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2006 Journal Article The Genomes On Line Database (GOLD) v.2: a monitor of genome projects worldwideLiolios, Konstantinos, Tavernarakis, Nektarios, Hugenholtz, Philip and Kyrpides, Nikos C. (2006). The Genomes On Line Database (GOLD) v.2: a monitor of genome projects worldwide. Nucleic Acids Research, 34 (Supp. 1), D332-D334. doi: 10.1093/nar/gkj145 |
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2005 Journal Article SNP-VISTA: An interactive SNP visualization toolShah, Nameeta, Teplitsky, Michael V., Minovitsky, Simon, Pennacchio, Len A., Hugenholtz, Philip, Hamann, Bernd and Dubchak, Inna L. (2005). SNP-VISTA: An interactive SNP visualization tool. BMC Bioinformatics, 6 (1) 292. doi: 10.1186/1471-2105-6-292 |
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2005 Journal Article Genome-Directed Isolation of the Key Nitrogen Fixer Leptospirillum ferrodiazotrophum sp. nov. from an Acidophilic Microbial CommunityTyson, Gene W., Lo, Ian, Baker, Brett J., Allen, Eric E., Hugenholtz, Philip and Banfield, Jillian F. (2005). Genome-Directed Isolation of the Key Nitrogen Fixer Leptospirillum ferrodiazotrophum sp. nov. from an Acidophilic Microbial Community. Applied and Environmental Microbiology, 71 (10), 6319-6324. doi: 10.1128/AEM.71.10.6319-6324.2005 |
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2005 Journal Article Comparative metagenomics of microbial communitiesTringe, Susannah Green, von Mering, Christian, Kobayashi, Arthur, Salamov, Asaf A., Chen, Kevin, Chang, Hwai W., Podar, Mircea, Short, Jay M., Mathur, Eric J., Detter, John C., Bork, Peer, Hugenholtz, Philip and Rubin, Edward M. (2005). Comparative metagenomics of microbial communities. Science, 308 (5721), 554-557. doi: 10.1126/science.1107851 |
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2004 Journal Article Reclassification of Sphaerobacter thermophilus from the subclass Sphaerobacteridae in the phylum Actinobacteria to the class Thermomicrobia (emended description) in the phylum Chloroflexi (emended description)Hugenholtz, Philip and Stackebrandt, Erko (2004). Reclassification of Sphaerobacter thermophilus from the subclass Sphaerobacteridae in the phylum Actinobacteria to the class Thermomicrobia (emended description) in the phylum Chloroflexi (emended description). International Journal of Systematic and Evolutionary Microbiology, 54 (6), 2049-2051. doi: 10.1099/ijs.0.03028-0 |
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2004 Journal Article Chthoniobacter flavus gen. nov., sp nov., the first pure-culture representative of subdivision two, Spartobacteria classis nov., of the phylum VerrucomicrobiaSangwan, Parveen, Chen, Xiaolei, Hugenholtz, Philip and Janssen, Peter H. (2004). Chthoniobacter flavus gen. nov., sp nov., the first pure-culture representative of subdivision two, Spartobacteria classis nov., of the phylum Verrucomicrobia. Applied and Environmental Microbiology, 70 (10), 5875-5881. doi: 10.1128/AEM.70.10.5875-5881.2004 |
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2004 Journal Article Liquid serial dilution is inferior to solid media for isolation of cultures representative of the phylum-level diversity of soil bacteriaSchoenborn, Liesbeth, Yates, Penelope S., Grinton, Bronwyn E., Hugenholtz, Philip and Janssen, Peter H. (2004). Liquid serial dilution is inferior to solid media for isolation of cultures representative of the phylum-level diversity of soil bacteria. Applied and Environmental Microbiology, 70 (7), 4363-4366. doi: 10.1128/AEM.70.7.4363-4366.2004 |
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2004 Journal Article Bellerophon: a program to detect chimeric sequences in multiple sequence alignmentsHuber, T, Faulkner, G and Hugenholtz, P (2004). Bellerophon: a program to detect chimeric sequences in multiple sequence alignments. Bioinformatics, 20 (14), 2317-2319. doi: 10.1093/bioinformatics/bth226 |
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2004 Journal Article Community structure and metabolism through reconstruction of microbial genomes from the environmentTyson, Gene W., Chapman, Jarrod, Hugenholtz, Philip, Allen, Eric E., Ram, Rachna J., Richardson, Paul M., Solovyev, Victor V., Rubin, Edward M., Rokhsar, Daniel S. and Banfield, Jillian F. (2004). Community structure and metabolism through reconstruction of microbial genomes from the environment. Nature, 428 (6978), 37-43. doi: 10.1038/nature02340 |
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2004 Journal Article Use of stable-isotope probing, full-cycle rRNA analysis, and fluorescence in situ hybridization-microautoradiography to study a methanol-fed denitrifying microbial communityGinige, MP, Hugenholtz, P, Daims, H, Wagner, M, Keller, J and Blackall, LL (2004). Use of stable-isotope probing, full-cycle rRNA analysis, and fluorescence in situ hybridization-microautoradiography to study a methanol-fed denitrifying microbial community. Applied And Environmental Microbiology, 70 (1), 588-596. doi: 10.1128/AEM.70.1.588-596.2004 |
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2003 Journal Article Laboratory cultivation of widespread and previously uncultured soil bacteriaJoseph, SJ, Hugenholtz, P, Sangwan, P, Osborne, CA and Janssen, PH (2003). Laboratory cultivation of widespread and previously uncultured soil bacteria. Applied and Environmental Microbiology, 69 (12), 7210-7215. doi: 10.1128/AEM.69.12.7210-7215.2003 |
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2003 Journal Article Extremely acidophilic protists from acid mine drainage host Rickettsiales-lineage endosymbionts that have intervening sequences in their 16S rRNA genesBaker, BJ, Hugenholtz, P, Dawson, SC and Banfield, JF (2003). Extremely acidophilic protists from acid mine drainage host Rickettsiales-lineage endosymbionts that have intervening sequences in their 16S rRNA genes. Applied and Environmental Microbiology, 69 (9), 5512-5518. doi: 10.1128/AEM.69.9.5512-5518.2003 |
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2003 Journal Article Gemmatimonas aurantiaca gen. nov., sp nov., a gram-negative, aerobic, polyphosphate-accumulating micro-organism, the first cultured representative of the new bacterial phylum Gemmatimonadetes phyl. nov.Zhang, H, Sekiguchi, Y, Hanada, S, Hugenholtz, P, Kim, H, Kamagata, Y and Nakamura, K (2003). Gemmatimonas aurantiaca gen. nov., sp nov., a gram-negative, aerobic, polyphosphate-accumulating micro-organism, the first cultured representative of the new bacterial phylum Gemmatimonadetes phyl. nov.. International Journal of Systematic and Evolutionary Microbiology, 53 (4), 1155-1163. doi: 10.1099/ijs.0.02520-0 |
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2003 Journal Article Fermentation of glycolate by a pure culture of a strictly anaerobic gram-positive bacterium belonging to the family LachnospiraceaeJanssen, PH and Hugenholtz, P (2003). Fermentation of glycolate by a pure culture of a strictly anaerobic gram-positive bacterium belonging to the family Lachnospiraceae. Archives of Microbiology, 179 (5), 321-328. doi: 10.1007/s00203-003-0528-5 |
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2003 Journal Article PCR detection of Clostridium chauvoei in pure cultures and in formalin-fixed, paraffin-embedded tissuesUzal, FA, Hugenholtz, P, Blackall, LL, Petray, S, Moss, S, Assis, RA, Miyakawa, MF and Carloni, G (2003). PCR detection of Clostridium chauvoei in pure cultures and in formalin-fixed, paraffin-embedded tissues. Veterinary Microbiology, 91 (2-3), 239-248. doi: 10.1016/S0378-1135(02)00291-2 |
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2003 Journal Article Chimeric 16S rDNA sequences of diverse origin are accumulating in the public databasesHugenholtz, P and Huber, T (2003). Chimeric 16S rDNA sequences of diverse origin are accumulating in the public databases. International Journal of Systematic And Evolutionary Microbiology, 53 (1), 289-293. doi: 10.1099/ijs.0.02441-0 |
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2003 Journal Article Kinetic and phylogenetic characterization of an anaerobic dechlorinating microbial communityRossetti, S, Blackall, LL, Majone, M, Hugenholtz, P, Plumb, JJ and Tandoi, V (2003). Kinetic and phylogenetic characterization of an anaerobic dechlorinating microbial community. Microbiology-sgm, 149 (2), 459-469. doi: 10.1099/mic.0.26018-0 |
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2002 Journal Article Cultivation of globally distributed soil bacteria from phylogenetic lineages previously only detected in cultivation-independent surveysSait, M, Hugenholtz, P and Janssen, PH (2002). Cultivation of globally distributed soil bacteria from phylogenetic lineages previously only detected in cultivation-independent surveys. Environmental Microbiology, 4 (11), 654-666. doi: 10.1046/j.1462-2920.2002.00352.x |
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2002 Journal Article Filamentous Chloroflexi (green non-sulfur bacteria) are abundant in wastewater treatment processes with biological nutrient removalBjornsson, Lovisa, Hugenholtz, Philip, Tyson, Gene W. and Blackall, Linda L. (2002). Filamentous Chloroflexi (green non-sulfur bacteria) are abundant in wastewater treatment processes with biological nutrient removal. Microbiology, 148 (8), 2309-2318. doi: 10.1099/00221287-148-8-2309 |
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2002 Journal Article In situ studies of the phylogeny and physiology of filamentous bacteria with attached growthThomsen, TR, Kjellerup, BV, Nielsen, JL, Hugenholtz, P and Nielsen, PH (2002). In situ studies of the phylogeny and physiology of filamentous bacteria with attached growth. Environmental Microbiology, 4 (7), 383-391. doi: 10.1046/j.1462-2920.2002.00316.x |
