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Items: 1 to 50 of 86

1.

Extreme genetic signatures of local adaptation during Lotus japonicus colonization of Japan.

Shah N, Wakabayashi T, Kawamura Y, Skovbjerg CK, Wang MZ, Mustamin Y, Isomura Y, Gupta V, Jin H, Mun T, Sandal N, Azuma F, Fukai E, Seren Ü, Kusakabe S, Kikuchi Y, Nitanda S, Kumaki T, Hashiguchi M, Tanaka H, Hayashi A, Sønderkær M, Nielsen KL, Schneeberger K, Vilhjalmsson B, Akashi R, Stougaard J, Sato S, Schierup MH, Andersen SU.

Nat Commun. 2020 Jan 14;11(1):253. doi: 10.1038/s41467-019-14213-y.

2.

High efficacy full allelic CRISPR/Cas9 gene editing in tetraploid potato.

Johansen IE, Liu Y, Jørgensen B, Bennett EP, Andreasson E, Nielsen KL, Blennow A, Petersen BL.

Sci Rep. 2019 Nov 27;9(1):17715. doi: 10.1038/s41598-019-54126-w.

3.

Mutational change of CTX-M-15 to CTX-M-127 resulting in mecillinam resistant Escherichia coli during pivmecillinam treatment of a patient.

Nielsen KL, Hansen KH, Nielsen JB, Knudsen JD, Schønning K, Frimodt-Møller N, Hertz FB, Jansåker F.

Microbiologyopen. 2019 Dec;8(12):e941. doi: 10.1002/mbo3.941. Epub 2019 Oct 1.

4.

Escherichia coli belonging to ST131 rarely transfers bla ctx-m-15 to fecal Escherichia coli.

Thingholm KR, Hertz FB, Løbner-Olesen A, Frimodt-Møller N, Nielsen KL.

Infect Drug Resist. 2019 Aug 6;12:2429-2435. doi: 10.2147/IDR.S208536. eCollection 2019.

5.

Surveillance of vancomycin-resistant enterococci reveals shift in dominating clones and national spread of a vancomycin-variable vanA Enterococcus faecium ST1421-CT1134 clone, Denmark, 2015 to March 2019.

Hammerum AM, Justesen US, Pinholt M, Roer L, Kaya H, Worning P, Nygaard S, Kemp M, Clausen ME, Nielsen KL, Samulioniené J, Kjærsgaard M, Østergaard C, Coia J, Søndergaard TS, Gaini S, Schønning K, Westh H, Hasman H, Holzknecht BJ.

Euro Surveill. 2019 Aug;24(34). doi: 10.2807/1560-7917.ES.2019.24.34.1900503.

6.

Prevalence of Soil-borne Diseases in Kalanchoe blossfeldiana Reveals a Complex of Pathogenic and Opportunistic Fungi.

Madriz-Ordeñana K, Jørgensen HJL, Balan A, Sørensen DM, Nielsen KL, Thordal-Christensen H.

Plant Dis. 2019 Oct;103(10):2634-2644. doi: 10.1094/PDIS-12-18-2252-RE. Epub 2019 Jul 24.

PMID:
31339440
7.

Effect of wet storage conditions on potato tuber transcriptome, phytohormones and growth.

Peivastegan B, Hadizadeh I, Nykyri J, Nielsen KL, Somervuo P, Sipari N, Tran C, Pirhonen M.

BMC Plant Biol. 2019 Jun 17;19(1):262. doi: 10.1186/s12870-019-1875-y.

8.

Genomic variation predicts adaptive evolutionary responses better than population bottleneck history.

Ørsted M, Hoffmann AA, Sverrisdóttir E, Nielsen KL, Kristensen TN.

PLoS Genet. 2019 Jun 12;15(6):e1008205. doi: 10.1371/journal.pgen.1008205. eCollection 2019 Jun.

9.

Nosocomial urinary tract infection and risk of bacteraemia in elderly patients: urinary catheter, clinical factors and bacterial species.

Leihof RF, Ethelberg S, Nielsen KL, Rasmussen SC, Frimodt-Møller N.

Infect Dis (Lond). 2019 Jul;51(7):547-549. doi: 10.1080/23744235.2019.1599135. Epub 2019 Apr 15. No abstract available.

PMID:
30985255
10.

In vivo mecillinam resistance in Escherichia coli after pivmecillinam treatment of a urinary tract infection.

Nielsen KL, Hansen KH, Knudsen JD, Frimodt-Møller N, Hertz FB, Jansåker F.

Microbiologyopen. 2019 Jan 6:e770. doi: 10.1002/mbo3.770. [Epub ahead of print]

11.

The Value of Expanding the Training Population to Improve Genomic Selection Models in Tetraploid Potato.

Sverrisdóttir E, Sundmark EHR, Johnsen HØ, Kirk HG, Asp T, Janss L, Bryan G, Nielsen KL.

Front Plant Sci. 2018 Aug 6;9:1118. doi: 10.3389/fpls.2018.01118. eCollection 2018.

12.

DNA Damage Repair and Drug Efflux as Potential Targets for Reversing Low or Intermediate Ciprofloxacin Resistance in E. coli K-12.

Klitgaard RN, Jana B, Guardabassi L, Nielsen KL, Løbner-Olesen A.

Front Microbiol. 2018 Jul 2;9:1438. doi: 10.3389/fmicb.2018.01438. eCollection 2018.

13.

Verticillium dahliae Disease Resistance and the Regulatory Pathway for Maturity and Tuberization in Potato.

Tai HH, De Koeyer D, Sønderkær M, Hedegaard S, Lagüe M, Goyer C, Nolan L, Davidson C, Gardner K, Neilson J, Paudel JR, Murphy A, Bizimungu B, Wang HY, Xiong X, Halterman D, Nielsen KL.

Plant Genome. 2018 Mar;11(1). doi: 10.3835/plantgenome2017.05.0040.

14.

Selection of ESBL-Producing E. coli in a Mouse Intestinal Colonization Model.

Hertz FB, Nielsen KL, Frimodt-Møller N.

Methods Mol Biol. 2018;1736:105-115. doi: 10.1007/978-1-4939-7638-6_10.

PMID:
29322463
15.

Laribacter hongkongensis: clinical presentation, epidemiology and treatment. A review of the literature and report of the first case in Denmark.

Engsbro AL, Nielsen KL, Hornum M, Andersen LP.

Infect Dis (Lond). 2018 Jun;50(6):417-422. doi: 10.1080/23744235.2017.1419373. Epub 2017 Dec 22. Review.

PMID:
29272955
16.

Whole-genome comparison of urinary pathogenic Escherichia coli and faecal isolates of UTI patients and healthy controls.

Nielsen KL, Stegger M, Kiil K, Godfrey PA, Feldgarden M, Lilje B, Andersen PS, Frimodt-Møller N.

Int J Med Microbiol. 2017 Dec;307(8):497-507. doi: 10.1016/j.ijmm.2017.09.007. Epub 2017 Sep 14.

17.

Postprandial PYY increase by resistant starch supplementation is independent of net portal appearance of short-chain fatty acids in pigs.

Ingerslev AK, Mutt SJ, Lærke HN, Hedemann MS, Theil PK, Nielsen KL, Jørgensen H, Herzig KH, Bach Knudsen KE.

PLoS One. 2017 Oct 5;12(10):e0185927. doi: 10.1371/journal.pone.0185927. eCollection 2017.

18.

Chrysogine Biosynthesis Is Mediated by a Two-Module Nonribosomal Peptide Synthetase.

Wollenberg RD, Saei W, Westphal KR, Klitgaard CS, Nielsen KL, Lysøe E, Gardiner DM, Wimmer R, Sondergaard TE, Sørensen JL.

J Nat Prod. 2017 Jul 28;80(7):2131-2135. doi: 10.1021/acs.jnatprod.6b00822. Epub 2017 Jul 14.

PMID:
28708398
19.

Genomic prediction of starch content and chipping quality in tetraploid potato using genotyping-by-sequencing.

Sverrisdóttir E, Byrne S, Sundmark EHR, Johnsen HØ, Kirk HG, Asp T, Janss L, Nielsen KL.

Theor Appl Genet. 2017 Oct;130(10):2091-2108. doi: 10.1007/s00122-017-2944-y. Epub 2017 Jul 13.

20.

Diversity of microbial carbohydrate-active enzymes in Danish anaerobic digesters fed with wastewater treatment sludge.

Wilkens C, Busk PK, Pilgaard B, Zhang WJ, Nielsen KL, Nielsen PH, Lange L.

Biotechnol Biofuels. 2017 Jun 21;10:158. doi: 10.1186/s13068-017-0840-y. eCollection 2017.

21.

Real world data on rituximab maintenance therapy after frontline immunochemotherapy in grade 1-3a follicular lymphoma.

Bech RS, Nielsen KL, Larsen TS, Bentzen HH, Lynggaard LS, Do TH, Braendstrup P, Brady J, Mikhaeel NG, Dybkaer K, Johnsen HE, Jensen P, Bøgsted M, El-Galaly TC.

Br J Haematol. 2018 Jul;182(2):297-301. doi: 10.1111/bjh.14775. Epub 2017 May 23. No abstract available.

PMID:
28542714
22.

Adaptation of Escherichia coli traversing from the faecal environment to the urinary tract.

Nielsen KL, Stegger M, Godfrey PA, Feldgarden M, Andersen PS, Frimodt-Møller N.

Int J Med Microbiol. 2016 Dec;306(8):595-603. doi: 10.1016/j.ijmm.2016.10.005. Epub 2016 Nov 4.

23.

Untargeted Metabolomics Analysis of ABCC6-Deficient Mice Discloses an Altered Metabolic Liver Profile.

Rasmussen MR, Nielsen KL, Laursen MR, Nielsen CB, Svendsen P, Dimke H, Christensen EI, Johannsen M, Moestrup SK.

J Proteome Res. 2016 Dec 2;15(12):4591-4600. Epub 2016 Nov 3.

PMID:
27758107
24.

R-CHOP(-like) treatment of diffuse large B-cell lymphoma significantly reduces CT-assessed vertebral bone density: a single center study of 111 patients.

Svendsen P, Shekhrajka N, Nielsen KL, Vestergaard P, Poulsen MØ, Vistisen AK, Munksgaard PS, Severinsen MT, Jensen P, Johnsen HE, Jakobsen LH, Bøgsted M, Frøkjær JB, El-Galaly TC.

Leuk Lymphoma. 2017 May;58(5):1105-1113. doi: 10.1080/10428194.2016.1233543. Epub 2016 Oct 13.

PMID:
27736260
25.

In vivo gene expression in a Staphylococcus aureus prosthetic joint infection characterized by RNA sequencing and metabolomics: a pilot study.

Xu Y, Maltesen RG, Larsen LH, Schønheyder HC, Le VQ, Nielsen JL, Nielsen PH, Thomsen TR, Nielsen KL.

BMC Microbiol. 2016 May 5;16:80. doi: 10.1186/s12866-016-0695-6.

26.

A Metabolomics Study of Retrospective Forensic Data from Whole Blood Samples of Humans Exposed to 3,4-Methylenedioxymethamphetamine: A New Approach for Identifying Drug Metabolites and Changes in Metabolism Related to Drug Consumption.

Nielsen KL, Telving R, Andreasen MF, Hasselstrøm JB, Johannsen M.

J Proteome Res. 2016 Feb 5;15(2):619-27. doi: 10.1021/acs.jproteome.5b01023. Epub 2016 Jan 8.

PMID:
26705142
27.

Cytosolic glutamine synthetase is important for photosynthetic efficiency and water use efficiency in potato as revealed by high-throughput sequencing QTL analysis.

Kaminski KP, Kørup K, Andersen MN, Sønderkær M, Andersen MS, Kirk HG, Nielsen KL.

Theor Appl Genet. 2015 Nov;128(11):2143-53. doi: 10.1007/s00122-015-2573-2. Epub 2015 Jul 12.

28.

Selection of unique Escherichia coli clones by random amplified polymorphic DNA (RAPD): Evaluation by whole genome sequencing.

Nielsen KL, Godfrey PA, Stegger M, Andersen PS, Feldgarden M, Frimodt-Møller N.

J Microbiol Methods. 2014 Aug;103:101-3. doi: 10.1016/j.mimet.2014.05.018. Epub 2014 Jun 6.

29.

Similar metabolic responses in pigs and humans to breads with different contents and compositions of dietary fibers: a metabolomics study.

Nielsen KL, Hartvigsen ML, Hedemann MS, Lærke HN, Hermansen K, Bach Knudsen KE.

Am J Clin Nutr. 2014 Apr;99(4):941-9. doi: 10.3945/ajcn.113.074724. Epub 2014 Jan 29.

PMID:
24477039
30.

Faecal Escherichia coli from patients with E. coli urinary tract infection and healthy controls who have never had a urinary tract infection.

Nielsen KL, Dynesen P, Larsen P, Frimodt-Møller N.

J Med Microbiol. 2014 Apr;63(Pt 4):582-9. doi: 10.1099/jmm.0.068783-0. Epub 2014 Jan 25.

PMID:
24464694
31.

Role of urinary cathelicidin LL-37 and human β-defensin 1 in uncomplicated Escherichia coli urinary tract infections.

Nielsen KL, Dynesen P, Larsen P, Jakobsen L, Andersen PS, Frimodt-Møller N.

Infect Immun. 2014 Apr;82(4):1572-8. doi: 10.1128/IAI.01393-13. Epub 2014 Jan 22.

32.

The fungal symbiont of Acromyrmex leaf-cutting ants expresses the full spectrum of genes to degrade cellulose and other plant cell wall polysaccharides.

Grell MN, Linde T, Nygaard S, Nielsen KL, Boomsma JJ, Lange L.

BMC Genomics. 2013 Dec 28;14:928. doi: 10.1186/1471-2164-14-928.

33.

A metabolomics approach used to profile plasma from portal-arterial pigs revealed differences between breads incurred by dietary fibre and protein contents.

Nielsen KL, Hedemann MS, Lærke HN, Jørgensen H, Bach Knudsen KE.

J Nutr Sci. 2014 Aug 22;3:e18. doi: 10.1017/jns.2014.14. eCollection 2014.

34.

Metagenomes obtained by 'deep sequencing' - what do they tell about the enhanced biological phosphorus removal communities?

Albertsen M, Saunders AM, Nielsen KL, Nielsen PH.

Water Sci Technol. 2013;68(9):1959-68. doi: 10.2166/wst.2013.441.

PMID:
24225095
35.

'Candidatus Competibacter'-lineage genomes retrieved from metagenomes reveal functional metabolic diversity.

McIlroy SJ, Albertsen M, Andresen EK, Saunders AM, Kristiansen R, Stokholm-Bjerregaard M, Nielsen KL, Nielsen PH.

ISME J. 2014 Mar;8(3):613-624. doi: 10.1038/ismej.2013.162. Epub 2013 Oct 31.

36.

Genome sequences of rare, uncultured bacteria obtained by differential coverage binning of multiple metagenomes.

Albertsen M, Hugenholtz P, Skarshewski A, Nielsen KL, Tyson GW, Nielsen PH.

Nat Biotechnol. 2013 Jun;31(6):533-8. doi: 10.1038/nbt.2579. Epub 2013 May 26.

PMID:
23707974
37.

Digging into the extracellular matrix of a complex microbial community using a combined metagenomic and metaproteomic approach.

Albertsen M, Stensballe A, Nielsen KL, Nielsen PH.

Water Sci Technol. 2013;67(7):1650-6. doi: 10.2166/wst.2013.030.

PMID:
23552257
38.

Transcriptome analysis suggests that starch synthesis may proceed via multiple metabolic routes in high yielding potato cultivars.

Kaminski KP, Petersen AH, Sønderkær M, Pedersen LH, Pedersen H, Feder C, Nielsen KL.

PLoS One. 2012;7(12):e51248. doi: 10.1371/journal.pone.0051248. Epub 2012 Dec 17.

39.

Quantitative proteomic analysis of ibuprofen-degrading Patulibacter sp. strain I11.

Almeida B, Kjeldal H, Lolas I, Knudsen AD, Carvalho G, Nielsen KL, Barreto Crespo MT, Stensballe A, Nielsen JL.

Biodegradation. 2013 Sep;24(5):615-30. doi: 10.1007/s10532-012-9610-5. Epub 2012 Dec 2.

PMID:
23212173
40.

A metabolic model for members of the genus Tetrasphaera involved in enhanced biological phosphorus removal.

Kristiansen R, Nguyen HT, Saunders AM, Nielsen JL, Wimmer R, Le VQ, McIlroy SJ, Petrovski S, Seviour RJ, Calteau A, Nielsen KL, Nielsen PH.

ISME J. 2013 Mar;7(3):543-54. doi: 10.1038/ismej.2012.136. Epub 2012 Nov 22.

41.

A model system for assessing and comparing the ability of exon microarray and tag sequencing to detect genes specific for malignant B-cells.

Kloster MB, Bilgrau AE, Rodrigo-Domingo M, Bergkvist KS, Schmitz A, Sønderkær M, Bødker JS, Falgreen S, Nyegaard M, Johnsen HE, Nielsen KL, Dybkaer K, Bøgsted M.

BMC Genomics. 2012 Nov 5;13:596. doi: 10.1186/1471-2164-13-596.

42.

Fitness cost: a bacteriological explanation for the demise of the first international methicillin-resistant Staphylococcus aureus epidemic.

Nielsen KL, Pedersen TM, Udekwu KI, Petersen A, Skov RL, Hansen LH, Hughes D, Frimodt-Møller N.

J Antimicrob Chemother. 2012 Jun;67(6):1325-32. doi: 10.1093/jac/dks051. Epub 2012 Feb 29.

PMID:
22378682
43.

The transcriptome of compatible and incompatible interactions of potato (Solanum tuberosum) with Phytophthora infestans revealed by DeepSAGE analysis.

Gyetvai G, Sønderkær M, Göbel U, Basekow R, Ballvora A, Imhoff M, Kersten B, Nielsen KL, Gebhardt C.

PLoS One. 2012;7(2):e31526. doi: 10.1371/journal.pone.0031526. Epub 2012 Feb 6.

44.

Digital gene expression profiling of primary acute lymphoblastic leukemia cells.

Nordlund J, Kiialainen A, Karlberg O, Berglund EC, Göransson-Kultima H, Sønderkær M, Nielsen KL, Gustafsson MG, Behrendtz M, Forestier E, Perkkiö M, Söderhäll S, Lönnerholm G, Syvänen AC.

Leukemia. 2012 Jun;26(6):1218-27. doi: 10.1038/leu.2011.358. Epub 2011 Dec 16.

45.

A metagenome of a full-scale microbial community carrying out enhanced biological phosphorus removal.

Albertsen M, Hansen LB, Saunders AM, Nielsen PH, Nielsen KL.

ISME J. 2012 Jun;6(6):1094-106. doi: 10.1038/ismej.2011.176. Epub 2011 Dec 15.

46.

Genome sequence and analysis of the tuber crop potato.

Potato Genome Sequencing Consortium, Xu X, Pan S, Cheng S, Zhang B, Mu D, Ni P, Zhang G, Yang S, Li R, Wang J, Orjeda G, Guzman F, Torres M, Lozano R, Ponce O, Martinez D, De la Cruz G, Chakrabarti SK, Patil VU, Skryabin KG, Kuznetsov BB, Ravin NV, Kolganova TV, Beletsky AV, Mardanov AV, Di Genova A, Bolser DM, Martin DM, Li G, Yang Y, Kuang H, Hu Q, Xiong X, Bishop GJ, Sagredo B, Mejía N, Zagorski W, Gromadka R, Gawor J, Szczesny P, Huang S, Zhang Z, Liang C, He J, Li Y, He Y, Xu J, Zhang Y, Xie B, Du Y, Qu D, Bonierbale M, Ghislain M, Herrera Mdel R, Giuliano G, Pietrella M, Perrotta G, Facella P, O'Brien K, Feingold SE, Barreiro LE, Massa GA, Diambra L, Whitty BR, Vaillancourt B, Lin H, Massa AN, Geoffroy M, Lundback S, DellaPenna D, Buell CR, Sharma SK, Marshall DF, Waugh R, Bryan GJ, Destefanis M, Nagy I, Milbourne D, Thomson SJ, Fiers M, Jacobs JM, Nielsen KL, Sønderkær M, Iovene M, Torres GA, Jiang J, Veilleux RE, Bachem CW, de Boer J, Borm T, Kloosterman B, van Eck H, Datema E, Hekkert Bt, Goverse A, van Ham RC, Visser RG.

Nature. 2011 Jul 10;475(7355):189-95. doi: 10.1038/nature10158.

PMID:
21743474
47.

Reduced expression of the DOG1 gene in Arabidopsis mutant seeds lacking the transcript elongation factor TFIIS.

Mortensen SA, Sønderkær M, Lynggaard C, Grasser M, Nielsen KL, Grasser KD.

FEBS Lett. 2011 Jun 23;585(12):1929-33. doi: 10.1016/j.febslet.2011.04.077. Epub 2011 May 8.

48.

The role of membrane properties in Mistic folding and dimerisation.

Debnath DK, Basaiawmoit RV, Nielsen KL, Otzen DE.

Protein Eng Des Sel. 2011 Jan;24(1-2):89-97. doi: 10.1093/protein/gzq095. Epub 2010 Nov 22.

PMID:
21097953
49.

Functional amyloid in Pseudomonas.

Dueholm MS, Petersen SV, Sønderkær M, Larsen P, Christiansen G, Hein KL, Enghild JJ, Nielsen JL, Nielsen KL, Nielsen PH, Otzen DE.

Mol Microbiol. 2010 Aug;77(4):1009-20. doi: 10.1111/j.1365-2958.2010.07269.x. Epub 2010 Jun 21.

50.

Characterization and transfer studies of macrolide resistance genes in Streptococcus pneumoniae from Denmark.

Nielsen KL, Hammerum AM, Lambertsen LM, Lester CH, Arpi M, Knudsen JD, Stegger M, Tolker-Nielsen T, Frimodt-Møller N.

Scand J Infect Dis. 2010 Aug;42(8):586-93. doi: 10.3109/00365541003754451.

PMID:
20429715

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