Publications

2013

Booth JA, Thomassen GO, Rowe AD, Weel-Sneve R,Lagesen K Kristiansen KI, Bjørås M, Rognes T, Lindvall JM. “Tiling array study of MNNG treated Escherichia coli reveals a widespread transcriptional response.“ Sci Rep. 2013 Oct 25;3:3053.

Tooming-Klunderud A, Sogge H, Rounge TB, Nederbragt AJ, Lagesen K, Glöckner G, Hayes PK, Rohrlack T, Jakobsen KS. “From Green to Red: Horizontal Gene Transfer of the Phycoerythrin Gene Cluster between Planktothrix Strains.“ Appl Environ Microbiol. 2013 Nov;79(21):6803-12

Vesth T, Lagesen K, Acar Ö, Ussery D. “CMG-biotools, a free workbench for basic comparative microbial genomics.” PLoS One. 2013;8(4):e60120.

de Muinck EJ, Lagesen K, Afset JE, Didelot X, Rønningen KS, Rudi K, Stenseth NC, Trosvik P. “Comparisons of infant Escherichia coli isolates link genomic profiles with adaptation to the ecological niche.” BMC Genomics. 2013 Feb 5;14(1):81.

2012

Siddiqui H, Lagesen K, Nederbragt AJ, Jeansson SL, Jakobsen KS. “Alterations of microbiota in urine from women with interstitial cystitis.” BMC Microbiol. 2012 Sep 13;12:205.

Snipen L, Wassenaar TM, Altermann E, Olson J, Kathariou S, Lagesen K, Takamiya M, Knøchel S, Ussery DW, Meinersmann RJ. “Analysis of evolutionary patterns of genes in Campylobacter jejuni and C. coli.” Microb Inform Exp. 2012 Aug 28;2(1):8.

Lagesen K, Jørgensen MH, Mable B, Brysting AK. “Using high-throughput sequencing to investigate the evolution of self-incompatibility genes in the Brassicaceae: strategies and challenges.” Plant Ecology & Diversity. 2012  ISSN 1755-0874.  5(4), s 473- 484

2011

Siddiqui H, Nederbragt AJ, Lagesen K, Jeansson SL, Jakobsen KS. “Assessing diversity of the female urine microbiota by high throughput sequencing of 16S rDNA amplicons.” BMC Microbiol. 2011 Nov 2;11:244.

Star B, Nederbragt AJ, Jentoft S, Grimholt U, Malmstrøm M, Gregers TF, Rounge TB, Paulsen J, Solbakken MH, Sharma A, Wetten OF, Lanzén A, Winer R, Knight J, Vogel JH, Aken B, Andersen O, Lagesen K, Tooming-Klunderud A, Edvardsen RB, Tina KG, Espelund M, Nepal C, Previti C, Karlsen BO, Moum T, Skage M, Berg PR, Gjøen T, Kuhl H, Thorsen J, Malde K, Reinhardt R, Du L, Johansen SD, Searle S, Lien S, Nilsen F, Jonassen I, Omholt SW, Stenseth NC, Jakobsen KS. “The genome sequence of Atlantic cod reveals a unique immune system.” Nature. 2011 Aug 10;477(7363):207-10.

2010

Thomassen GO, Weel-Sneve R, Rowe AD, Booth JA, Lindvall JM, Lagesen K, Kristiansen KI, Bjørås M, Rognes T. “Tiling array analysis of UV treated Escherichia coli predicts novel differentially expressed small peptides.” PLoS One. 2010 Dec 23;5(12):e15356.

Friis C, Wassenaar TM, Javed MA, Snipen L, Lagesen K, Hallin PF, Newell DG, Toszeghy M, Ridley A, Manning G, Ussery DW. “Genomic characterization of Campylobacter jejuni strain M1.” PLoS One. 2010 Aug 26;5(8):e12253.

Bohlin J, Snipen L, Cloeckaert A, Lagesen K, Ussery D, Kristoffersen AB, Godfroid J. “Genomic comparisons of Brucella spp. and closely related bacteria using base compositional and proteome based methods.” BMC Evol Biol. 2010 Aug 13;10:249.

Bohlin J, Snipen L, Hardy SP, Kristoffersen AB, Lagesen K, Dønsvik T, Skjerve E, Ussery DW. “Analysis of intra-genomic GC content homogeneity within prokaryotes.” BMC Genomics. 2010 Aug 6;11:464.

Lagesen K, Ussery DW, Wassenaar TM. “Genome update: the 1000th genome¾a cautionary tale.” Microbiology. 2010 Mar;156(Pt 3):603-8.

Vesth T, Wassenaar TM, Hallin PF, Snipen L, Lagesen K, Ussery DW. “On the origins of a Vibrio species.” Microb Ecol. 2010 Jan;59(1):1-13.

2009

Thomassen GO, Rowe AD, Lagesen K, Lindvall JM, Rognes T. “Custom design and analysis of high-density oligonucleotide bacterial tiling microarrays.” PLoS One. 2009 Jun 17;4(6):e5943.

Ambur OH, Davidsen T, Frye SA, Balasingham SV, Lagesen K, Rognes T, Tønjum T. “Genome dynamics in major bacterial pathogens.” FEMS Microbiol Rev. 2009 May;33(3):453-70.

Ussery DW, Kiil K, Lagesen K, Sicheritz-Ponten T, Bohlin J, Wassenaar TM “The genus Burkholderia: analysis of 56 genomic sequences” Side 4 av 4;6:140-157.

2007

Lagesen K, Hallin PF, Rødland EA, Staerfeldt HH, Rognes T, Ussery DW “RNammer: consistent and rapid annotation of ribosomal RNA genes.” Nucleic Acids Res. 2007;35(9):3100-8.

2004               

Ussery DW, Hallin PF, Lagesen K, Wassenaar TM. “Genome update: tRNAs in sequenced microbial genomes.” Microbiology. 2004 Jun;150(Pt 6):1603-6.

Ussery DW, Hallin PF, Lagesen K, Coenye T. “Genome update: rRNAs in sequenced microbial genomes.” Microbiology. 2004 May;150(Pt 5):1113-5.

Davidsen T, Rodland EA, Lagesen K, Seeberg E, Rognes T, Tonjum T. “Biased distribution of DNA uptake sequences towards genome maintenance genes.” Nucleic Acids Res. 2004 Feb 11;32(3):1050-8.

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