Data: View All

Included Studies

	Mdb ID	Title	Host Species	Parasite Species
2020
1	2020_6 Details DOI - Open Access	Experimental infection with the hookworm, Necator americanus, promotes gut microbial diversity in human volunteers with relapsing multiple sclerosis	Human (Homo Sapiens)	Necator americanus
	Authors Timothy Jenkins, David Pritchard, Radu Tanasescu, Gary Telford, Marina Paraiakovou, Cris Constantinescu, Cinzia Cantacessi Host Species Human (Homo Sapiens) Control Species UNKNOWN Infection Type Experimental Parasite Species Necator americanus Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site None Sample Type Faeces Sequence Data Repository Mendeley Journal TODO Project Number 10.17632/pkk4vtc57r.1 DOI 10.21203/rs.2.24428/v1
2	2020_5 Details DOI - Open Access	Infection with the sheep gastrointestinal nematode Teladorsagia circumcincta increases luminal pathobionts	Sheep (Ovis aries)	Teladorsagia circumcincta
	Authors Alba Cortés, John Wills, Xiaopei Su, Rachel E. Hewitt, Jack Robertson, Riccardo Scotti, Daniel R. G. Price, Yvonne Bartley, Tom N. McNeilly, Lutz Krause, Jonathan J. Powell, Alasdair J. Nisbet, Cinzia Cantacessi Host Species Sheep (Ovis aries) Control Species UNKNOWN Infection Type Experimental Parasite Species Teladorsagia circumcincta Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site None Sample Type Faeces Sequence Data Repository European Nucleotide Archive (ENA) Journal TODO Project Number PRJEB33114 DOI 10.1186/s40168-020-00818-9
3	2020_4 Details DOI -	Worm expulsion is independent of alterations in composition of the colonic bacteria that occur during experimental Hymenolepis diminuta-infection in mice.	Mouse (Mus musculus)	Hymenolepis diminuta
	Authors Adam Shute, Arthur Wang, Timothy S. Jayme, Marc Strous, Kathy D. McCoy, Andre G. Buret, Derek M. McKay Host Species Mouse (Mus musculus) Control Species UNKNOWN Infection Type Experimental Parasite Species Hymenolepis diminuta Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site Colon Sample Type Faeces Sequence Data Repository TODO Journal Gut Microbes Project Number missing DOI 10.1080/19490976.2019.1688065
4	2020_3 Details DOI -	The gut microbiota response to helminth infection depends on host sex and genotype.	Three-spined stickleback (Gasterosteus aculeatus)	TODO
	Authors Fei Ling, Natalie Steinel, Jesse Weber, Lei Ma, Chris Smith, Decio Correa, Bin Zhu, Daniel Bolnick & Gaoxue Wang Host Species Three-spined stickleback (Gasterosteus aculeatus) Control Species UNKNOWN Infection Type Experimental Parasite Species TODO Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site Large intestine Sample Type None Sequence Data Repository SRA Journal The ISME Journal Project Number PRJNA398629 and PRJNA398630 DOI 10.1038/s41396-020-0589-3
5	2020_2 Details DOI - Open Access	Infection with a small intestinal helminth, Heligmosomoides polygyrus bakeri, consistently alters microbial communities throughout the murine small and large intestine.	Mouse (Mus musculus)	Heligmosomoides polygyrus
	Authors Alexis Rapin, Audrey Chuat, Luc Lebon, Mario M. Zaiss, Benjamin J. Marsland, Nicola L. Harris Host Species Mouse (Mus musculus) Control Species UNKNOWN Infection Type Experimental Parasite Species Heligmosomoides polygyrus Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site Colon Sample Type Faeces Sequence Data Repository TODO Journal International Journal for Parasitology Project Number PRJEB32288 DOI 10.1016/j.ijpara.2019.09.005
6	2020_1 Details DOI -	Gut microbial signatures associated with moxidectin treatment efficacy of Haemonchus contortus in infected goats.	Alpine Goat (Capra aegagrus hircus)	Haemonchus contortus
	Authors Fang Liu, Yue Xie, Anne M.Zajac, Yan Hu, Raffi V.Aroian, Joseph F.Urban Jr., Robert W.Li Host Species Alpine Goat (Capra aegagrus hircus) Control Species UNKNOWN Infection Type Experimental Parasite Species Haemonchus contortus Profiling Method Whole metagenome shotgun sequencing (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site Abomasum Sample Type None Sequence Data Repository National Center for Biotechnology Information (NCBI) Journal TODO Project Number PRJNA564780 DOI 10.1016/j.vetmic.2020.108607
2019
7	2019_9 Details DOI - Open Access	Interactions between parasitic infections and the human gut microbiome in Odisha, India	Human (Homo Sapiens)	Ascaris lumbricoides,Necator americanus,Trichuris trichiura
	Authors Tiffany Huwe, Birendra Kumar Prusty, Aisurya Ray, Shaun Lee, Balachandran Ravindran, Edwin Michael Host Species Human (Homo Sapiens) Control Species Human (Homo Sapiens) Infection Type Natural Parasite Species Ascaris lumbricoides,Necator americanus,Trichuris trichiura Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness Increase Sample Site None Sample Type Faeces Sequence Data Repository TODO Journal The American Journal of Tropical Medicine and Hygiene Project Number 0 DOI https://doi.org/10.4269/ajtmh.18-0968
8	2019_8 Details DOI -	Removal of adult cyathostomins alters faecal microbiota and promotes an inflammatory phenotype in horses	Horse (Equus ferus caballus)	Cyathostominae
	Authors Nicola Walshe, Vivienne Duggan, Raul Cabrera-Rubio, Fiona Crispie, Paul Cotter, Orna Feehan, Grace Mulcahy Host Species Horse (Equus ferus caballus) Control Species Horse (Equus ferus caballus) Infection Type Natural Parasite Species Cyathostominae Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness Increase Richness Increase Beta diversity Evenness Not assessed Sample Site None Sample Type None Sequence Data Repository TODO Journal TODO Project Number New project number DOI https://doi.org/10.1016/j.ijpara.2019.02.003
9	2019_7 Details DOI -	The impact of anthelmintic treatment on human gut microbiota based on cross-sectional and pre- and postdeworming comparisons in Western Kenya	Human (Homo Sapiens)	Ascaris lumbricoides,Necator americanus
	Authors Alice V. Easton, Mariam Quiñones, Ivan Vujkovic-Cvijin, Rita G. Oliveira, Stella Kepha, Maurice R. Odiere, Roy M. Anderson, Yasmine Belkaid, Thomas B. Nutman Host Species Human (Homo Sapiens) Control Species Human (Homo Sapiens) Infection Type Natural Parasite Species Ascaris lumbricoides,Necator americanus Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site None Sample Type None Sequence Data Repository TODO Journal TODO Project Number New project number DOI https://doi.org/10.1128/mBio.00519-19
10	2019_6 Details DOI -	Schistosoma mansoni worm infection regulates the intestinal microbiota and susceptibility to colitis	Mouse (Mus musculus)	Schistosoma mansoni
	Authors Achilleas Floudasa, Gabriella Avielloa, Christian Schwartza, Ian B. Jefferyb, Paul W. O'Tooleb and Padraic G. Fallon Host Species Mouse (Mus musculus) Control Species Mouse (Mus musculus) Infection Type Experimental Parasite Species Schistosoma mansoni Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Roche 454) Alpha diversity Evenness Not assessed Richness Not assessed Beta diversity Evenness Not assessed Sample Site None Sample Type None Sequence Data Repository Missing Journal TODO Project Number New project number DOI https://doi.org/10.1128/IAI.00275-19
11	2019_5 Details DOI -	Contribution of the gut microbiota in P28GST-mediated anti-inflammatory effects: experimental and clinical insights	Mouse (Mus musculus)	glutathione S-transferase (P28GST) from Schistosoma
	Authors Benoît Foligné , Coline Plé, Marie Titécat, Arnaud Dendooven, Aurélien Pagny, Catherine Daniel, Elisabeth Singer, Muriel Pottier, Benjamin Bertin, Christel Neut, Dominique Deplanque, Laurent Dubuquoy, Pierre Desreumaux, Monique Capron, Annie Standaert Host Species Mouse (Mus musculus) Control Species Mouse (Mus musculus) Infection Type Experimental Parasite Species glutathione S-transferase (P28GST) from Schistosoma Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness Increase Richness None - no change Beta diversity Evenness None - no change Sample Site None Sample Type None Sequence Data Repository TODO Journal TODO Project Number New project number DOI https://doi.org/10.3390/cells8060577
12	2019_4 Details DOI -	Microbiome analysis as a platform R&D tool for parasitic nematode disease management	Sheep (Ovis aries)	Haemonchus contortus
	Authors Glenn Hogan, Sidney Walker, Frank Turnbull, Tania Curiao, Alison A. Morrison, Yensi Flores, Leigh Andrews, Marcus J. Claesson, Mark Tangney, Dave J. Bartley Host Species Sheep (Ovis aries) Control Species Sheep (Ovis aries) Infection Type Experimental Parasite Species Haemonchus contortus Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness Decrease Richness Decrease Beta diversity Evenness None - no change Sample Site Abomasum Sample Type Faeces Sequence Data Repository Missing Journal TODO Project Number New project number DOI https://doi.org/10.1038/s41396-019-0462-4
13	2019_3 Details DOI -	Chinese liver fluke Clonorchis sinensis infection changes the gut microbiome and increases probiotic Lactobacillus in mice	Mouse (Mus musculus)	Clonorchis sinensis
	Authors Kim JY, Kim EM, Yi M, Lee J, Lee S, Hwang Y, Yong D, Sohn WM, Yong TS Host Species Mouse (Mus musculus) Control Species Mouse (Mus musculus) Infection Type Experimental Parasite Species Clonorchis sinensis Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site None Sample Type Faeces Sequence Data Repository Missing Journal Parasitology Research Project Number Unavailable DOI https://doi.org/10.1007/s00436-018-6179-x
14	2019_21 Details DOI -	Exploring interactions between Blastocystis sp., Strongyloides spp. and the gut microbiomes of wild chimpanzees in Senegal	Chimpanzees (Pan troglodytes verus)	Strongyloides stercoralis
	Authors Justinn Renelies-Hamilton, Marc Noguera-Julian, Mariona Parera, Roger Paredes, Liliana Pacheco, Elena Dacal, José M.Saugar, José M.Rubio, Michael Poulsen, Pamela C.Köster, David Carmena Host Species Chimpanzees (Pan troglodytes verus) Control Species UNKNOWN Infection Type Natural Parasite Species Strongyloides stercoralis Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site None Sample Type Faeces Sequence Data Repository National Center for Biotechnology Information (NCBI) Journal TODO Project Number PRJNA523828 DOI 10.1016/j.meegid.2019.104010.
15	2019_20 Details DOI - Open Access	Trichinella spiralis infection decreases the diversity of the intestinal flora in the infected mouse.	Mouse (Mus musculus)	Trichuris spp.
	Authors Sha Liu, Jin Pan, Xiangli Meng, Junping Zhu, Jie Zhou, Xinping Zhu Host Species Mouse (Mus musculus) Control Species UNKNOWN Infection Type Experimental Parasite Species Trichuris spp. Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site None Sample Type None Sequence Data Repository TODO Journal TODO Project Number PRJNA479716 and PRJNA553325 DOI 10.1016/j.jmii.2019.09.009
16	2019_2 Details DOI - Open Access	Urogenital schistosomiasis is associated with signatures of microbiome dysbiosis in Nigerian adolescents	Human (Homo Sapiens)	Schistosoma haematobium
	Authors Ajibola O, Rowan AD, Ogedengbe CO, Mshelia MB, Cabral DJ, Eze AA, Obaro S, Belenky P Host Species Human (Homo Sapiens) Control Species Human (Homo Sapiens) Infection Type Natural Parasite Species Schistosoma haematobium Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness Increase Sample Site None Sample Type Faeces Sequence Data Repository Brown Digital Repository Journal Scientific Reports Project Number https://repository.library.brown.edu/studio/item/bdr:698310/ DOI https://doi.org/10.1038/s41598-018-36709-1
17	2019_19 Details DOI - Open Access	Linking the effects of helminth infection, diet and the gut microbiota with human whole-blood signatures	Human (Homo Sapiens)	Trichuris trichiura
	Authors Soo Ching Lee, Mei San Tang, Alice V. Easton, Joseph Cooper Devlin, Ling Ling Chua, Ilseung Cho, Foong Ming Moy, Tsung Fei Khang, Yvonne A. L. Lim , P’ng Loke Host Species Human (Homo Sapiens) Control Species UNKNOWN Infection Type Natural Parasite Species Trichuris trichiura Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site None Sample Type Faeces Sequence Data Repository European Nucleotide Archive (ENA) Journal PLoS Pathogens Project Number PRJEB34956 and PRJEB34957 DOI 10.1371/journal.ppat.1008066
18	2019_18 Details DOI - Open Access	The Effect of Gut Microbiome Composition on Human Immune Responses: An Exploration of Interference by Helminth Infections	Human (Homo Sapiens)	None
	Authors Ivonne Martin, Maria M. M. Kaisar, Aprilianto E. Wiria,Firdaus Hamid, Yenny Djuardi, Erliyani Sartono, Bruce A. Rosa, Makedonka Mitreva, Taniawati Supali, Jeanine J. Houwing-Duistermaat, Maria Yazdanbakhsh, and Linda J. Wammes Host Species Human (Homo Sapiens) Control Species UNKNOWN Infection Type Natural Parasite Species None Profiling Method Cloning and bacterial 16S rRNA amplicon qPCR Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site None Sample Type Faeces Sequence Data Repository TODO Journal TODO Project Number SAMN07688522 to SAMN07688545 DOI 10.3389/fgene.2019.01028
19	2019_17 Details DOI -	Ascaris suum infection was associated with a worm-independent reduction in microbial diversity and altered metabolic potential in the porcine gut microbiome.	Pig (Sus scrofa domestica)	TODO
	Authors Yueying Wang, Fang Liu, Joseph F. UrbanJr., Oonagh Paerewijck, Peter Geldhof, Robert W.Li Host Species Pig (Sus scrofa domestica) Control Species UNKNOWN Infection Type Experimental Parasite Species TODO Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site Colon Sample Type Faeces Sequence Data Repository TODO Journal International Journal for Parasitology Project Number SRP127199 DOI 10.1016/j.ijpara.2018.10.007
20	2019_16 Details DOI - Open Access	Cognitive and Microbiome Impacts of Experimental Ancylostoma ceylanicum Hookworm Infections in Hamsters	Hamster (Mesocricetus auratus)	TODO
	Authors Samuel C. Pan, Doyle V. Ward, Yunqiang Yin, Yan Hu, Mostafa A. Elfawal, Robert E. Clark, and Raffi V. Aroian Host Species Hamster (Mesocricetus auratus) Control Species UNKNOWN Infection Type Experimental Parasite Species TODO Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site None Sample Type Faeces Sequence Data Repository TODO Journal Scientific Reports Project Number PRJNA535443 DOI 10.1038/s41598-019-44301-4
21	2019_15 Details DOI - Open Access	Sequential Changes in the Host Gut Microbiota During Infection With the Intestinal Parasitic Nematode Strongyloides venezuelensis	Mouse (Mus musculus)	Strongyles
	Authors Tanzila Afrin, Kazunori Murase, Asuka Kounosu, Vicky L. Hunt, Mark Bligh, Yasunobu Maeda, Akina Hino, Haruhiko Maruyama, Isheng J. Tsai, and Taisei Kikuchi Host Species Mouse (Mus musculus) Control Species UNKNOWN Infection Type Experimental Parasite Species Strongyles Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site None Sample Type Faeces Sequence Data Repository TODO Journal TODO Project Number SAMD00148911 DOI 10.3389/fcimb.2019.00217
22	2019_14 Details DOI -	Mucosal barrier and Th2 immune responses are enhanced by dietary inulin in pigs infected with Trichuris suis	Pig (Sus scrofa domestica)	Trichuris suis
	Authors Laura J. Myhill, Sophie Stolzenbach, Tina V. A. Hansen, Kerstin Skovgaard, C. Rune Stensvold, Lee O'Brien Andersen, Peter Nejsum, Helena Mejer, Stig M. Thamsborg, Andrew R. Williams Host Species Pig (Sus scrofa domestica) Control Species Pig (Sus scrofa domestica) Infection Type Experimental Parasite Species Trichuris suis Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site Colon Sample Type None Sequence Data Repository European Nucleotide Archive (ENA) Journal Frontiers in Immunology Project Number PRJEB29079 DOI https://doi.org/10.3389/fimmu.2018.02557
23	2019_13 Details DOI -	Dysbiosis associated with acute helminth infections in herbivorous youngstock – observations and implications	Horse (Equus ferus caballus)	Anoplocephala perfoliata,Strongyles
	Authors Laura E. Peachey, Cecilia Castro, Rebecca A. Molena, Timothy P. Jenkins, Julian L. Griffin, Cinzia Cantacessi Host Species Horse (Equus ferus caballus) Control Species Horse (Equus ferus caballus) Infection Type Natural Parasite Species Anoplocephala perfoliata,Strongyles Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site None Sample Type Faeces Sequence Data Repository Mendeley Journal Scientific Reports Project Number DOI: 10.17632/95m8sfd3kt.1 DOI In press
24	2019_12 Details DOI -	Exclusive dependence of IL-10Rα signalling on intestinal microbiota homeostasis and control of whipworm infection	Mouse (Mus musculus)	Trichuris muris
	Authors María A. Duque-Correa , Natasha A. Karp, Catherine McCarthy, Simon Forman, David Goulding, Geetha Sankaranarayanan, Timothy P. Jenkins, Adam J. Reid, Emma L. Cambridge, Carmen Ballesteros Reviriego, The Sanger Mouse Genetics Project, The 3i consortium , Werner Müller, Cinzia Cantacessi, Gordon Dougan, Richard K. Grencis, Matthew Berriman Host Species Mouse (Mus musculus) Control Species Mouse (Mus musculus) Infection Type Experimental Parasite Species Trichuris muris Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness Decrease Richness Decrease Beta diversity Evenness Increase Sample Site Caecum Sample Type None Sequence Data Repository European Nucleotide Archive (ENA) Journal PLoS Pathogens Project Number ERP016361 DOI https://doi.org/10.1371/journal.ppat.1007265
25	2019_11 Details DOI -	The parasitic worm product ES-62 normalises the gut microbiota bone marrow axis in inflammatory arthritis	Mouse (Mus musculus)	ES-62,glycoprotein from Acanthocheilonema viteae
	Authors James Doonan, Anuradha Tarafdar, Miguel A. Pineda, Felicity E. Lumb, Jenny Crowe, Aneesah M. Khan, Paul A. Hoskisson, Margaret M. Harnett, William Harnett Host Species Mouse (Mus musculus) Control Species Mouse (Mus musculus) Infection Type Experimental Parasite Species ES-62,glycoprotein from Acanthocheilonema viteae Profiling Method High throughput sequencing of 16S rRNA amplicons (Ion Torrent) Alpha diversity Evenness Increase Richness Increase Beta diversity Evenness Not assessed Sample Site None Sample Type None Sequence Data Repository TODO Journal TODO Project Number mgm4777616.3, 4777615.3, 4777614.3, 4777613.3, 4777481.3, 4777480.3, 4777479.3, 4777478.3, 4767994.3, 4767993.3, 4767992.3, 4767991.3, 4767990.3, 4767989.3, 4767988.3, 4767987.3, 4767986.3, 4738191.3, 4738190.3, 4738025.3, 4737887.3, 4737053.3 and 4737052.3 DOI https://doi.org/10.1038/s41467-019-09361-0
26	2019_10 Details DOI - Open Access	Suppression of obesity by an intestinal helminth through interactions with intestinal microbiota	Mouse (Mus musculus)	Heligmosomoides polygyrus
	Authors Chikako Shimokawa, Seiji Obi, Mioko Shibata, Alex Olia, Takashi Imai, Kazutomo Suzue, Hajime Hisaeda Host Species Mouse (Mus musculus) Control Species Mouse (Mus musculus) Infection Type Experimental Parasite Species Heligmosomoides polygyrus Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness Not assessed Richness Not assessed Beta diversity Evenness Not assessed Sample Site None Sample Type Faeces Sequence Data Repository TODO Journal Infection and Immunity (WAS: American Society for Microbiology Journals) Project Number New project number DOI https://doi.org/10.1128/IAI.00042-19
27	2019_1 Details DOI - Open Access	Intestinal parasitic infection alters bacterial gut microbiota in children	Human (Homo Sapiens)	Ascaris lumbricoides,Cryptosporidium,Entamoeba hartmanni,Enterobius vermicularis,Giardia intestinalis,Trichuris trichiura
	Authors Toro-Londono MA, Bedoya-Urrego K, Garcia-Montoya GM, Galvan-Diaz AL, Alzate JF Host Species Human (Homo Sapiens) Control Species Human (Homo Sapiens) Infection Type Natural Parasite Species Ascaris lumbricoides,Cryptosporidium,Entamoeba hartmanni,Enterobius vermicularis,Giardia intestinalis,Trichuris trichiura Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness Decrease Richness Decrease Beta diversity Evenness None - no change Sample Site None Sample Type Faeces Sequence Data Repository National Center for Biotechnology Information (NCBI) Journal PeerJ — the Journal of Life and Environmental Sciences Project Number PRJNA487588 DOI https://doi.org/10.7717/peerj.6200
2018
28	2018_9 Details DOI -	Intestinal fluke Metagonimus yokogawai infection increases probiotic Lactobacillus in mouse cecum	Mouse (Mus musculus)	Metagonimus yokogawai
	Authors Kim JY, Kim EM, Yi M, Lee J, Lee S, Hwang Y, Yong D, Sohn WM, Yong TS Host Species Mouse (Mus musculus) Control Species Mouse (Mus musculus) Infection Type Experimental Parasite Species Metagonimus yokogawai Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site Caecum Sample Type None Sequence Data Repository National Center for Biotechnology Information (NCBI) Journal Experimental Parasitology Project Number SRP154312 DOI https://doi.org/10.1016/j.exppara.2018.08.002
29	2018_8 Details DOI - Open Access	Strongyle infection and gut microbiota: profiling of resistant and susceptible horses over a grazing season	Horse (Equus ferus caballus)	Strongyles
	Authors Clark A, Sallé G, Ballan V, Reigner F, Meynadier A, Cortet J, Koch C, Riou M, Blanchard A, Mach N Host Species Horse (Equus ferus caballus) Control Species Horse (Equus ferus caballus) Infection Type Natural Parasite Species Strongyles Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site None Sample Type Faeces Sequence Data Repository European Nucleotide Archive (ENA) Journal Frontiers in Physiology Project Number PRJNA413884 DOI https://doi.org/10.3389/fphys.2018.00272
30	2018_7 Details DOI - Open Access	The relationships between faecal egg counts and gut microbial composition in UK Thoroughbreds infected by cyathostomins	Horse (Equus ferus caballus)	Cyathostominae
	Authors Peachey LE, Molena RA, Jenkins TP, Di Cesare A, Traversa D, Hodgkinson JE, Cantacessi C Host Species Horse (Equus ferus caballus) Control Species Horse (Equus ferus caballus) Infection Type Natural Parasite Species Cyathostominae Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site None Sample Type Faeces Sequence Data Repository Mendeley Journal International Journal for Parasitology Project Number http://doi.org/10.17632/g7chkjrp8f.1 DOI https://doi.org/10.1016/j.ijpara.2017.11.003
31	2018_6 Details DOI - Open Access	A comprehensive analysis of the faecal microbiome and metabolome of Strongyloides stercoralis infected volunteers from a non-endemic area	Human (Homo Sapiens)	Strongyloides stercoralis
	Authors Jenkins TP, Formenti F, Castro C, Piubelli C, Perandin F, Buonfrate D, Otranto D, Griffin JL, Krause L, Bisoffi Z, Cantacessi C Host Species Human (Homo Sapiens) Control Species Human (Homo Sapiens) Infection Type Natural Parasite Species Strongyloides stercoralis Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness Increase Richness Increase Beta diversity Evenness None - no change Sample Site None Sample Type Faeces Sequence Data Repository Mendeley Journal Scientific Reports Project Number 10.17632/n86dtjvmbv.1) DOI 10.1038/s41598-018-33937-3
32	2018_5 Details DOI - Open Access	Dynamic changes in human-gut microbiome in relation to a placebo-controlled anthelminthic trial in Indonesia	Human (Homo Sapiens)	Ancylostoma duodenale,Ascaris lumbricoides,Necator americanus,Strongyloides stercoralis,Trichuris trichiura
	Authors Martin I, Djuardi Y, Sartono E, Rosa BA, Supali T, Mitreva M, Houwing-Duistermaat JJ, Yazdanbakhsh M Host Species Human (Homo Sapiens) Control Species Human (Homo Sapiens) Infection Type Natural Parasite Species Ancylostoma duodenale,Ascaris lumbricoides,Necator americanus,Strongyloides stercoralis,Trichuris trichiura Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Roche 454) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site None Sample Type Faeces Sequence Data Repository Nematode.net Journal PLoS Neglected Tropical Diseases Project Number nematode.net/ Indonesia_Microbiome.htm DOI https://doi.org/10.1371/journal.pntd.0006620
33	2018_4 Details DOI - Open Access	Helminth-induced alterations of the gut microbiota exacerbate bacterial colitis	Mouse (Mus musculus)	Heligmosomoides polygyrus
	Authors Su C, Su L, Li Y, Long SR, Chang J, Zhang W, Walker WA, Xavier RX, Cherayil BJ, Shi HN Host Species Mouse (Mus musculus) Control Species Mouse (Mus musculus) Infection Type Experimental Parasite Species Heligmosomoides polygyrus Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Roche 454) Alpha diversity Evenness None - no change Richness Increase Beta diversity Evenness None - no change Sample Site None Sample Type Faeces Sequence Data Repository Missing Journal Mucosal Immunology Project Number Unavailable DOI https://doi.org/10.1038/mi.2017.20
34	2018_3 Details DOI - Open Access	Investigations on the interplays between Schistosoma mansoni, praziquantel and the gut microbiome	Human (Homo Sapiens)	Schistosoma mansoni
	Authors Schneeberger PHH, Coulibaly JT, Panic G, Daubenberger C, Gueuning M, Frey JE, Keiser J Host Species Human (Homo Sapiens) Control Species Human (Homo Sapiens) Infection Type Natural Parasite Species Schistosoma mansoni Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site None Sample Type Faeces Sequence Data Repository Missing Journal Parasites & Vectors Project Number Unavailable DOI https://doi.org/10.1186/s13071-018-2739-2
35	2018_2 Details DOI - Open Access	Schistosoma mansoni infection is associated with quantitative and qualitative modifcations of the mammalian intestinal microbiota	Mouse (Mus musculus)	Schistosoma mansoni
	Authors Jenkins TP, Peachey LE, Ajami NJ, MacDonald AS, Hsieh MH, Brindley PJ, Cantacessi C, Rinaldi G Host Species Mouse (Mus musculus) Control Species Mouse (Mus musculus) Infection Type Experimental Parasite Species Schistosoma mansoni Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness Decrease Richness Decrease Beta diversity Evenness Increase Sample Site Large intestine,Small intestine Sample Type Lumen Sequence Data Repository Mendeley Journal Scientific Reports Project Number 10.17632/y8c7vpc8zp.1 DOI https://doi.org/10.1038/s41598-018-30412-x
36	2018_13 Details DOI - Open Access	Manipulation of host and parasite microbiotas: survival strategies during chronic nematode infection	Mouse (Mus musculus)	Trichuris muris
	Authors White EC, Houlden A, Bancroft AJ, Hayes KS, Goldrick M, Grencis RK, Roberts IS Host Species Mouse (Mus musculus) Control Species Mouse (Mus musculus) Infection Type Experimental Parasite Species Trichuris muris Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Roche 454) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness Increase Sample Site Caecum Sample Type None Sequence Data Repository European Nucleotide Archive (ENA) Journal Science Advances Project Number PRJEB12611 DOI DOI: 10.1126/sciadv.aap7399
37	2018_12 Details DOI -	The benign helminth Hymenolepis diminuta ameliorates chemically induced colitis in a rat model system	Rat (Rattus norvegicus)	Hymenolepis diminuta
	Authors Pomajbíková KJ, Jirků M, Levá J, Sobotková K, Morien E, Parfrey LW Host Species Rat (Rattus norvegicus) Control Species Rat (Rattus norvegicus) Infection Type Experimental Parasite Species Hymenolepis diminuta Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site None Sample Type Faeces Sequence Data Repository European Nucleotide Archive (ENA) Journal Parasitology Project Number PRJEB25354 DOI https://doi.org/10.1017/S0031182018000896
38	2018_11 Details DOI - Open Access	Altered gut microbiota composition in subjects infected with Clonorchis sinensis	Human (Homo Sapiens)	Clonorchis sinensis
	Authors Xu M, Jiang Z, Huang W, Yin J, Ou S, Jiang Y, Meng L, Cao S, Yu A, Cao J, Shen Y Host Species Human (Homo Sapiens) Control Species Human (Homo Sapiens) Infection Type Natural Parasite Species Clonorchis sinensis Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site None Sample Type Faeces Sequence Data Repository National Center for Biotechnology Information (NCBI) Journal Frontiers in Microbiology Project Number SRP158183 DOI https://doi.org/10.3389/fmicb.2018.02292
39	2018_1 Details DOI - Open Access	Differential human gut microbiome assemblages during soil-transmitted helminth infections in Indonesia and Liberia	Human (Homo Sapiens)	Ascaris lumbricoides,Necator americanus,Trichuris trichiura
	Authors Rosa MA, Supali T, Gankpala L, Djuardi Y, Sartono E, Zhou Y, Fischer K, Martin J, Tyagi R, Bolay FK, Fischer PU, Yazdanbakhsh M, Mitreva M Host Species Human (Homo Sapiens) Control Species Human (Homo Sapiens) Infection Type Natural Parasite Species Ascaris lumbricoides,Necator americanus,Trichuris trichiura Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness Increase Richness Increase Beta diversity Evenness Increase Sample Site None Sample Type Faeces Sequence Data Repository National Center for Biotechnology Information (NCBI) Journal Microbiome Project Number PRJNA407815 DOI https://doi.org/10.1186/s40168-018-0416-5
40	2018_10 Details DOI - Open Access	Mucosal barrier and Th2 immune responses are enhanced by dietary inulin in pigs infected with Trichuris suis	Pig (Sus scrofa domestica)	Trichuris suis
	Authors Myhill LJ, Stolzenbach S, Hansen TVA, Skovgaard K, Stensvold CR, O'Brien Andersen L, Nejsum P, Mejer H, Thamsborg SM, Williams AR Host Species Pig (Sus scrofa domestica) Control Species Pig (Sus scrofa domestica) Infection Type Experimental Parasite Species Trichuris suis Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site Colon Sample Type None Sequence Data Repository European Nucleotide Archive (ENA) Journal Frontiers in Immunology Project Number PRJEB29079 DOI https://doi.org/10.3389/fimmu.2018.02557
2017
41	2017_3 Details DOI -	Microbial community and ovine host response varies with early and late stages of Haemonchus contortus infection	Sheep (Ovis aries)	Haemonchus contortus
	Authors El-Ashram S, Al Nasr I, Abouhaje F, El-Kemary M, Huang G, Dinçel G, Mehmood R, Hu M, Suo X Host Species Sheep (Ovis aries) Control Species Sheep (Ovis aries) Infection Type Experimental Parasite Species Haemonchus contortus Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness Increase Richness Increase Beta diversity Evenness Increase Sample Site Abomasum,Rumen Sample Type Fluids Sequence Data Repository Missing Journal Veterinary Research Communications Project Number Unavailable DOI https://doi.org/10.1007/s11259-017-9698-5
42	2017_2 Details DOI - Open Access	A benign helminth alters the host immune system and the gut microbiota in a rat model system	Rat (Rattus norvegicus)	Hymenolepis diminuta
	Authors Wegener Parfrey L, Jirků M, Šíma R, Jalovecká M, Sak B, Grigore K, Jirků Pomajbíkova K Host Species Rat (Rattus norvegicus) Control Species Rat (Rattus norvegicus) Infection Type Experimental Parasite Species Hymenolepis diminuta Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site None Sample Type Faeces Sequence Data Repository European Nucleotide Archive (ENA) Journal PLoS One Project Number ERP014631 DOI https://doi.org/10.1371/journal.pone.0182205
43	2017_1 Details DOI - Open Access	Infections by human gastrointestinal helminths are associated with changes in faecal microbiota diversity and composition	Human (Homo Sapiens)	Ancylostoma duodenale,Ascaris lumbricoides,Necator americanus,Trichuris trichiura
	Authors Jenkins TP, Rathnayaka Y, Perera PK, Peachey LE, Nolan MJ, Krause L, Rajakaruna RS, Cantacessi C Host Species Human (Homo Sapiens) Control Species Human (Homo Sapiens) Infection Type Natural Parasite Species Ancylostoma duodenale,Ascaris lumbricoides,Necator americanus,Trichuris trichiura Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness Increase Sample Site None Sample Type Faeces Sequence Data Repository National Center for Biotechnology Information (NCBI) Journal PLoS One Project Number PRJEB21999 DOI https://doi.org/10.1371/journal.pone.0184719
2016
44	2016_5 Details DOI -	Got worms? Perinatal exposure to helminths prevents persistent immune sensitization and cognitive dysfunction induced by early-life infection	Rat (Rattus norvegicus)	Hymenolepis diminuta
	Authors Williamson LL, McKenney EA, Holzknecht ZE, Belliveau C, Rawls JF, Poulton S, Parker W, Bilbo SD Host Species Rat (Rattus norvegicus) Control Species Rat (Rattus norvegicus) Infection Type Experimental Parasite Species Hymenolepis diminuta Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness Not assessed Richness Not assessed Beta diversity Evenness Not assessed Sample Site Caecum Sample Type None Sequence Data Repository Missing Journal Brain, Behavior, and Immunity Project Number Unavailable DOI https://doi.org/10.1016/j.bbi.2015.07.006
45	2016_4 Details DOI - Open Access	Helminth infections and gut microbiota – a feline perspective	Cat (Felis catus)	Toxocara cati
	Authors Duarte AM, Jenkins TP, Latrofa MS, Giannelli A, Papadopoulos E, Madeira de Carvalho L, Nolan MJ, Otranto D, Cantacessi C Host Species Cat (Felis catus) Control Species Cat (Felis catus) Infection Type Natural Parasite Species Toxocara cati Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site None Sample Type Faeces Sequence Data Repository National Center for Biotechnology Information (NCBI) Journal Parasites & Vectors Project Number PRJNA349988 DOI https://doi.org/10.1186/s13071-016-1908-4
46	2016_3 Details DOI - Open Access	The effect of helminth infection on the microbial composition and structure of the caprine abomasal microbiome	Alpine Goat (Capra aegagrus hircus)	Haemonchus contortus
	Authors Li RW, Li W, Sun J, Yu P, Baldwin RL, Urban JF Jr Host Species Alpine Goat (Capra aegagrus hircus) Control Species Alpine Goat (Capra aegagrus hircus) Infection Type Experimental Parasite Species Haemonchus contortus Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site Abomasum Sample Type Lumen Sequence Data Repository MG-RAST Journal Scientific Reports Project Number mgp13390; mgm4629311.3 to mgm4629350.3 DOI https://doi.org/10.1038/srep20606
47	2016_2 Details DOI - Open Access	Impact of helminth infections and nutritional constraints on the small intestine microbiota	Rabbits (Oryctolagus cuniculus)	Trichostrongylus retortaeformis
	Authors Cattadori IM, Sebastian A, Hao H, Katani R, Albert I, Eilertson KE, Kapur V, Pathak A, Mitchell S Host Species Rabbits (Oryctolagus cuniculus) Control Species Rabbits (Oryctolagus cuniculus) Infection Type Experimental Parasite Species Trichostrongylus retortaeformis Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Roche 454) Alpha diversity Evenness Decrease Richness Decrease Beta diversity Evenness None - no change Sample Site Duodenum Sample Type Mucosa Sequence Data Repository Missing Journal PLoS One Project Number Unavailable DOI https://doi.org/10.1371/journal.pone.0159770
48	2016_1 Details DOI - Open Access	Changes in duodenal tissue-associated microbiota following hookworm infection and consecutive gluten challenges in humans with coeliac disease	Human (Homo Sapiens)	Necator americanus
	Authors Giacomin P, Zakrzewski M, Jenkins TP, Su X, Al-Hallaf R, Croese J, de Vries S, Grant A, Mitreva M, Loukas A, Krause L, Cantacessi C Host Species Human (Homo Sapiens) Control Species Human (Homo Sapiens) Infection Type Experimental Parasite Species Necator americanus Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness Increase Richness Increase Beta diversity Evenness None - no change Sample Site Duodenum Sample Type Biopsy Sequence Data Repository National Center for Biotechnology Information (NCBI) Journal Scientific Reports Project Number SRP078558 DOI https://doi.org/10.1038/srep36797
2015
49	2015_8 Details DOI -	(CAT) Differences in the faecal microbiome of non-diarrhoeic clinically healthy dogs and cats associated with Giardia duodenalis infection: impact of hookworms and coccidia	Cat (Felis catus),Dog (Canis lupus familiaris)	Ancylostoma caninum,Giardia intestinalis
	Authors Šlapeta J, Dowd SE, Alanazi AD, Westman ME, Brown GK Host Species Cat (Felis catus),Dog (Canis lupus familiaris) Control Species UNKNOWN Infection Type Natural Parasite Species Ancylostoma caninum,Giardia intestinalis Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Roche 454) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site None Sample Type Faeces Sequence Data Repository National Center for Biotechnology Information (NCBI) Journal International Journal for Parasitology Project Number PRJNA276586 DOI https://doi.org/10.1016/j.ijpara.2015.04.001
50	2015_8 Details DOI - Open Access	Differences in the faecal microbiome in Schistosoma haematobium infected children vs. uninfected children	Human (Homo Sapiens)	None
	Authors Kay GL, Millard A, Sergeant MJ, Midzi N, Gwisai R, Mduluza T, Ivens A, Nausch N, Mutapi F, Pallen M Host Species Human (Homo Sapiens) Control Species Human (Homo Sapiens) Infection Type Natural Parasite Species None Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site None Sample Type Faeces Sequence Data Repository Missing Journal PLoS Neglected Tropical Diseases Project Number Unavailable DOI https://doi.org/10.1371/journal.pntd.0003861
51	2015_7 Details DOI -	(DOG) - Differences in the faecal microbiome of non-diarrhoeic clinically healthy dogs and cats associated with Giardia duodenalis infection: impact of hookworms and coccidia	Cat (Felis catus),Dog (Canis lupus familiaris)	Ancylostoma caninum,Giardia intestinalis
	Authors Šlapeta J, Dowd SE, Alanazi AD, Westman ME, Brown GK Host Species Cat (Felis catus),Dog (Canis lupus familiaris) Control Species UNKNOWN Infection Type Natural Parasite Species Ancylostoma caninum,Giardia intestinalis Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Roche 454) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site None Sample Type Faeces Sequence Data Repository National Center for Biotechnology Information (NCBI) Journal International Journal for Parasitology Project Number PRJNA276586 DOI https://doi.org/10.1016/j.ijpara.2015.04.001
52	2015_6 Details DOI - Open Access	Alteration of the rat cecal microbiome during colonization with the helminth Hymenolepis diminuta	Rat (Rattus norvegicus)	Hymenolepis diminuta
	Authors McKenney EA, Williamson L, Yoder AD, Rawls JF, Bilbo SD, Parker W Host Species Rat (Rattus norvegicus) Control Species Rat (Rattus norvegicus) Infection Type Experimental Parasite Species Hymenolepis diminuta Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site Caecum Sample Type Lumen Sequence Data Repository National Center for Biotechnology Information (NCBI) Journal Gut Microbes Project Number PRJNA270622 DOI https://doi.org/10.1080/19490976.2015.1047128
53	2015_5 Details DOI -	Interactions between multiple helminths and the gut microbiota in wild rodents	Wild yellow-necked mouse (Apodemus flavicollis)	Heligmosomoides polygyrus,Hymenolepis diminuta,Syphacia spp.
	Authors Kreisinger J, Bastien G, Hauffe HC, Marchesi J, Perkins SE Host Species Wild yellow-necked mouse (Apodemus flavicollis) Control Species UNKNOWN Infection Type Natural Parasite Species Heligmosomoides polygyrus,Hymenolepis diminuta,Syphacia spp. Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Roche 454) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness Increase Sample Site Caecum,Colon,Ileum,Stomach Sample Type Lumen,Mucosa Sequence Data Repository European Nucleotide Archive (ENA) Journal Philosophical Transactions of the Royal Society London B: Biolological Sciences Project Number ERP009377 DOI https://10.1098/rstb.2014.0295
54	2015_4 Details DOI - Open Access	Type 2 immunity-dependent reduction of segmented filamentous bacteria in mice infected with the helminthic parasite Nippostrongylus brasiliensis	Mouse (Mus musculus)	Nippostrongylus brasiliensis
	Authors Fricke WF, Song Y, Wang AJ, Smith A, Grinchuk V, Pei C, Ma B, Lu N, Urban JF Jr, Shea-Donohue T, Zhao A Host Species Mouse (Mus musculus) Control Species Mouse (Mus musculus) Infection Type Experimental Parasite Species Nippostrongylus brasiliensis Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site Small intestine Sample Type Faeces,Lumen Sequence Data Repository National Center for Biotechnology Information (NCBI) Journal Microbiome Project Number PRJNA255974 DOI https://doi.org/10.1186/s40168-015-0103-8
55	2015_3 Details DOI - Open Access	Chronic Trichuris muris infection in C57BL/6 mice causes significant changes in host microbiota and metabolome: effects reversed by pathogen clearance	Mouse (Mus musculus)	Trichuris muris
	Authors Houlden A, Hayes KS, Bancroft AJ, Worthington JJ, Wang P, Grencis RK, Roberts IS Host Species Mouse (Mus musculus) Control Species Mouse (Mus musculus) Infection Type Experimental Parasite Species Trichuris muris Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Roche 454) Alpha diversity Evenness Decrease Richness Decrease Beta diversity Evenness None - no change Sample Site None Sample Type Faeces Sequence Data Repository European Nucleotide Archive (ENA) Journal PLoS One Project Number ERP008663 DOI https://doi.org/10.1371/journal.pone.0125945
56	2015_2 Details DOI - Open Access	Chronic Trichuris muris infection decreases diversity of the intestinal microbiota and concomitantly increases the abundance of Lactobacilli	Mouse (Mus musculus)	Trichuris muris
	Authors Holm JB, Sorobetea D, Kiilerich P, Ramayo-Caldas Y, Estellé J, Ma T, Madsen L, Kristiansen K, Svensson-Frej M Host Species Mouse (Mus musculus) Control Species Mouse (Mus musculus) Infection Type Experimental Parasite Species Trichuris muris Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness Increase Richness Increase Beta diversity Evenness Increase Sample Site Caecum Sample Type Faeces,Lumen Sequence Data Repository European Nucleotide Archive (ENA) Journal PLoS One Project Number ERP006108 DOI https://doi.org/10.1371/journal.pone.0125495
57	2015_1 Details DOI - Open Access	Experimental hookworm infection and escalating gluten challenges are associated with increased microbial richness in celiac subjects	Human (Homo Sapiens)	Necator americanus
	Authors Giacomin P, Zakrzewski M, Croese J, Su X, Sotillo J, McCann L, Navarro S, Mitreva M, Krause L, Loukas A, Cantacessi C Host Species Human (Homo Sapiens) Control Species Human (Homo Sapiens) Infection Type Experimental Parasite Species Necator americanus Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Roche 454) Alpha diversity Evenness Increase Richness Increase Beta diversity Evenness None - no change Sample Site None Sample Type Faeces Sequence Data Repository National Center for Biotechnology Information (NCBI) Journal Scientific Reports Project Number SRP059769 DOI https://doi.org/10.1038/srep13797
2014
58	2014_3 Details DOI - Open Access	Commensal–pathogen interactions in the intestinal tract: Lactobacilli promote infection with, and are promoted by, helminth parasites	Mouse (Mus musculus)	Heligmosomoides polygyrus
	Authors Reynolds LA, Smith KA, Filbey KJ, Harcus Y, Hewitson JP, Redpath SA, Valdez Y, Yebra MJ, Finlay BB, Maizels RM Host Species Mouse (Mus musculus) Control Species Mouse (Mus musculus) Infection Type Experimental Parasite Species Heligmosomoides polygyrus Profiling Method Cloning and bacterial 16S rRNA amplicon qPCR Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site Duodenum Sample Type Faeces,Lumen Sequence Data Repository Missing Journal Gut Microbes Project Number N/A (clone library) DOI https://doi.org/10.4161/gmic.32155
59	2014_2 Details DOI - Open Access	Impact of experimental hookworm infection on the human gut microbiota	Human (Homo Sapiens)	Necator americanus
	Authors Cantacessi C, Giacomin P, Croese J, Zakrzewski M, Sotillo J, McCann L, Nolan MJ, Mitreva M, Krause L, Loukas A Host Species Human (Homo Sapiens) Control Species Human (Homo Sapiens) Infection Type Experimental Parasite Species Necator americanus Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Roche 454) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site None Sample Type Faeces Sequence Data Repository National Center for Biotechnology Information (NCBI) Journal The Journal of Infectious Diseases Project Number SRP041283 DOI https://doi.org/10.1093/infdis/jiu256
60	2014_1 Details DOI - Open Access	Helminth colonization is associated with increased diversity of the gut microbiota	Human (Homo Sapiens)	Trichuris spp.
	Authors Lee SC, Tang MS, Lim YAL, Choy SH, Kurtz ZD, Cox LM, Gundra UM, Cho I, Bonneau R, Blaser MJ, Chua KH, Loke P Host Species Human (Homo Sapiens) Control Species Human (Homo Sapiens) Infection Type Natural Parasite Species Trichuris spp. Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness Increase Richness Increase Beta diversity Evenness None - no change Sample Site None Sample Type Faeces Sequence Data Repository Missing Journal PLoS Neglected Tropical Diseases Project Number N/A DOI https://doi.org/10.1371/journal.pntd.0002880
2013
61	2013_3 Details DOI - Open Access	Infection with the carcinogenic liver fluke Opisthorchis viverrini modifies intestinal and biliary microbiome	Hamster (Mesocricetus auratus)	Opisthorchis viverrini
	Authors Plieskatt JL, Deenonpoe R, Mulvenna JP, Krause L, Sripa B, Bethony JM, Brindley PJ Host Species Hamster (Mesocricetus auratus) Control Species Hamster (Mesocricetus auratus) Infection Type Experimental Parasite Species Opisthorchis viverrini Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Roche 454) Alpha diversity Evenness Increase Richness Increase Beta diversity Evenness None - no change Sample Site Bile ducts,Colorectum Sample Type Lumen Sequence Data Repository National Center for Biotechnology Information (NCBI) Journal The FASEB Journal Project Number PRJNA188112 DOI https://doi.org/10.1096/fj.13-232751
62	2013_2 Details DOI - Open Access	Small intestinal nematode infection of mice is associated with increased enterobacterial loads alongside the intestinal tract	Mouse (Mus musculus)	Heligmosomoides polygyrus
	Authors Rausch S, Held J, Fischer A, Heimesaat MM, Kühl AA, Bereswill S, Hartmann S Host Species Mouse (Mus musculus) Control Species Mouse (Mus musculus) Infection Type Experimental Parasite Species Heligmosomoides polygyrus Profiling Method Bacterial 16S rRNA qPCR Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site Caecum,Colon,Ileum Sample Type Lumen Sequence Data Repository Missing Journal PLoS One Project Number N/A DOI https://doi.org/10.1371/journal.pone.0074026
63	2013_1 Details DOI - Open Access	Patent human infections with the whipworm, Trichuris trichiura, are not associated with alterations in the faecal microbiota	Human (Homo Sapiens)	None
	Authors Cooper P, Walker AW, Reyes J, Chico M, Salter SJ, Vaca M, Parkhill J Host Species Human (Homo Sapiens) Control Species Human (Homo Sapiens) Infection Type Natural Parasite Species None Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Roche 454) Alpha diversity Evenness Decrease Richness Decrease Beta diversity Evenness None - no change Sample Site None Sample Type None Sequence Data Repository European Nucleotide Archive (ENA) Journal PLoS One Project Number ERP002465 DOI https://doi.org/10.1371/journal.pone.0076573
2012
64	2012_3 Details DOI - Open Access	Alterations in the porcine colon microbiota induced by the gastrointestinal nematode Trichuris suis	Pig (Sus scrofa domestica)	Trichuris suis
	Authors Li RW, Wu S, Li W, Navarro K, Couch RD, Hill D, Urban JF Jr. Host Species Pig (Sus scrofa domestica) Control Species Pig (Sus scrofa domestica) Infection Type Experimental Parasite Species Trichuris suis Profiling Method Cloning and bacterial 16S rRNA amplicon qPCR Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site Colon Sample Type Lumen Sequence Data Repository National Center for Biotechnology Information (NCBI) Journal Infection and Immunity (WAS: American Society for Microbiology Journals) Project Number PRJNA518074 DOI https://doi.org/10.1128/IAI.00141-12
65	2012_2 Details DOI - Open Access	Worm burden-dependent disruption of the porcine colon microbiota by Trichuris suis infection	Pig (Sus scrofa domestica)	Trichuris suis
	Authors Wu S, Li RW, Li W, Beshah E, Dawson HD, Urban JF Jr Host Species Pig (Sus scrofa domestica) Control Species Pig (Sus scrofa domestica) Infection Type Experimental Parasite Species Trichuris suis Profiling Method Whole metagenome shotgun sequencing (Illumina) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site Colon Sample Type Lumen Sequence Data Repository MG-RAST Journal PLoS One Project Number 4474250.3 to 4474257.3, 4474259.3, 4474261.3 and 4474262.3 DOI https://doi.org/10.1371/journal.pone.0035470
66	2012_1 Details DOI - Open Access	Therapeutic helminth infection of macaques with idiopathic chronic diarrhea alters the inflammatory signature and mucosal microbiota of the colon	Macaca mulatta - captive	Trichuris trichiura
	Authors Broadhurst MJ, Ardeshir A, Kanwar B, Mirpuri J, Gundra UM, Leung JM, Wiens KE, Vujkovic-Cvijin I, Kim CC, Yarovinsky F, Lerche NW, McCune JM, Loke P Host Species Macaca mulatta - captive Control Species Macaca mulatta - captive Infection Type Experimental Parasite Species Trichuris trichiura Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) Alpha diversity Evenness Increase Richness Increase Beta diversity Evenness None - no change Sample Site Colon Sample Type Biopsy,Blood Sequence Data Repository Missing Journal PLoS Pathogens Project Number N/A DOI https://doi.org/10.1371/journal.ppat.1003000
2011
67	2011_1 Details DOI - Open Access	Metagenome plasticity of the bovine abomasal microbiota in immune animals in response to Ostertagia ostertagi Infection	Cattle (Bos taurus)	Ostertagia ostertagi
	Authors Li RW, Wu S, Li W, Huang Y, Gasbarre LC Host Species Cattle (Bos taurus) Control Species Cattle (Bos taurus) Infection Type Experimental Parasite Species Ostertagia ostertagi Profiling Method High throughput sequencing of bacterial 16S rRNA amplicons (Roche 454) Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site Abomasum Sample Type Lumen Sequence Data Repository National Center for Biotechnology Information (NCBI) Journal PLoS One Project Number PRJNA518072 DOI https://doi.org/10.1371/journal.pone.0024417
2010
68	2010_1 Details DOI -	Alteration of the murine gut microbiota during infection with the parasitic helminth Heligmosomoides polygyrus	Mouse (Mus musculus)	Heligmosomoides polygyrus
	Authors Walk ST, Blum AM, Ang-Sheng S, Weinstock JV, Young VB Host Species Mouse (Mus musculus) Control Species Mouse (Mus musculus) Infection Type Experimental Parasite Species Heligmosomoides polygyrus Profiling Method Cloning and bacterial 16S rRNA amplicon qPCR Alpha diversity Evenness None - no change Richness None - no change Beta diversity Evenness None - no change Sample Site Caecum,Ileum Sample Type Mucosa Sequence Data Repository Missing Journal Inflammatory Bowel Diseases Project Number N/A (qPCR) DOI https://doi.org/10.1002/ibd.21299

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