PeerJ Editor & Author

4,380 Points

Contributions by role

Contributions by subject area

Hauke Smidt

PeerJ Editor & Author

Summary

Personal Chair Complex Microbial Ecosystems and head of the Microbial Ecology Group at the Laboratory of Microbiology of Wageningen University, the Netherlands & guest Professor at Nanjing Agricultural University, Nanjing, China.

Biodiversity Biogeography Biosphere Interactions Biotechnology Computational Biology Ecology Ecotoxicology Genomics Microbiology

Editing Journals

Work details

Personal Chair

Wageningen University

Laboratory of Microbiology

PeerJ Contributions

March 27, 2019

Associated bacteria of Botryococcus braunii (Chlorophyta)

Joao D. Gouveia, Jie Lian, Georg Steinert, Hauke Smidt, Detmer Sipkema, Rene H. Wijffels, Maria J. Barbosa

https://doi.org/10.7717/peerj.6610 PubMed 30944776

June 8, 2018

Archaeal and bacterial diversity and community composition from 18 phylogenetically divergent sponge species in Vietnam

Ton That Huu Dat, Georg Steinert, Nguyen Thi Kim Cuc, Hauke Smidt, Detmer Sipkema

https://doi.org/10.7717/peerj.4970 PubMed 29900079

September 11, 2017

Genomic and functional analysis of Romboutsia ilealis CRIB^T reveals adaptation to the small intestine

Jacoline Gerritsen, Bastian Hornung, Bernadette Renckens, Sacha A.F.T. van Hijum, Vitor A.P. Martins dos Santos, Ger T. Rijkers, Peter J. Schaap, Willem M. de Vos, Hauke Smidt

https://doi.org/10.7717/peerj.3698 PubMed 28924494

September 6, 2017

Fungi found in Mediterranean and North Sea sponges: how specific are they?

Mohd Azrul Naim, Hauke Smidt, Detmer Sipkema

https://doi.org/10.7717/peerj.3722 PubMed 28894639

February 1, 2017

Successive DNA extractions improve characterization of soil microbial communities

Mauricio R. Dimitrov, Annelies J. Veraart, Mattias de Hollander, Hauke Smidt, Johannes A. van Veen, Eiko E. Kuramae

https://doi.org/10.7717/peerj.2915 PubMed 28168105

June 24, 2017 - Version: 1

Fungi found in Mediterranean and North Sea sponges: How specific are they?

Mohd Azrul Naim, Hauke Smidt, Detmer Sipkema

https://doi.org/10.7287/peerj.preprints.3049v1

April 11, 2017 - Version: 1

Genomic and functional analysis of Romboutsia ilealis CRIB^T reveals adaptation to the small intestine

Jacoline Gerritsen, Bastian Hornung, Bernadette Renckens, Sacha A.F.T. van Hijum, Vitor A.P. Martins dos Santos, Ger T. Rijkers, Peter J. Schaap, Willem M. de Vos, Hauke Smidt

https://doi.org/10.7287/peerj.preprints.2918v1

Academic Editor on

March 21, 2019

Human gut resistome can be country-specific

Yao Xia, Yanshan Zhu, Qier Li, Jiahai Lu

https://doi.org/10.7717/peerj.6389 PubMed 30923648

November 2, 2018

Structure, dynamics and predicted functional role of the gut microbiota of the blue (Haliotis fulgens) and yellow (H. corrugata) abalone from Baja California Sur, Mexico

Francesco Cicala, José Alejandro Cisterna-Céliz, James D. Moore, Axayácatl Rocha-Olivares

https://doi.org/10.7717/peerj.5830 PubMed 30405968

October 30, 2018

Microbiome analysis of Pacific white shrimp gut and rearing water from Malaysia and Vietnam: implications for aquaculture research and management

Muhammad Zarul Hanifah Md Zoqratt, Wilhelm Wei Han Eng, Binh Thanh Thai, Christopher M. Austin, Han Ming Gan

https://doi.org/10.7717/peerj.5826 PubMed 30397546

September 24, 2018

Successful transplantation of guinea pig gut microbiota in mice and its effect on pneumonic plague sensitivity

Xiang Li, Zhengchao Li, Yuxiao Chang, Fengyi Hou, Zongyu Huang, Han Ni, Ruifu Yang, Yujing Bi

https://doi.org/10.7717/peerj.5637 PubMed 30280023

July 17, 2018

Short and long-term effects of a synbiotic on clinical signs, the fecal microbiome, and metabolomic profiles in healthy research cats receiving clindamycin: a randomized, controlled trial

Jacqueline C. Whittemore, Jennifer E. Stokes, Nicole L. Laia, Joshua M. Price, Jan S. Suchodolski

https://doi.org/10.7717/peerj.5130 PubMed 30038854

June 13, 2018

Dynamic succession of substrate-associated bacterial composition and function during Ganoderma lucidum growth

Bo Zhang, Lijuan Yan, Qiang Li, Jie Zou, Hao Tan, Wei Tan, Weihong Peng, Xiaolin Li, Xiaoping Zhang

https://doi.org/10.7717/peerj.4975 PubMed 29915697

May 23, 2018

Effects of preservation method on canine (Canis lupus familiaris) fecal microbiota

Katti R. Horng, Holly H. Ganz, Jonathan A. Eisen, Stanley L. Marks

https://doi.org/10.7717/peerj.4827 PubMed 29844978

March 12, 2018

Characterization of shifts of koala (Phascolarctos cinereus) intestinal microbial communities associated with antibiotic treatment

Katherine E. Dahlhausen, Ladan Doroud, Alana J. Firl, Adam Polkinghorne, Jonathan A. Eisen

https://doi.org/10.7717/peerj.4452 PubMed 29576947

January 19, 2018

CoMiniGut—a small volume in vitro colon model for the screening of gut microbial fermentation processes

Maria Wiese, Bekzod Khakimov, Sebastian Nielsen, Helena Sørensen, Frans van den Berg, Dennis Sandris Nielsen

https://doi.org/10.7717/peerj.4268 PubMed 29372119

January 10, 2018

Evidence-based design and evaluation of a whole genome sequencing clinical report for the reference microbiology laboratory

Anamaria Crisan, Geoffrey McKee, Tamara Munzner, Jennifer L. Gardy

https://doi.org/10.7717/peerj.4218 PubMed 29340235

January 8, 2018

Is there a link between aging and microbiome diversity in exceptional mammalian longevity?

Graham M. Hughes, John Leech, Sébastien J. Puechmaille, Jose V. Lopez, Emma C. Teeling

https://doi.org/10.7717/peerj.4174 PubMed 29333342

December 22, 2017

Agricultural constraints on microbial resource use and niche breadth in drainage ditches

Ellard R. Hunting, S. Henrik Barmentlo, Maarten Schrama, Peter M. van Bodegom, Yujia Zhai, Martina G. Vijver

https://doi.org/10.7717/peerj.4175 PubMed 29302393

November 16, 2017

5-Fluorouracil and irinotecan (SN-38) have limited impact on colon microbial functionality and composition in vitro

Eline Vanlancker, Barbara Vanhoecke, Andrea Stringer, Tom Van de Wiele

https://doi.org/10.7717/peerj.4017 PubMed 29158969

October 20, 2017

Oxygen-limited metabolism in the methanotroph Methylomicrobium buryatense 5GB1C

Alexey Gilman, Yanfen Fu, Melissa Hendershott, Frances Chu, Aaron W. Puri, Amanda Lee Smith, Mitchell Pesesky, Rose Lieberman, David A.C. Beck, Mary E. Lidstrom

https://doi.org/10.7717/peerj.3945 PubMed 29062611

March 7, 2017

Sorghum and wheat differentially affect caecal microbiota and associated performance characteristics of meat chickens

Eduardo Crisol-Martínez, Dragana Stanley, Mark S. Geier, Robert J. Hughes, Robert J. Moore

https://doi.org/10.7717/peerj.3071 PubMed 28286717

October 6, 2016

Metagenomic survey of methanesulfonic acid (MSA) catabolic genes in an Atlantic Ocean surface water sample and in a partial enrichment

Ana C. Henriques, Rui M.S. Azevedo, Paolo De Marco

https://doi.org/10.7717/peerj.2498 PubMed 27761315

September 22, 2016

Validation of picogram- and femtogram-input DNA libraries for microscale metagenomics

Christian Rinke, Serene Low, Ben J. Woodcroft, Jean-Baptiste Raina, Adam Skarshewski, Xuyen H. Le, Margaret K. Butler, Roman Stocker, Justin Seymour, Gene W. Tyson, Philip Hugenholtz

https://doi.org/10.7717/peerj.2486 PubMed 27688978

May 5, 2016

A low dose of an organophosphate insecticide causes dysbiosis and sex-dependent responses in the intestinal microbiota of the Japanese quail (Coturnix japonica)

Eduardo Crisol-Martínez, Laura T. Moreno-Moyano, Ngare Wilkinson, Tanka Prasai, Philip H. Brown, Robert J. Moore, Dragana Stanley

https://doi.org/10.7717/peerj.2002 PubMed 27168998

April 28, 2016

Bacteria associated with human saliva are major microbial components of Ecuadorian indigenous beers (chicha)

Ana L. Freire, Sonia Zapata, Juan Mosquera, Maria Lorena Mejia, Gabriel Trueba

https://doi.org/10.7717/peerj.1962 PubMed 27168974

March 8, 2016

Diuron tolerance and potential degradation by pelagic microbiomes in the Great Barrier Reef lagoon

Florent E. Angly, Olga Pantos, Thomas C. Morgan, Virginia Rich, Hemerson Tonin, David G. Bourne, Philip Mercurio, Andrew P. Negri, Gene W. Tyson

https://doi.org/10.7717/peerj.1758 PubMed 26989611

December 17, 2015

Biogeographic variation in the microbiome of the ecologically important sponge, Carteriospongia foliascens

Heidi M. Luter, Stefanie Widder, Emmanuelle S. Botté, Muhammad Abdul Wahab, Stephen Whalan, Lucas Moitinho-Silva, Torsten Thomas, Nicole S. Webster

https://doi.org/10.7717/peerj.1435 PubMed 26713229

August 27, 2015

Can ¹³C stable isotope analysis uncover essential amino acid provisioning by termite-associated gut microbes?

Paul A. Ayayee, Susan C. Jones, Zakee L. Sabree

https://doi.org/10.7717/peerj.1218 PubMed 26336647

June 11, 2015

Pyrosequencing revealed shifts of prokaryotic communities between healthy and disease-like tissues of the Red Sea sponge Crella cyathophora

Zhao-Ming Gao, Yong Wang, Ren-Mao Tian, On On Lee, Yue Him Wong, Zenon B. Batang, Abdulaziz Al-Suwailem, Feras F. Lafi, Vladimir B. Bajic, Pei-Yuan Qian

https://doi.org/10.7717/peerj.890 PubMed 26082867

March 26, 2015

Capsules of the diatom Achnanthidium minutissimum arise from fibrillar precursors and foster attachment of bacteria

Katrin Leinweber, Peter G. Kroth

https://doi.org/10.7717/peerj.858 PubMed 25834772

February 26, 2015

Wild plant species growing closely connected in a subalpine meadow host distinct root-associated bacterial communities

Kristin Aleklett, Jonathan W. Leff, Noah Fierer, Miranda Hart

https://doi.org/10.7717/peerj.804 PubMed 25755932

February 17, 2015

Diagnosis of bacterial vaginosis by a new multiplex peptide nucleic acid fluorescence in situ hybridization method

António Machado, Joana Castro, Tatiana Cereija, Carina Almeida, Nuno Cerca

https://doi.org/10.7717/peerj.780 PubMed 25737820

August 26, 2014

A survey on cultivable heterotrophic bacteria inhabiting a thermally unstratified water column in an Atlantic Rainforest lake

Cláudia I. Lima-Bittencourt, Patrícia S. Costa, Mariana P. Reis, Alexandre B. Santos, Francisco A.R. Barbosa, Jean L. Valentin, Fabiano L. Thompson, Edmar Chartone-Souza, Andréa M.A. Nascimento

https://doi.org/10.7717/peerj.478 PubMed 25237594

August 5, 2014

RIM-DB: a taxonomic framework for community structure analysis of methanogenic archaea from the rumen and other intestinal environments

Henning Seedorf, Sandra Kittelmann, Gemma Henderson, Peter H. Janssen

https://doi.org/10.7717/peerj.494 PubMed 25165621

July 8, 2014

Local domestication of lactic acid bacteria via cassava beer fermentation

Alese M. Colehour, James F. Meadow, Melissa A. Liebert, Tara J. Cepon-Robins, Theresa E. Gildner, Samuel S. Urlacher, Brendan J.M. Bohannan, J. Josh Snodgrass, Lawrence S. Sugiyama

https://doi.org/10.7717/peerj.479 PubMed 25071997

December 23, 2013

Succession of the turkey gastrointestinal bacterial microbiome related to weight gain

Jessica L. Danzeisen, Alamanda J. Calvert, Sally L. Noll, Brian McComb, Julie S. Sherwood, Catherine M. Logue, Timothy J. Johnson

https://doi.org/10.7717/peerj.237 PubMed 24432198