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Items: 1 to 50 of 166

1.

Enterococcus faecium genome dynamics during long-term asymptomatic patient gut colonization.

Bayjanov JR, Baan J, Rogers MRC, Troelstra A, Willems RJL, van Schaik W.

Microb Genom. 2019 Jun 5. doi: 10.1099/mgen.0.000277. [Epub ahead of print]

2.

Phylogenomics of Enterococcus faecalis from wild birds: new insights into host-associated differences in core and accessory genomes of the species.

León-Sampedro R, Del Campo R, Rodriguez-Baños M, Lanza VF, Pozuelo MJ, Francés-Cuesta C, Tedim AP, Freitas AR, Novais C, Peixe L, Willems RJL, Corander J, González Candelas F, Baquero F, Coque TM.

Environ Microbiol. 2019 Jun 4. doi: 10.1111/1462-2920.14702. [Epub ahead of print]

PMID:
31162871
3.

Corrigendum: mlplasmids: a user-friendly tool to predict plasmid- and chromosome-derived sequences for single species.

Arredondo-Alonso S, Rogers MRC, Braat JC, Verschuuren TD, Top J, Corander J, Willems RJL, Schürch AC.

Microb Genom. 2019 Jan;5(1). doi: 10.1099/mgen.0.000249. No abstract available.

4.

Enterococcus faecium TIR-Domain Genes Are Part of a Gene Cluster Which Promotes Bacterial Survival in Blood.

Wagner TM, Janice J, Paganelli FL, Willems RJ, Askarian F, Pedersen T, Top J, de Haas C, van Strijp JA, Johannessen M, Hegstad K.

Int J Microbiol. 2018 Dec 3;2018:1435820. doi: 10.1155/2018/1435820. eCollection 2018.

5.

Prediction of the intestinal resistome by a three-dimensional structure-based method.

Ruppé E, Ghozlane A, Tap J, Pons N, Alvarez AS, Maziers N, Cuesta T, Hernando-Amado S, Clares I, Martínez JL, Coque TM, Baquero F, Lanza VF, Máiz L, Goulenok T, de Lastours V, Amor N, Fantin B, Wieder I, Andremont A, van Schaik W, Rogers M, Zhang X, Willems RJL, de Brevern AG, Batto JM, Blottière HM, Léonard P, Léjard V, Letur A, Levenez F, Weiszer K, Haimet F, Doré J, Kennedy SP, Ehrlich SD.

Nat Microbiol. 2019 Jan;4(1):112-123. doi: 10.1038/s41564-018-0292-6. Epub 2018 Nov 26.

PMID:
30478291
6.

mlplasmids: a user-friendly tool to predict plasmid- and chromosome-derived sequences for single species.

Arredondo-Alonso S, Rogers MRC, Braat JC, Verschuuren TD, Top J, Corander J, Willems RJL, Schürch AC.

Microb Genom. 2018 Nov;4(11). doi: 10.1099/mgen.0.000224. Epub 2018 Nov 1. Erratum in: Microb Genom. 2019 Jan;5(1):.

7.

Modelling Cryptosporidium infection in human small intestinal and lung organoids.

Heo I, Dutta D, Schaefer DA, Iakobachvili N, Artegiani B, Sachs N, Boonekamp KE, Bowden G, Hendrickx APA, Willems RJL, Peters PJ, Riggs MW, O'Connor R, Clevers H.

Nat Microbiol. 2018 Jul;3(7):814-823. doi: 10.1038/s41564-018-0177-8. Epub 2018 Jun 25.

8.

Group IIA-Secreted Phospholipase A2 in Human Serum Kills Commensal but Not Clinical Enterococcus faecium Isolates.

Paganelli FL, Leavis HL, He S, van Sorge NM, Payré C, Lambeau G, Willems RJL, Rooijakkers SHM.

Infect Immun. 2018 Jul 23;86(8). pii: e00180-18. doi: 10.1128/IAI.00180-18. Print 2018 Aug.

9.

Limited influence of hospital wastewater on the microbiome and resistome of wastewater in a community sewerage system.

Buelow E, Bayjanov JR, Majoor E, Willems RJ, Bonten MJ, Schmitt H, van Schaik W.

FEMS Microbiol Ecol. 2018 Jul 1;94(7). doi: 10.1093/femsec/fiy087.

PMID:
29767712
10.

De novo identification of lipid II binding lipopeptides with antibacterial activity against vancomycin-resistant bacteria.

't Hart P, Wood TM, Tehrani KHME, van Harten RM, Śleszyńska M, Rentero Rebollo I, Hendrickx APA, Willems RJL, Breukink E, Martin NI.

Chem Sci. 2017 Dec 1;8(12):7991-7997. doi: 10.1039/c7sc03413j. Epub 2017 Oct 2.

11.

Primary murine mucosal response during cephalosporin-induced intestinal colonization by Enterococcus faecium.

Hendrickx APA, van de Kamer D, Willems RJL.

Microbiologyopen. 2018 Oct;7(5):e00602. doi: 10.1002/mbo3.602. Epub 2018 Feb 27.

12.

In-depth resistome analysis by targeted metagenomics.

Lanza VF, Baquero F, Martínez JL, Ramos-Ruíz R, González-Zorn B, Andremont A, Sánchez-Valenzuela A, Ehrlich SD, Kennedy S, Ruppé E, van Schaik W, Willems RJ, de la Cruz F, Coque TM.

Microbiome. 2018 Jan 15;6(1):11. doi: 10.1186/s40168-017-0387-y.

13.

Identification of a Novel Genomic Island Associated with vanD-Type Vancomycin Resistance in Six Dutch Vancomycin-Resistant Enterococcus faecium Isolates.

Top J, Sinnige JC, Brouwer EC, Werner G, Corander J, Severin JA, Jansen R, Bathoorn E, Bonten MJM, Rossen JWA, Willems RJL.

Antimicrob Agents Chemother. 2018 Feb 23;62(3). pii: e01793-17. doi: 10.1128/AAC.01793-17. Print 2018 Mar.

14.

Whole genome sequencing options for bacterial strain typing and epidemiologic analysis based on single nucleotide polymorphism versus gene-by-gene-based approaches.

Schürch AC, Arredondo-Alonso S, Willems RJL, Goering RV.

Clin Microbiol Infect. 2018 Apr;24(4):350-354. doi: 10.1016/j.cmi.2017.12.016. Epub 2018 Jan 5. Review.

15.

Intestinal carriage of ampicillin- and vancomycin-resistant Enterococcus faecium in humans, dogs and cats in the Netherlands.

van den Bunt G, Top J, Hordijk J, de Greeff SC, Mughini-Gras L, Corander J, van Pelt W, Bonten MJM, Fluit AC, Willems RJL.

J Antimicrob Chemother. 2018 Mar 1;73(3):607-614. doi: 10.1093/jac/dkx455.

PMID:
29294027
16.

On the (im)possibility of reconstructing plasmids from whole-genome short-read sequencing data.

Arredondo-Alonso S, Willems RJ, van Schaik W, Schürch AC.

Microb Genom. 2017 Aug 18;3(10):e000128. doi: 10.1099/mgen.0.000128. eCollection 2017 Oct.

17.

RNA-seq and Tn-seq reveal fitness determinants of vancomycin-resistant Enterococcus faecium during growth in human serum.

Zhang X, de Maat V, Guzmán Prieto AM, Prajsnar TK, Bayjanov JR, de Been M, Rogers MRC, Bonten MJM, Mesnage S, Willems RJL, van Schaik W.

BMC Genomics. 2017 Nov 21;18(1):893. doi: 10.1186/s12864-017-4299-9.

18.

Characterization of Enterococcus Isolates Colonizing the Intestinal Tract of Intensive Care Unit Patients Receiving Selective Digestive Decontamination.

Bello Gonzalez TDJ, Pham P, Top J, Willems RJL, van Schaik W, van Passel MWJ, Smidt H.

Front Microbiol. 2017 Aug 28;8:1596. doi: 10.3389/fmicb.2017.01596. eCollection 2017.

19.

Comparative gut microbiota and resistome profiling of intensive care patients receiving selective digestive tract decontamination and healthy subjects.

Buelow E, Bello González TDJ, Fuentes S, de Steenhuijsen Piters WAA, Lahti L, Bayjanov JR, Majoor EAM, Braat JC, van Mourik MSM, Oostdijk EAN, Willems RJL, Bonten MJM, van Passel MWJ, Smidt H, van Schaik W.

Microbiome. 2017 Aug 14;5(1):88. doi: 10.1186/s40168-017-0309-z.

20.

The Two-Component System ChtRS Contributes to Chlorhexidine Tolerance in Enterococcus faecium.

Guzmán Prieto AM, Wijngaarden J, Braat JC, Rogers MRC, Majoor E, Brouwer EC, Zhang X, Bayjanov JR, Bonten MJM, Willems RJL, van Schaik W.

Antimicrob Agents Chemother. 2017 Apr 24;61(5). pii: e02122-16. doi: 10.1128/AAC.02122-16. Print 2017 May.

21.

Multidrug-Resistant Enterococcal Infections: New Compounds, Novel Antimicrobial Therapies?

van Harten RM, Willems RJL, Martin NI, Hendrickx APA.

Trends Microbiol. 2017 Jun;25(6):467-479. doi: 10.1016/j.tim.2017.01.004. Epub 2017 Feb 13. Review.

PMID:
28209400
22.

Lipoteichoic acid synthesis inhibition in combination with antibiotics abrogates growth of multidrug-resistant Enterococcus faecium.

Paganelli FL, van de Kamer T, Brouwer EC, Leavis HL, Woodford N, Bonten MJ, Willems RJ, Hendrickx AP.

Int J Antimicrob Agents. 2017 Mar;49(3):355-363. doi: 10.1016/j.ijantimicag.2016.12.002. Epub 2017 Feb 7.

PMID:
28188831
23.

Whole-Genome Multilocus Sequence Typing of Extended-Spectrum-Beta-Lactamase-Producing Enterobacteriaceae.

Kluytmans-van den Bergh MF, Rossen JW, Bruijning-Verhagen PC, Bonten MJ, Friedrich AW, Vandenbroucke-Grauls CM, Willems RJ, Kluytmans JA.

J Clin Microbiol. 2016 Dec;54(12):2919-2927. Epub 2016 Sep 14.

24.

Multilevel population genetic analysis of vanA and vanB Enterococcus faecium causing nosocomial outbreaks in 27 countries (1986-2012).

Freitas AR, Tedim AP, Francia MV, Jensen LB, Novais C, Peixe L, Sánchez-Valenzuela A, Sundsfjord A, Hegstad K, Werner G, Sadowy E, Hammerum AM, Garcia-Migura L, Willems RJ, Baquero F, Coque TM.

J Antimicrob Chemother. 2016 Dec;71(12):3351-3366. Epub 2016 Aug 15.

PMID:
27530756
25.

Global Emergence and Dissemination of Enterococci as Nosocomial Pathogens: Attack of the Clones?

Guzman Prieto AM, van Schaik W, Rogers MR, Coque TM, Baquero F, Corander J, Willems RJ.

Front Microbiol. 2016 May 26;7:788. doi: 10.3389/fmicb.2016.00788. eCollection 2016. Review.

26.

Complete Genome Sequence of Enterococcus faecium Commensal Isolate E1002.

Tytgat HL, Douillard FP, Laine PK, Paulin L, Willems RJ, de Vos WM.

Genome Announc. 2016 Mar 17;4(2). pii: e00113-16. doi: 10.1128/genomeA.00113-16.

27.

Genome-wide Screening Identifies Phosphotransferase System Permease BepA to Be Involved in Enterococcus faecium Endocarditis and Biofilm Formation.

Paganelli FL, Huebner J, Singh KV, Zhang X, van Schaik W, Wobser D, Braat JC, Murray BE, Bonten MJ, Willems RJ, Leavis HL.

J Infect Dis. 2016 Jul 15;214(2):189-95. doi: 10.1093/infdis/jiw108. Epub 2016 Mar 16.

PMID:
26984142
28.

The impact of host metapopulation structure on the population genetics of colonizing bacteria.

Numminen E, Gutmann M, Shubin M, Marttinen P, Méric G, van Schaik W, Coque TM, Baquero F, Willems RJ, Sheppard SK, Feil EJ, Hanage WP, Corander J.

J Theor Biol. 2016 May 7;396:53-62. doi: 10.1016/j.jtbi.2016.02.019. Epub 2016 Feb 23.

PMID:
26916623
29.

The N-terminal domain of the thermo-regulated surface protein PrpA of Enterococcus faecium binds to fibrinogen, fibronectin and platelets.

Guzmán Prieto AM, Urbanus RT, Zhang X, Bierschenk D, Koekman CA, van Luit-Asbroek M, Ouwerkerk JP, Pape M, Paganelli FL, Wobser D, Huebner J, Hendrickx AP, Bonten MJ, Willems RJ, van Schaik W.

Sci Rep. 2015 Dec 17;5:18255. doi: 10.1038/srep18255.

30.

Antibiotic-Driven Dysbiosis Mediates Intraluminal Agglutination and Alternative Segregation of Enterococcus faecium from the Intestinal Epithelium.

Hendrickx AP, Top J, Bayjanov JR, Kemperman H, Rogers MR, Paganelli FL, Bonten MJ, Willems RJ.

MBio. 2015 Nov 10;6(6):e01346-15. doi: 10.1128/mBio.01346-15.

31.

Core Genome Multilocus Sequence Typing Scheme for High- Resolution Typing of Enterococcus faecium.

de Been M, Pinholt M, Top J, Bletz S, Mellmann A, van Schaik W, Brouwer E, Rogers M, Kraat Y, Bonten M, Corander J, Westh H, Harmsen D, Willems RJ.

J Clin Microbiol. 2015 Dec;53(12):3788-97.

32.

Growth condition-dependent cell surface proteome analysis of Enterococcus faecium.

Sinnige JC, de Been M, Zhou M, Bonten MJ, Willems RJ, Top J.

Proteomics. 2015 Nov;15(22):3806-14. doi: 10.1002/pmic.201500138. Epub 2015 Oct 2.

PMID:
26316380
33.

Distinct SagA from Hospital-Associated Clade A1 Enterococcus faecium Strains Contributes to Biofilm Formation.

Paganelli FL, de Been M, Braat JC, Hoogenboezem T, Vink C, Bayjanov J, Rogers MR, Huebner J, Bonten MJ, Willems RJ, Leavis HL.

Appl Environ Microbiol. 2015 Oct;81(19):6873-82. doi: 10.1128/AEM.01716-15. Epub 2015 Jul 24.

34.

Environmental survival of vancomycin-sensitive ampicillin-resistant Enterococcus faecium (AREfm).

Wagenvoort JH, De Brauwer EI, Penders RJ, van der Linden CJ, Willems RJ, Top J, Bonten MJ.

Eur J Clin Microbiol Infect Dis. 2015 Sep;34(9):1901-3. doi: 10.1007/s10096-015-2430-x. Epub 2015 Jul 21.

PMID:
26194692
35.

Semisynthetic Lipopeptides Derived from Nisin Display Antibacterial Activity and Lipid II Binding on Par with That of the Parent Compound.

Koopmans T, Wood TM, 't Hart P, Kleijn LH, Hendrickx AP, Willems RJ, Breukink E, Martin NI.

J Am Chem Soc. 2015 Jul 29;137(29):9382-9. doi: 10.1021/jacs.5b04501. Epub 2015 Jul 14.

PMID:
26122963
36.

What Is the Origin of Livestock-Associated Methicillin-Resistant Staphylococcus aureus Clonal Complex 398 Isolates from Humans without Livestock Contact? An Epidemiological and Genetic Analysis.

Lekkerkerk WS, van Wamel WJ, Snijders SV, Willems RJ, van Duijkeren E, Broens EM, Wagenaar JA, Lindsay JA, Vos MC.

J Clin Microbiol. 2015 Jun;53(6):1836-41. doi: 10.1128/JCM.02702-14. Epub 2015 Mar 25.

37.

A genomic virulence reference map of Enterococcus faecalis reveals an important contribution of phage03-like elements in nosocomial genetic lineages to pathogenicity in a Caenorhabditis elegans infection model.

La Rosa SL, Snipen LG, Murray BE, Willems RJ, Gilmore MS, Diep DB, Nes IF, Brede DA.

Infect Immun. 2015 May;83(5):2156-67. doi: 10.1128/IAI.02801-14. Epub 2015 Mar 16.

38.

Population biology of intestinal enterococcus isolates from hospitalized and nonhospitalized individuals in different age groups.

Tedim AP, Ruiz-Garbajosa P, Corander J, Rodríguez CM, Cantón R, Willems RJ, Baquero F, Coque TM.

Appl Environ Microbiol. 2015 Mar;81(5):1820-31. doi: 10.1128/AEM.03661-14. Epub 2014 Dec 29.

39.

Dissemination of cephalosporin resistance genes between Escherichia coli strains from farm animals and humans by specific plasmid lineages.

de Been M, Lanza VF, de Toro M, Scharringa J, Dohmen W, Du Y, Hu J, Lei Y, Li N, Tooming-Klunderud A, Heederik DJ, Fluit AC, Bonten MJ, Willems RJ, de la Cruz F, van Schaik W.

PLoS Genet. 2014 Dec 18;10(12):e1004776. doi: 10.1371/journal.pgen.1004776. eCollection 2014 Dec.

40.

Comparison of an ST80 MRSA strain from the USA with European ST80 strains.

Fluit AC, Carpaij N, Majoor EA, Weinstein RA, Aroutcheva A, Rice TW, Bonten MJ, Willems RJ.

J Antimicrob Chemother. 2015 Mar;70(3):664-9. doi: 10.1093/jac/dku459. Epub 2014 Nov 13.

PMID:
25395549
41.

Effects of selective digestive decontamination (SDD) on the gut resistome.

Buelow E, Gonzalez TB, Versluis D, Oostdijk EA, Ogilvie LA, van Mourik MS, Oosterink E, van Passel MW, Smidt H, D'Andrea MM, de Been M, Jones BV, Willems RJ, Bonten MJ, van Schaik W.

J Antimicrob Chemother. 2014 Aug;69(8):2215-23. doi: 10.1093/jac/dku092. Epub 2014 Apr 7.

PMID:
24710024
42.

Enterococcus Diversity, Origins in Nature, and Gut Colonization.

Lebreton F, Willems RJL, Gilmore MS.

In: Gilmore MS, Clewell DB, Ike Y, Shankar N, editors. Enterococci: From Commensals to Leading Causes of Drug Resistant Infection [Internet]. Boston: Massachusetts Eye and Ear Infirmary; 2014-.
2014 Feb 2.

43.

Enterococcal Genomics.

Palmer KL, van Schaik W, Willems RJL, Gilmore MS.

In: Gilmore MS, Clewell DB, Ike Y, Shankar N, editors. Enterococci: From Commensals to Leading Causes of Drug Resistant Infection [Internet]. Boston: Massachusetts Eye and Ear Infirmary; 2014-.
2014 Feb 8.

44.

Interventions to reduce colonisation and transmission of antimicrobial-resistant bacteria in intensive care units: an interrupted time series study and cluster randomised trial.

Derde LPG, Cooper BS, Goossens H, Malhotra-Kumar S, Willems RJL, Gniadkowski M, Hryniewicz W, Empel J, Dautzenberg MJD, Annane D, Aragão I, Chalfine A, Dumpis U, Esteves F, Giamarellou H, Muzlovic I, Nardi G, Petrikkos GL, Tomic V, Martí AT, Stammet P, Brun-Buisson C, Bonten MJM; MOSAR WP3 Study Team.

Lancet Infect Dis. 2014 Jan;14(1):31-39. doi: 10.1016/S1473-3099(13)70295-0. Epub 2013 Oct 23. Erratum in: Lancet Infect Dis. 2014 Jan;14(1):11.

45.

Emergence of epidemic multidrug-resistant Enterococcus faecium from animal and commensal strains.

Lebreton F, van Schaik W, McGuire AM, Godfrey P, Griggs A, Mazumdar V, Corander J, Cheng L, Saif S, Young S, Zeng Q, Wortman J, Birren B, Willems RJ, Earl AM, Gilmore MS.

MBio. 2013 Aug 20;4(4). pii: e00534-13. doi: 10.1128/mBio.00534-13.

46.

A LacI-family regulator activates maltodextrin metabolism of Enterococcus faecium.

Zhang X, Rogers M, Bierschenk D, Bonten MJ, Willems RJ, van Schaik W.

PLoS One. 2013 Aug 7;8(8):e72285. doi: 10.1371/journal.pone.0072285. eCollection 2013.

47.

The cell wall architecture of Enterococcus faecium: from resistance to pathogenesis.

Hendrickx AP, van Schaik W, Willems RJ.

Future Microbiol. 2013 Aug;8(8):993-1010. doi: 10.2217/fmb.13.66. Review.

PMID:
23902146
48.

Recent recombination events in the core genome are associated with adaptive evolution in Enterococcus faecium.

de Been M, van Schaik W, Cheng L, Corander J, Willems RJ.

Genome Biol Evol. 2013;5(8):1524-35. doi: 10.1093/gbe/evt111.

49.

The Enterococcus faecium enterococcal biofilm regulator, EbrB, regulates the esp operon and is implicated in biofilm formation and intestinal colonization.

Top J, Paganelli FL, Zhang X, van Schaik W, Leavis HL, van Luit-Asbroek M, van der Poll T, Leendertse M, Bonten MJ, Willems RJ.

PLoS One. 2013 May 31;8(5):e65224. doi: 10.1371/journal.pone.0065224. Print 2013.

50.

Functional genomic analysis of bile salt resistance in Enterococcus faecium.

Zhang X, Bierschenk D, Top J, Anastasiou I, Bonten MJ, Willems RJ, van Schaik W.

BMC Genomics. 2013 May 3;14:299. doi: 10.1186/1471-2164-14-299.

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