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Items: 46

1.

Gene Expansion and Positive Selection as Bacterial Adaptations to Oligotrophic Conditions.

Props R, Monsieurs P, Vandamme P, Leys N, Denef VJ, Boon N.

mSphere. 2019 Feb 6;4(1). pii: e00011-19. doi: 10.1128/mSphereDirect.00011-19.

2.

Genomic and Transcriptomic Changes that Mediate Increased Platinum Resistance in Cupriavidus metallidurans.

Ali MM, Provoost A, Maertens L, Leys N, Monsieurs P, Charlier D, Houdt RV.

Genes (Basel). 2019 Jan 18;10(1). pii: E63. doi: 10.3390/genes10010063.

3.

Unintentional Genomic Changes Endow Cupriavidus metallidurans with an Augmented Heavy-Metal Resistance.

Millacura FA, Janssen PJ, Monsieurs P, Janssen A, Provoost A, Van Houdt R, Rojas LA.

Genes (Basel). 2018 Nov 13;9(11). pii: E551. doi: 10.3390/genes9110551.

4.

Cupriavidus metallidurans Strains with Different Mobilomes and from Distinct Environments Have Comparable Phenomes.

Van Houdt R, Provoost A, Van Assche A, Leys N, Lievens B, Mijnendonckx K, Monsieurs P.

Genes (Basel). 2018 Oct 18;9(10). pii: E507. doi: 10.3390/genes9100507.

5.

Characterization of the bacterial communities on recent Icelandic volcanic deposits of different ages.

Byloos B, Monsieurs P, Mysara M, Leys N, Boon N, Van Houdt R.

BMC Microbiol. 2018 Sep 24;18(1):122. doi: 10.1186/s12866-018-1262-0.

6.

Intrapulmonary percussive ventilation improves lung function in cystic fibrosis patients chronically colonized with Pseudomonas aeruginosa: a pilot cross-over study.

Dingemans J, Eyns H, Willekens J, Monsieurs P, Van Houdt R, Cornelis P, Malfroot A, Crabbé A.

Eur J Clin Microbiol Infect Dis. 2018 Jun;37(6):1143-1151. doi: 10.1007/s10096-018-3232-8. Epub 2018 Mar 20.

PMID:
29560543
7.

From reads to operational taxonomic units: an ensemble processing pipeline for MiSeq amplicon sequencing data.

Mysara M, Njima M, Leys N, Raes J, Monsieurs P.

Gigascience. 2017 Feb 1;6(2):1-10. doi: 10.1093/gigascience/giw017.

8.

Reconciliation between operational taxonomic units and species boundaries.

Mysara M, Vandamme P, Props R, Kerckhof FM, Leys N, Boon N, Raes J, Monsieurs P.

FEMS Microbiol Ecol. 2017 Apr 1;93(4). doi: 10.1093/femsec/fix029.

9.

Absolute quantification of microbial taxon abundances.

Props R, Kerckhof FM, Rubbens P, De Vrieze J, Hernandez Sanabria E, Waegeman W, Monsieurs P, Hammes F, Boon N.

ISME J. 2017 Feb;11(2):584-587. doi: 10.1038/ismej.2016.117. Epub 2016 Sep 9.

10.

Effect of Shear Stress on Pseudomonas aeruginosa Isolated from the Cystic Fibrosis Lung.

Dingemans J, Monsieurs P, Yu SH, Crabbé A, Förstner KU, Malfroot A, Cornelis P, Van Houdt R.

MBio. 2016 Aug 2;7(4). pii: e00813-16. doi: 10.1128/mBio.00813-16.

11.

IPED: a highly efficient denoising tool for Illumina MiSeq Paired-end 16S rRNA gene amplicon sequencing data.

Mysara M, Leys N, Raes J, Monsieurs P.

BMC Bioinformatics. 2016 Apr 29;17(1):192. doi: 10.1186/s12859-016-1061-2.

12.

Zinc-Induced Transposition of Insertion Sequence Elements Contributes to Increased Adaptability of Cupriavidus metallidurans.

Vandecraen J, Monsieurs P, Mergeay M, Leys N, Aertsen A, Van Houdt R.

Front Microbiol. 2016 Mar 23;7:359. doi: 10.3389/fmicb.2016.00359. eCollection 2016.

13.

The first draft genome of the aquatic model plant Lemna minor opens the route for future stress physiology research and biotechnological applications.

Van Hoeck A, Horemans N, Monsieurs P, Cao HX, Vandenhove H, Blust R.

Biotechnol Biofuels. 2015 Nov 25;8:188. doi: 10.1186/s13068-015-0381-1. eCollection 2015.

14.

Radiation sensitivity of the gastrula-stage embryo: Chromosome aberrations and mutation induction in lacZ transgenic mice: The roles of DNA double-strand break repair systems.

Jacquet P, van Buul P, van Duijn-Goedhart A, Reynaud K, Buset J, Neefs M, Michaux A, Monsieurs P, de Boer P, Baatout S.

Mutat Res Genet Toxicol Environ Mutagen. 2015 Oct;792:26-34. doi: 10.1016/j.mrgentox.2015.09.001. Epub 2015 Sep 9.

PMID:
26433259
15.

Temporal Gene Expression of the Cyanobacterium Arthrospira in Response to Gamma Rays.

Badri H, Monsieurs P, Coninx I, Nauts R, Wattiez R, Leys N.

PLoS One. 2015 Aug 26;10(8):e0135565. doi: 10.1371/journal.pone.0135565. eCollection 2015.

16.

Trade-Off between Growth and Carbohydrate Accumulation in Nutrient-Limited Arthrospira sp. PCC 8005 Studied by Integrating Transcriptomic and Proteomic Approaches.

Depraetere O, Deschoenmaeker F, Badri H, Monsieurs P, Foubert I, Leys N, Wattiez R, Muylaert K.

PLoS One. 2015 Jul 21;10(7):e0132461. doi: 10.1371/journal.pone.0132461. eCollection 2015.

17.

NoDe: a fast error-correction algorithm for pyrosequencing amplicon reads.

Mysara M, Leys N, Raes J, Monsieurs P.

BMC Bioinformatics. 2015 Mar 15;16:88. doi: 10.1186/s12859-015-0520-5.

18.

Genome-wide transcriptional analysis suggests hydrogenase- and nitrogenase-mediated hydrogen production in Clostridium butyricum CWBI 1009.

Calusinska M, Hamilton C, Monsieurs P, Mathy G, Leys N, Franck F, Joris B, Thonart P, Hiligsmann S, Wilmotte A.

Biotechnol Biofuels. 2015 Feb 22;8:27. doi: 10.1186/s13068-015-0203-5. eCollection 2015.

19.

Molecular investigation of the radiation resistance of edible cyanobacterium Arthrospira sp. PCC 8005.

Badri H, Monsieurs P, Coninx I, Wattiez R, Leys N.

Microbiologyopen. 2015 Apr;4(2):187-207. doi: 10.1002/mbo3.229. Epub 2015 Feb 12.

20.

CATCh, an ensemble classifier for chimera detection in 16S rRNA sequencing studies.

Mysara M, Saeys Y, Leys N, Raes J, Monsieurs P.

Appl Environ Microbiol. 2015 Mar;81(5):1573-84. doi: 10.1128/AEM.02896-14. Epub 2014 Dec 19.

21.

Draft Genome Sequences of Ralstonia pickettii Strains SSH4 and CW2, Isolated from Space Equipment.

Monsieurs P, Mijnendonckx K, Provoost A, Venkateswaran K, Ott CM, Leys N, Van Houdt R.

Genome Announc. 2014 Sep 4;2(5). pii: e00887-14. doi: 10.1128/genomeA.00887-14.

22.

Snow surface microbiome on the High Antarctic Plateau (DOME C).

Michaud L, Lo Giudice A, Mysara M, Monsieurs P, Raffa C, Leys N, Amalfitano S, Van Houdt R.

PLoS One. 2014 Aug 7;9(8):e104505. doi: 10.1371/journal.pone.0104505. eCollection 2014.

23.

Genome Sequences of Cupriavidus metallidurans Strains NA1, NA4, and NE12, Isolated from Space Equipment.

Monsieurs P, Mijnendonckx K, Provoost A, Venkateswaran K, Ott CM, Leys N, Van Houdt R.

Genome Announc. 2014 Jul 24;2(4). pii: e00719-14. doi: 10.1128/genomeA.00719-14.

24.

Intensity modulated radiotherapy induces pro-inflammatory and pro-survival responses in prostate cancer patients.

El-Saghire H, Vandevoorde C, Ost P, Monsieurs P, Michaux A, De Meerleer G, Baatout S, Thierens H.

Int J Oncol. 2014 Apr;44(4):1073-83. doi: 10.3892/ijo.2014.2260. Epub 2014 Jan 17.

25.

Genome Sequence of Cupriavidus metallidurans Strain H1130, Isolated from an Invasive Human Infection.

Monsieurs P, Provoost A, Mijnendonckx K, Leys N, Gaudreau C, Van Houdt R.

Genome Announc. 2013 Dec 12;1(6). pii: e01051-13. doi: 10.1128/genomeA.01051-13.

26.

Gene set enrichment analysis highlights different gene expression profiles in whole blood samples X-irradiated with low and high doses.

El-Saghire H, Thierens H, Monsieurs P, Michaux A, Vandevoorde C, Baatout S.

Int J Radiat Biol. 2013 Aug;89(8):628-38. doi: 10.3109/09553002.2013.782448. Epub 2013 Apr 16.

PMID:
23484538
27.

Variation in genomic islands contribute to genome plasticity in Cupriavidus metallidurans.

Van Houdt R, Monsieurs P, Mijnendonckx K, Provoost A, Janssen A, Mergeay M, Leys N.

BMC Genomics. 2012 Mar 23;13:111. doi: 10.1186/1471-2164-13-111.

28.

Low dose irradiation of thyroid cells reveals a unique transcriptomic and epigenetic signature in RET/PTC-positive cells.

Abou-El-Ardat K, Monsieurs P, Anastasov N, Atkinson M, Derradji H, De Meyer T, Bekaert S, Van Criekinge W, Baatout S.

Mutat Res. 2012 Mar 1;731(1-2):27-40. doi: 10.1016/j.mrfmmm.2011.10.006. Epub 2011 Oct 20.

PMID:
22027090
29.

Heavy metal resistance in Cupriavidus metallidurans CH34 is governed by an intricate transcriptional network.

Monsieurs P, Moors H, Van Houdt R, Janssen PJ, Janssen A, Coninx I, Mergeay M, Leys N.

Biometals. 2011 Dec;24(6):1133-51. doi: 10.1007/s10534-011-9473-y. Epub 2011 Jun 25.

PMID:
21706166
30.

Insertion sequence elements in Cupriavidus metallidurans CH34: distribution and role in adaptation.

Mijnendonckx K, Provoost A, Monsieurs P, Leys N, Mergeay M, Mahillon J, Van Houdt R.

Plasmid. 2011 May;65(3):193-203. doi: 10.1016/j.plasmid.2010.12.006. Epub 2010 Dec 24.

PMID:
21185859
31.

Transcriptional and proteomic responses of Pseudomonas aeruginosa PAO1 to spaceflight conditions involve Hfq regulation and reveal a role for oxygen.

Crabbé A, Schurr MJ, Monsieurs P, Morici L, Schurr J, Wilson JW, Ott CM, Tsaprailis G, Pierson DL, Stefanyshyn-Piper H, Nickerson CA.

Appl Environ Microbiol. 2011 Feb;77(4):1221-30. doi: 10.1128/AEM.01582-10. Epub 2010 Dec 17.

32.

The complete genome sequence of Cupriavidus metallidurans strain CH34, a master survivalist in harsh and anthropogenic environments.

Janssen PJ, Van Houdt R, Moors H, Monsieurs P, Morin N, Michaux A, Benotmane MA, Leys N, Vallaeys T, Lapidus A, Monchy S, Médigue C, Taghavi S, McCorkle S, Dunn J, van der Lelie D, Mergeay M.

PLoS One. 2010 May 5;5(5):e10433. doi: 10.1371/journal.pone.0010433.

33.

Toxicogenomic response of Rhodospirillum rubrum S1H to the micropollutant triclosan.

Pycke BF, Vanermen G, Monsieurs P, De Wever H, Mergeay M, Verstraete W, Leys N.

Appl Environ Microbiol. 2010 Jun;76(11):3503-13. doi: 10.1128/AEM.01254-09. Epub 2010 Apr 2.

34.

Response of Pseudomonas aeruginosa PAO1 to low shear modelled microgravity involves AlgU regulation.

Crabbé A, Pycke B, Van Houdt R, Monsieurs P, Nickerson C, Leys N, Cornelis P.

Environ Microbiol. 2010 Jun;12(6):1545-64. doi: 10.1111/j.1462-2920.2010.02184.x. Epub 2010 Mar 5.

PMID:
20236169
35.

Inferring the transcriptional network of Bacillus subtilis.

Fadda A, Fierro AC, Lemmens K, Monsieurs P, Engelen K, Marchal K.

Mol Biosyst. 2009 Dec;5(12):1840-52. doi: 10.1039/b907310h. Epub 2009 Jul 28.

PMID:
20023724
36.

Mechanisms of gold biomineralization in the bacterium Cupriavidus metallidurans.

Reith F, Etschmann B, Grosse C, Moors H, Benotmane MA, Monsieurs P, Grass G, Doonan C, Vogt S, Lai B, Martinez-Criado G, George GN, Nies DH, Mergeay M, Pring A, Southam G, Brugger J.

Proc Natl Acad Sci U S A. 2009 Oct 20;106(42):17757-62. doi: 10.1073/pnas.0904583106. Epub 2009 Oct 7.

37.

The condition-dependent transcriptional network in Escherichia coli.

Lemmens K, De Bie T, Dhollander T, Monsieurs P, De Moor B, Collado-Vides J, Engelen K, Marchal K.

Ann N Y Acad Sci. 2009 Mar;1158:29-35. doi: 10.1111/j.1749-6632.2008.03746.x.

PMID:
19348629
38.

Inferring transcriptional modules from ChIP-chip, motif and microarray data.

Lemmens K, Dhollander T, De Bie T, Monsieurs P, Engelen K, Smets B, Winderickx J, De Moor B, Marchal K.

Genome Biol. 2006;7(5):R37. Epub 2006 May 5.

39.

More robust detection of motifs in coexpressed genes by using phylogenetic information.

Monsieurs P, Thijs G, Fadda AA, De Keersmaecker SC, Vanderleyden J, De Moor B, Marchal K.

BMC Bioinformatics. 2006 Mar 20;7:160.

40.

A novel approach to identifying regulatory motifs in distantly related genomes.

Van Hellemont R, Monsieurs P, Thijs G, de Moor B, Van de Peer Y, Marchal K.

Genome Biol. 2005;6(13):R113. Epub 2005 Dec 30.

41.

Comparison of the PhoPQ regulon in Escherichia coli and Salmonella typhimurium.

Monsieurs P, De Keersmaecker S, Navarre WW, Bader MW, De Smet F, McClelland M, Fang FC, De Moor B, Vanderleyden J, Marchal K.

J Mol Evol. 2005 Apr;60(4):462-74.

PMID:
15883881
42.

Discovering transcriptional modules from motif, chip-chip and microarray data.

De Bie T, Monsieurs P, Engelen K, De Moor B, Cristianini N, Marchal K.

Pac Symp Biocomput. 2005:483-94.

43.

Peptide signal molecules and bacteriocins in Gram-negative bacteria: a genome-wide in silico screening for peptides containing a double-glycine leader sequence and their cognate transporters.

Dirix G, Monsieurs P, Dombrecht B, Daniels R, Marchal K, Vanderleyden J, Michiels J.

Peptides. 2004 Sep;25(9):1425-40. Review.

PMID:
15374646
44.

Screening genomes of Gram-positive bacteria for double-glycine-motif-containing peptides.

Dirix G, Monsieurs P, Marchal K, Vanderleyden J, Michiels J.

Microbiology. 2004 May;150(Pt 5):1121-6. No abstract available.

PMID:
15133070
45.

In silico identification and experimental validation of PmrAB targets in Salmonella typhimurium by regulatory motif detection.

Marchal K, De Keersmaecker S, Monsieurs P, van Boxel N, Lemmens K, Thijs G, Vanderleyden J, De Moor B.

Genome Biol. 2004;5(2):R9. Epub 2004 Jan 29.

46.

Genome-specific higher-order background models to improve motif detection.

Marchal K, Thijs G, De Keersmaecker S, Monsieurs P, De Moor B, Vanderleyden J.

Trends Microbiol. 2003 Feb;11(2):61-6.

PMID:
12598125

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