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Results: 1 to 20 of 119

1.

Insights from 20 years of bacterial genome sequencing.

Land M, Hauser L, Jun SR, Nookaew I, Leuze MR, Ahn TH, Karpinets T, Lund O, Kora G, Wassenaar T, Poudel S, Ussery DW.

Funct Integr Genomics. 2015 Mar;15(2):141-61. doi: 10.1007/s10142-015-0433-4. Epub 2015 Feb 27.

2.

Pan-genome analysis of human gastric pathogen H. pylori: comparative genomics and pathogenomics approaches to identify regions associated with pathogenicity and prediction of potential core therapeutic targets.

Ali A, Naz A, Soares SC, Bakhtiar M, Tiwari S, Hassan SS, Hanan F, Ramos R, Pereira U, Barh D, Figueiredo HC, Ussery DW, Miyoshi A, Silva A, Azevedo V.

Biomed Res Int. 2015;2015:139580. doi: 10.1155/2015/139580. Epub 2015 Jan 29.

3.

Molecular Analysis of Asymptomatic Bacteriuria Escherichia coli Strain VR50 Reveals Adaptation to the Urinary Tract by Gene Acquisition.

Beatson SA, Ben Zakour NL, Totsika M, Forde BM, Watts RE, Mabbett AN, Szubert JM, Sarkar S, Phan MD, Peters KM, Petty NK, Alikhan NF, Sullivan MJ, Gawthorne JA, Stanton-Cook M, Nhu NT, Chong TM, Yin WF, Chan KG, Hancock V, Ussery DW, Ulett GC, Schembri MA.

Infect Immun. 2015 May;83(5):1749-64. doi: 10.1128/IAI.02810-14. Epub 2015 Feb 9.

PMID:
25667270
4.

Microbial taxonomy in the post-genomic era: Rebuilding from scratch?

Thompson CC, Amaral GR, Campeão M, Edwards RA, Polz MF, Dutilh BE, Ussery DW, Sawabe T, Swings J, Thompson FL.

Arch Microbiol. 2015 Apr;197(3):359-70. doi: 10.1007/s00203-014-1071-2. Epub 2014 Dec 23.

PMID:
25533848
5.

Comparative genomics to delineate pathogenic potential in non-O157 Shiga toxin-producing Escherichia coli (STEC) from patients with and without haemolytic uremic syndrome (HUS) in Norway.

Haugum K, Johansen J, Gabrielsen C, Brandal LT, Bergh K, Ussery DW, Drabløs F, Afset JE.

PLoS One. 2014 Oct 31;9(10):e111788. doi: 10.1371/journal.pone.0111788. eCollection 2014.

6.

Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes.

Nielsen HB, Almeida M, Juncker AS, Rasmussen S, Li J, Sunagawa S, Plichta DR, Gautier L, Pedersen AG, Le Chatelier E, Pelletier E, Bonde I, Nielsen T, Manichanh C, Arumugam M, Batto JM, Quintanilha Dos Santos MB, Blom N, Borruel N, Burgdorf KS, Boumezbeur F, Casellas F, Doré J, Dworzynski P, Guarner F, Hansen T, Hildebrand F, Kaas RS, Kennedy S, Kristiansen K, Kultima JR, Léonard P, Levenez F, Lund O, Moumen B, Le Paslier D, Pons N, Pedersen O, Prifti E, Qin J, Raes J, Sørensen S, Tap J, Tims S, Ussery DW, Yamada T; MetaHIT Consortium, Renault P, Sicheritz-Ponten T, Bork P, Wang J, Brunak S, Ehrlich SD; MetaHIT Consortium.

Nat Biotechnol. 2014 Aug;32(8):822-8. doi: 10.1038/nbt.2939. Epub 2014 Jul 6.

PMID:
24997787
7.

Veillonella, Firmicutes: Microbes disguised as Gram negatives.

Vesth T, Ozen A, Andersen SC, Kaas RS, Lukjancenko O, Bohlin J, Nookaew I, Wassenaar TM, Ussery DW.

Stand Genomic Sci. 2013 Dec 15;9(2):431-48. doi: 10.4056/sigs.2981345. eCollection 2013 Dec 20.

8.

Vibrio chromosome-specific families.

Lukjancenko O, Ussery DW.

Front Microbiol. 2014 Mar 18;5:73. doi: 10.3389/fmicb.2014.00073. eCollection 2014.

9.

Benchmarking of methods for genomic taxonomy.

Larsen MV, Cosentino S, Lukjancenko O, Saputra D, Rasmussen S, Hasman H, Sicheritz-Pontén T, Aarestrup FM, Ussery DW, Lund O.

J Clin Microbiol. 2014 May;52(5):1529-39. doi: 10.1128/JCM.02981-13. Epub 2014 Feb 26.

10.

Quality scores for 32,000 genomes.

Land ML, Hyatt D, Jun SR, Kora GH, Hauser LJ, Lukjancenko O, Ussery DW.

Stand Genomic Sci. 2014 Dec 8;9:20. doi: 10.1186/1944-3277-9-20. eCollection 2014.

11.

Sigma factors in a thousand E. coli genomes.

Cook H, Ussery DW.

Environ Microbiol. 2013 Dec;15(12):3121-9. doi: 10.1111/1462-2920.12236. Epub 2013 Aug 29.

PMID:
23992563
12.

Amino acid usage is asymmetrically biased in AT- and GC-rich microbial genomes.

Bohlin J, Brynildsrud O, Vesth T, Skjerve E, Ussery DW.

PLoS One. 2013 Jul 26;8(7):e69878. doi: 10.1371/journal.pone.0069878. Print 2013.

13.

Bayesian prediction of bacterial growth temperature range based on genome sequences.

Jensen DB, Vesth TC, Hallin PF, Pedersen AG, Ussery DW.

BMC Genomics. 2012;13 Suppl 7:S3. doi: 10.1186/1471-2164-13-S7-S3. Epub 2012 Dec 13.

14.

From essential to persistent genes: a functional approach to constructing synthetic life.

Acevedo-Rocha CG, Fang G, Schmidt M, Ussery DW, Danchin A.

Trends Genet. 2013 May;29(5):273-9. doi: 10.1016/j.tig.2012.11.001. Epub 2012 Dec 6.

15.

Estimating variation within the genes and inferring the phylogeny of 186 sequenced diverse Escherichia coli genomes.

Kaas RS, Friis C, Ussery DW, Aarestrup FM.

BMC Genomics. 2012 Oct 31;13:577. doi: 10.1186/1471-2164-13-577.

16.

Non-O1 Vibrio cholerae unlinked to cholera in Haiti.

Mekalanos JJ, Robins W, Ussery DW, Davis BM, Schadt E, Waldor MK.

Proc Natl Acad Sci U S A. 2012 Nov 20;109(47):E3206; author reply E3207. doi: 10.1073/pnas.1212443109. Epub 2012 Oct 3. No abstract available.

17.

Analysis of evolutionary patterns of genes in Campylobacter jejuni and C. coli.

Snipen L, Wassenaar TM, Altermann E, Olson J, Kathariou S, Lagesen K, Takamiya M, Knøchel S, Ussery DW, Meinersmann RJ.

Microb Inform Exp. 2012 Aug 28;2(1):8. doi: 10.1186/2042-5783-2-8.

18.

Campylobacter fetus subspecies: comparative genomics and prediction of potential virulence targets.

Ali A, Soares SC, Santos AR, Guimarães LC, Barbosa E, Almeida SS, Abreu VA, Carneiro AR, Ramos RT, Bakhtiar SM, Hassan SS, Ussery DW, On S, Silva A, Schneider MP, Lage AP, Miyoshi A, Azevedo V.

Gene. 2012 Oct 25;508(2):145-56. doi: 10.1016/j.gene.2012.07.070. Epub 2012 Aug 6.

19.

LeuO is a global regulator of gene expression in Salmonella enterica serovar Typhimurium.

Dillon SC, Espinosa E, Hokamp K, Ussery DW, Casadesús J, Dorman CJ.

Mol Microbiol. 2012 Sep;85(6):1072-89. doi: 10.1111/j.1365-2958.2012.08162.x. Epub 2012 Jul 23.

PMID:
22804842
20.

The transcriptional landscape and small RNAs of Salmonella enterica serovar Typhimurium.

Kröger C, Dillon SC, Cameron AD, Papenfort K, Sivasankaran SK, Hokamp K, Chao Y, Sittka A, Hébrard M, Händler K, Colgan A, Leekitcharoenphon P, Langridge GC, Lohan AJ, Loftus B, Lucchini S, Ussery DW, Dorman CJ, Thomson NR, Vogel J, Hinton JC.

Proc Natl Acad Sci U S A. 2012 May 15;109(20):E1277-86. doi: 10.1073/pnas.1201061109. Epub 2012 Apr 25.

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