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Phylogenetic analysis of dissimilatory Fe(III)-reducing bacteria
Lonergan, D. J., Jenter, H. L., Coates, J. D., Phillips, E. J., Schmidt, T. M., & Lovley, D. R. (1996) · Journal of Bacteriology · doi:10.1128/jb.178.8.2402-2408.1996 · Cited by 380
Fuchs, B. M., Wallner, G., Beisker, W., Schwippl, I., Ludwig, W., & Amann, R. (1998) · Applied and Environmental Microbiology · doi:10.1128/aem.64.12.4973-4982.1998 · Cited by 394
Regulation of CO2 assimilation in oxygenic photosynthesis: The ferredoxin/thioredoxin system
Buchanan, B. B. (1991) · Archives of Biochemistry and Biophysics · doi:10.1016/0003-9861(91)90157-e · Cited by 395
The Microbiome and Human Biology
Knight, R., Callewaert, C., Marotz, C., Hyde, E. R., Debelius, J. W., McDonald, D., & Sogin, M. L. (2017) · Annual Review of Genomics and Human Genetics · doi:10.1146/annurev-genom-083115-022438 · Cited by 373
Diversity and Taxonomy of Methanogens
Boone, D. R., Whitman, W. B., & Rouvière, P. E. (1993) · Springer eBooks · doi:10.1007/978-1-4615-2391-8_2 · Cited by 386
Universal trees based on large combined protein sequence data sets
Brown, J. R., Douady, C. J., Italia, M. J., Marshall, W. E., & Stanhope, M. J. (2001) · Nature Genetics · doi:10.1038/90129 · Cited by 381
Collins, M. D., Rodrigues, U. M., Ash, C., Aguirre, M., Farrow, J. A. E., Martı́nez-Murcia, A., PHILLIPS, B. A., Williams, A. M., & Wallbanks, S. (1991) · FEMS Microbiology Letters · doi:10.1111/j.1574-6968.1991.tb04313.x · Cited by 383
The identification of microorganisms by fluorescence in situ hybridisation
Amann, R., Fuchs, B. M., & Behrens, S. (2001) · Current Opinion in Biotechnology · doi:10.1016/s0958-1669(00)00204-4 · Cited by 392
[17] Predicting optimal and suboptimal secondary structure for RNA
Jaeger, J. A., Turner, D. H., & Zuker, M. (1990) · Methods in enzymology on CD-ROM/Methods in enzymology · doi:10.1016/0076-6879(90)83019-6 · Cited by 382
Mirkin, B. G., Fenner, T. I., Galperin, M. Y., & Koonin, E. V. (2003) · BMC Evolutionary Biology · doi:10.1186/1471-2148-3-2 · Cited by 368
Phylogenetic relationships between chlorophytes, chrysophytes, and oomycetes.
Gunderson, J. H., Elwood, H. J., Ingold, A., Kindle, K. L., & Sogin, M. L. (1987) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.84.16.5823 · Cited by 379
Computer-simulated RFLP analysis of 16S rRNA genes: identification of ten new phytoplasma groups
Wei, W., Davis, R. E., Lee, I., & Zhao, Y. (2007) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijs.0.65000-0 · Cited by 377
“, 1967), are small, cell wall-less prokaryotes that descended from an ancestral low G+C Gram-positive bacterium, possibly a Clostridium-like member of the Lactobacillus lineage (Woese, 1987; Weisburg et al., 1989).”
BackgroundBacterial Viability and Culturability
Barer, M. R., & Harwood, C. R. (1999) · Advances in microbial physiology/Advances in Microbial Physiology · doi:10.1016/s0065-2911(08)60166-6 · Cited by 377
Human microbiomes and their roles in dysbiosis, common diseases, and novel therapeutic approaches
Belizário, J. E., & Napolitano, M. (2015) · Frontiers in Microbiology · doi:10.3389/fmicb.2015.01050 · Cited by 389
“Bacteria are classified phylogenetically based on the analysis of nucleotide sequences of small subunit ribosomal RNA operons, mainly variable regions of the bacterial specific ribosomal RNA, 16S rRNA (Woese, 1987; Woese et al., 1990; Marchesi et al., 1998).”
BackgroundThe Entner-Doudoroff pathway: history, physiology and molecular biology
Conway, T. (1992) · FEMS Microbiology Letters · doi:10.1111/j.1574-6968.1992.tb05822.x · Cited by 371
Eisen, J. A., Nelson, K. E., Paulsen, I. T., Heidelberg, J. F., Wu, M., Dodson, R. J., DeBoy, R. T., Gwinn, M. L., Nelson, W. C., Haft, D. H., et al. (2002) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.132181499 · Cited by 369
Evolutionary Implications of Bacterial Polyketide Synthases
Jenke‐Kodama, H., Sandmann, A., Müller, R., & Dittmann, E. (2005) · Molecular Biology and Evolution · doi:10.1093/molbev/msi193 · Cited by 362
Phylogenetic diversity of the Rickettsiae
Weisburg, W. G., Dobson, M. E., Samuel, J. E., Dasch, G. A., Mallavia, L. P., Baca, O. G., Mandelco, L., Sechrest, J. E., Weiss, E., & Woese, C. R. (1989) · Journal of Bacteriology · doi:10.1128/jb.171.8.4202-4206.1989 · Cited by 365
Self-citationKlein, M., Friedrich, M. W., Roger, A. J., Hugenholtz, P., Fishbain, S., Abicht, H., Blackall, L. L., Stahl, D. A., & Wagner, M. (2001) · Journal of Bacteriology · doi:10.1128/jb.183.20.6028-6035.2001 · Cited by 364
Genome trees and the tree of life
Wolf, Y. I., Rogozin, I. B., Grishin, N. V., & Koonin, E. V. (2002) · Trends in Genetics · doi:10.1016/s0168-9525(02)02744-0 · Cited by 362
Fouke, B., Farmer, J. D., Marais, D. D. D., Pratt, L., Sturchio, N., Burns, P. C., & Discipulo, M. (2001) · Journal of sedimentary research. Section A, Sedimentary petrology and processes : an international journal of SEPM · doi:10.1306/2dc40929-0e47-11d7-8643000102c1865d · Cited by 379
Watanabe, K., Kodama, Y., & Harayama, S. (2001) · Journal of Microbiological Methods · doi:10.1016/s0167-7012(01)00220-2 · Cited by 360
Rainey, F. A., Keren, R., Ferreira, M. S., Gatz, B. Z., Nobre, M. F., Bagaley, D. R., Rash, B. A., Park, M., Earl, A. M., Shank, N. C., et al. (2005) · Applied and Environmental Microbiology · doi:10.1128/aem.71.9.5225-5235.2005 · Cited by 360
Genomic changes following host restriction in bacteria
Moran, N. A., & Plague, G. R. (2004) · Current Opinion in Genetics & Development · doi:10.1016/j.gde.2004.09.003 · Cited by 352
Hoover, T. R., Santero, E., Porter, S. C., & Kustu, S. G. (1990) · Cell · doi:10.1016/0092-8674(90)90284-l · Cited by 359
Schirrmeister, B. E., de Vos, J. M., Antonelli, A., & Bagheri, H. C. (2013) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1209927110 · Cited by 372
Hugerth, L. W., & Andersson, A. F. (2017) · Frontiers in Microbiology · doi:10.3389/fmicb.2017.01561 · Cited by 385
“…in 1977, Woese and colleagues established the suitability of the small subunit (SSU) of the ribosomal RNA (rRNA) gene for inferring phylogenetic relationships between prokaryotic organisms, a property later verified to also apply to eukaryotes (Woese and Fox, 1977; Woese et al., 1985; Woese, 1987).”
BackgroundA guide to successful bioprospecting: informed by actinobacterial systematics
Goodfellow, M., & Fiedler, H. (2010) · Antonie van Leeuwenhoek · doi:10.1007/s10482-010-9460-2 · Cited by 356
Phylogeny of mycoplasmalike organisms (phytoplasmas): a basis for their classification
Gundersen, D. E., Lee, I. M., Rehner, S. A., Davis, R. E., & Kingsbury, D. T. (1994) · Journal of Bacteriology · doi:10.1128/jb.176.17.5244-5254.1994 · Cited by 352
Analysis of 1,000 Type-Strain Genomes Improves Taxonomic Classification of Bacteroidetes
García-López, M., Meier‐Kolthoff, J. P., Tindall, B. J., Gronow, S., Woyke, T., Kyrpides, N. C., Hahnke, R. L., & Göker, M. (2019) · Frontiers in Microbiology · doi:10.3389/fmicb.2019.02083 · Cited by 356
“Yet the name Bacteroidetes is not much older (Krieg et al., 2010a) since beforehand these organisms had been referred to as “Cytophaga-FlavobacteriaBacteroides group” (Woese, 1987; Paster et al., 1994).”
BackgroundChoosing an Approach and an Appropriate Gene for Phylogenetic Analysis
Soltis, D. E., & Soltis, P. S. (1998) · Springer eBooks · doi:10.1007/978-1-4615-5419-6_1 · Cited by 353
Lifestyle evolution in symbiotic bacteria: insights from genomics
Moran, N. A., & Wernegreen, J. J. (2000) · Trends in Ecology & Evolution · doi:10.1016/s0169-5347(00)01902-9 · Cited by 351
Van Mooy, B. A. S., Rocap, G., Fredricks, H. F., Evans, C. T., & Devol, A. H. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0600540103 · Cited by 394
Identification in situ and phylogeny of uncultured bacterial endosymbionts
Amann, R., Springer, N., Ludwig, W., Görtz, H., & SCHLEIFER, K. H. (1991) · Nature · doi:10.1038/351161a0 · Cited by 347
A practical guide to the oral microbiome and its relation to health and disease
Krishnan, K., Chen, T., & Paster, B. (2017) · Oral Diseases · doi:10.1111/odi.12509 · Cited by 347
“…anuscript A uthor M anuscript A uthor M anuscript A uthor M anuscript 16S rRNA gene sequencing The 16S rRNA has been used as an evolutionary clock (Woese, 1987) for the identification and classification of pure cultures of bacteria as well as for estimation of bacterial diversity in environmental…”
MethodSources, isolation, characterisation and evaluation of probiotics
Fontana, L., Bermudez-Brito, M., Plaza-Diaz, J., Muñoz-Quezada, S., & Gil, A. (2013) · British Journal of Nutrition · doi:10.1017/s0007114512004011 · Cited by 348
“have used this conserved fragment for phylogenetic classification((73,74)), and the relatedness among organisms is estimated through the comparison of their sequences in available databases (DDBJ, ENA, GenBank).”
Denaturing gradient gel electrophoresis in marine microbial ecology
Schäfer, H., & Gerard Muyzer, C. (2001) · Methods in microbiology · doi:10.1016/s0580-9517(01)30057-0 · Cited by 347
Winker, S., & Woese, C. R. (1991) · Systematic and Applied Microbiology · doi:10.1016/s0723-2020(11)80303-6 · Cited by 347
Self-citationDead or Alive: Molecular Assessment of Microbial Viability
Cangelosi, G. A., & Meschke, J. S. (2014) · Applied and Environmental Microbiology · doi:10.1128/aem.01763-14 · Cited by 343
Mizrahi-Man, O., Davenport, E., & Gilad, Y. (2013) · PLoS ONE · doi:10.1371/journal.pone.0053608 · Cited by 364
Blackwood, C. B., Marsh, T. L., Kim, S.-H., & Paul, E. A. (2003) · Applied and Environmental Microbiology · doi:10.1128/aem.69.2.926-932.2003 · Cited by 340
Evidence that eukaryotes and eocyte prokaryotes are immediate relatives
Rivera, M. C., & Lake, J. A. (1992) · Science · doi:10.1126/science.1621096 · Cited by 342
Hyperthermophilic microorganisms
STETTER, K. O., Fiala, G., Huber, G., Huber, R., & Segerer, A. H. (1990) · FEMS Microbiology Letters · doi:10.1111/j.1574-6968.1990.tb04089.x · Cited by 341
Short, interspersed repetitive DNA sequences in prokaryotic genomes
Lupski, J. R., & Weinstock, G. M. (1992) · Journal of Bacteriology · doi:10.1128/jb.174.14.4525-4529.1992 · Cited by 340
Bacterial strain typing in the genomic era
Li, W., Raoult, D., & Fournier, P. (2009) · FEMS Microbiology Reviews · doi:10.1111/j.1574-6976.2009.00182.x · Cited by 358
Schrenk, M. O., Edwards, K. J., Goodman, R. M., Hamers, R. J., & Banfield, J. F. (1998) · Science · doi:10.1126/science.279.5356.1519 · Cited by 339
Tungsten in biological systems
Kletzin, A., & Adams, M. W. W. (1996) · FEMS Microbiology Reviews · doi:10.1111/j.1574-6976.1996.tb00226.x · Cited by 361
Hugenholtz, P., Tyson, G. W., Webb, R. I., Wagner, A. M., & Blackall, L. L. (2001) · Applied and Environmental Microbiology · doi:10.1128/aem.67.1.411-419.2001 · Cited by 338
Extremely Halophilic Bacteria in Crystallizer Ponds from Solar Salterns
Antón, J., Rossello-Mora, R. A., Rodríguez‐Valera, F., & Amann, R. (2000) · Applied and Environmental Microbiology · doi:10.1128/aem.66.7.3052-3057.2000 · Cited by 338
Poles Apart: Biodiversity and Biogeography of Sea Ice Bacteria
Staley, J. T., & Gosink, J. J. (1999) · Annual Review of Microbiology · doi:10.1146/annurev.micro.53.1.189 · Cited by 337
A quantitative map of nucleotide substitution rates in bacterial rRNA
de Peer, Y. V. (1996) · Nucleic Acids Research · doi:10.1093/nar/24.17.3381 · Cited by 336
Phylogeny of the Whipple's-disease-associated bacterium
Wilson, K. H., Frothingham, R., Wilson, J. A. P., & Blitchington, R. B. (1991) · The Lancet · doi:10.1016/0140-6736(91)90545-z · Cited by 335
Everything in moderation: Archaea as ‘non-extremophiles’
DeLong, E. F. (1998) · Current Opinion in Genetics & Development · doi:10.1016/s0959-437x(98)80032-4 · Cited by 330
The origin of viruses and their possible roles in major evolutionary transitions
Forterre, P. (2006) · Virus Research · doi:10.1016/j.virusres.2006.01.010 · Cited by 377
Phylogenetic analysis of the spirochetes
Paster, B. J., Dewhirst, F. E., Weisburg, W. G., TORDOFF, L. A., Fraser, G. J., Hespell, R. B., Stanton, T. B., Zablen, L. B., Mandelco, L., & Woese, C. R. (1991) · Journal of Bacteriology · doi:10.1128/jb.173.19.6101-6109.1991 · Cited by 328
Self-citationLiu, S. L., Hessel, A., & Sanderson, K. E. (1993) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.90.14.6874 · Cited by 327
Wang, L., Lee, F., Tai, C.-J., & Kasai, H. (2007) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijs.0.64685-0 · Cited by 327
“16S rRNA gene sequence analysis is the most commonly used method for identifying bacteria or for constructing bacterial phylogenetic relationships (Woese, 1987; Vandamme et al., 1996; Joung & Cote, 2002); however, its usefulness is limited because of the high percentage of sequence similarity between closely related s…”
MethodSekiguchi, Y., Kamagata, Y., Syutsubo, K., Ohashi, A., Harada, H., & Nakamura, K. (1998) · Microbiology · doi:10.1099/00221287-144-9-2655 · Cited by 327
Sunkar, S., & Nachiyar, C. V. (2012) · Asian Pacific Journal of Tropical Biomedicine · doi:10.1016/s2221-1691(13)60006-4 · Cited by 326
“The analysis of this gene can therefore be considered as a standard method for the identification of bacteria at the family, genus and species levels[15,16], and has in fact been included in the latest edition of Bergey’s manual of systematic bacteriology[17].”
MethodCharacterization of Hydrogenase from the Hyperthermophilic Archaebacterium, Pyrococcus furiosus
Bryant, F. O., & Adams, M. W. W. (1989) · Journal of Biological Chemistry · doi:10.1016/s0021-9258(18)83701-2 · Cited by 326
Origin of life-facing up to the physical setting
Pace, N. R. (1991) · Cell · doi:10.1016/0092-8674(91)90082-a · Cited by 333
Takaishi, H., Matsuki, T., Nakazawa, A., Takada, T., Kado, S., Asahara, T., Kamada, N., Sakuraba, A., Yajima, T., Higuchi, H., et al. (2007) · International Journal of Medical Microbiology · doi:10.1016/j.ijmm.2007.07.016 · Cited by 325
Teixeira, D. C., Saillard, C., Eveillard, S., Danet, J. L., da Costa, P. I., Ayres, A. J., & Bové, J. M. (2005) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijs.0.63677-0 · Cited by 323
“In addition, the SPS-HLB 16S rRNA gene sequence had oligonucleotide signatures (Woese, 1987; Zeff & Geliebter, 1987) very similar to those of the liberibacters (Jagoueix et al.”
Phylogeny of sulfate-reducing bacteria1
Castro, H. F., Williams, N. H., & Ogram, A. V. (2000) · FEMS Microbiology Ecology · doi:10.1111/j.1574-6941.2000.tb00665.x · Cited by 323
16S rRNA Next Generation Sequencing Analysis Shows Bacteria in Alzheimer’s Post-Mortem Brain
Emery, D. C., Shoemark, D. K., Batstone, T. E., Waterfall, C. M., Coghill, J. A., Cerajewska, T. L., Davies, M., West, N. X., & Allen, S. J. (2017) · Frontiers in Aging Neuroscience · doi:10.3389/fnagi.2017.00195 · Cited by 317
“16S rRNA gene phylotyping (Woese and Fox, 1977; Woese et al., 1985; Woese, 1987; Böttger, 1989; Pace, 1997; Clarridge, 2004), combined with NGS technologies (Tringe and Hugenholtz, 2008; Arumugam et al., 2011) has revolutionized the study of the human microbiome.”
BackgroundMeier, H., Amann, R., Ludwig, W., & Schleifer, K. H. (1999) · Systematic and Applied Microbiology · doi:10.1016/s0723-2020(99)80065-4 · Cited by 322
Evolution of carbohydrate metabolic pathways
Romano, A. H., & Conway, T. (1996) · Research in Microbiology · doi:10.1016/0923-2508(96)83998-2 · Cited by 315
Möller, S., Sternberg, C., Andersen, J. B., Christensen, B. B., Ramos, J. L., Givskov, M., & Molin, S. (1998) · Applied and Environmental Microbiology · doi:10.1128/aem.64.2.721-732.1998 · Cited by 322
On the maverick Planctomycetes
Wiegand, S., Jogler, M., & Jogler, C. (2018) · FEMS Microbiology Reviews · doi:10.1093/femsre/fuy029 · Cited by 326
Adékambi, T., & Drancourt, M. (2004) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijs.0.63094-0 · Cited by 319
“For this reason, all the type strains were reidentified by 16S rRNA gene sequence analysis using primer pair fD1–rP2 described by Woese (1987) (details of sequencing primers are given in Supplementary Table A in IJSEM Online).”
MethodIntergeneric conjugation between Escherichia coli and Streptomyces species
Mazodier, P., Petter, R., & Thompson, C. J. (1989) · Journal of Bacteriology · doi:10.1128/jb.171.6.3583-3585.1989 · Cited by 315
Metadata
- Authors
- Woese, C. R.
- Corresponding author
- Woese, C R
- Venue
- Microbiological Reviews
- Publisher
- American Society for Microbiology
- Published
- 1987-06
- Volume
- 51
- Issue
- 2
- Pages
- 221-271
- ISSN
- 0146-0749 (ISSN-L)
- PMC
- PMC373105
- OpenAlex
- W4211022623
- Cited by
- 5,042
- References
- 2
- Citations by year
- 2026: 31 · 2025: 74 · 2024: 61 · 2023: 71 · 2022: 79 · 2021: 101 · 2020: 77 · 2019: 100 · 2018: 111 · 2017: 92 · 2016: 93 · 2015: 111 · 2014: 165 · 2013: 114 · 2012: 113
- FWCI
- 99.34
- Type
- journal article
- Language
- en
- Open access
- green
- europepmc.org
- Locations
- Microbiological Reviews (publishedVersion)
- Europe PMC (PubMed Central) (publishedVersion)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Evolution and Genetic Dynamics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Bacterial Genetics and Biotechnology
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
- Keywords
- bacterial evolution, bacterial phylogeny, bacterial diversity
- MeSH terms
- Bacteria, Base Sequence, Biological Evolution, Phylogeny, RNA, Bacterial, RNA, Ribosomal
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