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Correspondence Visualization of ribosomal RNA operon copy number distribution Rajat Rastogi, Martin Wu, Indrani DasGupta, and George E Fox PMCID: PMC2761929 Database MyBASE: a database for genome polymorphism and gene function studies of Mycobacterium Xinxing Zhu, Suhua Chang, Kechi Fang, Sijia Cui, Jun Liu, Zuowei Wu, Xuping Yu, George F Gao, Huanming Yang, Baoli Zhu, and Jing Wang PMCID: PMC2656513 Virus variation resources at the National Center for Biotechnology Information: dengue virus Wolfgang Resch, Leonid Zaslavsky, Boris Kiryutin, Michael Rozanov, Yiming Bao, and Tatiana A Tatusova PMCID: PMC2675532 CAPIH: A Web interface for comparative analyses and visualization of host-HIV protein-protein interactions Fan-Kai Lin, Chia-Lin Pan, Jinn-Moon Yang, Trees-Juen Chuang, and Feng-Chi Chen PMCID: PMC2782265 Research article Cytokinesis is blocked in mammalian cells transfected with Chlamydia trachomatis gene CT223 Damir T Alzhanov, Sara K Weeks, Jeffrey R Burnett, and Daniel D Rockey PMCID: PMC2657910 The Salmonella Pathogenicity Island (SPI) 1 contributes more than SPI2 to the colonization of the chicken by Salmonella enterica serovar Typhimurium Yakhya Dieye, Keith Ameiss, Melha Mellata, and Roy Curtiss, III PMCID: PMC2630912 Genes involved in arsenic transformation and resistance associated with different levels of arsenic-contaminated soils Lin Cai, Guanghui Liu, Christopher Rensing, and Gejiao Wang PMCID: PMC2631446 Phylum Verrucomicrobia representatives share a compartmentalized cell plan with members of bacterial phylum Planctomycetes Kuo-Chang Lee, Richard I Webb, Peter H Janssen, Parveen Sangwan, Tony Romeo, James T Staley, and John A Fuerst PMCID: PMC2647929 Typing Clostridium difficile strains based on tandem repeat sequences N Henning Zaiß, Maja Rupnik, Ed J Kuijper, Celine Harmanus, Dolf Michielsen, Koen Janssens, and Ulrich Nübel PMCID: PMC2628660 Characterization of the meningococcal DNA glycosylase Fpg involved in base excision repair Katrina L Tibballs, Ole Herman Ambur, Kristian Alfsnes, Håvard Homberset, Stephan A Frye, Tonje Davidsen, and Tone Tønjum PMCID: PMC2628661 Mobile genetic elements in the genome of the beneficial rhizobacterium Pseudomonas fluorescens Pf-5 Dmitri V Mavrodi, Joyce E Loper, Ian T Paulsen, and Linda S Thomashow PMCID: PMC2647930 Combining chemical genomics screens in yeast to reveal spectrum of effects of chemical inhibition of sphingolipid biosynthesis Danielle Kemmer, Lianne M McHardy, Shawn Hoon, Delphine Rebérioux, Guri Giaever, Corey Nislow, Calvin D Roskelley, and Michel Roberge PMCID: PMC2632640 Genetic evaluation of relationship between mutations in rpoB and resistance of Mycobacterium tuberculosis to rifampin Anna Zaczek, Anna Brzostek, Ewa Augustynowicz-Kopec, Zofia Zwolska, and Jaroslaw Dziadek PMCID: PMC2652454 Gene expression profile and pathogenicity of biofilm-forming Prevotella intermedia strain 17 Takeshi Yamanaka, Tomoyo Furukawa, Chiho Matsumoto-Mashimo, Kazuyoshi Yamane, Chieko Sugimori, Takayuki Nambu, Naoki Mori, Hiroyuki Nishikawa, Clay B Walker, Kai-Poon Leung, and Hisanori Fukushima PMCID: PMC2633007 New genes of Xanthomonas citri subsp. citri involved in pathogenesis and adaptation revealed by a transposon-based mutant library Marcelo L Laia, Leandro M Moreira, Juliana Dezajacomo, Joice B Brigati, Cristiano B Ferreira, Maria IT Ferro, Ana CR Silva, Jesus A Ferro, and Julio CF Oliveira PMCID: PMC2653504 The effect of bacteriophages T4 and HAP1 on in vitro melanoma migration Krystyna Dąbrowska, Grzegorz Skaradziński, Paulina Jończyk, Aneta Kurzępa, Joanna Wietrzyk, Barbara Owczarek, Maciej Żaczek, Kinga Świtała-Jeleń, Janusz Boratyński, Gryzelda Poźniak, Magdalena Maciejewska, and Andrzej Górski PMCID: PMC2639589 Role of sgcR3 in positive regulation of enediyne antibiotic C-1027 production of Streptomyces globisporus C-1027 Lifei Wang, Yunfeng Hu, Yanjuan Zhang, Songmei Wang, Zhihui Cui, Yi Bao, Wei Jiang, and Bin Hong PMCID: PMC2657911 A novel DNA-binding protein modulating methicillin resistance in Staphylococcus aureus Miriam Ender, Brigitte Berger-Bächi, and Nadine McCallum PMCID: PMC2658668 Ultrastructure and molecular phylogeny of Calkinsia aureus: cellular identity of a novel clade of deep-sea euglenozoans with epibiotic bacteria Naoji Yubuki, Virginia P Edgcomb, Joan M Bernhard, and Brian S Leander PMCID: PMC2656514 The tep1 gene of Sinorhizobium meliloti coding for a putative transmembrane efflux protein and N-acetyl glucosamine affect nod gene expression and nodulation of alfalfa plants Pieter van Dillewijn, Juan Sanjuán, José Olivares, and María José Soto PMCID: PMC2637885 Comparative transcriptomic analysis of Porphyromonas gingivalis biofilm and planktonic cells Alvin W Lo, Christine A Seers, John D Boyce, Stuart G Dashper, Nada Slakeski, J Patricia Lissel, and Eric C Reynolds PMCID: PMC2637884 Enterococcal surface protein Esp is not essential for cell adhesion and intestinal colonization of Enterococcus faecium in mice Esther Heikens, Masja Leendertse, Lucas M Wijnands, Miranda van Luit-Asbroek, Marc JM Bonten, Tom van der Poll, and Rob JL Willems PMCID: PMC2639590 Mechanism of protonophores-mediated induction of heat-shock response in Escherichia coli Bimal Jana, Subrata Panja, Swati Saha, and Tarakdas Basu PMCID: PMC2654656 Development of a multi-locus sequence typing scheme for Laribacter hongkongensis, a novel bacterium associated with freshwater fish-borne gastroenteritis and traveler's diarrhea Patrick CY Woo, Jade LL Teng, Alan KL Tsang, Herman Tse, Vivien YM Tsang, King-Man Chan, Edwin KY Lee, Jim KH Chan, Shirley SL Ma, Dorothy MW Tam, Liliane MW Chung, Susanna KP Lau, and Kwok-Yung Yuen PMCID: PMC2644701 Surface proteins that promote adherence of Staphylococcus aureus to human desquamated nasal epithelial cells Rebecca M Corrigan, Helen Miajlovic, and Timothy J Foster PMCID: PMC2642834 Active immunization using exotoxin A confers protection against Pseudomonas aeruginosa infection in a mouse burn model Ali Manafi, Jamshid Kohanteb, Davood Mehrabani, Aziz Japoni, Masoud Amini, Mohsen Naghmachi, Ahmad Hosseinzadeh Zaghi, and Nazanin Khalili PMCID: PMC2644702 Characterization of Cronobacter recovered from dried milk and related products Walid M El-Sharoud, Stephen O'Brien, Carmen Negredo, Carol Iversen, Séamus Fanning, and Brendan Healy PMCID: PMC2640398 A Candida albicans early stage biofilm detachment event in rich medium Adnane Sellam, Thamir Al-Niemi, Kathleen McInnerney, Susan Brumfield, Andre Nantel, and Peter A Suci PMCID: PMC2647545 Pseudomonas aeruginosa vesicles associate with and are internalized by human lung epithelial cells Susanne J Bauman and Meta J Kuehn PMCID: PMC2653510 In vivo killing of Staphylococcus aureus using a light-activated antimicrobial agent Parjam S Zolfaghari, Samantha Packer, Mervyn Singer, Sean P Nair, Jon Bennett, Cale Street, and Michael Wilson PMCID: PMC2642833 Induction of a chemoattractant transcriptional response by a Campylobacter jejuni boiled cell extract in colonocytes Kenneth H Mellits, Ian F Connerton, Michael F Loughlin, Peter Clarke, Julie Smith, Eleanor Dillon, Phillippa L Connerton, Francis Mulholland, and Christopher J Hawkey PMCID: PMC2672935 Blochmannia endosymbionts improve colony growth and immune defence in the ant Camponotus fellah Danival J de Souza, Annie Bézier, Delphine Depoix, Jean-Michel Drezen, and Alain Lenoir PMCID: PMC2660346 Secretion of flagellin by the LEE-encoded type III secretion system of enteropathogenic Escherichia coli Luminita Badea, Scott A Beatson, Maria Kaparakis, Richard L Ferrero, and Elizabeth L Hartland PMCID: PMC2647546 Characterisation of porin genes from Mycobacterium fortuitum and their impact on growth Soroush Sharbati, Kira Schramm, Sonja Rempel, Hwa Wang, Ronny Andrich, Verena Tykiel, Ralph Kunisch, and Astrid Lewin PMCID: PMC2651896 Analysis of growth-phase regulated genes in Streptococcus agalactiae by global transcript profiling Izabela Sitkiewicz and James M Musser PMCID: PMC2660347 Inducible expression of beta defensins by human respiratory epithelial cells exposed to Aspergillus fumigatus organisms Ludmila Alekseeva, Dominique Huet, Françoise Féménia, Isabelle Mouyna, Mahdia Abdelouahab, Adrien Cagna, Daniel Guerrier, Virginie Tichanné-Seltzer, Armelle Baeza-Squiban, René Chermette, Jean-Paul Latgé, and Nadia Berkova PMCID: PMC2653505 The Trypanosoma cruzi nucleic acid binding protein Tc38 presents changes in the intramitochondrial distribution during the cell cycle María A Duhagon, Lucía Pastro, José R Sotelo-Silveira, Leticia Pérez-Díaz, Dante Maugeri, Sheila C Nardelli, Sergio Schenkman, Noreen Williams, Bruno Dallagiovanna, and Beatriz Garat PMCID: PMC2654453 Probiotic Lactobacillus reuteri biofilms produce antimicrobial and anti-inflammatory factors Sara E Jones and James Versalovic PMCID: PMC2653509 NF-κB activation by Helicobacter pylori requires Akt-mediated phosphorylation of p65 Eriko Takeshima, Koh Tomimori, Hirochika Kawakami, Chie Ishikawa, Shigeki Sawada, Mariko Tomita, Masachika Senba, Fukunori Kinjo, Hitomi Mimuro, Chihiro Sasakawa, Jiro Fujita, and Naoki Mori PMCID: PMC2653507 The time course of the transcriptomic response of Sinorhizobium meliloti 1021 following a shift to acidic pH Christoph Hellweg, Alfred Pühler, and Stefan Weidner PMCID: PMC2651895 Correlations of mutations in katG, oxyR-ahpC and inhA genes and in vitro susceptibility in Mycobacterium tuberculosis clinical strains segregated by spoligotype families from tuberculosis prevalent countries in South America Elis R Dalla Costa, Marta O Ribeiro, Márcia SN Silva, Liane S Arnold, Diana C Rostirolla, Patricia I Cafrune, Roger C Espinoza, Moises Palaci, Maria A Telles, Viviana Ritacco, Philip N Suffys, Maria L Lopes, Creuza L Campelo, Silvana S Miranda, Kristin Kremer, Pedro E Almeida da Silva, Leila de Souza Fonseca, John L Ho, Afrânio L Kritski, and Maria LR Rossetti PMCID: PMC2650697 DNA phosphorothioation in Streptomyces lividans: mutational analysis of the dnd locus Tiegang Xu, Jingdan Liang, Shi Chen, Lianrong Wang, Xinyi He, Delin You, Zhijun Wang, Aiying Li, Zhongli Xu, Xiufen Zhou, and Zixin Deng PMCID: PMC2653506 Genome-wide analysis of the PreA/PreB (QseB/QseC) regulon of Salmonella enterica serovar Typhimurium Massimo Merighi, Alecia N Septer, Amanda Carroll-Portillo, Aditi Bhatiya, Steffen Porwollik, Michael McClelland, and John S Gunn PMCID: PMC2653508 Quelling targets the rDNA locus and functions in rDNA copy number control Germano Cecere and Carlo Cogoni PMCID: PMC2650698 RpoE fine tunes expression of a subset of SsrB-regulated virulence factors in Salmonella enterica serovar Typhimurium Suzanne E Osborne and Brian K Coombes PMCID: PMC2651894 Rapid detection of laboratory cross-contamination with Mycobacterium tuberculosis using multispacer sequence typing Zoheira Djelouadji, Jean Orehek, and Michel Drancourt PMCID: PMC2653047 Transcriptional analysis of ESAT-6 cluster 3 in Mycobacterium smegmatis Anna Maciąg, Aurora Piazza, Giovanna Riccardi, and Anna Milano PMCID: PMC2660348 Suppression of RNA interference increases alphavirus replication and virus-associated mortality in Aedes aegypti mosquitoes Chris M Cirimotich, Jaclyn C Scott, Aaron T Phillips, Brian J Geiss, and Ken E Olson PMCID: PMC2660349 Comparative genomics of lactic acid bacteria reveals a niche-specific gene set Orla O'Sullivan, John O'Callaghan, Amaia Sangrador-Vegas, Olivia McAuliffe, Lydia Slattery, Pawel Kaleta, Michael Callanan, Gerald F Fitzgerald, R Paul Ross, and Tom Beresford PMCID: PMC2660350 The outcome of Cryptococcus neoformans intracellular pathogenesis in human monocytes Mauricio Alvarez, Tamika Burn, Yong Luo, Liise-anne Pirofski, and Arturo Casadevall PMCID: PMC2670303 Variations in amount of TSST-1 produced by clinical methicillin resistant Staphylococcus aureus (MRSA) isolates and allelic variation in accessory gene regulator (agr) locus Miki Nagao, Akira Okamoto, Keiko Yamada, Tadao Hasegawa, Yoshinori Hasegawa, and Michio Ohta PMCID: PMC2667389 Diversity and transcription of proteases involved in the maturation of hydrogenases in Nostoc punctiforme ATCC 29133 and Nostoc sp. strain PCC 7120 Ellenor Devine, Marie Holmqvist, Karin Stensjö, and Peter Lindblad PMCID: PMC2670836 Characterization of the hupSL promoter activity in Nostoc punctiforme ATCC 29133 Marie Holmqvist, Karin Stensjö, Paulo Oliveira, Pia Lindberg, and Peter Lindblad PMCID: PMC2661322 Human parainfluenza virus type 2 (HPIV2) induced host ADAM8 expression in human salivary adenocarcinoma cell line (HSY) during cell fusion Guo-Feng Ma, Simo Miettinen, Pauliina Porola, Klaus Hedman, Jari Salo, and Yrjö T Konttinen PMCID: PMC2662866 Identification of Archaea-specific chemotaxis proteins which interact with the flagellar apparatus Matthias Schlesner, Arthur Miller, Stefan Streif, Wilfried F Staudinger, Judith Müller, Beatrix Scheffer, Frank Siedler, and Dieter Oesterhelt PMCID: PMC2666748 Multiple factors interact to produce responses resembling spectrum of human disease in Campylobacter jejuni infected C57BL/6 IL-10-/- mice Julia A Bell, Jessica L St Charles, Alice J Murphy, Vijay AK Rathinam, Anne E Plovanich-Jones, Erin L Stanley, John E Wolf, Jenna R Gettings, Thomas S Whittam, and Linda S Mansfield PMCID: PMC2669091 Genetic identity and differential gene expression between Trichomonas vaginalis and Trichomonas tenax Ashwini S Kucknoor, Vasanthakrishna Mundodi, and JF Alderete PMCID: PMC2664820 Characterization of oxylipins and dioxygenase genes in the asexual fungus Aspergillus niger Mayken W Wadman, Ronald P de Vries, Stefanie IC Kalkhove, Gerrit A Veldink, and Johannes FG Vliegenthart PMCID: PMC2666749 Alkane inducible proteins in Geobacillus thermoleovorans B23 Tomohisa Kato, Asuka Miyanaga, Shigenori Kanaya, and Masaaki Morikawa PMCID: PMC2676291 Staphylococcus aureus immunodominant surface antigen B is a cell-surface associated nucleic acid binding protein Nicole M Mackey-Lawrence, Denise E Potter, Nuno Cerca, and Kimberly K Jefferson PMCID: PMC2670837 Diarrhoeagenic Escherichia coli are not a significant cause of diarrhoea in hospitalised children in Kuwait M John Albert, Vincent O Rotimi, Rita Dhar, Susan Silpikurian, Alexander S Pacsa, A Majid Molla, and Gyorgy Szucs PMCID: PMC2678128 L. plantarum prevents Enteroinvasive Escherichia coli-induced tight junction proteins changes in intestinal epithelial cells Huanlong Qin, Zhongwei Zhang, Xiaomin Hang, and Yanqun Jiang PMCID: PMC2674056 Synergy between type 1 fimbriae expression and C3 opsonisation increases internalisation of E. coli by human tubular epithelial cells Ke Li, Wuding Zhou, Yuzhi Hong, Steven H Sacks, and Neil S Sheerin PMCID: PMC2670304 Transcription profiles of hydrogenases related genes in the cyanobacterium Lyngbya majuscula CCAP 1446/4 Daniela Ferreira, Filipe Pinto, Pedro Moradas-Ferreira, Marta V Mendes, and Paula Tamagnini PMCID: PMC2674450 Sequence analysis of percent G+C fraction libraries of human faecal bacterial DNA reveals a high number of Actinobacteria Lotta Krogius-Kurikka, Anna Kassinen, Lars Paulin, Jukka Corander, Harri Mäkivuokko, Jarno Tuimala, and Airi Palva PMCID: PMC2679024 Rapid assessment of the effect of ciprofloxacin on chromosomal DNA from Escherichia coli using an in situ DNA fragmentation assay María Tamayo, Rebeca Santiso, Jaime Gosalvez, Germán Bou, and José Luis Fernández PMCID: PMC2670838 Charge effect on the photoinactivation of Gram-negative and Gram-positive bacteria by cationic meso-substituted porphyrins Eliana Alves, Liliana Costa, Carla MB Carvalho, João PC Tomé, Maria A Faustino, Maria GPMS Neves, Augusto C Tomé, José AS Cavaleiro, Ângela Cunha, and Adelaide Almeida PMCID: PMC2672088 Bacillus anthracis in China and its relationship to worldwide lineages Tatum S Simonson, Richard T Okinaka, Bingxiang Wang, W Ryan Easterday, Lynn Huynh, Jana M U'Ren, Meghan Dukerich, Shaylan R Zanecki, Leo J Kenefic, Jodi Beaudry, James M Schupp, Talima Pearson, David M Wagner, Alex Hoffmaster, Jacques Ravel, and Paul Keim PMCID: PMC2674057 Statistical characterization of the GxxxG glycine repeats in the flagellar biosynthesis protein FliH and its Type III secretion homologue YscL Brett Trost and Stanley A Moore PMCID: PMC2674601 Characterization of the expression of Salmonella Type III secretion system factor PrgI, SipA, SipB, SopE2, SpaO, and SptP in cultures and in mice Hao Gong, Jing Su, Yong Bai, Lu Miao, Kihoon Kim, Yonghua Yang, Fenyong Liu, and Sangwei Lu PMCID: PMC2678129 Growth inhibition and ultrastructural alterations induced by Δ24(25)-sterol methyltransferase inhibitors in Candida spp. isolates, including non-albicans organisms Kelly Ishida, Juliany Cola Fernandes Rodrigues, Marcos Dornelas Ribeiro, Taíssa Vieira Machado Vila, Wanderley de Souza, Julio A Urbina, Celso Vataru Nakamura, and Sonia Rozental PMCID: PMC2679025 Small molecule inhibitors of the Yersinia type III secretion system impair the development of Chlamydia after entry into host cells Sandra Muschiol, Staffan Normark, Birgitta Henriques-Normark, and Agathe Subtil PMCID: PMC2679026 Transcriptomic and metabolic responses of Staphylococcus aureus exposed to supra-physiological temperatures Bénédicte Fleury, William L Kelley, Daniel Lew, Friedrich Götz, Richard A Proctor, and Pierre Vaudaux PMCID: PMC2687450 Conserved amino acid markers from past influenza pandemic strains Jonathan E Allen, Shea N Gardner, Elizabeth A Vitalis, and Tom R Slezak PMCID: PMC2685398 Cervical cancer isolate PT3, super-permissive for adeno-associated virus replication, over-expresses DNA polymerase δ, PCNA, RFC and RPA Bum Yong Kang, Hong You, Sarmistha Bandyopadhyay, Nalini Agrawal, Russell B Melchert, Alexei G Basnakian, Yong Liu, and Paul L Hermonat PMCID: PMC2685399 Diversity of pneumococcal surface protein A (PspA) among prevalent clones in Spain Dora Rolo, Carmen Ardanuy, Ana Fleites, Rogelio Martín, and Josefina Liñares PMCID: PMC2684541 Brucella melitensis global gene expression study provides novel information on growth phase-specific gene regulation with potential insights for understanding Brucella:host initial interactions Carlos A Rossetti, Cristi L Galindo, Sara D Lawhon, Harold R Garner, and L Garry Adams PMCID: PMC2684542 Staphylococcus epidermidis strains isolated from breast milk of women suffering infectious mastitis: potential virulence traits and resistance to antibiotics Susana Delgado, Rebeca Arroyo, Esther Jiménez, Maria L Marín, Rosa del Campo, Leonides Fernández, and Juan M Rodríguez PMCID: PMC2685400 piggyBac is an effective tool for functional analysis of the Plasmodium falciparum genome Bharath Balu, Chitra Chauhan, Steven P Maher, Douglas A Shoue, Jessica C Kissinger, Malcolm J Fraser, Jr, and John H Adams PMCID: PMC2686711 Paracoccidioides brasiliensis pancreatic destruction in Calomys callosus experimentally infected Rogério M Fortes, André Kipnis, and Ana Paula Junqueira-Kipnis PMCID: PMC2685139 Validation of a same-day real-time PCR method for screening of meat and carcass swabs for Salmonella Charlotta Löfström, Michael Krause, Mathilde H Josefsen, Flemming Hansen, and Jeffrey Hoorfar PMCID: PMC2692855 Genomic analysis of Campylobacter fetus subspecies: identification of candidate virulence determinants and diagnostic assay targets Paula M Moolhuijzen, Ala E Lew-Tabor, Bartosz M Wlodek, Fernán G Agüero, Diego J Comerci, Rodolfo A Ugalde, Daniel O Sanchez, Rudi Appels, and Matthew Bellgard PMCID: PMC2685401 Evaluation of the passage of Lactobacillus gasseri K7 and bifidobacteria from the stomach to intestines using a single reactor model Philipp Ritter, Christian Kohler, and Ueli von Ah PMCID: PMC2685402 Comparison of the in vitro and in vivo susceptibilities of Burkholderia mallei to Ceftazidime and Levofloxacin Barbara M Judy, Gregory C Whitlock, Alfredo G Torres, and D Mark Estes PMCID: PMC2686712 A probable aculeacin A acylase from the Ralstonia solanacearum GMI1000 is N-acyl-homoserine lactone acylase with quorum-quenching activity Chin-Nung Chen, Chii-Jaan Chen, Chen-Ting Liao, and Chia-Yin Lee PMCID: PMC2686713 Emodin targets the β-hydroxyacyl-acyl carrier protein dehydratase from Helicobacter pylori: enzymatic inhibition assay with crystal structural and thermodynamic characterization Jing Chen, Liang Zhang, Yu Zhang, Haitao Zhang, Jiamu Du, Jianping Ding, Yuewei Guo, Hualiang Jiang, and Xu Shen PMCID: PMC2692856 DNA polymorphism analysis of Brucella lipopolysaccharide genes reveals marked differences in O-polysaccharide biosynthetic genes between smooth and rough Brucella species and novel species-specific markers Michel S Zygmunt, José M Blasco, Jean-Jacques Letesson, Axel Cloeckaert, and Ignacio Moriyón PMCID: PMC2698832 Genetic determination of the effect of post-translational modification on the innate immune response to the 19 kDa lipoprotein of Mycobacterium tuberculosis Katalin A Wilkinson, Sandra M Newton, Graham R Stewart, Adrian R Martineau, Janisha Patel, Susan M Sullivan, Jean-Louis Herrmann, Olivier Neyrolles, Douglas B Young, and Robert J Wilkinson PMCID: PMC2689228 Occurrence and enumeration of Campylobacter spp. during the processing of Chilean broilers Guillermo Figueroa, Miriam Troncoso, Cristián López, Patricia Rivas, and Magaly Toro PMCID: PMC2689229 Effect of a glucose impulse on the CcpA regulon in Staphylococcus aureus Kati Seidl, Susanne Müller, Patrice François, Carsten Kriebitzsch, Jacques Schrenzel, Susanne Engelmann, Markus Bischoff, and Brigitte Berger-Bächi PMCID: PMC2697999 Bacterial diversity analysis of larvae and adult midgut microflora using culture-dependent and culture-independent methods in lab-reared and field-collected Anopheles stephensi-an Asian malarial vector Asha Rani, Anil Sharma, Raman Rajagopal, Tridibesh Adak, and Raj K Bhatnagar PMCID: PMC2698833 Proteomics of Porphyromonas gingivalis within a model oral microbial community Masae Kuboniwa, Erik L Hendrickson, Qiangwei Xia, Tiansong Wang, Hua Xie, Murray Hackett, and Richard J Lamont PMCID: PMC2689231 Promoter analysis of macrophage- and tick cell-specific differentially expressed Ehrlichia chaffeensis p28-Omp genes Lalitha Peddireddi, Chuanmin Cheng, and Roman R Ganta PMCID: PMC2694197 Cytosolic phospholipase A2: a member of the signalling pathway of a new G protein α subunit in Sporothrix schenckii Shirley Valentín-Berríos, Waleska González-Velázquez, Lizaida Pérez-Sánchez, Ricardo González-Méndez, and Nuri Rodríguez-del Valle PMCID: PMC2694196 A plant MinD homologue rescues Escherichia coli HL1 mutant (ΔMinDE) in the absence of MinE Min Zhang, Yong Hu, Jingjing Jia, Hongbo Gao, and Yikun He PMCID: PMC2691406 Microflora of the penile skin-lined neovagina of transsexual women Steven Weyers, Hans Verstraelen, Jan Gerris, Stan Monstrey, Guido dos Santos Lopes Santiago, Bart Saerens, Ellen De Backer, Geert Claeys, Mario Vaneechoutte, and Rita Verhelst PMCID: PMC2695466 Characterization of structures in biofilms formed by a Pseudomonas fluorescens isolated from soil Marc M Baum, Aleksandra Kainović, Teresa O'Keeffe, Ragini Pandita, Kent McDonald, Siva Wu, and Paul Webster PMCID: PMC2697165 Molecular characterization of a fungal gene paralogue of the penicillin penDE gene of Penicillium chrysogenum Carlos García-Estrada, Inmaculada Vaca, Ricardo V Ullán, Marco A van den Berg, Roel AL Bovenberg, and Juan Francisco Martín PMCID: PMC2692852 Distinct roles of long/short fimbriae and gingipains in homotypic biofilm development by Porphyromonas gingivalis Masae Kuboniwa, Atsuo Amano, Ei Hashino, Yumiko Yamamoto, Hiroaki Inaba, Nobushiro Hamada, Koji Nakayama, Gena D Tribble, Richard J Lamont, and Satoshi Shizukuishi PMCID: PMC2697998 Isothermal micro calorimetry – a new method for MIC determinations: results for 12 antibiotics and reference strains of E. coli and S. aureus Ueli von Ah, Dieter Wirz, and AU Daniels PMCID: PMC2692853 Porphyromonas gingivalis induce apoptosis in human gingival epithelial cells through a gingipain-dependent mechanism Panagiota G Stathopoulou, Johnah C Galicia, Manjunatha R Benakanakere, Carlos A Garcia, Jan Potempa, and Denis F Kinane PMCID: PMC2692854 Chitobiose utilization in Borrelia burgdorferi is dually regulated by RpoD and RpoS Ryan G Rhodes, Wendy Coy, and David R Nelson PMCID: PMC2700276 The genome sequence of Geobacter metallireducens: features of metabolism, physiology and regulation common and dissimilar to Geobacter sulfurreducens Muktak Aklujkar, Julia Krushkal, Genevieve DiBartolo, Alla Lapidus, Miriam L Land, and Derek R Lovley PMCID: PMC2700814 Involvement of RNA-binding protein Hfq in the osmotic-response regulation of invE gene expression in Shigella sonnei Jiro Mitobe, Tomoko Morita-Ishihara, Akira Ishihama, and Haruo Watanabe PMCID: PMC2694808 The association of CD81 with tetraspanin-enriched microdomains is not essential for Hepatitis C virus entry Vera Rocha-Perugini, Muriel Lavie, David Delgrange, Jonathan Canton, André Pillez, Julie Potel, Cécile Lecoeur, Eric Rubinstein, Jean Dubuisson, Czeslaw Wychowski, and Laurence Cocquerel PMCID: PMC2694809 The PhoBR two-component system regulates antibiotic biosynthesis in Serratia in response to phosphate Tamzin Gristwood, Peter C Fineran, Lee Everson, Neil R Williamson, and George P Salmond PMCID: PMC2695467 A pentaplex PCR assay for the rapid detection of methicillin-resistant Staphylococcus aureus and Panton-Valentine Leucocidin Hassanain Al-Talib, Chan Yean Yean, Alyaa Al-Khateeb, Habsah Hassan, Kirnpal-Kaur Banga Singh, Karim Al-Jashamy, and Manickam Ravichandran PMCID: PMC2700277 Pleiotropic effects of the twin-arginine translocation system on biofilm formation, colonization, and virulence in Vibrio cholerae Lijuan Zhang, Zhaoqin Zhu, Huaiqi Jing, Jingyun Zhang, Yanwen Xiong, Meiying Yan, Shouyi Gao, Long-Fei Wu, Jianguo Xu, and Biao Kan PMCID: PMC2698830 Association of the shuffling of Streptococcus pyogenes clones and the fluctuation of scarlet fever cases between 2000 and 2006 in central Taiwan Chien-Shun Chiou, You-Wun Wang, Pei-Ling Chen, Wan-Ling Wang, Ping-Fuai Wu, and Hsiao-Lun Wei PMCID: PMC2697166 Longitudinal analysis of the vaginal microflora in pregnancy suggests that L. crispatus promotes the stability of the normal vaginal microflora and that L. gasseri and/or L. iners are more conducive to the occurrence of abnormal vaginal microflora Hans Verstraelen, Rita Verhelst, Geert Claeys, Ellen De Backer, Marleen Temmerman, and Mario Vaneechoutte PMCID: PMC2698831 Characterisation of atypical enteropathogenic E. coli strains of clinical origin Sharon M Tennant, Marija Tauschek, Kristy Azzopardi, Andrea Bigham, Vicki Bennett-Wood, Elizabeth L Hartland, Weihong Qi, Thomas S Whittam, and Roy M Robins-Browne PMCID: PMC2700815 Polymorphism and selection of rpoS in pathogenic Escherichia coli Tao Dong, Sarah M Chiang, Charlie Joyce, Rosemary Yu, and Herb E Schellhorn PMCID: PMC2700278 Functions of the Clostridium acetobutylicium FabF and FabZ proteins in unsaturated fatty acid biosynthesis Lei Zhu, Juanli Cheng, Biao Luo, Saixiang Feng, Jinshui Lin, Shengbin Wang, John E Cronan, and Haihong Wang PMCID: PMC2700279 Expression and subcellular localization of kinetoplast-associated proteins in the different developmental stages of Trypanosoma cruzi Danielle Pereira Cavalcanti, Márcia Kiyoe Shimada, Christian Macagnan Probst, Thais Cristina Baeta Soares Souto-Padrón, Wanderley de Souza, Samuel Goldenberg, Stênio Perdigão Fragoso, and Maria Cristina Machado Motta PMCID: PMC2700280 The highly conserved serine threonine kinase StkP of Streptococcus pneumoniae contributes to penicillin susceptibility independently from genes encoding penicillin-binding proteins Ricardo Dias, David Félix, Manuela Caniça, and Marie-Claude Trombe PMCID: PMC2700816 Characterization of α-isopropylmalate synthases containing different copy numbers of tandem repeats in Mycobacterium tuberculosis Wandee Yindeeyoungyeon, Supaporn Likitvivatanavong, and Prasit Palittapongarnpim PMCID: PMC2704214 The Firmicutes/Bacteroidetes ratio of the human microbiota changes with age D Mariat, O Firmesse, F Levenez, VD Guimarăes, H Sokol, J Doré, G Corthier, and J-P Furet PMCID: PMC2702274 Coordinated surface activities in Variovorax paradoxus EPS W David Jamieson, Michael J Pehl, Glenn A Gregory, and Paul M Orwin PMCID: PMC2704215 PpoR is a conserved unpaired LuxR solo of Pseudomonas putida which binds N-acyl homoserine lactones Sujatha Subramoni and Vittorio Venturi PMCID: PMC2703642 Population structure of Helicobacter pylori among ethnic groups in Malaysia: recent acquisition of the bacterium by the Malay population Chin Yen Tay, Hazel Mitchell, Quanjiang Dong, Khean-Lee Goh, Ian W Dawes, and Ruiting Lan PMCID: PMC2708179 Carbon and arsenic metabolism in Thiomonas strains: differences revealed diverse adaptation processes Christopher G Bryan, Marie Marchal, Fabienne Battaglia-Brunet, Valérie Kugler, Christelle Lemaitre-Guillier, Didier Lièvremont, Philippe N Bertin, and Florence Arsène-Ploetze PMCID: PMC2720973 Characterization of Zur-dependent genes and direct Zur targets in Yersinia pestis Yingli Li, Yefeng Qiu, He Gao, Zhaobiao Guo, Yanping Han, Yajun Song, Zongmin Du, Xiaoyi Wang, Dongsheng Zhou, and Ruifu Yang PMCID: PMC2706843 Discovery of novel inhibitors of Streptococcus pneumoniae based on the virtual screening with the homology-modeled structure of histidine kinase (VicK) Nan Li, Fei Wang, Siqiang Niu, Ju Cao, Kaifeng Wu, Youqiang Li, Nanlin Yin, Xuemei Zhang, Weiliang Zhu, and Yibing Yin PMCID: PMC2713251 Simultaneous differential detection of Chlamydophila abortus, Chlamydophila pecorum and Coxiella burnetii from aborted ruminant's clinical samples using multiplex PCR Mustapha Berri, Abdessalem Rekiki, Karim Sidi Boumedine, and Annie Rodolakis PMCID: PMC2725139 Association of virulence plasmid and antibiotic resistance determinants with chromosomal multilocus genotypes in Mexican Salmonella enterica serovar Typhimurium strains Magdalena Wiesner, Mussaret B Zaidi, Edmundo Calva, Marcos Fernández-Mora, Juan J Calva, and Claudia Silva PMCID: PMC2715408 Extraintestinal pathogenic Escherichia coli O1:K1:H7/NM from human and avian origin: detection of clonal groups B2 ST95 and D ST59 with different host distribution Azucena Mora, Cecilia López, Ghizlane Dabhi, Miguel Blanco, Jesús E Blanco, María Pilar Alonso, Alexandra Herrera, Rosalía Mamani, Stéphane Bonacorsi, Maryvonne Moulin-Schouleur, and Jorge Blanco PMCID: PMC2713252 Domain swapping reveals that the N-terminal domain of the sensor kinase KdpD in Escherichia coli is important for signaling Ralf Heermann, Marie-Luise Lippert, and Kirsten Jung PMCID: PMC2714519 Effect of lactoperoxidase on the antimicrobial effectiveness of the thiocyanate hydrogen peroxide combination in a quantitative suspension test A Welk, Ch Meller, R Schubert, Ch Schwahn, A Kramer, and H Below PMCID: PMC2715409 Proteins involved in difference of sorbitol fermentation rates of the toxigenic and nontoxigenic Vibrio cholerae El Tor strains revealed by comparative proteome analysis Ruibai Wang, Hongzhi Zhang, Haiyan Qiu, Shouyi Gao, and Biao Kan PMCID: PMC2714520 Synergistic effect of imp/ostA and msbA in hydrophobic drug resistance of Helicobacter pylori Hung-Chuan Chiu, Tzu-Lung Lin, Jyh-Chin Yang, and Jin-Town Wang PMCID: PMC2719649 DNA-binding by Haemophilus influenzae and Escherichia coli YbaB, members of a widely-distributed bacterial protein family Anne E Cooley, Sean P Riley, Keith Kral, M Clarke Miller, Edward DeMoll, Michael G Fried, and Brian Stevenson PMCID: PMC2720974 Yersinia outer protein YopE affects the actin cytoskeleton in Dictyostelium discoideum through targeting of multiple Rho family GTPases Georgia Vlahou, Oxana Schmidt, Bettina Wagner, Handan Uenlue, Petra Dersch, Francisco Rivero, and Barbara A Weissenmayer PMCID: PMC2724381 Intracellular Mycoplasma genitalium infection of human vaginal and cervical epithelial cells elicits distinct patterns of inflammatory cytokine secretion and provides a possible survival niche against macrophage-mediated killing Chris L McGowin, Vsevolod L Popov, and Richard B Pyles PMCID: PMC2717097 Enterococci in river Ganga surface waters: Propensity of species distribution, dissemination of antimicrobial-resistance and virulence-markers among species along landscape Pushpa Lata, Siya Ram, Madhoolika Agrawal, and Rishi Shanker PMCID: PMC2722665 Genomic island excisions in Bordetella petrii Melanie Lechner, Karin Schmitt, Susanne Bauer, David Hot, Christine Hubans, Erwan Levillain, Camille Locht, Yves Lemoine, and Roy Gross PMCID: PMC2717098 Assessing the suitability of antibiotic resistance markers and the indirect ELISA technique for studying the competitive ability of selected Cyclopia Vent. rhizobia under glasshouse and field conditions in South Africa Amy C Spriggs and Felix D Dakora PMCID: PMC2724382 Arsenophonus, an emerging clade of intracellular symbionts with a broad host distribution Eva Nováková, Václav Hypša, and Nancy A Moran PMCID: PMC2724383 Isolation and characterization of Mycobacterium bovis strains from indigenous Zambian cattle using Spacer oligonucleotide typing technique Musso Munyeme, Leen Rigouts, Isdore Chola Shamputa, John Bwalya Muma, Morten Tryland, Eystein Skjerve, and Berit Djønne PMCID: PMC2719650 MLVA-16 typing of 295 marine mammal Brucella isolates from different animal and geographic origins identifies 7 major groups within Brucella ceti and Brucella pinnipedialis Marianne Maquart, Philippe Le Flèche, Geoffrey Foster, Morten Tryland, Françoise Ramisse, Berit Djønne, Sascha Al Dahouk, Isabelle Jacques, Heinrich Neubauer, Karl Walravens, Jacques Godfroid, Axel Cloeckaert, and Gilles Vergnaud PMCID: PMC2719651 Invasiveness as a putative additional virulence mechanism of some atypical Enteropathogenic Escherichia coli strains with different uncommon intimin types Denise Yamamoto, Rodrigo T Hernandes, Miguel Blanco, Lilo Greune, M Alexander Schmidt, Sylvia M Carneiro, Ghizlane Dahbi, Jesús E Blanco, Azucena Mora, Jorge Blanco, and Tânia AT Gomes PMCID: PMC2724384 Metapopulation structure for perpetuation of Francisella tularensis tularensis Heidi K Goethert, Benjamin Saviet, and Sam R Telford, III PMCID: PMC2723117 Quantitative proteomics of nutrient limitation in the hydrogenotrophic methanogen Methanococcus maripaludis Qiangwei Xia, Tiansong Wang, Erik L Hendrickson, Thomas J Lie, Murray Hackett, and John A Leigh PMCID: PMC2723118 The antimicrobial effect of Octenidine-dihydrochloride coated polymer tracheotomy tubes on Staphylococcus aureus and Pseudomonas aeruginosa colonisation Michaela Zumtobel, Ojan Assadian, Matthias Leonhard, Maria Stadler, and Berit Schneider PMCID: PMC2726150 A new cold-adapted β-D-galactosidase from the Antarctic Arthrobacter sp. 32c – gene cloning, overexpression, purification and properties Piotr Hildebrandt, Marta Wanarska, and Józef Kur PMCID: PMC2723119 Photonic plasmid stability of transformed Salmonella Typhimurium: A comparison of three unique plasmids Keesla Moulton, Peter Ryan, Donald Lay, and Scott Willard PMCID: PMC2720975 Transcriptional profiling avian beta-defensins in chicken oviduct epithelial cells before and after infection with Salmonella enterica serovar Enteritidis Katie L Ebers, C Yan Zhang, M Zhenyu Zhang, R Hartford Bailey, and Shuping Zhang PMCID: PMC2728736 Mosquito immune responses and compatibility between Plasmodium parasites and anopheline mosquitoes Giovanna Jaramillo-Gutierrez, Janneth Rodrigues, Georges Ndikuyeze, Michael Povelones, Alvaro Molina-Cruz, and Carolina Barillas-Mury PMCID: PMC2782267 Role of subtyping in detecting Salmonella cross contamination in the laboratory Niall De Lappe, Jean O Connor, Geraldine Doran, Genevieve Devane, and Martin Cormican PMCID: PMC2727516 Klebsiella pneumoniae triggers a cytotoxic effect on airway epithelial cells Victoria Cano, David Moranta, Enrique Llobet-Brossa, José Antonio Bengoechea, and Junkal Garmendia PMCID: PMC2728737 cmdABCDEF, a cluster of genes encoding membrane proteins for differentiation and antibiotic production in Streptomyces coelicolor A3(2) Pengfei Xie, Ana Zeng, and Zhongjun Qin PMCID: PMC2782261 Early development of Moniliophthora perniciosa basidiomata and developmentally regulated genes Acássia BL Pires, Karina P Gramacho, Delmira C Silva, Aristóteles Góes-Neto, Mylene M Silva, Jairo S Muniz-Sobrinho, Ricardo F Porto, Cristiano Villela-Dias, Martin Brendel, Júlio CM Cascardo, and Gonçalo AG Pereira PMCID: PMC2782264 Biofilm formation by Mycobacterium avium isolates originating from humans, swine and birds Tone Bjordal Johansen, Angelika Agdestein, Ingrid Olsen, Sigrun Fredsvold Nilsen, Gudmund Holstad, and Berit Djønne PMCID: PMC2741467 Cj0596 is a periplasmic peptidyl prolyl cis-trans isomerase involved in Campylobacter jejuni motility, invasion, and colonization Kimberly M Rathbun, Johanna E Hall, and Stuart A Thompson PMCID: PMC2782263 Differential proteomic analysis of Clostridium perfringens ATCC13124; identification of dominant, surface and structure associated proteins Syed Imteyaz Alam, Sunita Bansod, Ravi Bhushan Kumar, Nabonita Sengupta, and Lokendra Singh PMCID: PMC2731776 Identification of salivary mucin MUC7 binding proteins from Streptococcus gordonii Mehmet Kesimer, Nedret Kiliç, Ravi Mehrotra, David J Thornton, and John K Sheehan PMCID: PMC2775355 Persistence of colicinogenic Escherichia coli in the mouse gastrointestinal tract Osnat Gillor, Itamar Giladi, and Margaret A Riley PMCID: PMC2741469 A single amino acid change (Y318F) in the L-arabitol dehydrogenase (LadA) from Aspergillus niger results in a significant increase in affinity for D-sorbitol Lucy Rutten, Cecile Ribot, Blanca Trejo-Aguilar, Han AB Wösten, and Ronald P de Vries PMCID: PMC2731777 Rapid detection of ERG11 gene mutations in clinical Candida albicans isolates with reduced susceptibility to fluconazole by rolling circle amplification and DNA sequencing Huiping Wang, Fanrong Kong, Tania C Sorrell, Bin Wang, Paul McNicholas, Namfon Pantarat, David Ellis, Meng Xiao, Fred Widmer, and Sharon CA Chen PMCID: PMC2782262 Genomic diversity of citrate fermentation in Klebsiella pneumoniae Ying-Tsong Chen, Tsai-Lien Liao, Keh-Ming Wu, Tsai-Ling Lauderdale, Jing-Jou Yan, I-Wen Huang, Min-Chi Lu, Yi-Chyi Lai, Yen-Ming Liu, Hung-Yu Shu, Jin-Town Wang, Ih-Jen Su, and Shih-Feng Tsai PMCID: PMC2735749 Effects of prophylactic administration of bacteriophages to immunosuppressed mice infected with Staphylococcus aureus Michał Zimecki, Jolanta Artym, Maja Kocięba, Beata Weber-Dąbrowska, Jan Borysowski, and Andrzej Górski PMCID: PMC2741470 msbB deletion confers acute sensitivity to CO2 in Salmonella enterica serovar Typhimurium that can be suppressed by a loss-of-function mutation in zwf Verena Karsten, Sean R Murray, Jeremy Pike, Kimberly Troy, Martina Ittensohn, Manvel Kondradzhyan, K Brooks Low, and David Bermudes PMCID: PMC2745414 A phylogenetic group of Escherichia coli associated with active left-sided Inflammatory Bowel Disease Andreas M Petersen, Eva M Nielsen, Eva Litrup, Jørn Brynskov, Hengameh Mirsepasi, and Karen A Krogfelt PMCID: PMC2736970 Immunoproteomic analysis of outer membrane proteins and extracellular proteins of Actinobacillus pleuropneumoniae JL03 serotype 3 Yonghong Liao, Junhua Deng, Anding Zhang, Mingguang Zhou, Yong Hu, Huanchun Chen, and Meilin Jin PMCID: PMC2741471 CgOpt1, a putative oligopeptide transporter from Colletotrichum gloeosporioides that is involved in responses to auxin and pathogenicity Véronique Chagué, Rudy Maor, and Amir Sharon PMCID: PMC2769210 Organic acid production in vitro and plant growth promotion in maize under controlled environment by phosphate-solubilizing fluorescent Pseudomonas Pratibha Vyas and Arvind Gulati PMCID: PMC2738680 Analysis of virulence factors of Helicobacter pylori isolated from a Vietnamese population Tomohisa Uchida, Lam Tung Nguyen, Akiko Takayama, Tadayoshi Okimoto, Masaaki Kodama, Kazunari Murakami, Takeshi Matsuhisa, Tuan Dung Trinh, Long Ta, Dang Quy Dung Ho, Hoa Hai Hoang, Tetsuko Kishida, Toshio Fujioka, Masatsugu Moriyama, and Yoshio Yamaoka PMCID: PMC2739534 Identification of network topological units coordinating the global expression response to glucose in Bacillus subtilis and its comparison to Escherichia coli Carlos Daniel Vázquez, Julio A Freyre-González, Guillermo Gosset, José Antonio Loza, and Rosa María Gutiérrez-Ríos PMCID: PMC2749860 Melanin is an essential component for the integrity of the cell wall of Aspergillus fumigatus conidia Marc Pihet, Patrick Vandeputte, Guy Tronchin, Gilles Renier, Patrick Saulnier, Sonia Georgeault, Romain Mallet, Dominique Chabasse, Françoise Symoens, and Jean-Philippe Bouchara PMCID: PMC2740851 Direct and negative regulation of the sycO-ypkA-ypoJ operon by cyclic AMP receptor protein (CRP) in Yersinia pestis Lingjun Zhan, Lei Yang, Lei Zhou, Yingli Li, He Gao, Zhaobiao Guo, Lianfeng Zhang, Chuan Qin, Dongsheng Zhou, and Ruifu Yang PMCID: PMC2738681 Involvement of SPI-2-encoded SpiC in flagellum synthesis in Salmonella enterica serovar Typhimurium Kei-ichi Uchiya, Asami Sugita, and Toshiaki Nikai PMCID: PMC2782266 Adherent-invasive Escherichia coli, strain LF82 disrupts apical junctional complexes in polarized epithelia Eytan Wine, Juan C Ossa, Scott D Gray-Owen, and Philip M Sherman PMCID: PMC2741472 Extracellular secretion of Carocin S1 in Pectobacterium carotovorum subsp. carotovorum occurs via the type III secretion system integral to the bacterial flagellum Yung-chieh Chan, Huang-Pin Wu, and Duen-yau Chuang PMCID: PMC2744703 Characterization of a salt-induced DhAHP, a gene coding for alkyl hydroperoxide reductase, from the extremely halophilic yeast Debaryomyces hansenii Hsiu-fung Chao, Yung-fu Yen, and Maurice SB Ku PMCID: PMC2753362 Role of the ArcAB two-component system in the resistance of Escherichia coli to reactive oxygen stress Cindy Loui, Alexander C Chang, and Sangwei Lu PMCID: PMC2748088 Identification of two GH18 chitinase family genes and their use as targets for detection of the crayfish-plague oomycete Aphanomyces astaci Gerald Hochwimmer, Reinhard Tober, Renè Bibars-Reiter, Elisabeth Licek, and Ralf Steinborn PMCID: PMC2751781 Pathway analysis for intracellular Porphyromonas gingivalis using a strain ATCC 33277 specific database Erik L Hendrickson, Qiangwei Xia, Tiansong Wang, Richard J Lamont, and Murray Hackett PMCID: PMC2753363 Transcriptome and proteome analyses of adaptive responses to methyl methanesulfonate in Escherichia coli K-12 and ada mutant strains Jong Hwan Baek, Mee-Jung Han, Sang Yup Lee, and Jong-Shin Yoo PMCID: PMC2753364 Bactericidal activities of the cationic steroid CSA-13 and the cathelicidin peptide LL-37 against Helicobacter pylori in simulated gastric juice Katarzyna Leszczyńska, Andrzej Namiot, David E Fein, Qi Wen, Zbigniew Namiot, Paul B Savage, Scott Diamond, Paul A Janmey, and Robert Bucki PMCID: PMC2748089 Molecular features of heterogeneous vancomycin-intermediate Staphylococcus aureus strains isolated from bacteremic patients Yasmin Maor, Levona Lago, Amir Zlotkin, Yeshayahu Nitzan, Natasha Belausov, Debby Ben-David, Nathan Keller, and Galia Rahav PMCID: PMC2749053 Susceptibility of Pediococcus isolates to antimicrobial compounds in relation to hop-resistance and beer-spoilage Monique Haakensen, David M Vickers, and Barry Ziola PMCID: PMC2746227 Pherotypes are driving genetic differentiation within Streptococcus pneumoniae Margarida Carrolo, Francisco R Pinto, Jose Melo-Cristino, and Mario Ramirez PMCID: PMC2751782 Structural analysis of the full-length gene encoding a fibronectin-binding-like protein (CadF) and its adjacent genetic loci within Campylobacter lari Junichi Hirayama, Tsuyoshi Sekizuka, Akihiro Tazumi, Ikue Taneike, John E Moore, B Cherie Millar, and Motoo Matsuda PMCID: PMC2751783 Geographic distribution of methyltransferases of Helicobacter pylori: evidence of human host population isolation and migration Filipa F Vale, Francis Mégraud, and Jorge MB Vítor PMCID: PMC2749054 Mycoplasma pneumoniae and/or Chlamydophila pneumoniae inoculation causing different aggravations in cholesterol-induced atherosclerosis in apoE KO male mice Sueli B Damy, Maria L Higuchi, Jorge Timenetsky, Márcia M Reis, Suely P Palomino, Renata N Ikegami, Fabiana P Santos, Junko T Osaka, and Luiz P Figueiredo PMCID: PMC2755007 malT knockout mutation invokes a stringent type gene-expression profile in Actinobacillus pleuropneumoniae in bronchoalveolar fluid Abdul G Lone, Vincent Deslandes, John HE Nash, Mario Jacques, and Janet I MacInnes PMCID: PMC2752462 Outer Membrane Vesicles of Helicobacter pylori TK1402 are Involved in Biofilm Formation Hideo Yonezawa, Takako Osaki, Satoshi Kurata, Minoru Fukuda, Hayato Kawakami, Kuniyasu Ochiai, Tomoko Hanawa, and Shigeru Kamiya PMCID: PMC2749055 2D proteome analysis initiates new Insights on the Salmonella Typhimurium LuxS protein Gwendoline Kint, Kathleen AJ Sonck, Geert Schoofs, David De Coster, Jos Vanderleyden, and Sigrid CJ De Keersmaecker PMCID: PMC2761396 High-level chromate resistance in Arthrobacter sp. strain FB24 requires previously uncharacterized accessory genes Kristene L Henne, Cindy H Nakatsu, Dorothea K Thompson, and Allan E Konopka PMCID: PMC2751784 Assessment of three Resistance-Nodulation-Cell Division drug efflux transporters of Burkholderia cenocepacia in intrinsic antibiotic resistance Silvia Buroni, Maria R Pasca, Ronald S Flannagan, Silvia Bazzini, Anna Milano, Iris Bertani, Vittorio Venturi, Miguel A Valvano, and Giovanna Riccardi PMCID: PMC2753365 Use of in vivo-induced antigen technology (IVIAT) for the identification of Streptococcus suis serotype 2 in vivo-induced bacterial protein antigens Hongwei Gu, Haodan Zhu, and Chengping Lu PMCID: PMC2758882 Biofilm formation as a novel phenotypic feature of adherent-invasive Escherichia coli (AIEC) Margarita Martinez-Medina, Plínio Naves, Jorge Blanco, Xavier Aldeguer, Jesus E Blanco, Miguel Blanco, Carmen Ponte, Francisco Soriano, Arlette Darfeuille-Michaud, and L Jesus Garcia-Gil PMCID: PMC2759958 Antimicrobial resistance profiling and molecular subtyping of Campylobacter spp. from processed turkey Ellen M Lutgen, John M McEvoy, Julie S Sherwood, and Catherine M Logue PMCID: PMC2758883 Genotypic comparison of Pantoea agglomerans plant and clinical strains Fabio Rezzonico, Theo HM Smits, Emilio Montesinos, Jürg E Frey, and Brion Duffy PMCID: PMC2764716 MLVA distribution characteristics of Yersinia pestis in China and the correlation analysis Xiaoai Zhang, Rong Hai, Jianchun Wei, Zhigang Cui, Enmin Zhang, Zhizhong Song, and Dongzheng Yu PMCID: PMC2761927 Evidence for calcium-mediated perception of plant symbiotic signals in aequorin-expressing Mesorhizobium loti Roberto Moscatiello, Sara Alberghini, Andrea Squartini, Paola Mariani, and Lorella Navazio PMCID: PMC2759959 Identification of a bacteriocin and its cognate immunity factor expressed by Moraxella catarrhalis Ahmed S Attia, Jennifer L Sedillo, Todd C Hoopman, Wei Liu, Lixia Liu, Chad A Brautigam, and Eric J Hansen PMCID: PMC2761928 Metabolic fluxes in the central carbon metabolism of Dinoroseobacter shibae and Phaeobacter gallaeciensis, two members of the marine Roseobacter clade Tobias Fürch, Matthias Preusse, Jürgen Tomasch, Hajo Zech, Irene Wagner-Döbler, Ralf Rabus, and Christoph Wittmann PMCID: PMC2761930 The effect of the macrolide antibiotic tylosin on microbial diversity in the canine small intestine as demonstrated by massive parallel 16S rRNA gene sequencing Jan S Suchodolski, Scot E Dowd, Elias Westermarck, Jörg M Steiner, Randy D Wolcott, Thomas Spillmann, and Jaana A Harmoinen PMCID: PMC2759960 Inactivation of staphylococcal virulence factors using a light-activated antimicrobial agent Sarah Tubby, Michael Wilson, and Sean P Nair PMCID: PMC2762988 Occurrence of Mycobacterium avium subspecies paratuberculosis across host species and European countries with evidence for transmission between wildlife and domestic ruminants Karen Stevenson, Julio Alvarez, Douwe Bakker, Franck Biet, Lucia de Juan, Susan Denham, Zoi Dimareli, Karen Dohmann, Gerald F Gerlach, Ian Heron, Marketa Kopecna, Linda May, Ivo Pavlik, J Michael Sharp, Virginie C Thibault, Peter Willemsen, Ruth N Zadoks, and Alastair Greig PMCID: PMC2765967 Whole genome single nucleotide polymorphism based phylogeny of Francisella tularensis and its application to the development of a strain typing assay Gagan A Pandya, Michael H Holmes, Jeannine M Petersen, Sonal Pradhan, Svetlana A Karamycheva, Mark J Wolcott, Claudia Molins, Marcus Jones, Martin E Schriefer, Robert D Fleischmann, and Scott N Peterson PMCID: PMC2767358 AI-2 does not function as a quorum sensing molecule in Campylobacter jejuni during exponential growth in vitro Kathryn Holmes, Tim J Tavender, Klaus Winzer, Jerry M Wells, and Kim R Hardie PMCID: PMC2772989 Identification of genes coding for B cell antigens of Mycoplasma mycoides subsp. mycoides Small Colony (MmmSC) by using phage display Dubravka R Miltiadou, Arshad Mather, Edy M Vilei, and Dion H Du Plessis PMCID: PMC2767359 Environmental and intracellular regulation of Francisella tularensis ripA James R Fuller, Todd M Kijek, Sharon Taft-Benz, and Thomas H Kawula PMCID: PMC2767360 Gene expression analysis of the biocontrol fungus Trichoderma harzianum in the presence of tomato plants, chitin, or glucose using a high-density oligonucleotide microarray Ilanit Samolski, Alberto de Luis, Juan Antonio Vizcaíno, Enrique Monte, and M Belén Suárez PMCID: PMC2768740 A novel inhibitor of Chlamydophila pneumoniae protein kinase D (PknD) inhibits phosphorylation of CdsD and suppresses bacterial replication Dustin L Johnson, Chris B Stone, David C Bulir, Brian K Coombes, and James B Mahony PMCID: PMC2765968 Population diversity and antibody selective pressure to Plasmodium falciparum MSP1 block2 locus in an African malaria-endemic setting Nitchakarn Noranate, Franck Prugnolle, Hélène Jouin, Adama Tall, Laurence Marrama, Cheikh Sokhna, Marie-Thérèse Ekala, Micheline Guillotte, Emmanuel Bischoff, Christiane Bouchier, Jintana Patarapotikul, Jun Ohashi, Jean-François Trape, Christophe Rogier, and Odile Mercereau-Puijalon PMCID: PMC2770483 Outer membrane vesicle-mediated release of cytolethal distending toxin (CDT) from Campylobacter jejuni Barbro Lindmark, Pramod Kumar Rompikuntal, Karolis Vaitkevicius, Tianyan Song, Yoshimitsu Mizunoe, Bernt Eric Uhlin, Patricia Guerry, and Sun Nyunt Wai PMCID: PMC2770062 Subgingival bacterial colonization profiles correlate with gingival tissue gene expression Panos N Papapanou, Jan H Behle, Moritz Kebschull, Romanita Celenti, Dana L Wolf, Martin Handfield, Paul Pavlidis, and Ryan T Demmer PMCID: PMC2771036 Regulation of phenylacetic acid degradation genes of Burkholderia cenocepacia K56-2 Jason NR Hamlin, Ruhi AM Bloodworth, and Silvia T Cardona PMCID: PMC2770484 Multilocus sequence typing of Cronobacter sakazakii and Cronobacter malonaticus reveals stable clonal structures with clinical significance which do not correlate with biotypes Adam Baldwin, Michael Loughlin, Juncal Caubilla-Barron, Eva Kucerova, Georgina Manning, Christopher Dowson, and Stephen Forsythe PMCID: PMC2770063 Classification of Myoviridae bacteriophages using protein sequence similarity Rob Lavigne, Paul Darius, Elizabeth J Summer, Donald Seto, Padmanabhan Mahadevan, Anders S Nilsson, Hans W Ackermann, and Andrew M Kropinski PMCID: PMC2771037 Isolation of Cronobacter spp. (formerly Enterobacter sakazakii) from infant food, herbs and environmental samples and the subsequent identification and confirmation of the isolates using biochemical, chromogenic assays, PCR and 16S rRNA sequencing Ziad W Jaradat, Qotaiba O Ababneh, Ismail M Saadoun, Nawal A Samara, and Abrar M Rashdan PMCID: PMC2779193 Evaluation of the bacterial diversity among and within individual venous leg ulcers using bacterial tag-encoded FLX and Titanium amplicon pyrosequencing and metagenomic approaches Randall D Wolcott, Viktoria Gontcharova, Yan Sun, and Scot E Dowd PMCID: PMC2773781 Response of Bacillus cereus ATCC 14579 to challenges with sublethal concentrations of enterocin AS-48 María J Grande Burgos, Ákos T Kovács, Aleksandra M Mirończuk, Hikmate Abriouel, Antonio Gálvez, and Oscar P Kuipers PMCID: PMC2774856 Influences of naturally occurring agents in combination with fluoride on gene expression and structural organization of Streptococcus mutans in biofilms Jae-Gyu Jeon, Marlise I Klein, Jin Xiao, Stacy Gregoire, Pedro L Rosalen, and Hyun Koo PMCID: PMC2774857 Staphylococcus aureus biofilm formation at the physiologic glucose concentration depends on the S. aureus lineage Sander Croes, Ruud H Deurenberg, Marie-Louise L Boumans, Patrick S Beisser, Cees Neef, and Ellen E Stobberingh PMCID: PMC2774858 Application and evaluation of the MLVA typing assay for the Brucella abortus strains isolated in Korea Moon Her, Sung-Il Kang, Dong-Hee Cho, Yun-Sang Cho, In-Yeong Hwang, Young-Ran Heo, Suk-Chan Jung, and Han-Sang Yoo PMCID: PMC2774859 Environmental stresses inhibit splicing in the aquatic fungus Blastocladiella emersonii Raphaela Castro Georg, Rosane MP Stefani, and Suely Lopes Gomes PMCID: PMC2773782 Evolutionary relationships among salivarius streptococci as inferred from multilocus phylogenies based on 16S rRNA-encoding, recA, secA, and secY gene sequences Jean-François Pombert, Viridiana Sistek, Maurice Boissinot, and Michel Frenette PMCID: PMC2777182 Topological analysis of a haloacid permease of a Burkholderia sp. bacterium with a PhoA-LacZ reporter Yuk Man Tse, Manda Yu, and Jimmy SH Tsang PMCID: PMC2777183 Genomic and phenotypic variation in epidemic-spanning Salmonella enterica serovar Enteritidis isolates Laura Betancor, Lucia Yim, Maria Fookes, Araci Martinez, Nicholas R Thomson, Alasdair Ivens, Sarah Peters, Clare Bryant, Gabriela Algorta, Samuel Kariuki, Felipe Schelotto, Duncan Maskell, Gordon Dougan, and Jose A Chabalgoity PMCID: PMC2784474 Use of nfsB, encoding nitroreductase, as a reporter gene to determine the mutational spectrum of spontaneous mutations in Neisseria gonorrhoeae Daniel C Stein, Esteban Carrizosa, and Stephen Dunham PMCID: PMC2788575 Immunization protected well nourished mice but not undernourished ones from lung injury in Methicillin-resistant Staphylococcus aureus (MRSA) infection Thais Graziela Donegá França, Larissa Lumi Watanabe Ishikawa, Sofia Fernanda Gonçalves Zorzella-Pezavento, Fernanda Chiuso-Minicucci, Clara Pires Fujiara Guerino, Maria de Lourdes Ribeiro de Souza da Cunha, and Alexandrina Sartori PMCID: PMC2787521 Novel Tn4371-ICE like element in Ralstonia pickettii and Genome mining for comparative elements Michael P Ryan, J Tony Pembroke, and Catherine C Adley PMCID: PMC2789088 Some putative prebiotics increase the severity of Salmonella enterica serovar Typhimurium infection in mice Anne Petersen, Peter MH Heegaard, Anna L Pedersen, Jens B Andersen, Rikke B Sørensen, Hanne Frøkiær, Sampo J Lahtinen, Arthur C Ouwehand, Morten Poulsen, and Tine R Licht PMCID: PMC2789089 Software RotaC: A web-based tool for the complete genome classification of group A rotaviruses Piet Maes, Jelle Matthijnssens, Mustafizur Rahman, and Marc Van Ranst PMCID: PMC2785824 Methodology Articles Large scale multiplex PCR improves pathogen detection by DNA microarrays Maria Palka-Santini, Berit E Cleven, Ludwig Eichinger, Martin Krönke, and Oleg Krut PMCID: PMC2631447 Short hairpin RNA-mediated knockdown of protein expression in Entamoeba histolytica Alicia S Linford, Heriberto Moreno, Katelyn R Good, Hanbang Zhang, Upinder Singh, and William A Petri, Jr PMCID: PMC2652455 Detection and quantification of Lyme spirochetes using sensitive and specific molecular beacon probes Diana S Saidac, Salvatore AE Marras, and Nikhat Parveen PMCID: PMC2670302 Detection of SHV β-lactamases in Gram-negative bacilli using fluorescein-labeled antibodies Andrea M Hujer, Karen S Keslar, Nicole J Dietenberger, Christopher R Bethel, Andrea Endimiani, and Robert A Bonomo PMCID: PMC2653046 Lab on a chip genotyping for Brucella spp. based on 15-loci multi locus VNTR analysis Riccardo De Santis, Andrea Ciammaruconi, Giovanni Faggioni, Raffaele D'Amelio, Cinzia Marianelli, and Florigio Lista PMCID: PMC2674449 Oleate lipase activity in Gardnerella vaginalis and reconsideration of existing biotype schemes Bernard J Moncla and Kara M Pryke PMCID: PMC2680412 Evaluation of high efficiency gene knockout strategies for Trypanosoma cruzi Dan Xu, Cecilia Pérez Brandán, Miguel Ángel Basombrío, and Rick L Tarleton PMCID: PMC2688506 Molecular beacon-based real-time PCR detection of primary isolates of Salmonella Typhimurium and Salmonella Enteritidis in environmental and clinical samples Andreas V Hadjinicolaou, Victoria L Demetriou, Maria A Emmanuel, Charalambos K Kakoyiannis, and Leondios G Kostrikis PMCID: PMC2689230 The use of antibiotics to improve phage detection and enumeration by the double-layer agar technique Sílvio B Santos, Carla M Carvalho, Sanna Sillankorva, Ana Nicolau, Eugénio C Ferreira, and Joana Azeredo PMCID: PMC2728735 Rapid identification of bacterial pathogens using a PCR- and microarray-based assay Anna-Kaarina Järvinen, Sanna Laakso, Pasi Piiparinen, Anne Aittakorpi, Merja Lindfors, Laura Huopaniemi, Heli Piiparinen, and Minna Mäki PMCID: PMC2741468 First multi-locus sequence typing scheme for Arcobacter spp. William G Miller, Irene V Wesley, Stephen LW On, Kurt Houf, Francis Mégraud, Guilin Wang, Emma Yee, Apichai Srijan, and Carl J Mason PMCID: PMC2755481 Performance of optimized McRAPD in identification of 9 yeast species frequently isolated from patient samples: potential for automation Jitka Trtkova, Petr Pavlicek, Lenka Ruskova, Petr Hamal, Dagmar Koukalova, and Vladislav Raclavsky PMCID: PMC2779194 Reverse genetics through random mutagenesis in Histoplasma capsulatum Brian H Youseff, Julie A Dougherty, and Chad A Rappleye PMCID: PMC2781022 Development and validation of an oligonucleotide microarray to characterise ectomycorrhizal fungal communities Marlis Reich, Annegret Kohler, Francis Martin, and Marc Buée PMCID: PMC2789087 Correction Correction: Invasiveness as a putative additional virulence mechanism of some atypical Enteropathogenic Escherichia coli strains with different uncommon intimin types Denise Yamamoto, Rodrigo T Hernandes, Miguel Blanco, Lilo Greune, M Alexander Schmidt, Sylvia M Carneiro, Ghizlane Dahbi, Jesús E Blanco, Azucena Mora, Jorge Blanco, and Tânia AT Gomes PMCID: PMC2785823 Corrects: Denise Yamamoto, et al. Invasiveness as a putative additional virulence mechanism of some atypical Enteropathogenic Escherichia coli strains with different uncommon intimin types. BMC Microbiol. 2009; 9: 146. Other Issues: Journal List
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