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Tag phage [189 articles]

Recent papers classified by the tag phage.
  • Understanding the Evolutionary Fate of Finite Populations: The Dynamics of Mutational Effects
    PLoS Biology, Vol. 5, No. 4. (1 April 2007), e94.
    by Olin K Silander, Olivier Tenaillon, Lin Chao
    posted to evolution fitness genetic_drift mutations phage selection virus by yvoronin on 2008-08-02 19:09:59 as ** along with 3 people and 1 group stevanspringer joepickrell zwang FAB-lab
  • notes Little lambda, who made thee?
    Microbiol Mol Biol Rev, Vol. 68, No. 4. (December 2004), pp. 796-813.
    by ME Gottesman, RA Weisberg
    posted to initiation lamda phage prokariote repressor review transcription by xico on 2006-04-04 17:52:26 as *** along with 1 person and 1 group gloria WetBiology
  • Diversity of phage integrases in Enterobacteriaceae: development of markers for environmental analysis of temperate phages
    Environmental Microbiology, Vol. 7, No. 10. (October 2005), pp. 1558-1567.
    by Claire Balding, Stephen A Bromley, Roger W Pickup, Jon R Saunders
    posted to integrase phage by vwchan on 2006-06-20 18:57:39 as ** along with 1 group beta
  • Distribution of minigenes in the bacteriophage lambda chromosome.
    Gene, Vol. 329 (31 March 2004), pp. 115-124.
    by NA Oviedo, H Salgado, J Collado-Vides, G Guarneros
    posted to phage phage-genes by vwchan on 2006-11-03 01:15:37 as ** along with 1 person and 1 group discreteonyxorb beta
  • GeneMarkS: a self-training method for prediction of gene starts in microbial genomes. Implications for finding sequence motifs in regulatory regions.
    Nucleic Acids Res, Vol. 29, No. 12. (15 June 2001), pp. 2607-2618.
    by J Besemer, A Lomsadze, M Borodovsky
    posted to phage-genes phage by vwchan on 2007-01-26 00:38:11 as ** along with 3 people and 1 group dakelley azazello wenhan beta
  • Prophage insertion sites.
    Res Microbiol, Vol. 154, No. 4. (May 2003), pp. 277-282.
    by A Campbell
    posted to insertion-site phage prophage by vwchan on 2006-06-09 19:50:03 as ** along with 1 group beta
  • Construction, characterization, and use of two Listeria monocytogenes site-specific phage integration vectors.
    J Bacteriol, Vol. 184, No. 15. (August 2002), pp. 4177-4186.
    by P Lauer, MY Chow, MJ Loessner, DA Portnoy, R Calendar
    posted to integration phage by vwchan on 2006-06-28 21:00:14 as ** along with 1 group beta
  • Distribution of prophages and SGI-1 antibiotic-resistance genes among different Salmonella enterica serovar Typhimurium isolates.
    Microbiology, Vol. 152, No. Pt 7. (July 2006), pp. 2137-2147.
    by AP Hermans, AM Beuling, AH van Hoek, HJ Aarts, T Abee, MH Zwietering
    posted to prophage phage antibiotic_resistance by vwchan on 2007-01-21 18:51:59 as ** along with 1 group beta
  • Detecting overlapping coding sequences in virus genomes.
    BMC Bioinformatics, Vol. 7, No. 1. (16 February 2006)
    by Andrew E Firth, Chris M Brown
    posted to phage-genes phage by vwchan on 2007-01-26 00:53:17 as ** along with 1 person and 1 group Ayest beta
  • Bacteriophages and pathogenicity: more than just providing a toxin?
    Microbes Infect, Vol. 8, No. 5. (April 2006), pp. 1365-1371.
    by CR Tinsley, E Bille, X Nassif
    posted to review phage by vwchan on 2007-01-21 19:09:28 as **** along with 1 person and 1 group pibm beta
  • Site-specific integration of the Haemophilus influenzae bacteriophage HP1: location of the boundaries of the phage attachment site.
    J Bacteriol, Vol. 174, No. 20. (October 1992), pp. 6674-6677.
    by MA Hauser, JJ Scocca
    posted to boundary insertion-site integration phage by vwchan on 2006-06-09 19:59:42 as *** along with 1 group beta
  • Guidelines for bacteriophage characterization.
    Adv Virus Res, Vol. 23 (1978), pp. 1-24.
    by HW Ackermann, A Audurier, L Berthiaume, LA Jones, JA Mayo, AK Vidaver
    posted to classification phage by vwchan on 2007-04-05 20:50:01 as ** along with 1 group beta
  • The origin of viruses and their possible roles in major evolutionary transitions
    Virus Research, Vol. 117, No. 1. (April 2006), pp. 5-16.
    by Patrick Forterre
    posted to phage by vwchan on 2006-06-21 00:00:03 as ** along with 1 person and 1 group philosof beta
  • Phage Integrases: Biology and Applications
    Journal of Molecular Biology, Vol. 335, No. 3. (16 January 2004), pp. 667-678.
    by Amy C Groth, Michele P Calos
    posted to insertion-site integrase phage by vwchan on 2006-06-20 18:47:43 as ** along with 1 group beta
  • Chromosomal insertion sites for phages and plasmids.
    J Bacteriol, Vol. 174, No. 23. (December 1992), pp. 7495-7499.
    by AM Campbell
    posted to insertion-site phage prophage by vwchan on 2006-06-09 19:51:59 as ** along with 1 group beta
  • Genome Annotation Transfer Utility (GATU): rapid annotation of viral genomes using a closely related reference genome
    BMC Genomics, Vol. 7 (13 June 2006), 150.
    by Vasily T Tcherepanov, Angelika Ehlers, Chris Upton
    posted to phage-genes phage by vwchan on 2007-01-26 00:43:59 as ** along with 1 group beta
  • Analysis of the phage sequence space: The benefit of structured information
    Virology, Vol. 365, No. 2. (01 September 2007), pp. 241-249.
    by G Limamendez, A Toussaint, R Leplae
    posted to prophage phage-genes phage classification by vwchan on 2008-10-07 19:05:57 as **
  • Recoding in bacteriophages and bacterial IS elements.
    Trends Genet, Vol. 22, No. 3. (March 2006), pp. 174-181.
    by PV Baranov, O Fayet, RW Hendrix, JF Atkins
    posted to phage-genes phage by vwchan on 2007-01-26 00:24:06 as ** along with 1 group beta
  • On the origin of microbial ORFans: quantifying the strength of the evidence for viral lateral transfer
    BMC Evolutionary Biology, Vol. 6 (16 August 2006), 63.
    by Yanbin Yin, Daniel Fischer
    posted to phage-genes phage by vwchan on 2007-01-26 00:46:58 as ** along with 1 group beta
  • Role of Secondary Attachment Sites in Changing the Specificity of Site-Specific Recombination
    J. Bacteriol., Vol. 188, No. 9. (1 May 2006), pp. 3409-3411.
    by Edit Rutkai, Andrea Gyorgy, Laszlo Dorgai, Robert A Weisberg
    posted to insertion-site phage by vwchan on 2006-06-16 20:03:24 as ** along with 1 group beta
  • Phage_Finder: Automated identification and classification of prophage regions in complete bacterial genome sequences.
    Nucleic Acids Res (24 October 2006)
    by Derrick E Fouts
    posted to lateral_gene_transfer phage prediction prophage trna by vwchan on 2006-11-03 22:13:11 as ***** along with 1 group beta
  • Phage Taxonomy: We Agree To Disagree
    J. Bacteriol., Vol. 186, No. 21. (1 November 2004), pp. 7029-7031.
    by Daniel Nelson
    posted to phage by vwchan on 2006-06-16 19:20:22 as ** along with 1 group beta
  • A proline tRNA(CGG) gene encompassing the attachment site of temperate phage 16-3 is functional and convertible to suppressor tRNA.
    Mol Microbiol, Vol. 54, No. 3. (November 2004), pp. 742-754.
    by B Blaha, S Semsey, S Ferenczi, Z Csiszovszki, PP Papp, L Orosz
    posted to insertion-site phage trna by vwchan on 2006-11-03 01:08:24 as ** along with 1 group beta
  • ZCURVE_V: a new self-training system for recognizing protein-coding genes in viral and phage genomes.
    BMC Bioinformatics, Vol. 7 (2006)
    by FB Guo, CT Zhang
    posted to phage-genes phage by vwchan on 2007-01-26 00:30:57 as ** along with 1 group beta
  • Does common architecture reveal a viral lineage spanning all three domains of life?
    Mol Cell, Vol. 16, No. 5. (3 December 2004), pp. 673-685.
    by SD Benson, JK Bamford, DH Bamford, RM Burnett
    posted to classification phage by vwchan on 2007-04-05 21:03:04 as ** along with 1 group beta
  • Virology: The gene weavers
    Nature, Vol. 441, No. 7094. (07 June 2006), pp. 683-685.
    by Garry Hamilton
    posted to phage by vwchan on 2006-06-20 18:50:58 as ** along with 3 people and 2 groups dayjm cmm rhyss FAB-lab beta
  • Virus Taxonomy: Classification and Nomenclature of Viruses: Seventh Report of the International Committee on Taxonomy of Viruses
    (15 October 2000)
    by MH Van Regenmortel, International, CM Fauquet
    posted to phage review by vwchan on 2006-06-20 22:45:43 as ** along with 1 group beta
  • Phages and the evolution of bacterial pathogens: from genomic rearrangements to lysogenic conversion.
    Microbiol Mol Biol Rev, Vol. 68, No. 3. (September 2004), pp. 560-602.
    by H Brüssow, C Canchaya, WD Hardt
    posted to phage by vwchan on 2006-06-20 18:29:32 as ** along with 1 group beta
  • Opinion: Viral metagenomics
    Nature Reviews Microbiology, Vol. 3, No. 6. (01 June 2005), pp. 504-510.
    by Robert A Edwards, Forest Rohwer
    posted to classification phage by vwchan on 2007-04-05 20:42:07 as ** along with 4 people and 1 group dayjm AaronDarling bluto mcox beta
  • Bacteriophage taxonomy in 1987.
    Microbiol Sci, Vol. 4, No. 7. (July 1987), pp. 214-218.
    by HW Ackermann
    posted to classification phage by vwchan on 2007-04-05 20:55:04 as ** along with 1 group beta
  • Transfer RNA genes in pieces
    EMBO Reports, Vol. aop, No. current. (13 June 2008)
    by Lennart Randau, Dieter Soll
    posted to trna phage lateral_gene_transfer introns fragment by vwchan on 2008-10-07 19:48:13 as *****
  • Fifty-three years since Hershey and Chase; much ado about pressure but which pressure is it?
    Virology, Vol. 344, No. 1. (5 January 2006), pp. 221-229.
    by Ian J Molineux
    posted to phage review by vwchan on 2006-06-20 18:39:12 as ** along with 1 group beta
  • Genome Sequences of Two Closely Related Vibrio parahaemolyticus Phages, VP16T and VP16C
    J. Bacteriol., Vol. 185, No. 21. (1 November 2003), pp. 6434-6447.
    by Victor Seguritan, I-Wei Feng, Forest Rohwer, Mark Swift, Anca M Segall
    posted to vibrio phage parahaemolyticus by victors on 2008-10-29 19:04:52 as **
  • CRISPR — a widespread system that provides acquired resistance against phages in bacteria and archaea
    Nature Reviews Microbiology, Vol. 6, No. 3., pp. 181-186.
    by Rotem Sorek, Victor Kunin, Philip Hugenholtz
    posted to repeats phage crispr bacteria archaea by treangen on 2008-11-28 16:45:55 as ** along with 1 group MuraLab
  • Phage response to CRISPR-encoded resistance in Streptococcus thermophilus.
    Journal of bacteriology, Vol. 190, No. 4. (February 2008), pp. 1390-1400.
    by H Deveau, R Barrangou, JE Garneau, J Labonté, C Fremaux, P Boyaval, DA Romero, P Horvath, S Moineau
    posted to repeats phage crispr by treangen on 2008-11-28 16:51:39 as **
  • Long-circulating bacteriophage as antibacterial agents
    Proceedings of the National Academy of Sciences of the United States of America, Vol. 93, No. 8. (16 April 1996), pp. 3188-3192.
    by CR Merril, B Biswas, R Carlton, NC Jensen, GJ Creed, S Zullo, S Adhya
    posted to phage long circulating by tombailey on 2008-10-30 15:40:38 as **
  • DNA Packaging in dsDNA Bacteriophages
    Annual Review of Microbiology, Vol. 43, No. 1. (1989), pp. 267-292.
    by LW Black
    posted to phage packagibg dna by tombailey on 2008-10-31 15:45:07 as **
  • Genomic Organization and Molecular Characterization of Clostridium difficile Bacteriophage PhiCD119
    J. Bacteriol., Vol. 188, No. 7. (1 April 2006), pp. 2568-2577.
    by Revathi Govind, Joe A Fralick, Rial D Rolfe
    posted to phage lysogenic genome by tombailey on 2008-10-31 14:53:38 as read
  • Here a virus, there a virus, everywhere the same virus?
    Trends in Microbiology, Vol. 13, No. 6. (June 2005), pp. 278-284.
    by Mya Breitbart, Forest Rohwer
    posted to phage by saru on 2007-05-21 09:22:42 as **
  • Refactoring bacteriophage T7
    Molecular Systems Biology, Vol. 1, No. 1. (13 September 2005), pp. msb4100025-E1-msb4100025-E10.
    by Leon Y Chan, Sriram Kosuri, Drew Endy
    posted to phage synthetic_biology by rklancer on 2005-09-14 04:09:37 as *** along with 5 people GeeSharpMinor tmmurali lingchong bobolino hukkinen
  • In vivo acquisition of prophage in Streptococcus pyogenes.
    Trends Microbiol (30 May 2007)
    by Vincent A A Fischetti
    posted to comparative-genomics fischetti gas phage prophage by ramykaram on 2007-06-06 22:28:23 as *****
  • Genetic analysis of a bacterial genetic exchange element: The gene transfer agent of Rhodobacter capsulatus
    Proceedings of the National Academy of Sciences of the United States of America, Vol. 97, No. 2. (18 January 2000), pp. 859-864.
    by Andrew S Lang, JT Beatty
    posted to transfer phage minimal gta gene agent by ramykaram on 2008-09-07 23:46:45 as ***
  • Fluorescence correlation spectroscopy as a method for assessment of interactions between phage displaying antibodies and soluble antigen
    Protein Sci, Vol. 10, No. 8. (1 August 2001), pp. 1522-1528.
    by Ann C Lagerkvist, Zeno Foldes-Papp, Mats A Persson, Rudolf Rigler
    posted to phage interaction fcs catrin01pd antibody by paulschlesinger on 2008-09-07 02:25:33 as **
  • Identification of Peptide Ligands for Target RNA Structures Derived from the HIV-1 Packaging Signal
    ChemBioChem, Vol. 4, No. 10. (26 September 2003), pp. 1093-1097.
    by Anette Pustowka, Julia Dietz, Jan Ferner, Michael Baumann, Dr, Margot Landersz, Christoph Königs, Harald Schwalbe, Dr, Ursula Dietrich, Dr
    posted to display hiv-1 interactions packaging peptides phage rna rna-peptide by P2324548 on 2005-06-08 15:30:08 as **
  • Reticulate Representation of Evolutionary and Functional Relationships between Phage Genomes
    Mol Biol Evol, Vol. 25, No. 4. (1 April 2008), pp. 762-777.
    by Gipsi Lima-Mendez, Jacques Van Helden, Ariane Toussaint, Raphael Leplae
    posted to algorithm graph horizontal mcl modularity networks phage transfer weighted by osilander on 2008-03-25 09:22:19 as ** along with 1 person cmzmasek
  • Newly introduced genomic prophage islands are critical determinants of in vivo competitiveness in the Liverpool Epidemic Strain of Pseudomonas aeruginosa.
    Genome research (1 December 2008)
    by Craig Winstanley, Morgan G I G Langille, Joanne L L Fothergill, Irena Kukavica-Ibrulj, Catherine Paradis-Bleau, François Sanschagrin, Nicholas R R Thomson, Geoff L L Winsor, Michael A A Quail, Nicola Lennard, Alexandra Bignell, Louise Clarke, Kathy Seeger, David Saunders, David Harris, Julian Parkhill, Robert E W E Hancock, Fiona S L S Brinkman, Roger C C Levesque
    posted to pseudomonas-aeruginosa-les pseudomonas phage genomic-islands cystic-fibrosis by mlangill on 2008-12-03 21:15:43 as read
  • Genome-wide expression dynamics of a marine virus and host reveal features of co-evolution
    Nature, Vol. 449, No. 7158., pp. 83-86.
    by Debbie Lindell, Jacob D Jaffe, Maureen L Coleman, Matthias E Futschik, Ilka M Axmann, Trent Rector, Gregory Kettler, Matthew B Sullivan, Robert Steen, Wolfgang R Hess, George M Church, Sallie W Chisholm
    posted to expression marine phage virus by mellabee on 2007-09-23 17:08:43 as ***** along with 2 people dayjm zwang
  • War is peace -- dispatches from the bacterial and phage killing fields
    Current Opinion in Microbiology, Vol. 8, No. 4. (August 2005), pp. 488-494.
    by Andre M Comeau, Henry M Krisch
    posted to co-evolution phage by mellabee on 2007-09-28 18:13:18 as *****
  • The Third Age of Phage
    PLoS Biology, Vol. 3, No. 5. (1 May 2005), e182.
    by Nicholas H Mann
    posted to phage by mellabee on 2007-09-23 10:39:08 as **** along with 1 person Katje
  • Abundance of Virus-Sized Non-DNase-Digestible DNA (Coated DNA) in Eutrophic Seawater.
    Applied and environmental microbiology, Vol. 59, No. 3. (March 1993), pp. 712-717.
    by A Maruyama, M Oda, T Higashihara
    posted to dna marine phage viruses by mcox on 2008-05-15 15:58:33 as **
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