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Microbiology in the post-genomic era

Medini, Duccio, Serruto, Davide, Parkhill, Julian, Relman, David A., Donati, Claudio, Moxon, Richard, Falkow, Stanley, Rappuoli, Rino·2008·Nature Reviews Microbiology

DOI 10.1038/nrmicro1901

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DNA sequencing with chain-terminating inhibitors
Sanger, F., Nicklen, S., & Coulson, A. R. (1977) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.74.12.5463 · Cited by 68,572
An obesity-associated gut microbiome with increased capacity for energy harvest
Turnbaugh, P. J., Ley, R. E., Mahowald, M. A., Magrini, V., Mardis, E. R., & Gordon, J. I. (2006) · Nature · doi:10.1038/nature05414 · Cited by 12,444
Diversity of the Human Intestinal Microbial Flora
Eckburg, P. B., Bik, E. M., Bernstein, C. N., Purdom, E., Dethlefsen, L., Sargent, M., Gill, S. R., Nelson, K. E., & Relman, D. A. (2005) · Science · doi:10.1126/science.1110591 · Cited by 7,913
Self-citation
Genome sequencing in microfabricated high-density picolitre reactors
Margulies, M., Egholm, M., Altman, W. E., Attiya, S., Bader, J. S., Bemben, L. A., Berka, J., Braverman, M. S., Chen, Y.-J., Chen, Z., et al. (2005) · Nature · doi:10.1038/nature03959 · Cited by 7,693
The human microbiome project
Turnbaugh, P. J., Ley, R. E., Hamady, M., Fraser-Liggett, C. M., Knight, R., & Gordon, J. I. (2007) · Nature · doi:10.1038/nature06244 · Cited by 6,091
Metagenomic Analysis of the Human Distal Gut Microbiome
Gill, S. R., Pop, M., DeBoy, R. T., Eckburg, P. B., Turnbaugh, P. J., Samuel, B. S., Gordon, J. I., Relman, D. A., Fraser-Liggett, C. M., & Nelson, K. E. (2006) · Science · doi:10.1126/science.1124234 · Cited by 4,699
Self-citation
Environmental genome shotgun sequencing of the sargasso sea
Venter, J. C., Remington, K., Heidelberg, J. F., Halpern, A. L., Rusch, D., Eisen, J. A., Wu, D., Paulsen, I., Nelson, K. E., Nelson, W., et al. (2004) · Science · doi:10.1126/science.1093857 · Cited by 4,376
Escherichia Coli and Salmonella: Typhimurium Cellular and Molecular Biology
Neidhardt, F. C., & Ingraham, J. L. (1987) · Medical Entomology and Zoology · Cited by 4,089
Escherichia coli and Salmonella typhimurium: Cellular and molecular biology
Lejeune, P. (1988) · Biochimie · doi:10.1016/0300-9084(88)90119-8 · Cited by 4,072
Multilocus sequence typing: A portable approach to the identification of clones within populations of pathogenic microorganisms
Maiden, M. C. J., Bygraves, J. A., Feil, E., Morelli, G., Russell, J. E., Urwin, R., Zhang, Q., Zhou, J., Zurth, K., Caugant, D. A., et al. (1998) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.95.6.3140 · Cited by 3,833
Lateral gene transfer and the nature of bacterial innovation
Ochman, H., Lawrence, J. G., & Groisman, E. A. (2000) · Nature · doi:10.1038/35012500 · Cited by 3,816
Characterization of individual polynucleotide molecules using a membrane channel
Kasianowicz, J. J., Brandin, E., Branton, D., & Deamer, D. W. (1996) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.93.24.13770 · Cited by 3,362
Ecological and Evolutionary Forces Shaping Microbial Diversity in the Human Intestine
Ley, R. E., Peterson, D. A., & Gordon, J. I. (2006) · Cell · doi:10.1016/j.cell.2006.02.017 · Cited by 3,358
Genome analysis of multiple pathogenic isolates of Streptococcus agalactiae : Implications for the microbial “pan-genome”
Tettelin, H., Masignani, V., Cieslewicz, M. J., Donati, C., Medini, D., Ward, N. L., Angiuoli, S. V., Crabtree, J., Jones, A. L., Durkin, A. S., et al. (2005) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0506758102 · Cited by 2,631
Self-citation
Metagenomics: Application of Genomics to Uncultured Microorganisms
Handelsman, J. (2004) · Microbiology and Molecular Biology Reviews · doi:10.1128/mmbr.68.4.669-685.2004 · Cited by 2,441
Community structure and metabolism through reconstruction of microbial genomes from the environment
Tyson, G. W., Chapman, J., Hugenholtz, P., Allen, E. E., Ram, R. J., Richardson, P. M., Solovyev, V. V., Rubin, E. M., Rokhsar, D. S., & Banfield, J. F. (2004) · Nature · doi:10.1038/nature02340 · Cited by 2,417
The Sorcerer II Global Ocean Sampling Expedition: Northwest Atlantic through Eastern Tropical Pacific
Rusch, D. B., Halpern, A. L., Sutton, G., Heidelberg, K. B., Williamson, S., Yooseph, S., Wu, D., Eisen, J. A., Hoffman, J. M., Remington, K., et al. (2007) · PLoS Biology · doi:10.1371/journal.pbio.0050077 · Cited by 2,060
Genome sequence of enterohaemorrhagic Escherichia coli O157:H7
Perna, N. T., Plunkett, G., Burland, V., Mau, B., Glasner, J. D., Rose, D. J., Mayhew, G. F., Evans, P. S., Gregor, J., Kirkpatrick, H. A., et al. (2001) · Nature · doi:10.1038/35054089 · Cited by 2,055
The genome sequence of the food-borne pathogen Campylobacter jejuni reveals hypervariable sequences
Parkhill, J., Wren, B. W., Mungall, K., Ketley, J. M., Churcher, C., Basham, D., Chillingworth, T., Davies, R. M., Feltwell, T., Holroyd, S., et al. (2000) · Nature · doi:10.1038/35001088 · Cited by 1,976
Self-citation
Genomic-sequence comparison of two unrelated isolates of the human gastric pathogen Helicobacter pylori
Alm, R. A., Ling, L.-S. L., Moir, D. T., King, B. L., Brown, E. D., Doig, P. C., Smith, D. R., Noonan, B., Guild, B. C., deJonge, B. L., et al. (1999) · Nature · doi:10.1038/16495 · Cited by 1,893
Next-generation sequencing transforms today's biology
Schuster, S. C. (2008) · Nature Methods · doi:10.1038/nmeth1156 · Cited by 1,807
Fluorescence detection in automated DNA sequence analysis
Smith, L. M., Sanders, J. Z., Kaiser, R. J., Hughes, P., Dodd, C., Connell, C. R., Heiner, C., Kent, S. B. H., & Hood, L. E. (1986) · Nature · doi:10.1038/321674a0 · Cited by 1,714
Comparative Metagenomics of Microbial Communities
Tringe, S. G., von Mering, C., Kobayashi, A., Salamov, A. A., Chen, K., Chang, H. W., Podar, M., Short, J. M., Mathur, E. J., Detter, J. C., et al. (2005) · Science · doi:10.1126/science.1107851 · Cited by 1,689
An ecological and evolutionary perspective on human–microbe mutualism and disease
Dethlefsen, L., McFall-Ngai, M., & Relman, D. A. (2007) · Nature · doi:10.1038/nature06245 · Cited by 1,660
Self-citation
Extensive mosaic structure revealed by the complete genome sequence of uropathogenic Escherichia coli
Welch, R. A., Burland, V., Plunkett, G., Redford, P., Roesch, P., Rasko, D., Buckles, E. L., Liou, S.-R., Boutin, A., Hackett, J., et al. (2002) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.252529799 · Cited by 1,531
Accurate Multiplex Polony Sequencing of an Evolved Bacterial Genome
Shendure, J., Porreca, G. J., Reppas, N. B., Lin, X., McCutcheon, J. P., Rosenbaum, A. M., Wang, M. D., Zhang, K., Mitra, R. D., & Church, G. M. (2005) · Science · doi:10.1126/science.1117389 · Cited by 1,402
Identification of Vaccine Candidates Against Serogroup B Meningococcus by Whole-Genome Sequencing
Pizza, M., Scarlato, V., Masignani, V., Giuliani, M. M., Aricò, B., Comanducci, M., Jennings, G. T., Baldi, L., Bartolini, E., Capecchi, B., et al. (2000) · Science · doi:10.1126/science.287.5459.1816 · Cited by 1,399
Self-citation
Methods of multilocus enzyme electrophoresis for bacterial population genetics and systematics
Selander, R. K., Caugant, D. A., Ochman, H., Musser, J. M., Gilmour, M. N., & Whittam, T. S. (1986) · Applied and Environmental Microbiology · doi:10.1128/aem.51.5.873-884.1986 · Cited by 1,385
The microbial pan-genome
Medini, D., Donati, C., Tettelin, H., Masignani, V., & Rappuoli, R. (2005) · Current Opinion in Genetics & Development · doi:10.1016/j.gde.2005.09.006 · Cited by 1,299
Self-citation
Genomic Islands in Pathogenic and Environmental Microorganisms
Dobrindt, U., Hochhut, B., Hentschel, U., & Hacker, J. (2004) · Nature Reviews Microbiology · doi:10.1038/nrmicro884 · Cited by 1,188
Complete Genome Sequence of Neisseria meningitidis Serogroup B Strain MC58
Tettelin, H., Saunders, N. J., Heidelberg, J., Jeffries, A. C., Nelson, K. E., Eisen, J. A., Ketchum, K. A., Hood, D. W., Peden, J. F., Dodson, R. J., et al. (2000) · Science · doi:10.1126/science.287.5459.1809 · Cited by 1,097
Self-citation
The Sorcerer II Global Ocean Sampling Expedition: Expanding the Universe of Protein Families
Yooseph, S., Sutton, G., Rusch, D. B., Halpern, A. L., Williamson, S. J., Remington, K., Eisen, J. A., Heidelberg, K. B., Manning, G., Li, W., et al. (2007) · PLoS Biology · doi:10.1371/journal.pbio.0050016 · Cited by 924
A System for Rapid DNA Sequencing with Fluorescent Chain-Terminating Dideoxynucleotides
Prober, J. M., Trainor, G. L., Dam, R. J., Hobbs, F. W., Robertson, C. W., Zagursky, R. J., Cocuzza, A. J., Jensen, M. A., & Baumeister, K. (1987) · Science · doi:10.1126/science.2443975 · Cited by 855
A new phylum of Archaea represented by a nanosized hyperthermophilic symbiont
Huber, H., Hohn, M. J., Rachel, R., Fuchs, T., Wimmer, V. C., & Stetter, K. O. (2002) · Nature · doi:10.1038/417063a · Cited by 825
Fast DNA Translocation through a Solid-State Nanopore
Storm, A. J., Storm, C., Chen, J., Zandbergen, H., Joanny, J.-F., & Dekker, C. (2005) · Nano Letters · doi:10.1021/nl048030d · Cited by 733
Complete DNA sequence of a serogroup A strain of Neisseria meningitidis Z2491
Parkhill, J., Achtman, M., James, K. D., Bentley, S. D., Churcher, C., Klee, S. R., Morelli, G., Basham, D., Brown, D., Chillingworth, T., et al. (2000) · Nature · doi:10.1038/35006655 · Cited by 704
Self-citation
Reverse vaccinology
Rappuoli, R. (2000) · Current Opinion in Microbiology · doi:10.1016/s1369-5274(00)00119-3 · Cited by 704
Self-citation
Inference of Bacterial Microevolution Using Multilocus Sequence Data
Didelot, X., & Falush, D. (2007) · Genetics · doi:10.1534/genetics.106.063305 · Cited by 645
Dissecting biological “dark matter” with single-cell genetic analysis of rare and uncultivated TM7 microbes from the human mouth
Marcy, Y., Ouverney, C., Bik, E. M., Lösekann, T., Ivanova, N., Martin, H. G., Szeto, E., Platt, D., Hugenholtz, P., Relman, D. A., et al. (2007) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0704662104 · Cited by 634
Self-citation
Metagenomics: DNA sequencing of environmental samples
Tringe, S. G., & Rubin, E. M. (2005) · Nature Reviews Genetics · doi:10.1038/nrg1709 · Cited by 632
Solexa Ltd
Bennett, S. (2004) · Pharmacogenomics · doi:10.1517/14622416.5.4.433 · Cited by 613
The bacterial species definition in the genomic era
Konstantinidis, K. T., Ramette, A., & Tiedje, J. M. (2006) · Philosophical Transactions of the Royal Society B: Biological Sciences · doi:10.1098/rstb.2006.1920 · Cited by 612
Identification of a Universal Group B Streptococcus Vaccine by Multiple Genome Screen
Maione, D., Margarit, I., Rinaudo, C. D., Masignani, V., Mora, M., Scarselli, M., Tettelin, H., Brettoni, C., Iacobini, E. T., Rosini, R., et al. (2005) · Science · doi:10.1126/science.1109869 · Cited by 556
Self-citation
Fine-scale phylogenetic architecture of a complex bacterial community
Acinas, S. G., Klepac-Ceraj, V., Hunt, D. E., Pharino, C., Ceraj, I., Distel, D. L., & Polz, M. F. (2004) · Nature · doi:10.1038/nature02649 · Cited by 514
Assembly of the human intestinal microbiota
Dethlefsen, L., Eckburg, P. B., Bik, E. M., & Relman, D. A. (2006) · Trends in Ecology & Evolution · doi:10.1016/j.tree.2006.06.013 · Cited by 509
Self-citation
mlstdbNet – distributed multi-locus sequence typing (MLST) databases
Jolley, K. A., Chan, M.-S., & Maiden, M. C. (2004) · BMC Bioinformatics · doi:10.1186/1471-2105-5-86 · Cited by 501
Sequence information can be obtained from single DNA molecules
Braslavsky, I., Hebert, B., Kartalov, E., & Quake, S. R. (2003) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0230489100 · Cited by 487
Translocation of double-strand DNA through a silicon oxide nanopore
Storm, A. J., Chen, J. H., Zandbergen, H. W., & Dekker, C. (2005) · Physical Review E · doi:10.1103/physreve.71.051903 · Cited by 444
Bacterial contingency loci: the role of simple sequence DNA repeats in bacterial adaptation
Moxon, R., Bayliss, C., & Hood, D. (2006) · Annual Review of Genetics · doi:10.1146/annurev.genet.40.110405.090442 · Cited by 438
Self-citation
Global Phylogeny of Mycobacterium tuberculosis Based on Single Nucleotide Polymorphism (SNP) Analysis: Insights into Tuberculosis Evolution, Phylogenetic Accuracy of Other DNA Fingerprinting Systems, and Recommendations for a Minimal Standard SNP Set
Filliol, I., Motiwala, A. S., Cavatore, M., Qi, W., Hazbón, M. H., Bobadilla del Valle, M., Fyfe, J., García-García, L., Rastogi, N., Sola, C., et al. (2006) · Journal of Bacteriology · doi:10.1128/jb.188.2.759-772.2006 · Cited by 431
Comparative Genome Sequencing for Discovery of Novel Polymorphisms in Bacillus anthracis
Read, T. D., Salzberg, S. L., Pop, M., Shumway, M., Umayam, L., Jiang, L., Holtzapple, E., Busch, J. D., Smith, K. L., Schupp, J. M., et al. (2002) · Science · doi:10.1126/science.1071837 · Cited by 401
Advanced sequencing technologies and their wider impact in microbiology
Hall, N. (2007) · Journal of Experimental Biology · doi:10.1242/jeb.001370 · Cited by 373
Evolutionary History of Salmonella Typhi
Roumagnac, P., Weill, F.-X., Dolecek, C., Baker, S., Brisse, S., Chinh, N. T., Le, T. A. H., Acosta, C. J., Farrar, J., Dougan, G., et al. (2006) · Science · doi:10.1126/science.1134933 · Cited by 364
How to become a uropathogen: Comparative genomic analysis of extraintestinal pathogenic Escherichia coli strains
Brzuszkiewicz, E., Brüggemann, H., Liesegang, H., Emmerth, M., Ölschläger, T., Nagy, G., Albermann, K., Wagner, C., Buchrieser, C., Emődy, L., et al. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0603038103 · Cited by 351
Comparative Genomics of Salmonella enterica Serovar Typhi Strains Ty2 and CT18
Deng, W., Liou, S.-R., Plunkett, G., Mayhew, G. F., Rose, D. J., Burland, V., Kodoyianni, V., Schwartz, D. C., & Blattner, F. R. (2003) · Journal of Bacteriology · doi:10.1128/jb.185.7.2330-2337.2003 · Cited by 337
Genome Analysis Reveals Pili in Group B Streptococcus
Lauer, P., Rinaudo, C. D., Soriani, M., Margarit, I., Maione, D., Rosini, R., Taddei, A. R., Mora, M., Rappuoli, R., Grandi, G., et al. (2005) · Science · doi:10.1126/science.1111563 · Cited by 317
Self-citation
Extensive DNA Inversions in the B. fragilis Genome Control Variable Gene Expression
Cerdeño-Tárraga, A. M., Patrick, S., Crossman, L. C., Blakely, G., Abratt, V., Lennard, N., Poxton, I., Duerden, B., Harris, B., Quail, M. A., et al. (2005) · Science · doi:10.1126/science.1107008 · Cited by 298
Self-citation
Comparative Genomic Analyses of Seventeen Streptococcus pneumoniae Strains: Insights into the Pneumococcal Supragenome
Hiller, N. L., Janto, B., Hogg, J. S., Boissy, R., Yu, S., Powell, E., Keefe, R., Ehrlich, N. E., Shen, K., Hayes, J., et al. (2007) · Journal of Bacteriology · doi:10.1128/jb.00690-07 · Cited by 292
Self-citation
Reverse Transcriptase-Mediated Tropism Switching in Bordetella Bacteriophage
Liu, M., Deora, R., Doulatov, S. R., Gingery, M., Eiserling, F. A., Preston, A., Maskell, D. J., Simons, R. W., Cotter, P. A., Parkhill, J., et al. (2002) · Science · doi:10.1126/science.1067467 · Cited by 288
Self-citation
A Sanger/pyrosequencing hybrid approach for the generation of high-quality draft assemblies of marine microbial genomes
Goldberg, S. M. D., Johnson, J., Busam, D., Feldblyum, T., Ferriera, S., Friedman, R., Halpern, A., Khouri, H., Kravitz, S. A., Lauro, F. M., et al. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0604351103 · Cited by 285
The complete genome sequence of the murine respiratory pathogen Mycoplasma pulmonis
Chambaud, I. (2001) · Nucleic Acids Research · doi:10.1093/nar/29.10.2145 · Cited by 280
Genomic analysis of Bacteroides fragilis reveals extensive DNA inversions regulating cell surface adaptation
Kuwahara, T., Yamashita, A., Hirakawa, H., Nakayama, H., Toh, H., Okada, N., Kuhara, S., Hattori, M., Hayashi, T., & Ohnishi, Y. (2004) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0404172101 · Cited by 270
Biology's next revolution
Goldenfeld, N. D., & Woese, C. R. (2007) · RePEc: Research Papers in Economics · Cited by 253
Sequencing and analysis of the genome of the Whipple's disease bacterium Tropheryma whipplei
Bentley, S. D., Maiwald, M., Murphy, L. D., Pallen, M. J., Yeats, C. A., Dover, L. G., Norbertczak, H. T., Besra, G. S., Quail, M. A., Harris, D. E., et al. (2003) · The Lancet · doi:10.1016/s0140-6736(03)12597-4 · Cited by 244
Self-citation
Genomics and the bacterial species problem.
Doolittle, W. F., & Papke, R. T. (2006) · Genome biology · doi:10.1186/gb-2006-7-9-116 · Cited by 243
Characterization and modeling of the Haemophilus influenzae core and supragenomes based on the complete genomic sequences of Rd and 12 clinical nontypeable strains
Hogg, J. S., Hu, F. Z., Janto, B., Boissy, R., Hayes, J., Keefe, R., Post, J. C., & Ehrlich, G. D. (2007) · Genome Biology · doi:10.1186/gb-2007-8-6-r103 · Cited by 243
Sequencing of 16S rRNA Gene: A Rapid Tool for Identification ofBacillus anthracis
Sacchi, C. T., Whitney, A. M., Mayer, L. W., et al. (2002) · Emerging infectious diseases · doi:10.3201/eid0810.020391 · Cited by 238
Genome-Wide Analysis of Synonymous Single Nucleotide Polymorphisms in Mycobacterium tuberculosis Complex Organisms: Resolution of Genetic Relationships Among Closely Related Microbial Strains
Gutacker, M. M., Smoot, J. C., Migliaccio, C. A. L., Ricklefs, S. M., Hua, S., Cousins, D. V., Graviss, E. A., Shashkina, E., Kreiswirth, B. N., & Musser, J. M. (2002) · Genetics · doi:10.1093/genetics/162.4.1533 · Cited by 237
Biology's next revolution
Goldenfeld, N., & Woese, C. (2007) · Nature · doi:10.1038/445369a · Cited by 235
Re-annotation and re-analysis of the Campylobacter jejuni NCTC11168 genome sequence
Gundogdu, O., Bentley, S. D., Holden, M. T. G., Parkhill, J., Dorrell, N., & Wren, B. W. (2007) · BMC Genomics · doi:10.1186/1471-2164-8-162 · Cited by 233
Self-citation
Toward the $1000 Human Genome
Bennett, S. T., Barnes, C., Cox, A., Davies, L., & Brown, C. (2005) · Pharmacogenomics · doi:10.1517/14622416.6.4.373 · Cited by 230
Genomic diversity and evolution within the species Streptococcus agalactiae
Brochet, M., Couvé, E., Zouine, M., Vallaeys, T., Rusniok, C., Lamy, M.-C., Buchrieser, C., Trieu-Cuot, P., Kunst, F., Poyart, C., et al. (2006) · Microbes and Infection · doi:10.1016/j.micinf.2005.11.010 · Cited by 206
Meningococcal Genetic Variation Mechanisms Viewed through Comparative Analysis of Serogroup C Strain FAM18
Bentley, S. D., Vernikos, G. S., Snyder, L. A. S., Churcher, C., Arrowsmith, C., Chillingworth, T., Cronin, A., Davis, P. H., Holroyd, N. E., Jagels, K., et al. (2007) · PLoS Genetics · doi:10.1371/journal.pgen.0030023 · Cited by 199
Self-citation
Phase variation in Salmonella: genetic analysis of a recombinational switch.
Silverman, M., Zieg, J., Hilmen, M., & Simon, M. (1979) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.76.1.391 · Cited by 196
Distribution of Surface Protein Variants among Hyperinvasive Meningococci: Implications for Vaccine Design
Urwin, R., Russell, J. E., Thompson, E. A. L., Holmes, E. C., Feavers, I. M., & Maiden, M. C. J. (2004) · Infection and Immunity · doi:10.1128/iai.72.10.5955-5962.2004 · Cited by 189
Microbial Colonization of the Upper Gastrointestinal Tract in Patients with Barrett's Esophagus
Macfarlane, S., Furrie, E., Macfarlane, G. T., & Dillon, J. F. (2007) · Clinical Infectious Diseases · doi:10.1086/518578 · Cited by 184
Separation of 4‐color DNA sequencing extension products in noncovalently coated capillaries using low viscosity polymer solutions
Mandabhushi, R. S. (1998) · ELECTROPHORESIS · doi:10.1002/elps.1150190215 · Cited by 166
Genetic diversity in relation to serotype in Escherichia coli
Caugant, D. A., Levin, B. R., Ørskov, I., Ørskov, F., Edén, C. S., & Selander, R. K. (1985) · Infection and Immunity · doi:10.1128/iai.49.2.407-413.1985 · Cited by 145
Relationship of 16S rRNA sequence similarity to DNA hybridization in prokaryotes.
Keswani, J., & Whitman, W. B. (2001) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/00207713-51-2-667 · Cited by 140
The meaning and impact of the human genome sequence for microbiology
Relman, D. A. (2001) · Trends in Microbiology · doi:10.1016/s0966-842x(01)02041-8 · Cited by 139
Self-citation
ヒト口腔からの微量の培養されないTM7微生物の単一細胞遺伝分析による生物学的「不明な物体」の詳細な分析
Marcy, Y., Ouverney, C., Elisabeth, M. B., Tina, L., Ivanova, N., Garcia, M. H., Szeto, E., Darren, P., Hugenholtz, P., David, A. R., et al. (2007) · Cited by 138
Insights on biology and evolution from microbial genome sequencingPreprint
Fraser, C. M. (2005) · Genome Research · doi:10.1101/gr.3724205 · Cited by 127
A bimodal pattern of relatedness between the Salmonella Paratyphi A and Typhi genomes: Convergence or divergence by homologous recombination?Preprint
Didelot, X., Achtman, M., Parkhill, J., Thomson, N., & Falush, D. (2006) · Genome Research · doi:10.1101/gr.5512906 · Cited by 118
Self-citation
The Genome of Salmonella enterica Serovar Typhi
Baker, S. G., & Dougan, G. (2007) · Clinical Infectious Diseases · doi:10.1086/518143 · Cited by 91
Sequence Diversity of Neisseria meningitidis 16S rRNA Genes and Use of 16S rRNA Gene Sequencing as a Molecular Subtyping Tool
Sacchi, C. T., Whitney, A. M., Reeves, M. W., Mayer, L. W., & Popović, T. (2002) · Journal of Clinical Microbiology · doi:10.1128/jcm.40.12.4520-4527.2002 · Cited by 72
Protein Homology Network Families Reveal Step-Wise Diversification of Type III and Type IV Secretion Systems
Medini, D., Covacci, A., & Donati, C. (2006) · PLoS Computational Biology · doi:10.1371/journal.pcbi.0020173 · Cited by 54
Self-citation
Comparison of 16S rRNA gene sequences of genus Methanobrevibacter
Dighe, A. S., Jangid, K., González, J. M., Pidiyar, V., Patole, M. S., Ranade, D. R., & Shouche, Y. S. (2004) · BMC Microbiology · doi:10.1186/1471-2180-4-20 · Cited by 53
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Weissman, S. J., Moseley, S. L., Dykhuizen, D. E., & Sokurenko, E. V. (2003) · Trends in Microbiology · doi:10.1016/s0966-842x(03)00010-6 · Cited by 45
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Moorhead, S. M., Dykes, G. A., & Cursons, R. T. (2003) · Journal of Microbiological Methods · doi:10.1016/s0167-7012(03)00188-x · Cited by 41
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Tettelin, H., Medini, D., Donati, C., & Masignani, V. (2006) · Expert Review of Vaccines · doi:10.1586/14760584.5.5.687 · Cited by 27
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Genome-wide responses of a pathogenic bacterium to its host
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Chin, C.-S., Alexander, D. H., Marks, P., Klammer, A. A., Drake, J., Heiner, C., Clum, A., Copeland, A., Huddleston, J., Eichler, E. E., et al. (2013) · Nature Methods · doi:10.1038/nmeth.2474 · Cited by 4,029
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See all 358

Authors: Medini, D., Serruto, D., Parkhill, J., Relman, D. A., Donati, C., Moxon, R., Falkow, S., & Rappuoli, R.
Venue: Nature Reviews Microbiology
Publisher: Springer Science and Business Media LLC
Published: 2008-05-13
Volume: 6
Issue: 6
Pages: 419-430
ISSN: 1740-1526 (ISSN-L)
1740-1534
DOI: 10.1038/nrmicro1901
OpenAlex: W2025153546
Cited by: 358
References: 92
FWCI: 2.14
Type: journal article
Language: en
Open access: closed

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