Comparative genomics of first available bovine Anaplasma phagocytophilum genome obtained with targeted sequence capture

[1]  Christian González-Rivera,et al.  Mechanism and structure of the bacterial type IV secretion systems. , 2014, Biochimica et biophysica acta.

[2]  E. Fikrig,et al.  Anaplasma phagocytophilum surface protein AipA mediates invasion of mammalian host cells , 2014, Cellular microbiology.

[3]  Ortiz-Zuazaga Humberto,et al.  The khmer software package: enabling efficient sequence analysis , 2014 .

[4]  Joseph A. Rothnagel,et al.  Emerging evidence for functional peptides encoded by short open reading frames , 2014, Nature Reviews Genetics.

[5]  Koichiro Tamura,et al.  MEGA6: Molecular Evolutionary Genetics Analysis version 6.0. , 2013, Molecular biology and evolution.

[6]  J. Carlyon,et al.  Breaking in and grabbing a meal: Anaplasma phagocytophilum cellular invasion, nutrient acquisition, and promising tools for their study. , 2013, Microbes and infection.

[7]  J. Hirschhorn,et al.  The genomics of emerging pathogens. , 2013, Annual review of genomics and human genetics.

[8]  C. Bertelli,et al.  Rapid bacterial genome sequencing: methods and applications in clinical microbiology. , 2013, Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases.

[9]  R. Felsheim,et al.  An Emerging Tick-Borne Disease of Humans Is Caused by a Subset of Strains with Conserved Genome Structure , 2013, Pathogens.

[10]  E. G. Granquist,et al.  Anaplasma phagocytophilum—a widespread multi-host pathogen with highly adaptive strategies , 2013, Front. Cell. Infect. Microbiol..

[11]  C. Schwarz,et al.  Type I secretion systems - a story of appendices. , 2013, Research in microbiology.

[12]  B. Moumen,et al.  Targeted genome enrichment for efficient purification of endosymbiont DNA from host DNA , 2012, Symbiosis.

[13]  D. Raoult,et al.  Emergence of human granulocytic anaplasmosis in France. , 2012, Ticks and tick-borne diseases.

[14]  U. Munderloh,et al.  Structure of the type IV secretion system in different strains of Anaplasma phagocytophilum , 2012, BMC Genomics.

[15]  Y. Rikihisa,et al.  Autophagosomes induced by a bacterial Beclin 1 binding protein facilitate obligatory intracellular infection , 2012, Proceedings of the National Academy of Sciences.

[16]  E. Fikrig,et al.  Anaplasma phagocytophilum Asp14 Is an Invasin That Interacts with Mammalian Host Cells via Its C Terminus To Facilitate Infection , 2012, Infection and Immunity.

[17]  J. Foley,et al.  Antigen variability in Anaplasma phagocytophilum during chronic infection of a reservoir host. , 2012, Microbiology.

[18]  E. Fikrig,et al.  Anaplasma phagocytophilum Outer Membrane Protein A Interacts with Sialylated Glycoproteins To Promote Infection of Mammalian Host Cells , 2012, Infection and Immunity.

[19]  E. Winzeler,et al.  Whole genome sequencing analysis of Plasmodium vivax using whole genome capture , 2012, BMC Genomics.

[20]  M. Dark,et al.  Determining the Repertoire of Immunodominant Proteins via Whole-Genome Amplification of Intracellular Pathogens , 2012, PloS one.

[21]  Tim H. Brom,et al.  A Reference-Free Algorithm for Computational Normalization of Shotgun Sequencing Data , 2012, 1203.4802.

[22]  M. Soria,et al.  The Twin-Arginine Translocation Pathway in α-Proteobacteria Is Functionally Preserved Irrespective of Genomic and Regulatory Divergence , 2012, PloS one.

[23]  E. Fikrig,et al.  Postgenomic Analyses Reveal Development of Infectious Anaplasma phagocytophilum during Transmission from Ticks to Mice , 2012, Journal of bacteriology.

[24]  Daniel E. Voth,et al.  Bacterial Type IV secretion systems: versatile virulence machines. , 2012, Future microbiology.

[25]  P. Hooykaas,et al.  Ehrlichia chaffeensis Tandem Repeat Proteins and Ank200 are Type 1 Secretion System Substrates Related to the Repeats-in-Toxin Exoprotein Family , 2011, Front. Cell. Inf. Microbio..

[26]  G. Ducoffre,et al.  Human anaplasmosis in Belgium: a 10-year seroepidemiological study. , 2011, Ticks and tick-borne diseases.

[27]  Kevin Galinsky,et al.  Hybrid selection for sequencing pathogen genomes from clinical samples , 2011, Genome Biology.

[28]  F. Meurens,et al.  Technical note: Validation of candidate reference genes for normalization of quantitative PCR in bovine mammary epithelial cells responding to inflammatory stimuli. , 2011, Journal of dairy science.

[29]  G. Storz,et al.  An expanding universe of small proteins. , 2011, Current opinion in microbiology.

[30]  A. Norbeck,et al.  Global Proteomic Analysis of Two Tick-Borne Emerging Zoonotic Agents: Anaplasma Phagocytophilum and Ehrlichia Chaffeensis , 2011, Front. Microbio..

[31]  A. Rokas,et al.  Complete Bacteriophage Transfer in a Bacterial Endosymbiont (Wolbachia) Determined by Targeted Genome Capture , 2011, Genome biology and evolution.

[32]  A. Alleman,et al.  Variant-specific and diminishing immune responses towards the highly variable MSP2(P44) outer membrane protein of Anaplasma phagocytophilum during persistent infection in lambs. , 2010, Veterinary immunology and immunopathology.

[33]  T. Rudel,et al.  Anaplasma phagocytophilum Ats-1 Is Imported into Host Cell Mitochondria and Interferes with Apoptosis Induction , 2010, PLoS pathogens.

[34]  N. Nieto,et al.  Antigen Diversity in the Parasitic Bacterium Anaplasma phagocytophilum Arises from Selectively-Represented, Spatially Clustered Functional Pseudogenes , 2009, PloS one.

[35]  H. Tettelin,et al.  Extensive genomic diversity of closely related Wolbachia strains. , 2009, Microbiology.

[36]  Gonçalo R. Abecasis,et al.  The Sequence Alignment/Map format and SAMtools , 2009, Bioinform..

[37]  J. Foley,et al.  Diversity of Anaplasma phagocytophilum Strains, USA , 2009, Emerging infectious diseases.

[38]  Richard Durbin,et al.  Sequence analysis Fast and accurate short read alignment with Burrows – Wheeler transform , 2009 .

[39]  Jonathan D. G. Jones,et al.  Application of 'next-generation' sequencing technologies to microbial genetics , 2009, Nature Reviews Microbiology.

[40]  J. Dumler,et al.  Silencing of Host Cell CYBB Gene Expression by the Nuclear Effector AnkA of the Intracellular Pathogen Anaplasma phagocytophilum , 2009, Infection and Immunity.

[41]  João C Setubal,et al.  Protein secretion systems in bacterial-host associations, and their description in the Gene Ontology , 2009, BMC Microbiology.

[42]  N. Nieto,et al.  Possible Differential Host Tropism in Anaplasma phagocytophilum Strains in the Western United States , 2008, Annals of the New York Academy of Sciences.

[43]  Karl Frank,et al.  High-performance signal peptide prediction based on sequence alignment techniques , 2008, Bioinform..

[44]  J. Anné,et al.  The importance of the twin-arginine translocation pathway for bacterial virulence. , 2008, Trends in microbiology.

[45]  A. Spisni,et al.  The solution structure of the outer membrane lipoprotein OmlA from Xanthomonas axonopodis pv. citri reveals a protein fold implicated in protein–protein interaction , 2008, Proteins.

[46]  E. Birney,et al.  Velvet: algorithms for de novo short read assembly using de Bruijn graphs. , 2008, Genome research.

[47]  A. Kennedy,et al.  Identification of novel cytolytic peptides as key virulence determinants for community-associated MRSA , 2007, Nature Medicine.

[48]  K. Chou,et al.  Signal-3L: A 3-layer approach for predicting signal peptides. , 2007, Biochemical and biophysical research communications.

[49]  Y. Rikihisa,et al.  Anaplasma phagocytophilum AnkA secreted by type IV secretion system is tyrosine phosphorylated by Abl‐1 to facilitate infection † , 2007, Cellular microbiology.

[50]  J. Westberg,et al.  Intracellular pathogens go extreme: genome evolution in the Rickettsiales. , 2007, Trends in genetics : TIG.

[51]  Y. Rikihisa,et al.  Identification of Novel Surface Proteins of Anaplasma phagocytophilum by Affinity Purification and Proteomics , 2007, Journal of bacteriology.

[52]  Jean-Michel Claverie,et al.  Reductive Genome Evolution from the Mother of Rickettsia , 2007, PLoS genetics.

[53]  Z. Woldehiwet Anaplasma phagocytophilum in Ruminants in Europe , 2006, Annals of the New York Academy of Sciences.

[54]  C. Ferraz,et al.  Comparative Genomics of Three Strains of Ehrlichia ruminantium , 2006, Annals of the New York Academy of Sciences.

[55]  George Georgiou,et al.  The bacterial twin-arginine translocation pathway. , 2006, Annual review of microbiology.

[56]  J. Foley,et al.  Structure of the Expression Site Reveals Global Diversity in MSP2 (P44) Variants in Anaplasma phagocytophilum , 2006, Infection and Immunity.

[57]  K. Bryson,et al.  AGMIAL: implementing an annotation strategy for prokaryote genomes as a distributed system , 2006, Nucleic acids research.

[58]  J. Foley,et al.  Use of real-time quantitative PCR targeting the msp2 protein gene to identify cryptic Anaplasma phagocytophilum infections in wildlife and domestic animals. , 2006, Vector borne and zoonotic diseases.

[59]  C. Ferraz,et al.  Comparative Genomic Analysis of Three Strains of Ehrlichia ruminantium Reveals an Active Process of Genome Size Plasticity , 2006, Journal of bacteriology.

[60]  Y. Rikihisa,et al.  Analysis of Involvement of the RecF Pathway in p44 Recombination in Anaplasma phagocytophilum and in Escherichia coli by Using a Plasmid Carrying the p44 Expression and p44 Donor Loci , 2006, Infection and Immunity.

[61]  Jonathan Crabtree,et al.  Comparative Genomics of Emerging Human Ehrlichiosis Agents , 2006, PLoS genetics.

[62]  T. Mather,et al.  Reservoir Competency of Goats for the Ap-Variant 1 Strain of Anaplasma phagocytophilum , 2006, Infection and Immunity.

[63]  Harald Schumny,et al.  Next generation , 2005, Comput. Stand. Interfaces.

[64]  Gary Smith,et al.  Anaplasma phagocytophilum in White-tailed Deer , 2005, Emerging infectious diseases.

[65]  E. Howerth,et al.  Experimental Infection of White-Tailed Deer with Anaplasma phagocytophilum, Etiologic Agent of Human Granulocytic Anaplasmosis , 2005, Journal of Clinical Microbiology.

[66]  J. Dumler,et al.  Anaplasma phagocytophilum AnkA binds to granulocyte DNA and nuclear proteins , 2004, Cellular microbiology.

[67]  S. Brunak,et al.  Improved prediction of signal peptides: SignalP 3.0. , 2004, Journal of molecular biology.

[68]  S. Salzberg,et al.  Versatile and open software for comparing large genomes , 2004, Genome Biology.

[69]  T. Mather,et al.  Inability of a variant strain of Anaplasma phagocytophilum to infect mice. , 2003, The Journal of infectious diseases.

[70]  Y. Rikihisa,et al.  Characterization and Transcriptional Analysis of Gene Clusters for a Type IV Secretion Machinery in Human Granulocytic and Monocytic Ehrlichiosis Agents , 2002, Infection and Immunity.

[71]  S. Ray,et al.  Reorganization of genera in the families Rickettsiaceae and Anaplasmataceae in the order Rickettsiales: unification of some species of Ehrlichia with Anaplasma, Cowdria with Ehrlichia and Ehrlichia with Neorickettsia, descriptions of six new species combinations and designation of Ehrlichia equi and , 2001, International journal of systematic and evolutionary microbiology.

[72]  Koreaki Ito,et al.  The Sec protein-translocation pathway. , 2001, Trends in microbiology.

[73]  M. Vasil,et al.  Pseudomonas aeruginosa fur Overlaps with a Gene Encoding a Novel Outer Membrane Lipoprotein, OmlA , 1999, Journal of bacteriology.

[74]  U. Braun,et al.  Experimental infection of four horses with Ehrlichia phagocytophila , 1998, Veterinary Record.

[75]  U. Braun,et al.  Clinical findings in cows after experimental infection with Ehrlichia phagocytophila. , 1997, Zentralblatt fur Veterinarmedizin. Reihe A.

[76]  A. Zharkikh,et al.  Estimation of confidence in phylogeny: the complete-and-partial bootstrap technique. , 1995, Molecular phylogenetics and evolution.

[77]  A. Potter,et al.  Molecular characterization of a protective outer membrane lipoprotein (OmlA) from Actinobacillus pleuropneumoniae serotype 1 , 1993, Infection and immunity.

[78]  N. Saitou,et al.  The neighbor-joining method: a new method for reconstructing phylogenetic trees. , 1987, Molecular biology and evolution.

[79]  T. Brodie,et al.  Some aspects of tick-borne diseases of British sheep , 1986, Veterinary Record.

[80]  R. S. Smith,et al.  Equine ehrlichiosis: a disease with similarities to tick-borne fever and bovine petechial fever , 1969, Veterinary Record.

[81]  S. Schuster Next-generation sequencing transforms today's biology , 2008, Nature Methods.

[82]  Mark J. Pallen,et al.  Bacterial pathogenomics , 2007, Nature.