Afshar B., Fry N. K., Bellamy W., Underwood A. P., Harrison T. G., and Members of th... 2007. External Quality Assessment of a DNA Sequence-Based Scheme for Epidemiological Typing of Legionella pneumophila by an International Network of Laboratories. J. Clin. Microbiol. 45(10): 3251-3256.

Bǿ T.H. B. Dysvik, and I. Jonassen. 2004. Lsimpute: accurate estimation of missing values in microarray data with least squares methods. Nucleic Acids Research. 32 : 34-38.

Baele M., K. Van den Bulck, A. Decostere, P. Vandamme, M.-L. Hänninen, R. Ducatelle, and F. Haesebrouck. 2004. Multiplex PCR assay for differentiation of Helicobacter felis, H. bizzozeronii, and H. salomonis. J. Clin. Microbiol. 42: 1115-1122.

Baele M., M. Vancanneyt, L.A. Devriese, K. Lefebvre, J. Swings, and F. Haesebrouck. 2003. Lactobacillus ingluviei sp.nov., isolated from the intestinal tract of pigeons. Int. J. Syst. Evol. Microbiol. 53: 133-136.

Bernasconi C., Volponi G., Picozzi C., Foschino R. 2007. Use of the tna Operon as a New Molecular Target for Escherichia coli Detection. Appl. Envir. Microbiol. 73(19): 6321-6325.

Björkroth K.J., R. Geisen, U. Schillinger, N. Weiss, P. De Vos, W.H. Holzapfel, H.J. Korkeala, and P. Vandamme. 2000. Characterization of Leuconostoc gasicomitatum sp.nov., associated with spoiled raw tomato-marinated broiler meat strips packaged under modified-atmosphere conditions. Appl. Environ. Microbiol. 66: 3764-3772.

Borisova O., Kombarova S.Y., Zakharova N.S., van Gent M., Aleshkin V.A., Mazurova I., Mooi F.R. 2007. Antigenic Divergence between Bordetella pertussis Clinical Isolates from Moscow, Russia, and Vaccine Strains. Clin. Vaccine Immunol. 14(3):234-238.

Boyle S., S. Gilchrist, J.M. Bridger, N.L. Mahy, J.A. Ellis, and W.A. Bickmore. 2001. The spatial organization of human chromosomes within the nuclei of normal and emerin-mutant cells. Human Mol. Genetics. 10: 211-219.

Casper E.T., J.H. Paul, M.C. Smith, and M. Gray.2004. Detection and quantification of the red tide dinoflagellate Kareniabrevis by real-time nucleic acid sequence-based amplification.Appl.Environ. Microbiol. 70: 4727-4732.

Chiou S.-H., K.-C. Chow, C.-H. Yang, S.-F. Chiang, and C.-H. Lin. 2005. Discovery of Epstein-Barr virus (EBV)-encoded RNA signal and EBV nuclear antigen leader protein DNA sequence in pet dogs. J. Gen. Virol. 86: 899-905.

Chisholm S.A., and R.J. Owen. 2003. Mutations in Helicobacter pylori rdxA gene sequences may not contribute to metronidazole resistance. J. Antimicrob. Chemotherapy. 51: 995-999.

Chisholm S.A., R.J. Owen, E.L. Teare, and S. Saverymuttu. 2001. PCR-based diagnosis of Helicobacter pylori infection and real-time determination of Clarithromycin resistance directly from human gastric biopsy samples. J. Clin. Microbiol. 39:1217-1220.

Cleenwerk I., M. De Wachter, B. Hoste, D. Janssens, and J. Swings. 2003. Aquaqpirillum dispar Hylemon et al. 1973 and Microvirgula aerodenitrificans Patureau et al. 1998 are subjective synonyms. Int. J. Syst. Evol. Microbiol. 53: 1457-1459.

Coenye T., J. Goris, P. De Vos, P. Vandamme, and J.L. Lipuma. 2003. Classification of Ralstonia pickettii-like isolates from the environment and clinical samples as Ralstonia insidiosa sp.nov. Int. J. Syst. Evol. Microbiol. 53: 1075-1080.

Cunningham M.L., M.S. Bogdanffy, T.R. Zacharewski, and R.N. Hines. 2003. Workshop overview: use of genomic data in risk assessment. Toxicological Sciences. 73: 209-215.

De Baere T., A. Muylaert, E. Everaert, G. Wauters, G. Claeys, G. Verschraegen, and M. Vaneechoutte. 2002. Bacteremia due to Moraxella atlantae in a cancer patient. J. Clin. Microbiol. 40:2693-2695.

De Baere T., M. Moerman, L. Rigouts, C. Dhooge, H. Vermeersch, G. Verschraegen, and M. Vaneechoutte. 2001. Mycobacterium interjectum as causative agent of cervical lymphadenitis. J. Clin. Microbiol. 39: 725-727.

De Baere T., R. Verhelst, C. Labit, G. Verschraegen, G.Wauters, G. Claeys, and M. Vaneechoutte. 2004. Bacteremic infection with Pantoeaananatis. J. Clin. Microbiol. 42: 4393-4395.

De Graef E.M., L.A. Devriese, M. Vancanneyt, M. Baele, M.D. Collins, K. Lefebvre, J. Swings, and F. Haesebrouck. 2003. Description of Enterococcus canis sp. nov. from dogs and reclassification of Enterococcus porcinus Teixeira et al. 2001 as a junior synonym of Enterococcus villorum Vancanneyt et al. 2001. Int. J. Syst. Evol. Microbiol. 53 : 1069-1074.

De Groote D., R. Ducatelle, L.J. van Doorn, K. Tilmant, A. Verschuuren, and F. Haesebrouck. 2000. Detection of “Candidatus Helicobacter suis” in gastric samples of pigs by PCR: comparison with other invasive diagnostic techniques. J. Clin. Microbiol. 38: 1131-1135.

De Vin F., P. Rådström, L. Herman, and L.De Vuyst. 2005. Molecular and biochemical analysis of the galactose phenotype of dairy Streptococcus thermophilus strains reveals four different fermentation profiles. Appl. Environ. Microbiol. 71: 3659-3667.

De Vos D., C. Bouton, A. Sarniguet, P. De Vos, M. Vauterin, and P. Cornelis. 1998. Sequence diversity of the oprI gene coding for major outer membrane lipoprotein I, among rRNA group I pseudomonads. J. Bacteriol. 180: 6551-6556.

Descheemaeker P.R.M., S. Chapelle, L.A. Devriese, B. Butaye, P. Vandamme, and H. Goossens. 1999. Comparison of glycopeptide-resistant Enterococcus faecium isolates and glycopeptide resistance genes of human and animal origins. Antimicrob. Agents Chemotherapy. 43: 2032-2037.

Edelmann L., R.K. Pandita, E. Spiteri, B. Funke, R. Goldberg, N. Palanisamy, R.S.K. Chaganti, E. Magenis, R.J. Shprintzen, and B.E. Morrow. 1999. A common molecular basis for rearrangement disorders on chromosome 22q11. Human Mol. Genetics. 7: 1157-1167.

Eyssen H.J., G. De Pauw, and J. Van Eldere. 1999. Formation of Hyodeoxycholic acid from muricholic acid and hyocholic acid by an unidentified gram-positive rod termed HDCA-1 isolated from rat intestinal microflora. Appl. Environ. Microbiol. 65: 3158-3163.

Feng Y., N. Huang, Q. Wu and B. Wang. 2005. HMGN2: a novel antimicrobial effector molecule of human mononuclear leukocytes ? J. Leukocyte Biology. 78: 1136-1141.

Fry N., S. Neal, T.G. Harrison, E. Miller, R. Matthews, and R.C. George. 2001. Genotypic variation in the Borthedella pertussis virulens factors Pertactin and Pertussis Toxin in historical and recent clinical isolates in the United Kingdom. Chest. 69: 5520-5528.

Gaia V., N.K. Fry, T.G. Harrison, and R. Peduzzi. 2003. Sequence-based typing of Legionella pneumophila serogroup 1 offers the potential for true portability in legionellosis outbreak investigation. J. Clin. Microbiol. 41 : 2932-2939.

Gong J., N. Chen, Q. Zhou, B. Yang, Y. Wang, and X. Wang. 2005. Melanoma inhibitor of apoptosis protein is expressed differentially in melanoma and melanocytic naevus, but similarly in primary and metastatic melanomas. J. Clin. Pathology. 58: 1081-1085.

Gray M., B. Wawrik, J. Paul, and E. Casper. 2003. Molecular detection and quantitation of the red tide dinoflagellate Karenia brevis in the marine environment. Appl. Environ. Microbiol. 69 : 5726-5730.

Hellemans A., A. Decostere, F. Haesebrouck, and R. Ducatelle. 2005. Evaluation of antibiotic treatment against “Candidatus Helicobacter suis” in a mouse model. Antimicrob. Agents & Chemotherapy. 49: 4530-4535.

Hirose F., M. Yamaguchi, and A. Matsukage. 1994. Repression of regulatory factor for Drosphila DNA replication-related gene promoters by zerknullt homeodomain protein. J. Biol. Chem. 269: 2937-2942.

Huys G., K. D’Haene, and J. Swings. 2006. Genetic basis of Tetracycline and Minocycline resistance in potentially probiotic Lactobacillus plantarum strain CCUG 43738. Antimicrob. Agents & Chemotherapy. 50: 1550-1551.

Ke X., C. Durrant, A. Morris, S. Hunt, D.R. Bentley, P.Deloukas, and L.R. Cardon. 2004. Efficiency and consistency of haplotypetagging of dense SNP maps in multiple samples. Hum. Mol. Genetics. 10:1093.

Keightley P.D., T. Hardge, L. May and G. Bulfield. 1996. A genetic map of quantitative trait loci for body weight in the mouse. Genetics. 142: 227-235.

Lebrun L., F.-X. Weill, L. Lafendi, F. Houriez, F. Casanova, M.C. Gutierrez, D. Ingrand, P. Lagrange, V. Vincent, and J.L. Herrmann . 2005. Use ofthe INNO-LiPA-MYCOBACTERIA Assay (Version 2) for identification of Mycobacterium avium-Mycobacterium intracellulare-Mycobacterium scrofulaceum complex isolates. J. Clin. Microbiol. 43: 2567-2574.

LeChevallier M.W., G.D. Di Giovanni, J.L. Clancy, Z. Bukhari, S. Bukhari, J.S. Rosen, J. Sobrinho, and M.M. Frey. 2003. Comparison of method 1623 and cell culture-PCR for detection of Cryptosporidium spp. in source waters. Appl. Environ. Microbiol. 69: 971-979.

Libbrecht E., Doutreloigne J., Van De Velde H., Yuen M.-F., Lai C.-L., Shapiro F., Sablon E. 2007. Evolution of Primary and Compensatory Lamivudine-Resistance Mutations during Long-term Lamivudine Treatment in Chronic HBV-Infected Patients Assessed by a Line Probe Assay. J. Clin. Microbiol. JCM.00020-07.

Masco L., K. Van Hoorde, E. De Brandt, J. Swings, and G. Huys. 2006. Antimicrobial susceptibility of Bifidobacterium strains from humans, animals and probiotic products. JAC. 10.1093/jac/dkl197.

Metallinos D.L., A.J. Oppenheimer, E.M. Rinchik, L.B. Russell, W. Dietrich and S.M. Tilghman. 1994. Fine structure mapping and deletion analysis of the murine piebald locus. Genetics 136: 217-223.

Mooij M.J., Drenkard E., Llamas M.A., Vandenbroucke-Grauls C. M. J. E., Savelkoul P.H.M., Ausubel F.M., Bitter W. 2007. Characterization of the integrated filamentous phage Pf5 and its involvement in small-colony formation. Microbiology. 153(6):1790-1798.

Moyaert H., Decostere A., Vandamme P., Debruyne L., Mast J., Baele M., Ceelen L., Ducatelle R., Haesebrouck F. 2007. Helicobacter equorum sp. nov., a urease-negative Helicobacter species isolated from horse faeces. Int J Syst Evol Microbiol. 57(2):213-218.

Ogier J.-C., O. Son, A. Gruss, P. Taillez, and A. Delacroix-Buchet. 2002. Identification of the bacterial microflora in dairy products by temporal temperature gradient gel eletrophoresis. Appl. Environ. Microbiol. 68:3691-3701.

Owen R.J., S.I. Sharp, S.A. Chisholm, and S. Rijpkema. 2003. Identification of cagA tyrosine phosphorylation DNA motifs in Helicobacter pylori isolates from peptic ulcer patients by novel PCR-restriction fragment length polymorphism and real-time fluorescence PCR assays. J. Clin. Microbiol. 41: 3112-3118.

Packard E.R., R. Parton, J.G. Coote, and N.K.Fry.2004. Sequence variation and conservation in virulence-related genes of Bortedellapertussis isolates from the UK. J. Med. Microbiol. 53: 355-365.

Padilla E., V. Gonzalez, J.M. Manterola, A. Perez, M.D.Quesada, S. Gordillo, C. Vilaplana, M. Angeles Pallares, S. Molinos, M.D.Sanchez, and V. Ausina. 2004. Comparative evaluation of the new version ofthe INNO-LiPA mycobacteria and genotype mycobacterium assays for identificationof Mycobacterium species from MB/BacT liquid cultures artificiallyinoculated with mycobacterial strains. J. Clin. Microbiol. 42:3083-3088.

Paul J.H., S.J. Williamson, A. Long, R.N. Authement, D. John, A.M. Segall, F.L. Rohwer, M. Adrolewicz, and S. Patterson. 2005. Complete genome sequence of ФHSIC, a pseudotemperate marine phage of Listonella pelagia. Appl. Environ. Microbiol. 71: 3311-3320.

Piérard D., G. Muyldermans, L. Moriau, D. Stevens, and S. Lauwers. 1998. Identification of new verocytotoxin type 2 variant B-subunit genes in human and animal Escherichia coli isolates. J. Clin. Microbiol. 36: 3317-3322.

Pitcher D.G., D. Windsor, H. Windsor, J.M. Bradbury, C. Yavari, J.S. Jensen, C. Ling and D. Webster. 2005. Mycoplasma amphoriforme sp. nov., isolated from a patient with chronic bronchopneumonia. Int. J. Syst. Evol. Microbiol. 55: 2589-2594.

Rademaker J. L.W., Herbet H., Starrenburg M. J.C., Naser S. M., Gevers D., Kelly W. J., Hugenholtz J., Swings J., van Hylckama Vlieg J. E.T. 2007. Diversity analysis of Lactococcus lactis of dairy and non-dairy isolates with a novel multilocus sequence analysis (MLSA) scheme and (GTG)5-PCR fingerprinting. Appl. Envir. Microbiol. AEM.01017-07.

Ratcliff R.M., J.A. Lanser, P.A. Manning, and M.W. Heuzenroeder. 1998. Sequence-based classification scheme for the genus Legionella targeting the mip gene. J. Clin. Microbiol. 36: 1560-1567.

Ratcliff R.M., J.C. Doherty, and G.D. Higgings. 2002. Sensitive detection of RNA viruses associated with gastroenteritis by a hanging-drop single-tube nested reverse transcription-PCR method. J. Clin. Microbiol. 40: 4091-4099.

Roossens N.H.C.J., T.T. Thu, H.M. Iskandar, and M. Jacobs. 1998. Isolation of the ornithine-d-aminotransferase cDNA and effect of salt stress on its expression in Arabidopsis thaliana. Plant Physiol. 117: 263-271.

Ross I.L., and M.W. Heuzenroeder. 2005. Discrimination within phenotypically closely related definitive types of Salmonella enterica serovar Typhimurium by the multiple amplification of phage locus typing technique. J. Clin. Microbiol. 43: 1604-1611.

Salih F., R. Khatami, S. Steinheimer, O. Hummel, A. Kühn, and P. Grosse. 2005. Inhibitory and excitatory introcortical circuits across the human sleep-wake cycle using paired-pulse transcranial magnetic stimulation. J. Physiol. 565.2: 695-701.

Scheldeman P., K. Goossens, M. Rodriguez-Diaz, A. Pil, J.Goris, L. Herman, P. De Vos, N.A. Logan, and M. Heyndrickx. 2004. Paenibacillus lactis sp. nov., isolated from rax and heat-treated milk. Int. J. Syst. Evol. Microbiol. 54:885-891.

Scheldeman P., M. Rodriguez-Diaz, J. Goris, A. Pil, E. De Clerck, L. Herman, P. De Vos,N.A. Logan, and M. Heyndrickx . 2004. Bacillus farraginis sp. nov., Bacillus fortissp. nov. and Bacillus fordii sp. nov., isolated at dairy farms. Int. J. Syst. Evol. Microbiol. 54:1355-1364.

Schouls L.M., C.S. Schot, and J.A. Jacobs. 2003. Horizontal tranfer of segments of the 16S rRNA genes between species of the Streptococcus anginosus group. J. Bacteriol. 185: 7241-7246.

Singh B.K., Tate K.R., Kolipaka G., Hedley C.B., Macdonald C.A., Millard P., Murrell J.C. 2007. Effect of afforestation and reforestation of pastures on the activity and population dynamics of methanotrophic bacteria. Appl. Envir. Microbiol. AEM.00620-07.

Sorlin P., P. Vandamme, J. Nortier, B. Hoste, C. Rossi, S. Pavlov, and M.J. Struelens. 1999. Recurrent “Flexispira rappini” bacteremia in an adult patient undergoing hemodialysis: case report. J. Clin. Microbiol. 37: 1319-1323.

Spinner M.L., and G.D. Di Giovanni. 2001. Detection and identification of mammalian reoviruses in surface water by combined cell culture and reverse transcription-PCR. Appl. Environ. Microbiol. 67: 3016-3020.

Thompson F.L., Y. Barash, T. Sawabe, G. Sharon, J. Swings, and E. Rosenberg. 2006. Thalassomonas loyana sp. nov., a causative agent of the white plague-like disease of corals on the Eilat corel reef. Int. J. Syst. Evol. Microbiol. 56: 365-368.

Tsunoda T., G.M. Lathrop, A. Sekine, R. Yamada, A. Takahashi, Y. Ohnishi, T. Tanaka,and Y. Nakamura . 2004. Variation of gene-based SNPs and linkage disequilibrium patterns in the humangenome. Hum. Mol. Genetics.13: 1623-1632.

Vandamme P., C.S. Harrington, K. Jalava, and S.L.W. On. 2000. Misidentifying Helicobacters: the Helicobacter cinaedi example. J. Clin. Microbiol. 38: 2261-2266.

Vaneechoutte M., D.M. Young, L.N. Ornston, T. De Baere, A. Nemec, T. Van Der Reijden, E. Carr, I. Tjernberg, and L. Dijkshoorn. 2006. Naturally transformable Acinetobacter sp. Strain ADP1 belongs to the newly described species Acinetobacter baylyi. Appl. Environ. Microbiol. 72: 932-936.

Vaneechoutte M., G. Claeys, S. Steyaert, T. De Baere, R. Peleman, and G. Verschraegen. 2000. Isolation of Moraxella canis from an ulcerated metastatic lymph node. J. Clin. Microbiol. 38: 3870-3871.

Vermis K., T. Coenye, J.J. LiPuma, E. Mahenthiralingam,H.J. Nelis, and P. Vandamme. 2004. Proposal to accomodate Burkholderiacepacia genomovar VI as Burkholderia dolosa sp. nov. Int. J. Syst.Evol. Microbiol. 54: 689-691.

Vinuesa P., B.L. Reuhs, C. Breton, and D. Werner. 1999. Identification of a plasmid-borne locus in Rhizobium etli KIM5s involved in lipopolysaccharide O-chain biosynthesis and nodulation of Phaseolus vulgaris. J. Bacteriol. 181: 5606-5614.

Wauters G., T. De Baere, A. Willems, E. Falsen, and M. Vanneechoutte. 2003. Description of Camomonas aquatica comb. nov. and Comamonas kerstersii sp.nov. for two subgroups of Comamonas terrigena and emended description of Comamonas terrigena. Int. J. Syst. Evol. Microbiol. 53 : 859-862.

Werbrouck H., K. Grijspeerdt, N. Botteldoorn, E. Van Pamel, N. Rijpens, J. Van Damme, M. Uyttendaele, L. Herman, and E. Van Coillie. 2006.Differential inlAand inlBexpression and interaction with human intestinal and liver cells by Listeria monocytogenes strains of different origins. Appl. Environ. Microbiol. 72: 3862-3871.

Zhong W., Shou Y., Yoshida T.M., Marrone B.L. 2007. Differentiation of Bacillus anthracis, B. cereus, and B. thuringiensis by Using Pulsed-Field Gel Electrophoresis. Appl. Envir. Microbiol. 73(10):3446-3449.

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