Nature Reviews Genetics - Focus on Microbial Genetics

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Microbial Genetics

Research from the Nature Publishing Group


May 2003
87 \|	Genome sequence of Bacillus cereus and comparative analysis with Bacillus anthracis Natalia Ivanova, Alexei Sorokin, Iain Anderson, Nathalie Galleron, Benjamin Candelon, Vinayak Kapatral, Anamitra Bhattacharyya, Gary Reznik, Natalia Mikhailova, Alla Lapidus, Lien Chu, Michael Mazur, Eugene Goltsman, Niels Larsen, Mark D'Souza, Theresa Walunas, Yuri Grechkin, Gordon Pusch, Robert Haselkorn, Michael Fonstein, S. Dusko Ehrlich, Ross Overbeek & Nikos Kyrpides Nature doi:10.1038/nature01582
81 \|	*The genome sequence of Bacillus anthracis* Ames and comparison to closely related bacteria** Timothy D. Read, Scott N. Peterson, Nicolas Tourasse, Les W. Baillie , Ian T. Paulsen, Karen E. Nelson, Hervé Tettelin, Derrick E. Fouts, Jonathan A. Eisen, Steven R. Gill, Erik K. Holtzapple, Ole Andreas Økstad, Erlendur Helgason, Jennifer Rilstone, Martin Wu, James F. Kolonay, Maureen J. Beanan, Robert J. Dodson, Lauren M. Brinkac, Michelle Gwinn, Robert T. DeBoy, Ramana Madpu, Sean C. Daugherty, A. Scott Durkin, Daniel H. Haft, William C. Nelson, Jeremy D. Peterson, Mihai Pop, Hoda M. Khouri, Diana Radune, Jonathan L. Benton, Yasmin Mahamoud, Lingxia Jiang, Ioana R. Hance, Janice F. Weidman, Kristi J. Berry, Roger D. Plaut, Alex M. Wolf, Kisha L. Watkins, William C. Nierman, Alyson Hazen, Robin Cline, Caroline Redmond, Joanne E. Thwaite, Owen White, Steven L. Salzberg, Brendan Thomason, Arthur M. Friedlander, Theresa M. Koehler, Philip C. Hanna, Anne-Brit Kolstø & Claire M. Fraser Nature doi:10.1038/nature01586
80 \|	Unconventional conjugal DNA transfer in mycobacteria Jun Wang, Linda M. Parsons & Keith M. Derbyshire Nature Genetics doi:10.1038/ng1139

April 2003
859 \|	The genome sequence of the filamentous fungus Neurospora crassa James E. Galagan, Sarah E. Calvo, Katherine A. Borkovich, Eric U. Selker, Nick D. Read, David Jaffe, William FitzHugh, Li-Jun Ma, Serge Smirnov, Seth Purcell, Bushra Rehman, Timothy Elkins, Reinhard Engels, Shunguang Wang, Cydney B. Nielsen, Jonathan Butler, Matthew Endrizzi, Dayong Qui, Peter Ianakiev, Deborah Bell-Pedersen, Mary Anne Nelson, Margaret Werner-Washburne, Claude P. Selitrennikoff, John A. Kinsey, Edward L. Braun, Alex Zelter, Ulrich Schulte, Gregory O. Kothe, Gregory Jedd, Werner Mewes, Chuck Staben, Edward Marcotte, David Greenberg, Alice Roy, Karen Foley, Jerome Naylor, Nicole Stange-Thomann, Robert Barrett, Sante Gnerre, Michael Kamal, Manolis Kamvysselis, Evan Mauceli, Cord Bielke, Stephen Rudd, Dmitrij Frishman, Svetlana Krystofova, Carolyn Rasmussen, Robert L. Metzenberg, David D. Perkins, Scott Kroken, Carlo Cogoni, Giuseppe Macino, David Catcheside, Weixi Li, Robert J. Pratt, Stephen A. Osmani, Colin P. C. DeSouza, Louise Glass, Marc J. Orbach, J. Andrew Berglund, Rodger Voelker, Oded Yarden, Michael Plamann, Stephan Seiler, Jay Dunlap, Alan Radford, Rodolfo Aramayo, Donald O. Natvig, Lisa A. Alex, Gertrud Mannhaupt, Daniel J. Ebbole, Michael Freitag, Ian Paulsen, Matthew S. Sachs, Eric S. Lander, Chad Nusbaum & Bruce Birren Nature doi:10.1038/nature01554

March 2003
401 \|	A lentivirus-based system to functionally silence genes in primary mammalian cells, stem cells and transgenic mice by RNA interference Douglas A. Rubinson, Christopher P. Dillon , Adam V. Kwiatkowski, Claudia Sievers , Lili Yang, Johnny Kopinja, Mingdi Zhang, Michael T. McManus, Frank B. Gertler, Martin L. Scott & Luk Van Parijs Nature Genetics doi:10.1038/ng1117
428 \|	Ecological and immunological determinants of influenza evolution Neil M. Ferguson, Alison P. Galvani & Robin M. Bush Nature doi:10.1038/nature01509

February 2003
859 \|	Human and bacterial oxidative demethylases repair alkylation damage in both RNA and DNA Per Arne Aas, Marit Otterlei, Pål Ø. Falnes, Cathrine B. Vågbø, Frank Skorpen, Mansour Akbari, Ottar Sundheim, Magnar Bjørås, Geir Slupphaug, Erling Seeberg & Hans E. Krokan Nature doi:10.1038/nature01363
157 \|	Wolbachia segregation dynamics and levels of cytoplasmic incompatibility in Drosophila sechellia S Charlat, P Bonnavion & H Merçot Heredity doi:10.1038/sj.hdy.6800211

November 2002
402 \|	Genome sequence of the endocellular obligate symbiont of tsetse flies, Wigglesworthia glossinidia Leyla Akman , Atsushi Yamashita, Hidemi Watanabe, Kenshiro Oshima, Tadayoshi Shiba, Masahira Hattori & Serap Aksoy Nature Genetics doi:10.1038/ng986
1154 \|	Arrayed adenoviral expression libraries for functional screening Frits Michiels, Helmuth van Es, Luc van Rompaey, Pascal Merchiers, Bart Francken, Karen Pittois, Jan van der Schueren, Reginald Brys, Johan Vandersmissen, Filip Beirinckx, Sofie Herman, Kristina Dokic, Hugo Klaassen, Evi Narinx, Annick Hagers, Wendy Laenen, Ivo Piest, Heidi Pavliska, Yvonne Rombout, Ellen Langemeijer, Libin Ma, Christel Schipper, Marc De Raeymaeker, Stephane Schweicher, Mia Jans, Kris van Beeck, Ing-Ren Tsang, Onno van de Stolpe & Peter Tomme Nature Biotechnology doi:10.1038/nbt746

October 2002
1018 \|	*Minimization of the Escherichia coli* genome using a Tn5-targeted Cre/loxP excision system** Byung Jo Yu, Bong Hyun Sung, Michael D. Koob, Choong Hoon Lee, Jun Hyoung Lee, Won Sik Lee, Mi Sun Kim & Sun Chang Kim Nature Biotechnology doi:10.1038/nbt740
952 \|	Thiamine derivatives bind messenger RNAs directly to regulate bacterial gene expression Wade Winkler, Ali Nahvi & Ronald R. Breaker Nature doi:10.1038/nature01145
498 \|	Genome sequence of the human malaria parasite Plasmodium falciparum Malcolm J. Gardner, Neil Hall, Eula Fung, Owen White, Matthew Berriman, Richard W. Hyman, Jane M. Carlton, Arnab Pain, Karen E. Nelson, Sharen Bowman, Ian T. Paulsen, Keith James, Jonathan A. Eisen, Kim Rutherford, Steven L. Salzberg, Alister Craig, Sue Kyes, Man-Suen Chan, Vishvanath Nene, Shamira J. Shallom, Bernard Suh, Jeremy Peterson, Sam Angiuoli, Mihaela Pertea, Jonathan Allen, Jeremy Selengut, Daniel Haft, Michael W. Mather, Akhil B. Vaidya, David M. A. Martin, Alan H. Fairlamb, Martin J. Fraunholz, David S. Roos, Stuart A. Ralph, Geoffrey I. McFadden, Leda M. Cummings, G. Mani Subramanian, Chris Mungall, J. Craig Venter, Daniel J. Carucci, Stephen L. Hoffman, Chris Newbold, Ronald W. Davis, Claire M. Fraser & Bart Barrell Nature doi:10.1038/nature01097
512 \|	Genome sequence and comparative analysis of the model rodent malaria parasite Plasmodium yoelii yoelii Jane M. Carlton, Samuel V. Angiuoli, Bernard B. Suh, Taco W. Kooij, Mihaela Pertea, Joana C. Silva, Maria D. Ermolaeva, Jonathan E. Allen, Jeremy D. Selengut, Hean L. Koo, Jeremy D. Peterson, Mihai Pop, Daniel S. Kosack, Martin F. Shumway, Shelby L. Bidwell, Shamira J. Shallom, Susan E. van Aken, Steven B. Riedmuller, Tamara V. Feldblyum, Jennifer K. Cho, John Quackenbush, Martha Sedegah, Azadeh Shoaibi, Leda M. Cummings, Laurence Florens, John R. Yates, J. Dale Raine, Robert E. Sinden, Michael A. Harris, Deirdre A. Cunningham, Peter R. Preiser, Lawrence W. Bergman, Akhil B. Vaidya, Leo H. van Lin, Chris J. Janse, Andrew P. Waters, Hamilton O. Smith, Owen R. White, Steven L. Salzberg, J. Craig Venter, Claire M. Fraser, Stephen L. Hoffman, Malcolm J. Gardner & Daniel J. Carucci Nature doi:10.1038/nature01099

July 2002
99 \|	*AID mutates E. coli* suggesting a DNA deamination mechanism for antibody diversification** Svend K. Petersen-Mahrt, Reuben S. Harris & Michael S. Neuberger Nature doi:10.1038/nature00862
76 \|	*A host–parasite interaction rescues Drosophila* oogenesis defects** Diana J. Starr & Thomas W. Cline Nature doi:10.1038/nature00843
320 \|	Genetic diversity and chloroquine selective sweeps in Plasmodium falciparum John C. Wootton, Xiaorong Feng, Michael T. Ferdig, Roland A. Cooper, Jianbing Mu, Dror I. Baruch, Alan J. Magill & Xin-zhuan Su Nature doi:10.1038/nature00813

June 2002
656 \|	Filamentous phage integration requires the host recombinases XerC and XerD Kathryn E. Huber & Matthew K. Waldor Nature doi:10.1038/nature00782

May 2002
141 \|	*Complete genome sequence of the model actinomycete Streptomyces coelicolor* A3(2)** S. D. Bentley, K. F. Chater, A.-M. Cerdeño-Tárraga, G. L. Challis, N. R. Thomson, K. D. James, D. E. Harris, M. A. Quail, H. Kieser, D. Harper, A. Bateman, S. Brown, G. Chandra, C. W. Chen, M. Collins, A. Cronin, A. Fraser, A. Goble, J. Hidalgo, T. Hornsby, S. Howarth, C.-H. Huang, T. Kieser, L. Larke, L. Murphy, K. Oliver, S. O'Neil, E. Rabbinowitsch, M.-A. Rajandream, K. Rutherford, S. Rutter, K. Seeger, D. Saunders, S. Sharp, R. Squares, S. Squares, K. Taylor, T. Warren, A. Wietzorrek, J. Woodward, B. G. Barrell, J. Parkhill & D. A. Hopwood Nature doi:10.1038/417141a
459 \|	*Comparison of the genomes of two Xanthomonas* pathogens with differing host specificities** A. C. R. da Silva, J. A. Ferro, F. C. Reinach, C. S. Farah, L. R. Furlan, R. B. Quaggio, C. B. Monteiro-Vitorello, M. A. Van Sluys, N. F. Almeida, L. M. C. Alves, A. M. do Amaral, M. C. Bertolini, L. E. A. Camargo, G. Camarotte, F. Cannavan, J. Cardozo, F. Chambergo, L. P. Ciapina, R. M. B. Cicarelli, L. L. Coutinho, J. R. Cursino-Santos, H. El-Dorry, J. B. Faria, A. J. S. Ferreira, R. C. C. Ferreira, M. I. T. Ferro, E. F. Formighieri, M. C. Franco, C. C. Greggio, A. Gruber, A. M. Katsuyama, L. T. Kishi, R. P. Leite, E. G. M. Lemos, M. V. F. Lemos, E. C. Locali, M. A. Machado, A. M. B. N. Madeira, N. M. Martinez-Rossi, E. C. Martins, J. Meidanis, C. F. M. Menck, C. Y. Miyaki, D. H. Moon, L. M. Moreira, M. T. M. Novo, V. K. Okura, M. C. Oliveira, V. R. Oliveira, H. A. Pereira, A. Rossi, J. A. D. Sena, C. Silva, R. F. de Souza, L. A. F. Spinola, M. A. Takita, R. E. Tamura, E. C. Teixeira, R. I. D. Tezza, M. Trindade dos Santos, D. Truffi, S. M. Tsai, F. F. White, J. C. Setubal & J. P. Kitajima Nature doi:10.1038/417459a
63 \|	A new phylum of Archaea represented by a nanosized hyperthermophilic symbiont Harald Huber, Michael J. Hohn, Reinhard Rachel, Tanja Fuchs, Verena C. Wimmer & Karl O. Stetter Nature doi:10.1038/417063a
398 \|	Endosymbiotic bacteria: GroEL buffers against deleterious mutations Mario A. Fares, Mario X. Ruiz-González, Andrés Moya, Santiago F. Elena & Eladio Barrio Nature doi:10.1038/417398a

March 2002
182 \|	Dynamics of double and single Wolbachia infections in Drosophila simulans from New Caledonia A C James, M D Dean, M E McMahon & J W O Ballard Heredity doi:10.1038/sj/hdy/6800025

February 2002
630 \|	Unsuspected diversity among marine aerobic anoxygenic phototrophs Oded Béjà, Marcelino T. Suzuki, John F. Heidelberg, William C. Nelson, Christina M. Preston, Tohru Hamada, Jonathan A. Eisen, Claire M. Fraser & Edward F. DeLong Nature doi:10.1038/415630a
644 \|	Genome shuffling leads to rapid phenotypic improvement in bacteria Ying-Xin Zhang, Kim Perry, Victor A. Vinci, Keith Powell, Willem P. C. Stemmer & Stephen B. del Cardayré Nature doi:10.1038/415644a

January 2002
497 \|	Genome sequence of the plant pathogen Ralstonia solanacearum M. Salanoubat, S. Genin, F. Artiguenave, J. Gouzy, S. Mangenot, M. Arlat, A. Billault, P. Brottier, J. C. Camus, L. Cattolico, M. Chandler, N. Choisne, C. Claudel-Renard, S. Cunnac, N. Demange, C. Gaspin, M. Lavie, A. Moisan, C. Robert, W. Saurin, T. Schiex, P. Siguier, P. Thébault, M. Whalen, P. Wincker, M. Levy, J. Weissenbach & C. A. Boucher Nature doi:10.1038/415497a
312 \|	A hydrogen-based subsurface microbial community dominated by methanogens Francis H. Chapelle, Kathleen O'Neill, Paul M. Bradley, Barbara A. Methé, Stacy A. Ciufo, LeRoy L. Knobel & Derek R. Lovley Nature doi:10.1038/415312a

November 2001
555 \|	Extensive surface diversity of a commensal microorganism by multiple DNA inversions Corinna M. Krinos, Michael J. Coyne, Katja G. Weinacht, Arthur O. Tzianabos, Dennis L. Kasper & Laurie E. Comstock Nature doi:10.1038/35107092

October 2001
974 \|	A method for the amidation of recombinant peptides expressed as intein fusion proteins in Escherichia coli Ian R. Cottingham, Alan Millar, Elisabeth Emslie, Alan Colman, Angelika E. Schnieke & Colin McKee Nature Biotechnology doi:10.1038/nbt1001-974
952 \|	Informatics and multiplexing of intact protein identification in bacteria and the archaea Fanyu Meng, Benjamin J. Cargile, Leah M. Miller, Andrew J. Forbes, Jeffrey R. Johnson & Neil L. Kelleher Nature Biotechnology doi:10.1038/nbt1001-952
748 \|	The bacteriophage φ29 portal motor can package DNA against a large internal force Douglas E. Smith, Sander J. Tans, Steven B. Smith, Shelley Grimes, Dwight L. Anderson & Carlos Bustamante Nature doi:10.1038/35099581
860 \|	*Gene expression in Pseudomonas aeruginosa* biofilms** Marvin Whiteley, M. Gita Bangera, Roger E. Bumgarner, Matthew R. Parsek, Gail M. Teitzel, Stephen Lory & E. P. Greenberg Nature doi:10.1038/35101627

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