.7
-
17
-
-
44149089312
-
Analysis of microbial community structure and diversity in the thermophilic anaerobic digestion of waste activated sludge
-
Kobayashi T, Li YY & Harada H (2008) Analysis of microbial community structure and diversity in the thermophilic anaerobic digestion of waste activated sludge. Water Sci Technol 57: 1199-1205.
-
(2008)
Water Sci Technol
, vol.57
, pp. 1199-1205
-
-
Kobayashi, T.1
Li, Y.Y.2
Harada, H.3
-
18
-
-
70449353831
-
Two-phased hyperthermophilic anaerobic co-digestion of waste activated sludge with kitchen garbage
-
Lee M, Hidaka T & Tsuno H (2009) Two-phased hyperthermophilic anaerobic co-digestion of waste activated sludge with kitchen garbage. J Biosci Bioeng 108: 408-413.
-
(2009)
J Biosci Bioeng
, vol.108
, pp. 408-413
-
-
Lee, M.1
Hidaka, T.2
Tsuno, H.3
-
19
-
-
0033575087
-
Kinetics of RNA degradation by specific base catalysis of transesterification involving the 2′-hydroxyl group
-
Li Y & Breaker R (1999) Kinetics of RNA degradation by specific base catalysis of transesterification involving the 2′-hydroxyl group. J Am Chem Soc 121: 5364-5372.
-
(1999)
J Am Chem Soc
, vol.121
, pp. 5364-5372
-
-
Li, Y.1
Breaker, R.2
-
20
-
-
84884226344
-
Anaerobic digestion for simultaneous sewage sludge treatment and CO biomethanation: process performance and microbial ecology
-
Luo G, Wang W & Angelidaki I (2013) Anaerobic digestion for simultaneous sewage sludge treatment and CO biomethanation: process performance and microbial ecology. Environ Sci Technol 47: 10685-10693.
-
(2013)
Environ Sci Technol
, vol.47
, pp. 10685-10693
-
-
Luo, G.1
Wang, W.2
Angelidaki, I.3
-
21
-
-
33751018877
-
Application of pseudomurein endoisopeptidase to fluorescence in situ hybridization of methanogens within the family Methanobacteriaceae
-
Nakamura K, Terada T, Sekiguchi Y, Shinzato N, Meng X-Y, Enoki M & Kamagata Y (2006) Application of pseudomurein endoisopeptidase to fluorescence in situ hybridization of methanogens within the family Methanobacteriaceae. Appl Environ Microbiol 72: 6907-6913.
-
(2006)
Appl Environ Microbiol
, vol.72
, pp. 6907-6913
-
-
Nakamura, K.1
Terada, T.2
Sekiguchi, Y.3
Shinzato, N.4
Meng, X.-Y.5
Enoki, M.6
Kamagata, Y.7
-
22
-
-
84908240625
-
Hydrogen bonds are related to the thermal stability of 16S rRNA
-
Nakashima H, Fukuoka A & Saitou Y (2013) Hydrogen bonds are related to the thermal stability of 16S rRNA. J Biomed Sci Eng 6: 19-24.
-
(2013)
J Biomed Sci Eng
, vol.6
, pp. 19-24
-
-
Nakashima, H.1
Fukuoka, A.2
Saitou, Y.3
-
23
-
-
80055082805
-
Whole-genome comparison clarifies close phylogenetic relationships between the phyla Dictyoglomi and Thermotogae
-
Nishida H, Beppu T & Ueda K (2011) Whole-genome comparison clarifies close phylogenetic relationships between the phyla Dictyoglomi and Thermotogae. Genomics 98: 370-375.
-
(2011)
Genomics
, vol.98
, pp. 370-375
-
-
Nishida, H.1
Beppu, T.2
Ueda, K.3
-
24
-
-
0022379869
-
Emendation of the genus Thermobacteroides: Thermobacteroides proteolyticus sp. nov., a proteolytic acetogen from a methanogenic enrichment
-
Ollivier BM, Mah RA., Ferguson TJ, Boone DR, Garcia JL & Robinson R (1985) Emendation of the genus Thermobacteroides: Thermobacteroides proteolyticus sp. nov., a proteolytic acetogen from a methanogenic enrichment. Int J Syst Bacteriol 35: 425-428.
-
(1985)
Int J Syst Bacteriol
, vol.35
, pp. 425-428
-
-
Ollivier, B.M.1
Mah, R.A.2
Ferguson, T.J.3
Boone, D.R.4
Garcia, J.L.5
Robinson, R.6
-
25
-
-
78650807148
-
Anaerobic digestion of slaughterhouse waste: main process limitations and microbial community interactions
-
Palatsi J, Viñas M, Guivernau M, Fernandez B & Flotats X (2011) Anaerobic digestion of slaughterhouse waste: main process limitations and microbial community interactions. Bioresour Technol 102: 2219-2227.
-
(2011)
Bioresour Technol
, vol.102
, pp. 2219-2227
-
-
Palatsi, J.1
Viñas, M.2
Guivernau, M.3
Fernandez, B.4
Flotats, X.5
-
26
-
-
33751536386
-
Fluorescence in situ hybridization (FISH) with rRNA-target oligonucleotide probes
-
Pernthaler J, Glockner FO, Schonhuber W & Amann R (2001) Fluorescence in situ hybridization (FISH) with rRNA-target oligonucleotide probes. Methods Microbiol 30: 207-226.
-
(2001)
Methods Microbiol
, vol.30
, pp. 207-226
-
-
Pernthaler, J.1
Glockner, F.O.2
Schonhuber, W.3
Amann, R.4
-
27
-
-
84888138996
-
Drivers of microbial community composition in mesophilic and thermophilic temperature-phased anaerobic digestion pre-treatment reactors
-
Pervin HM, Dennis PG, Lim HJ, Tyson GW, Batstone DJ & Bond PL (2013) Drivers of microbial community composition in mesophilic and thermophilic temperature-phased anaerobic digestion pre-treatment reactors. Water Res 47: 7098-7108.
-
(2013)
Water Res
, vol.47
, pp. 7098-7108
-
-
Pervin, H.M.1
Dennis, P.G.2
Lim, H.J.3
Tyson, G.W.4
Batstone, D.J.5
Bond, P.L.6
-
28
-
-
84873739311
-
The silva ribosomal RNA gene database project: improved data processing and web-based tools
-
Quast C, Pruesse E, Yilmaz P, Gerken J, Schweer T, Yarza P, Peplies J & Glöckner FO (2013) The silva ribosomal RNA gene database project: improved data processing and web-based tools. Nucleic Acids Res 41: D590-D596.
-
(2013)
Nucleic Acids Res
, vol.41
, pp. D590-D596
-
-
Quast, C.1
Pruesse, E.2
Yilmaz, P.3
Gerken, J.4
Schweer, T.5
Yarza, P.6
Peplies, J.7
Glöckner, F.O.8
-
29
-
-
67549099704
-
Towards the definition of a core of microorganisms involved in anaerobic digestion of sludge
-
Rivière D, Desvignes V, Pelletier E, Chaussonnerie S, Guermazi S, Weissenbach J, Li T, Camacho P & Sghir A (2009) Towards the definition of a core of microorganisms involved in anaerobic digestion of sludge. ISME J 3: 700-714.
-
(2009)
ISME J
, vol.3
, pp. 700-714
-
-
Rivière, D.1
Desvignes, V.2
Pelletier, E.3
Chaussonnerie, S.4
Guermazi, S.5
Weissenbach, J.6
Li, T.7
Camacho, P.8
Sghir, A.9
-
30
-
-
0344838589
-
Kinetic and phylogenetic characterization of an anaerobic dechlorinating microbial community
-
Rossetti S, Blackall L, Majone M, Hugenholtz P, Plumb JJ & Tandoi V (2003) Kinetic and phylogenetic characterization of an anaerobic dechlorinating microbial community. Microbiology 149: 459-469.
-
(2003)
Microbiology
, vol.149
, pp. 459-469
-
-
Rossetti, S.1
Blackall, L.2
Majone, M.3
Hugenholtz, P.4
Plumb, J.J.5
Tandoi, V.6
-
31
-
-
44449097724
-
Structure analysis and performance of a microbial community from a contaminated aquifer involved in the complete reductive dechlorination of 1,1,2,2-tetrachloroethane to ethene
-
Rossetti S, Aulenta F, Majone M, Crocetti G & Tandoi V (2008) Structure analysis and performance of a microbial community from a contaminated aquifer involved in the complete reductive dechlorination of 1, 1, 2, 2-tetrachloroethane to ethene. Biotechnol Bioeng 100: 240-249.
-
(2008)
Biotechnol Bioeng
, vol.100
, pp. 240-249
-
-
Rossetti, S.1
Aulenta, F.2
Majone, M.3
Crocetti, G.4
Tandoi, V.5
-
32
-
-
78650979528
-
Methanogenic pathway and community structure in a thermophilic anaerobic digestion process of organic solid waste
-
Sasaki D, Hori T, Haruta S, Ueno Y, Ishii M & Igarashi Y (2011a) Methanogenic pathway and community structure in a thermophilic anaerobic digestion process of organic solid waste. J Biosci Bioeng 111: 41-46.
-
(2011)
J Biosci Bioeng
, vol.111
, pp. 41-46
-
-
Sasaki, D.1
Hori, T.2
Haruta, S.3
Ueno, Y.4
Ishii, M.5
Igarashi, Y.6
-
33
-
-
81255160998
-
Syntrophic degradation of proteinaceous materials by the thermophilic strains Coprothermobacter proteolyticus and Methanothermobacter thermautotrophicus
-
Sasaki K, Morita M, Sasaki D, Nagaoka J, Matsumoto N, Ohmura N & Shinozaki H (2011b) Syntrophic degradation of proteinaceous materials by the thermophilic strains Coprothermobacter proteolyticus and Methanothermobacter thermautotrophicus. J Biosci Bioeng 112: 469-472.
-
(2011)
J Biosci Bioeng
, vol.112
, pp. 469-472
-
-
Sasaki, K.1
Morita, M.2
Sasaki, D.3
Nagaoka, J.4
Matsumoto, N.5
Ohmura, N.6
Shinozaki, H.7
-
34
-
-
84866405239
-
Distribution and role of Coprothermobacter spp. in anaerobic digesters
-
Tandishabo K, Nakamura K, Umetsu K & Takamizawa K (2012) Distribution and role of Coprothermobacter spp. in anaerobic digesters. J Biosci Bioeng 114: 518-520.
-
(2012)
J Biosci Bioeng
, vol.114
, pp. 518-520
-
-
Tandishabo, K.1
Nakamura, K.2
Umetsu, K.3
Takamizawa, K.4
-
35
-
-
34948848199
-
RNAs in extreme environments
-
Torchet C & Maurel MC (2007) RNAs in extreme environments. Chem Biodivers 4: 1957-1971.
-
(2007)
Chem Biodivers
, vol.4
, pp. 1957-1971
-
-
Torchet, C.1
Maurel, M.C.2
-
36
-
-
79953781171
-
Microbial diversity with dominance of 16S rRNA gene sequences with high GC contents at 74 and 98 °C subsurface crude oil deposits in Japan
-
Yamane K, Hattori Y, Ohtagaki H & Fujiwara K (2011) Microbial diversity with dominance of 16S rRNA gene sequences with high GC contents at 74 and 98 °C subsurface crude oil deposits in Japan. FEMS Microbiol Ecol 76: 220-235.
-
(2011)
FEMS Microbiol Ecol
, vol.76
, pp. 220-235
-
-
Yamane, K.1
Hattori, Y.2
Ohtagaki, H.3
Fujiwara, K.4
-
37
-
-
51649092232
-
Systematic evaluation of single mismatch stability predictors for fluorescence in situ hybridization
-
Yilmaz LS, Bergsven LI & Noguera DR (2008) Systematic evaluation of single mismatch stability predictors for fluorescence in situ hybridization. Environ Microbiol 10: 2872-2885.
-
(2008)
Environ Microbiol
, vol.10
, pp. 2872-2885
-
-
Yilmaz, L.S.1
Bergsven, L.I.2
Noguera, D.R.3
-
38
-
-
79551479168
-
mathfish, a web tool that uses thermodynamics-based mathematical models for in silico evaluation of oligonucleotide probes for fluorescence in situ hybridization
-
Yilmaz LS, Parnerkar S & Noguera DR (2011) mathfish, a web tool that uses thermodynamics-based mathematical models for in silico evaluation of oligonucleotide probes for fluorescence in situ hybridization. Appl Environ Microbiol 77: 1118-1122.
-
(2011)
Appl Environ Microbiol
, vol.77
, pp. 1118-1122
-
-
Yilmaz, L.S.1
Parnerkar, S.2
Noguera, D.R.3
|