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High Nutrient Concentration Can Induce Virulence Factor Expression and Cause Higher Virulence in an Environmentally Transmitted Pathogen.

Penttinen R, Kinnula H, Lipponen A, Bamford JK, Sundberg LR.

Microb Ecol. 2016 Nov;72(4):955-964. Epub 2016 May 19.


Scoping the effectiveness and evolutionary obstacles in using plasmid-dependent phages to fight antibiotic resistance.

Ojala V, Mattila S, Hoikkala V, Bamford JKh, Hiltunen T, Jalasvuori M.

Future Microbiol. 2016 Aug;11:999-1009. doi: 10.2217/fmb-2016-0038. Epub 2016 Aug 9.


Intensive aquaculture selects for increased virulence and interference competition in bacteria.

Sundberg LR, Ketola T, Laanto E, Kinnula H, Bamford JK, Penttinen R, Mappes J.

Proc Biol Sci. 2016 Mar 16;283(1826):20153069. doi: 10.1098/rspb.2015.3069.


The use of phage FCL-2 as an alternative to chemotherapy against columnaris disease in aquaculture.

Laanto E, Bamford JK, Ravantti JJ, Sundberg LR.

Front Microbiol. 2015 Aug 19;6:829. doi: 10.3389/fmicb.2015.00829. eCollection 2015.


Bacteriophage GIL01 gp7 interacts with host LexA repressor to enhance DNA binding and inhibit RecA-mediated auto-cleavage.

Fornelos N, Butala M, Hodnik V, Anderluh G, Bamford JK, Salas M.

Nucleic Acids Res. 2015 Sep 3;43(15):7315-29. doi: 10.1093/nar/gkv634. Epub 2015 Jul 2.


The Minor Capsid Protein VP11 of Thermophilic Bacteriophage P23-77 Facilitates Virus Assembly by Using Lipid-Protein Interactions.

Pawlowski A, Moilanen AM, Rissanen IA, Määttä JA, Hytönen VP, Ihalainen JA, Bamford JK.

J Virol. 2015 Aug;89(15):7593-603. doi: 10.1128/JVI.00262-15. Epub 2015 May 13.


Protist predation can select for bacteria with lowered susceptibility to infection by lytic phages.

Örmälä-Odegrip AM, Ojala V, Hiltunen T, Zhang J, Bamford JK, Laakso J.

BMC Evol Biol. 2015 May 7;15:81. doi: 10.1186/s12862-015-0341-1.


Non-structural proteins P17 and P33 are involved in the assembly of the internal membrane-containing virus PRD1.

Karttunen J, Mäntynen S, Ihalainen TO, Bamford JK, Oksanen HM.

Virology. 2015 Aug;482:225-33. doi: 10.1016/j.virol.2015.03.049. Epub 2015 Apr 14.


New enveloped dsRNA phage from freshwater habitat.

Mäntynen S, Laanto E, Kohvakka A, Poranen MM, Bamford JK, Ravantti JJ.

J Gen Virol. 2015 May;96(Pt 5):1180-9. doi: 10.1099/vir.0.000063. Epub 2015 Jan 22.


Probing protein interactions in the membrane-containing virus PRD1.

Mattila S, Oksanen HM, Bamford JK.

J Gen Virol. 2015 Feb;96(Pt 2):453-62. doi: 10.1099/vir.0.069187-0. Epub 2014 Oct 14.


Evolutionary rescue of bacteria via horizontal gene transfer under a lethal β-lactam concentration.

Ojala V, Mattila S, Hoikkala V, Bamford JK, Jalasvuori M.

J Glob Antimicrob Resist. 2014 Sep;2(3):198-200. doi: 10.1016/j.jgar.2014.02.005. Epub 2014 Mar 12.


Comparing the different morphotypes of a fish pathogen--implications for key virulence factors in Flavobacterium columnare.

Laanto E, Penttinen RK, Bamford JK, Sundberg LR.

BMC Microbiol. 2014 Jun 26;14:170. doi: 10.1186/1471-2180-14-170.


Association of colony morphotypes with virulence, growth and resistance against protozoan predation in the fish pathogen Flavobacterium columnare.

Zhang J, Laakso J, Mappes J, Laanto E, Ketola T, Bamford JK, Kunttu H, Sundberg LR.

FEMS Microbiol Ecol. 2014 Sep;89(3):553-62. doi: 10.1111/1574-6941.12356. Epub 2014 Jun 6.


Gammasphaerolipovirus, a newly proposed bacteriophage genus, unifies viruses of halophilic archaea and thermophilic bacteria within the novel family Sphaerolipoviridae.

Pawlowski A, Rissanen I, Bamford JK, Krupovic M, Jalasvuori M.

Arch Virol. 2014 Jun;159(6):1541-54. doi: 10.1007/s00705-013-1970-6. Epub 2014 Jan 7.


Subcellular localization of bacteriophage PRD1 proteins in Escherichia coli.

Karttunen J, Mäntynen S, Ihalainen TO, Lehtivuori H, Tkachenko NV, Vihinen-Ranta M, Ihalainen JA, Bamford JK, Oksanen HM.

Virus Res. 2014 Jan 22;179:44-52. doi: 10.1016/j.virusres.2013.11.015. Epub 2013 Nov 28.


Bacteriophage P23-77 capsid protein structures reveal the archetype of an ancient branch from a major virus lineage.

Rissanen I, Grimes JM, Pawlowski A, Mäntynen S, Harlos K, Bamford JK, Stuart DI.

Structure. 2013 May 7;21(5):718-26. doi: 10.1016/j.str.2013.02.026. Epub 2013 Apr 25.


Phage-driven loss of virulence in a fish pathogenic bacterium.

Laanto E, Bamford JK, Laakso J, Sundberg LR.

PLoS One. 2012 Dec 20;7(12):e53157. doi: 10.1371/journal.pone.0053157. Epub 2012 Dec 31.


Identification of five novel tectiviruses in Bacillus strains: analysis of a highly variable region generating genetic diversity.

Jalasvuori M, Palmu S, Gillis A, Kokko H, Mahillon J, Bamford JK, Fornelos N.

Res Microbiol. 2013 Feb-Mar;164(2):118-26. doi: 10.1016/j.resmic.2012.10.011. Epub 2012 Oct 26.


Crystallization and preliminary crystallographic analysis of the major capsid proteins VP16 and VP17 of bacteriophage P23-77.

Rissanen I, Pawlowski A, Harlos K, Grimes JM, Stuart DI, Bamford JK.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 May 1;68(Pt 5):580-3. doi: 10.1107/S1744309112010330. Epub 2012 Apr 21.


Closely related archaeal Haloarcula hispanica icosahedral viruses HHIV-2 and SH1 have nonhomologous genes encoding host recognition functions.

Jaakkola ST, Penttinen RK, Vilén ST, Jalasvuori M, Rönnholm G, Bamford JK, Bamford DH, Oksanen HM.

J Virol. 2012 May;86(9):4734-42. doi: 10.1128/JVI.06666-11. Epub 2012 Feb 22. Erratum in: J Virol. 2012 Jun;86(11):6383.


Phage-borne factors and host LexA regulate the lytic switch in phage GIL01.

Fornelos N, Bamford JK, Mahillon J.

J Bacteriol. 2011 Nov;193(21):6008-19. doi: 10.1128/JB.05618-11. Epub 2011 Sep 2.


Phage specificity of the freshwater fish pathogen Flavobacterium columnare.

Laanto E, Sundberg LR, Bamford JK.

Appl Environ Microbiol. 2011 Nov;77(21):7868-72. doi: 10.1128/AEM.05574-11. Epub 2011 Sep 2.


Bacteriophage selection against a plasmid-encoded sex apparatus leads to the loss of antibiotic-resistance plasmids.

Jalasvuori M, Friman VP, Nieminen A, Bamford JK, Buckling A.

Biol Lett. 2011 Dec 23;7(6):902-5. doi: 10.1098/rsbl.2011.0384. Epub 2011 Jun 1.


High temperature and bacteriophages can indirectly select for bacterial pathogenicity in environmental reservoirs.

Friman VP, Hiltunen T, Jalasvuori M, Lindstedt C, Laanto E, Örmälä AM, Laakso J, Mappes J, Bamford JK.

PLoS One. 2011 Mar 15;6(3):e17651. doi: 10.1371/journal.pone.0017651.


The use of low-resolution phasing followed by phase extension from 7.6 to 2.5 Å resolution with noncrystallographic symmetry to solve the structure of a bacteriophage capsid protein.

Abrescia NG, Grimes JM, Oksanen HM, Bamford JK, Bamford DH, Stuart DI.

Acta Crystallogr D Biol Crystallogr. 2011 Mar;67(Pt 3):228-32. doi: 10.1107/S0907444911002277. Epub 2011 Feb 15.


A unique group of virus-related, genome-integrating elements found solely in the bacterial family Thermaceae and the archaeal family Halobacteriaceae.

Jalasvuori M, Pawlowski A, Bamford JK.

J Bacteriol. 2010 Jun;192(12):3231-4. doi: 10.1128/JB.00124-10. Epub 2010 Apr 16.


Dynamics of a laterally evolving community of ribozyme-like agents as studied with a rule-based computing system.

Jalasvuori M, Jalasvuori MP, Bamford JK.

Orig Life Evol Biosph. 2010 Jun;40(3):319-34. doi: 10.1007/s11084-009-9187-0. Epub 2009 Dec 12.


The closest relatives of icosahedral viruses of thermophilic bacteria are among viruses and plasmids of the halophilic archaea.

Jalasvuori M, Jaatinen ST, Laurinavicius S, Ahola-Iivarinen E, Kalkkinen N, Bamford DH, Bamford JK.

J Virol. 2009 Sep;83(18):9388-97. doi: 10.1128/JVI.00869-09. Epub 2009 Jul 8.


Did the ancient crenarchaeal viruses from the dawn of life survive exceptionally well the eons of meteorite bombardment?

Jalasvuori M, Bamford JK.

Astrobiology. 2009 Jan-Feb;9(1):131-7. doi: 10.1089/ast.2007.0189.


Purified membrane-containing procapsids of bacteriophage PRD1 package the viral genome.

Ziedaite G, Kivelä HM, Bamford JK, Bamford DH.

J Mol Biol. 2009 Feb 27;386(3):637-47. doi: 10.1016/j.jmb.2008.12.068. Epub 2009 Jan 6.


Molecular characterization of a variant of Bacillus anthracis-specific phage AP50 with improved bacteriolytic activity.

Sozhamannan S, McKinstry M, Lentz SM, Jalasvuori M, McAfee F, Smith A, Dabbs J, Ackermann HW, Bamford JK, Mateczun A, Read TD.

Appl Environ Microbiol. 2008 Nov;74(21):6792-6. doi: 10.1128/AEM.01124-08. Epub 2008 Sep 12.


Insights into virus evolution and membrane biogenesis from the structure of the marine lipid-containing bacteriophage PM2.

Abrescia NG, Grimes JM, Kivelä HM, Assenberg R, Sutton GC, Butcher SJ, Bamford JK, Bamford DH, Stuart DI.

Mol Cell. 2008 Sep 5;31(5):749-61. doi: 10.1016/j.molcel.2008.06.026.


Structural co-evolution of viruses and cells in the primordial world.

Jalasvuori M, Bamford JK.

Orig Life Evol Biosph. 2008 Apr;38(2):165-81. doi: 10.1007/s11084-008-9121-x. Epub 2008 Jan 29.


Genetics for Pseudoalteromonas provides tools to manipulate marine bacterial virus PM2.

Kivelä HM, Madonna S, Krupovìc M, Tutino ML, Bamford JK.

J Bacteriol. 2008 Feb;190(4):1298-307. Epub 2007 Dec 14.


Selenomethionine labeling of large biological macromolecular complexes: probing the structure of marine bacterial virus PM2.

Kivelä HM, Abrescia NG, Bamford JK, Grimes JM, Stuart DI, Bamford DH.

J Struct Biol. 2008 Feb;161(2):204-10. Epub 2007 Nov 1.


Efficient DNA packaging of bacteriophage PRD1 requires the unique vertex protein P6.

Karhu NJ, Ziedaite G, Bamford DH, Bamford JK.

J Virol. 2007 Mar;81(6):2970-9. Epub 2007 Jan 3.


Genome characterization of lipid-containing marine bacteriophage PM2 by transposon insertion mutagenesis.

Krupovic M, Vilen H, Bamford JK, Kivelä HM, Aalto JM, Savilahti H, Bamford DH.

J Virol. 2006 Sep;80(18):9270-8.


The entry mechanism of membrane-containing phage Bam35 infecting Bacillus thuringiensis.

Gaidelyte A, Cvirkaite-Krupovic V, Daugelavicius R, Bamford JK, Bamford DH.

J Bacteriol. 2006 Aug;188(16):5925-34.


Preliminary crystallographic analysis of the major capsid protein P2 of the lipid-containing bacteriophage PM2.

Abrescia NG, Kivelä HM, Grimes JM, Bamford JK, Bamford DH, Stuart DI.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2005 Aug 1;61(Pt 8):762-5. Epub 2005 Jul 30.


The Holin protein of bacteriophage PRD1 forms a pore for small-molecule and endolysin translocation.

Ziedaite G, Daugelavicius R, Bamford JK, Bamford DH.

J Bacteriol. 2005 Aug;187(15):5397-405.


Constituents of SH1, a novel lipid-containing virus infecting the halophilic euryarchaeon Haloarcula hispanica.

Bamford DH, Ravantti JJ, Rönnholm G, Laurinavicius S, Kukkaro P, Dyall-Smith M, Somerharju P, Kalkkinen N, Bamford JK.

J Virol. 2005 Jul;79(14):9097-107.


A snapshot of viral evolution from genome analysis of the tectiviridae family.

Saren AM, Ravantti JJ, Benson SD, Burnett RM, Paulin L, Bamford DH, Bamford JK.

J Mol Biol. 2005 Jul 15;350(3):427-40.


The linear double-stranded DNA of phage Bam35 enters lysogenic host cells, but the late phage functions are suppressed.

Gaidelyte A, Jaatinen ST, Daugelavicius R, Bamford JK, Bamford DH.

J Bacteriol. 2005 May;187(10):3521-7.


In vitro DNA packaging of PRD1: a common mechanism for internal-membrane viruses.

Strömsten NJ, Bamford DH, Bamford JK.

J Mol Biol. 2005 May 6;348(3):617-29.


SH1: A novel, spherical halovirus isolated from an Australian hypersaline lake.

Porter K, Kukkaro P, Bamford JK, Bath C, Kivelä HM, Dyall-Smith ML, Bamford DH.

Virology. 2005 Apr 25;335(1):22-33.


Does common architecture reveal a viral lineage spanning all three domains of life?

Benson SD, Bamford JK, Bamford DH, Burnett RM.

Mol Cell. 2004 Dec 3;16(5):673-85.


Membrane structure and interactions with protein and DNA in bacteriophage PRD1.

Cockburn JJ, Abrescia NG, Grimes JM, Sutton GC, Diprose JM, Benevides JM, Thomas GJ Jr, Bamford JK, Bamford DH, Stuart DI.

Nature. 2004 Nov 4;432(7013):122-5.


Insights into assembly from structural analysis of bacteriophage PRD1.

Abrescia NG, Cockburn JJ, Grimes JM, Sutton GC, Diprose JM, Butcher SJ, Fuller SD, San Martín C, Burnett RM, Stuart DI, Bamford DH, Bamford JK.

Nature. 2004 Nov 4;432(7013):68-74.


Integral membrane protein P16 of bacteriophage PRD1 stabilizes the adsorption vertex structure.

Jaatinen ST, Viitanen SJ, Bamford DH, Bamford JK.

J Virol. 2004 Sep;78(18):9790-7.


Penetration of membrane-containing double-stranded-DNA bacteriophage PM2 into Pseudoalteromonas hosts.

Kivelä HM, Daugelavicius R, Hankkio RH, Bamford JK, Bamford DH.

J Bacteriol. 2004 Aug;186(16):5342-54.

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