F. Hugenholtz PhD publications

2020

• Haak Bastiaan W., Westendorp Willeke F., van Engelen Tjitske S. R., Brands Xanthe, Brouwer Matthijs C., Vermeij Jan-Dirk, Hugenholtz Floor, Verhoeven Aswin, Derks Rico J., Giera Martin, Nederkoorn Paul J., de Vos Willem M., van de Beek Diederik, Wiersinga W. Joost Disruptions of Anaerobic Gut Bacteria Are Associated with Stroke and Post-stroke Infection: a Prospective Case–Control Study TRANSLATIONAL STROKE RESEARCH 2020 [PubMed]
• Jacobs Max C., Lankelma Jacqueline M., Wolff Nora S., Hugenholtz Floor, de Vos Alex F., van der Poll Tom, Wiersinga W. Joost Effect of antibiotic gut microbiota disruption on LPS-induced acute lung inflammation PLoS ONE 2020;15 (11 November) [PubMed]

2019

• Terpstra Matty L., Sinnige Marjan J., Hugenholtz Floor, Peters-Sengers Hessel, Remmerswaal Ester B. M., Geerlings Suzanne E., Bemelman Frederike J. Butyrate production in patients with end-stage renal disease International Journal of Nephrology and Renovascular Disease 2019;12:87-101 [PubMed]
• Birnie Emma, van’t Hof Senne, Bijnsdorp Anne, Mansaray Yembeh, Huizenga Erdi, van der Ende Arie, Hugenholtz Floor, Grobusch Martin P., Joost Wiersinga W. Identification of burkholderia Thailandensis with novel genotypes in the soil of central Sierra Leone PLoS neglected tropical diseases 2019;13 (6) [PubMed]
• Haak Bastiaan W., Lankelma Jacqueline M., Hugenholtz Floor, Belzer Clara, de Vos Willem M., Wiersinga W. Joost Long-term impact of oral vancomycin, ciprofloxacin and metronidazole on the gut microbiota in healthy humans Journal of antimicrobial chemotherapy 2019;74 (3):782-786 [PubMed]
• Cranendonk Duncan R., Hugenholtz Floor, Prins Jan M., Savelkoul Paul H. M., Budding Andries E., Wiersinga W. Joost, Hoepelman Andy I. M., Oosterheert Jan Jelrik, van Agtmael Michiel A., Branger Judith, Brinkman Kees, Lauw Fanny N., Pijlman Annemarie H., Sankatsing Sanjay U. C., Soetekouw Robin, Veenstra Jan, de Vries Peter J. The skin microbiota in patients hospitalized for cellulitis and association with outcome Clinical infectious diseases 2019;68 (8):1292-1299 [PubMed]

2018

• Atashgahi Siavash, Hornung Bastian, van der Waals Marcelle J., da Rocha Ulisses Nunes, Hugenholtz Floor, Nijsse Bart, Molenaar Douwe, van Spanning Rob, Stams Alfons J. M., Gerritse Jan, Smidt Hauke A benzene-degrading nitrate-reducing microbial consortium displays aerobic and anaerobic benzene degradation pathways Scientific reports 2018;8 (1) [PubMed]
• Elderman Marlies, Hugenholtz Floor, Belzer Clara, Boekschoten Mark, de Haan Bart, de Vos Paul, Faas Marijke Changes in intestinal gene expression and microbiota composition during late pregnancy are mouse strain dependent Scientific reports 2018;8 (1) [PubMed]
• Hugenholtz Floor, Davids Mark, Schwarz Jessica, Müller Michael, Tomé Daniel, Schaap Peter, Hooiveld Guido J. E. J., Smidt Hauke, Kleerebezem Michiel Metatranscriptome analysis of the microbial fermentation of dietary milk proteins in the murine gut PLoS ONE 2018;13 (4) [PubMed]
• Hugenholtz Floor, de Vos Willem M. Mouse models for human intestinal microbiota research: a critical evaluation Cellular and molecular life sciences 2018;75 (1):149-160 [PubMed]
• Baars Annemarie, Oosting Annemarie, Lohuis Mirjam, Koehorst Martijn, el Aidy Sahar, Hugenholtz Floor, Smidt Hauke, Mischke Mona, Boekschoten Mark V., Verkade Henkjan J., Garssen Johan, van der Beek Eline M., Knol Jan, de Vos Paul, van Bergenhenegouwen Jeroen, Fransen Floris Sex differences in lipid metabolism are affected by presence of the gut microbiota Scientific reports 2018;8 (1) [PubMed]
• Wolff Nora Suzanne, Hugenholtz Floor, Wiersinga Willem Joost The emerging role of the microbiota in the ICU Critical care (London, England) 2018;22 (1) [PubMed]

2017

• Fransen Floris, van Beek Adriaan A., Borghuis Theo, Aidy Sahar El, Hugenholtz Floor, van der Gaast-de Jongh Christa, Savelkoul Huub F. J., de Jonge Marien I., Boekschoten Mark V., Smidt Hauke, Faas Marijke M., de Vos Paul Aged Gut Microbiota Contributes to Systemical Inflammaging after Transfer to Germ-Free Mice Frontiers in immunology 2017;8:1385 [PubMed]
• Hugenholtz Floor, Ritari Jarmo, Nylund Lotta, Davids Mark, Satokari Reetta, de Vos Willem M. Feasibility of Metatranscriptome Analysis from Infant Gut Microbiota: Adaptation to Solid Foods Results in Increased Activity of Firmicutes at Six Months International journal of microbiology 2017;2017:9547063 [PubMed]
• van Beek Adriaan A., Hugenholtz Floor, Meijer Ben, Sovran Bruno, Perdijk Olaf, Vermeij Wilbert P., Brandt Renata M. C., Barnhoorn Sander, Hoeijmakers Jan H. J., de Vos Paul, Leenen Pieter J. M., Hendriks Rudi W., Savelkoul Huub F. J. Frontline Science: Tryptophan restriction arrests B cell development and enhances microbial diversity in WT and prematurely aging Ercc1-/Δ7 mice Journal of leukocyte biology 2017;101 (4):811-821 [PubMed]
• Jacobs Max C., Haak Bastiaan W., Hugenholtz Floor, Wiersinga W. Joost Gut microbiota and host defense in critical illness Current opinion in critical care 2017;23 (4):257-263 [PubMed]
• Xiao Liang, Sonne Si Brask, Feng Qiang, Chen Ning, Xia Zhongkui, Li Xiaoping, Fang Zhiwei, Zhang Dongya, Fjære Even, Midtbø Lisa Kolden, Derrien Muriel, Hugenholtz Floor, Tang Longqing, Li Junhua, Zhang Jianfeng, Liu Chuan, Hao Qin, Vogel Ulla Birgitte, Mortensen Alicja, Kleerebezem Michiel, Licht Tine Rask, Yang Huanming, Wang Jian, Li Yingrui, Arumugam Manimozhiyan, Wang Jun, Madsen Lise, Kristiansen Karsten High-fat feeding rather than obesity drives taxonomical and functional changes in the gut microbiota in mice Microbiome 2017;5 (1):43 [PubMed]
• Shetty Sudarshan A., Hugenholtz Floor, Lahti Leo, Smidt Hauke, de Vos Willem M. Intestinal microbiome landscaping: insight in community assemblage and implications for microbial modulation strategies FEMS microbiology reviews 2017;41 (2):182-199 [PubMed]
• Oberbach Andreas, Haange Sven-Bastiaan, Schlichting Nadine, Heinrich Marco, Lehmann Stefanie, Till Holger, Hugenholtz Floor, Kullnick Yvonne, Smidt Hauke, Frank Karin, Seifert Jana, Jehmlich Nico, von Bergen Martin Metabolic in Vivo Labeling Highlights Differences of Metabolically Active Microbes from the Mucosal Gastrointestinal Microbiome between High-Fat and Normal Chow Diet Journal of proteome research 2017;16 (4):1593-1604 [PubMed]
• Elderman Marlies, Sovran Bruno, Hugenholtz Floor, Graversen Katrine, Huijskes Myrte, Houtsma Eva, Belzer Clara, Boekschoten Mark, de Vos Paul, Dekker Jan, Wells Jerry, Faas Marijke The effect of age on the intestinal mucus thickness, microbiota composition and immunity in relation to sex in mice PLoS ONE 2017;12 (9):e0184274 [PubMed]
• Fransen Floris, van Beek Adriaan A., Borghuis Theo, Meijer Ben, Hugenholtz Floor, van der Gaast-de Jongh Christa, Savelkoul Huub F., de Jonge Marien I., Faas Marijke M., Boekschoten Mark V., Smidt Hauke, El Aidy Sahar, de Vos Paul The Impact of Gut Microbiota on Gender-Specific Differences in Immunity Frontiers in immunology 2017;8:754 [PubMed]
• Fransen Floris, Sahasrabudhe Neha M., Elderman Marlies, Bosveld Margaret, El Aidy Sahar, Hugenholtz Floor, Borghuis Theo, Kousemaker Ben, Winkel Simon, van der Gaast-de Jongh Christa, de Jonge Marien I., Boekschoten Mark V., Smidt Hauke, Schols Henk A., de Vos Paul β2→1-Fructans Modulate the Immune System In Vivo in a Microbiota-Dependent and -Independent Fashion Frontiers in immunology 2017;8:154 [PubMed]

2016

• Lagkouvardos Ilias, Pukall Rüdiger, Abt Birte, Foesel Bärbel U., Meier-Kolthoff Jan P., Kumar Neeraj, Bresciani Anne, Martínez Inés, Just Sarah, Ziegler Caroline, Brugiroux Sandrine, Garzetti Debora, Wenning Mareike, Bui Thi P. N., Wang Jun, Hugenholtz Floor, Plugge Caroline M., Peterson Daniel A., Hornef Mathias W., Baines John F., Smidt Hauke, Walter Jens, Kristiansen Karsten, Nielsen Henrik B., Haller Dirk, Overmann Jörg, Stecher Bärbel, Clavel Thomas Corrigendum: The Mouse Intestinal Bacterial Collection (miBC) provides host-specific insight into cultured diversity and functional potential of the gut microbiota Nature microbiology 2016;1 (11):16219 [PubMed]
• Kiilerich Pia, Myrmel Lene Secher, Fjære Even, Hao Qin, Hugenholtz Floor, Sonne Si Brask, Derrien Muriel, Pedersen Lone Møller, Petersen Rasmus Koefoed, Mortensen Alicja, Licht Tine Rask, Rømer Maria Unni, Vogel Ulla Birgitte, Waagbø Linn Jeanette, Giallourou Natasa, Feng Qiang, Xiao Liang, Liu Chuan, Liaset Bjørn, Kleerebezem Michiel, Wang Jun, Madsen Lise, Kristiansen Karsten Effect of a long-term high-protein diet on survival, obesity development, and gut microbiota in mice American journal of physiology. Endocrinology and metabolism 2016;310 (11):E886-E899 [PubMed]
• Davids Mark, Hugenholtz Floor, Martins dos Santos Vitor, Smidt Hauke, Kleerebezem Michiel, Schaap Peter J. Functional Profiling of Unfamiliar Microbial Communities Using a Validated De Novo Assembly Metatranscriptome Pipeline PLoS ONE 2016;11 (1):e0146423 [PubMed]
• Sovran Bruno, Lu Peng, Loonen Linda M. P., Hugenholtz Floor, Belzer Clara, Stolte Ellen H., Boekschoten Mark V., van Baarlen Peter, Smidt Hauke, Kleerebezem Michiel, de Vos Paul, Renes Ingrid B., Wells Jerry M., Dekker Jan Identification of Commensal Species Positively Correlated with Early Stress Responses to a Compromised Mucus Barrier Inflammatory bowel diseases 2016;22 (4):826-840 [PubMed]
• van Beek Adriaan A., Sovran Bruno, Hugenholtz Floor, Meijer Ben, Hoogerland Joanne A., Mihailova Violeta, van der Ploeg Corine, Belzer Clara, Boekschoten Mark V., Hoeijmakers Jan H. J., Vermeij Wilbert P., de Vos Paul, Wells Jerry M., Leenen Pieter J. M., Nicoletti Claudio, Hendriks Rudi W., Savelkoul Huub F. J. Supplementation with Lactobacillus plantarum WCFS1 Prevents Decline of Mucus Barrier in Colon of Accelerated Aging Ercc1-/Δ7 Mice Frontiers in immunology 2016;7:408 [PubMed]
• Lagkouvardos Ilias, Pukall Rüdiger, Abt Birte, Foesel Bärbel U., Meier-Kolthoff Jan P., Kumar Neeraj, Bresciani Anne, Martínez Inés, Just Sarah, Ziegler Caroline, Brugiroux Sandrine, Garzetti Debora, Wenning Mareike, Bui Thi P. N., Wang Jun, Hugenholtz Floor, Plugge Caroline M., Peterson Daniel A., Hornef Mathias W., Baines John F., Smidt Hauke, Walter Jens, Kristiansen Karsten, Nielsen Henrik B., Haller Dirk, Overmann Jörg, Stecher Bärbel, Clavel Thomas The Mouse Intestinal Bacterial Collection (miBC) provides host-specific insight into cultured diversity and functional potential of the gut microbiota Nature microbiology 2016;1 (10):16131 [PubMed]

2015

• Lange Katja, Hugenholtz Floor, Jonathan Melliana C., Schols Henk A., Kleerebezem Michiel, Smidt Hauke, Müller Michael, Hooiveld Guido J. E. J. Comparison of the effects of five dietary fibers on mucosal transcriptional profiles, and luminal microbiota composition and SCFA concentrations in murine colon Molecular nutrition & food research 2015;59 (8):1590-1602 [PubMed]
• Sovran Bruno, Loonen Linda M. P., Lu Peng, Hugenholtz Floor, Belzer Clara, Stolte Ellen H., Boekschoten Mark V., van Baarlen Peter, Kleerebezem Michiel, de Vos Paul, Dekker Jan, Renes Ingrid B., Wells Jerry M. IL-22-STAT3 pathway plays a key role in the maintenance of ileal homeostasis in mice lacking secreted mucus barrier Inflammatory bowel diseases 2015;21 (3):531-542 [PubMed]
• Versluis Dennis, D'Andrea Marco Maria, Ramiro Garcia Javier, Leimena Milkha M., Hugenholtz Floor, Zhang Jing, Öztürk Başak, Nylund Lotta, Sipkema Detmer, van Schaik Willem, de Vos Willem M., Kleerebezem Michiel, Smidt Hauke, van Passel Mark W. J. Mining microbial metatranscriptomes for expression of antibiotic resistance genes under natural conditions Scientific reports 2015;5:11981 [PubMed]

2013

• Ryback Brendan M., Odoni Dorett I., van Heck Ruben Ga, van Nuland Youri, Hesselman Matthijn C., Martins Dos Santos Vítor Ap, van Passel Mark Wj, Hugenholtz Floor Design and analysis of a tunable synchronized oscillator Journal of biological engineering 2013;7 (1):26 [PubMed]

2012

• Hesselman Matthijn C., Odoni Dorett I., Ryback Brendan M., de Groot Suzette, van Heck Ruben G. A., Keijsers Jaap, Kolkman Pim, Nieuwenhuijse David, van Nuland Youri M., Sebus Erik, Spee Rob, de Vries Hugo, Wapenaar Marten T., Ingham Colin J., Schroën Karin, Martins dos Santos Vítor A. P., Spaans Sebastiaan K., Hugenholtz Floor, van Passel Mark W. J. A multi-platform flow device for microbial (co-) cultivation and microscopic analysis PLoS ONE 2012;7 (5):e36982 [PubMed]
• Field Des, Begley Maire, O'Connor Paula M., Daly Karen M., Hugenholtz Floor, Cotter Paul D., Hill Colin, Ross R. Paul Bioengineered nisin A derivatives with enhanced activity against both Gram positive and Gram negative pathogens PLoS ONE 2012;7 (10):e46884 [PubMed]
• Haange Sven-Bastiaan, Oberbach Andreas, Schlichting Nadine, Hugenholtz Floor, Smidt Hauke, von Bergen Martin, Till Holger, Seifert Jana Metaproteome analysis and molecular genetics of rat intestinal microbiota reveals section and localization resolved species distribution and enzymatic functionalities Journal of proteome research 2012;11 (11):5406-5417 [PubMed]
• Hesselman Matthijn C., Koehorst Jasper J., Slijkhuis Thijs, Odoni Dorett I., Hugenholtz Floor, van Passel Mark W. J. The Constructor: a web application optimizing cloning strategies based on modules from the registry of standard biological parts Journal of biological engineering 2012;6 (1):14 [PubMed]

2010

• Deegan Lucy H., Suda Srinivas, Lawton Elaine M., Draper Lorraine A., Hugenholtz Floor, Peschel Andreas, Hill Colin, Cotter Paul D., Ross R. Paul Manipulation of charged residues within the two-peptide lantibiotic lacticin 3147 Microbial biotechnology 2010;3 (2):222-234 [PubMed]