{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,9]],"date-time":"2026-10-09T21:59:27Z","timestamp":1791583167543,"version":"4.3.4"},"reference-count":67,"publisher":"Springer Science and Business Media LLC","issue":"3","license":[{"start":{"date-parts":[[2023,1,5]],"date-time":"2023-01-05T00:00:00Z","timestamp":1672876800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.springernature.com\/gp\/researchers\/text-and-data-mining"},{"start":{"date-parts":[[2023,1,5]],"date-time":"2023-01-05T00:00:00Z","timestamp":1672876800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/www.springernature.com\/gp\/researchers\/text-and-data-mining"}],"funder":[{"DOI":"10.13039\/501100000925","name":"National Health and Medical Research Council","doi-asserted-by":"publisher","award":["1136300"],"award-info":[{"award-number":["1136300"]}],"id":[{"id":"10.13039\/501100000925","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100000925","name":"National Health and Medical Research Council","doi-asserted-by":"publisher","award":["APP2003848"],"award-info":[{"award-number":["APP2003848"]}],"id":[{"id":"10.13039\/501100000925","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["Parasitol Res"],"published-print":{"date-parts":[[2023,3]]},"DOI":"10.1007\/s00436-022-07775-2","type":"journal-article","created":{"date-parts":[[2023,1,5]],"date-time":"2023-01-05T07:07:03Z","timestamp":1672902423000},"page":"789-799","update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":5,"title":["Altered gastrointestinal tract structure and microbiome following cerebral malaria infection"],"prefix":"10.1007","volume":"122","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-6127-5054","authenticated-orcid":false,"given":"Sarah A.","family":"Knowler","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1517-9264","authenticated-orcid":false,"given":"Anya","family":"Shindler","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-7313-5681","authenticated-orcid":false,"given":"Jennifer L.","family":"Wood","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Asha","family":"Lakkavaram","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-0457-715X","authenticated-orcid":false,"given":"Colleen J.","family":"Thomas","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5810-8063","authenticated-orcid":false,"given":"Tania F.","family":"de Koning-Ward","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4146-7198","authenticated-orcid":false,"given":"Elisa L.","family":"Hill-Yardin","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4947-371X","authenticated-orcid":false,"given":"Teresa G.","family":"Carvalho","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1664-6060","authenticated-orcid":false,"given":"Ashley E.","family":"Franks","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2023,1,5]]},"reference":[{"key":"7775_CR1","doi-asserted-by":"publisher","first-page":"22","DOI":"10.1186\/1471-230x-11-22","volume":"11","author":"JB Adams","year":"2011","unstructured":"Adams JB, Johansen LJ, Powell LD, Quig D, Rubin RA (2011) Gastrointestinal flora and gastrointestinal status in children with autism-comparisons to typical children and correlation with autism severity. BMC Gastroenterol 11:22. https:\/\/doi.org\/10.1186\/1471-230x-11-22","journal-title":"BMC Gastroenterol"},{"key":"7775_CR2","doi-asserted-by":"publisher","first-page":"336","DOI":"10.1093\/cid\/ciu293","volume":"59","author":"P Bangirana","year":"2014","unstructured":"Bangirana P, Opoka RO, Boivin MJ, Idro R, Hodges JS, Romero RA, Shapiro E, John CC (2014) Severe malarial anemia is associated with long-term neurocognitive impairment. Clin Infect Dis 59:336\u2013344. https:\/\/doi.org\/10.1093\/cid\/ciu293","journal-title":"Clin Infect Dis"},{"key":"7775_CR3","doi-asserted-by":"publisher","first-page":"2839","DOI":"10.1128\/IAI.71.5.2839-2858.2003","volume":"71","author":"M Barthel","year":"2003","unstructured":"Barthel M, Hapfelmeier S, Quintanilla-Mart\u00ednez L, Kremer M, Rohde M, Hogardt M, Pfeffer K, R\u00fcssmann H, Hardt W-D (2003) Pretreatment of mice with streptomycin provides a Salmonella enterica serovar Typhimurium colitis model that allows analysis of both pathogen and host. Infect Immun 71:2839\u20132858. https:\/\/doi.org\/10.1128\/IAI.71.5.2839-2858.2003","journal-title":"Infect Immun"},{"key":"7775_CR4","doi-asserted-by":"publisher","first-page":"1449","DOI":"10.1038\/ismej.2012.6","volume":"6","author":"C Belzer","year":"2012","unstructured":"Belzer C, de Vos WM (2012) Microbes inside-from diversity to function: the case of Akkermansia. ISME J 6:1449. https:\/\/doi.org\/10.1038\/ismej.2012.6","journal-title":"ISME J"},{"key":"7775_CR5","doi-asserted-by":"publisher","first-page":"826","DOI":"10.1016\/j.jtbi.2007.08.032","volume":"249","author":"RR Bollinger","year":"2007","unstructured":"Bollinger RR, Barbas AS, Bush EL, Lin SS, Parker W (2007) Biofilms in the large bowel suggest an apparent function of the human vermiform appendix. J Theor Biol 249:826\u2013831. https:\/\/doi.org\/10.1016\/j.jtbi.2007.08.032","journal-title":"J Theor Biol"},{"key":"7775_CR6","doi-asserted-by":"publisher","first-page":"852","DOI":"10.1038\/s41587-019-0209-9","volume":"37","author":"E Bolyen","year":"2019","unstructured":"Bolyen E, Rideout JR, Dillon MR, Bokulich NA, Abnet CC, Al-Ghalith GA, Alexander H, Alm EJ, Arumugam M, Asnicar F, Bai Y et al (2019) Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2. Nat Biotechnol 37:852\u2013857. https:\/\/doi.org\/10.1038\/s41587-019-0209-9","journal-title":"Nat Biotechnol"},{"key":"7775_CR7","doi-asserted-by":"publisher","first-page":"218","DOI":"10.1080\/19490976.2017.1408763","volume":"9","author":"K Brown","year":"2018","unstructured":"Brown K, Abbott DW, Uwiera RRE, Inglis GD (2018) Removal of the cecum affects intestinal fermentation, enteric bacterial community structure, and acute colitis in mice. Gut Microbes 9:218\u2013235. https:\/\/doi.org\/10.1080\/19490976.2017.1408763","journal-title":"Gut Microbes"},{"key":"7775_CR8","doi-asserted-by":"publisher","first-page":"1249","DOI":"10.3389\/fphar.2020.01249","volume":"11","author":"T-T Cai","year":"2020","unstructured":"Cai T-T, Ye X-L, Li R-R, Chen H, Wang Y-Y, Yong H-J, Pan M-L, Lu W, Tang Y, Miao H, Snijders AM et al (2020) Resveratrol modulates the gut microbiota and inflammation to protect against diabetic nephropathy in mice. Front Pharmacol 11:1249. https:\/\/doi.org\/10.3389\/fphar.2020.01249","journal-title":"Front Pharmacol"},{"key":"7775_CR9","doi-asserted-by":"publisher","first-page":"581","DOI":"10.1038\/nmeth.3869","volume":"13","author":"BJ Callahan","year":"2016","unstructured":"Callahan BJ, McMurdie PJ, Rosen MJ, Han AW, Johnson AJA, Holmes SP (2016) DADA2: high-resolution sample inference from Illumina amplicon data. Nat Methods 13:581\u2013583. https:\/\/doi.org\/10.1038\/nmeth.3869","journal-title":"Nat Methods"},{"key":"7775_CR10","doi-asserted-by":"publisher","first-page":"e00127","DOI":"10.1128\/mSystems.00127-16","volume":"2","author":"AM Comeau","year":"2017","unstructured":"Comeau AM, Douglas GM, Langille MGI (2017) Microbiome helper: a custom and streamlined workflow for microbiome research. mSystems 2:e00127-00116. https:\/\/doi.org\/10.1128\/mSystems.00127-16","journal-title":"mSystems"},{"key":"7775_CR11","doi-asserted-by":"publisher","first-page":"755","DOI":"10.1017\/S0031182009991715","volume":"137","author":"JB de Souza","year":"2010","unstructured":"de Souza JB, Hafalla JCR, Riley EM, Couper KN (2010) Cerebral malaria: why experimental murine models are required to understand the pathogenesis of disease. Parasitology 137:755\u2013772. https:\/\/doi.org\/10.1017\/S0031182009991715","journal-title":"Parasitology"},{"key":"7775_CR12","doi-asserted-by":"publisher","first-page":"3472","DOI":"10.1038\/s41598-019-40266-6","volume":"9","author":"JE Denny","year":"2019","unstructured":"Denny JE, Powers JB, Castro HF, Zhang J, Joshi-Barve S, Campagna SR, Schmidt NW (2019) Differential sensitivity to Plasmodium yoelii infection in C57BL\/6 mice impacts gut-liver axis homeostasis. Sci Rep 9:3472. https:\/\/doi.org\/10.1038\/s41598-019-40266-6","journal-title":"Sci Rep"},{"key":"7775_CR13","doi-asserted-by":"publisher","first-page":"1646","DOI":"10.1128\/aem.01226-07","volume":"74","author":"M Derrien","year":"2008","unstructured":"Derrien M, Collado MC, Ben-Amor K, Salminen S, de Vos WM (2008) The mucin degrader Akkermansia muciniphila is an abundant resident of the human intestinal tract. Appl Environ Microbiol 74:1646\u20131648. https:\/\/doi.org\/10.1128\/aem.01226-07","journal-title":"Appl Environ Microbiol"},{"key":"7775_CR14","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1016\/j.jpsychires.2015.02.021","volume":"63","author":"TG Dinan","year":"2015","unstructured":"Dinan TG, Stilling RM, Stanton C, Cryan JF (2015) Collective unconscious: how gut microbes shape human behavior. J Psychiatr Res 63:1\u20139. https:\/\/doi.org\/10.1016\/j.jpsychires.2015.02.021","journal-title":"J Psychiatr Res"},{"key":"7775_CR15","doi-asserted-by":"publisher","first-page":"927","DOI":"10.1111\/j.1654-1103.2003.tb02228.x","volume":"14","author":"P Dixon","year":"2003","unstructured":"Dixon P (2003) Vegan, a package of R functions for community ecology. J Veg Sci 14:927\u2013930. https:\/\/doi.org\/10.1111\/j.1654-1103.2003.tb02228.x","journal-title":"J Veg Sci"},{"key":"7775_CR16","doi-asserted-by":"publisher","first-page":"50","DOI":"10.1016\/j.anaerobe.2013.06.002","volume":"22","author":"M Fr\u00e9mont","year":"2013","unstructured":"Fr\u00e9mont M, Coomans D, Massart S, De Meirleir K (2013) High-throughput 16S rRNA gene sequencing reveals alterations of intestinal microbiota in myalgic encephalomyelitis\/chronic fatigue syndrome patients. Anaerobe 22:50\u201356. https:\/\/doi.org\/10.1016\/j.anaerobe.2013.06.002","journal-title":"Anaerobe"},{"key":"7775_CR17","doi-asserted-by":"publisher","first-page":"52","DOI":"10.1016\/j.pharmthera.2015.11.012","volume":"158","author":"S Ghaisas","year":"2016","unstructured":"Ghaisas S, Maher J, Kanthasamy A (2016) Gut microbiome in health and disease: linking the microbiome\u2013gut\u2013brain axis and environmental factors in the pathogenesis of systemic and neurodegenerative diseases. Pharmacol Ther 158:52\u201362. https:\/\/doi.org\/10.1016\/j.pharmthera.2015.11.012","journal-title":"Pharmacol Ther"},{"key":"7775_CR18","doi-asserted-by":"publisher","first-page":"e7502","DOI":"10.7717\/peerj.7502","volume":"7","author":"N Hasan","year":"2019","unstructured":"Hasan N, Yang H (2019) Factors affecting the composition of the gut microbiota, and its modulation. PeerJ 7:e7502. https:\/\/doi.org\/10.7717\/peerj.7502","journal-title":"PeerJ"},{"key":"7775_CR19","doi-asserted-by":"publisher","first-page":"421","DOI":"10.1186\/s12936-017-2071-x","volume":"16","author":"S Herrera","year":"2017","unstructured":"Herrera S, Enuameh Y, Adjei G, Ae-Ngibise KA, Asante KP, Sankoh O, Owusu-Agyei S, Y\u00e9 Y (2017) A systematic review and synthesis of the strengths and limitations of measuring malaria mortality through verbal autopsy. Malar J 16:421. https:\/\/doi.org\/10.1186\/s12936-017-2071-x","journal-title":"Malar J"},{"key":"7775_CR20","doi-asserted-by":"publisher","first-page":"149","DOI":"10.1007\/s00018-017-2693-8","volume":"75","author":"F Hugenholtz","year":"2018","unstructured":"Hugenholtz F, de Vos WM (2018) Mouse models for human intestinal microbiota research: a critical evaluation. Cell Mol Life Sci 75:149\u2013160. https:\/\/doi.org\/10.1007\/s00018-017-2693-8","journal-title":"Cell Mol Life Sci"},{"key":"7775_CR21","doi-asserted-by":"publisher","first-page":"267","DOI":"10.1203\/PDR.0b013e3181eee738","volume":"68","author":"R Idro","year":"2010","unstructured":"Idro R, Marsh K, John CC, Newton CRJ (2010) Cerebral malaria: mechanisms of brain injury and strategies for improved neurocognitive outcome. Pediatr Res 68:267\u2013274. https:\/\/doi.org\/10.1203\/PDR.0b013e3181eee738","journal-title":"Pediatr Res"},{"key":"7775_CR22","unstructured":"Illumina (2013) 16S Metagenomic sequencing library preparation. https:\/\/sapac.support.illumina.com\/documentation.html. Accessed 12 Dec 2018"},{"key":"7775_CR23","doi-asserted-by":"publisher","first-page":"8787","DOI":"10.3748\/wjg.v21.i29.8787","volume":"21","author":"SM Jandhyala","year":"2015","unstructured":"Jandhyala SM, Talukdar R, Subramanyam C, Vuyyuru H, Sasikala M, Nageshwar Reddy D (2015) Role of the normal gut microbiota. World J Gastroenterol 21:8787\u20138803. https:\/\/doi.org\/10.3748\/wjg.v21.i29.8787","journal-title":"World J Gastroenterol"},{"key":"7775_CR24","doi-asserted-by":"publisher","first-page":"186","DOI":"10.1016\/j.bbi.2015.03.016","volume":"48","author":"H Jiang","year":"2015","unstructured":"Jiang H, Ling Z, Zhang Y, Mao H, Ma Z, Yin Y, Wang W, Tang W, Tan Z, Shi J, Li L et al (2015) Altered fecal microbiota composition in patients with major depressive disorder. Brain Behav Immun 48:186\u2013194. https:\/\/doi.org\/10.1016\/j.bbi.2015.03.016","journal-title":"Brain Behav Immun"},{"issue":"4","key":"7775_CR25","doi-asserted-by":"publisher","first-page":"772","DOI":"10.1093\/molbev\/mst010","volume":"30","author":"K Katoh","year":"2013","unstructured":"Katoh K, Standley D (2013) MAFFT multiple sequence alignment software version 7: improvements in performance and usability. Mol Biol Evol 30(4):772\u2013780. https:\/\/doi.org\/10.1093\/molbev\/mst010","journal-title":"Mol Biol Evol"},{"key":"7775_CR26","doi-asserted-by":"publisher","first-page":"2166","DOI":"10.3389\/fmicb.2017.02166","volume":"8","author":"H Kaur","year":"2017","unstructured":"Kaur H, Das C, Mande SS (2017) In silico analysis of putrefaction pathways in bacteria and its implication in colorectal cancer. Front Microbiol 8:2166. https:\/\/doi.org\/10.3389\/fmicb.2017.02166","journal-title":"Front Microbiol"},{"key":"7775_CR27","doi-asserted-by":"publisher","first-page":"956","DOI":"10.1161\/CIRCRESAHA.116.309219","volume":"119","author":"TN Kelly","year":"2016","unstructured":"Kelly TN, Bazzano LA, Ajami NJ, He H, Zhao J, Petrosino JF, Correa A, He J (2016) Gut microbiome associates with lifetime cardiovascular disease risk profile among Bogalusa Heart Study participants. Circ Res 119:956\u2013964. https:\/\/doi.org\/10.1161\/CIRCRESAHA.116.309219","journal-title":"Circ Res"},{"key":"7775_CR28","doi-asserted-by":"publisher","first-page":"e1","DOI":"10.1093\/nar\/gks808","volume":"41","author":"A Klindworth","year":"2012","unstructured":"Klindworth A, Pruesse E, Schweer T, Peplies J, Quast C, Horn M, Gl\u00f6ckner FO (2012) Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies. Nucleic Acids Res 41:e1\u2013e1. https:\/\/doi.org\/10.1093\/nar\/gks808","journal-title":"Nucleic Acids Res"},{"key":"7775_CR29","doi-asserted-by":"publisher","first-page":"834","DOI":"10.1038\/nbt.2942","volume":"32","author":"J Li","year":"2014","unstructured":"Li J, Jia H, Cai X, Zhong H, Feng Q, Sunagawa S, Arumugam M, Kultima JR, Prifti E, Nielsen T, Juncker AS et al (2014) An integrated catalog of reference genes in the human gut microbiome. Nat Biotechnol 32:834\u2013841. https:\/\/doi.org\/10.1038\/nbt.2942","journal-title":"Nat Biotechnol"},{"key":"7775_CR30","doi-asserted-by":"publisher","first-page":"8228","DOI":"10.1128\/AEM.71.12.8228-8235.2005","volume":"71","author":"C Lozupone","year":"2005","unstructured":"Lozupone C, Knight R (2005) UniFrac: a new phylogenetic method for comparing microbial communities. Appl Environ Microbiol 71:8228\u20138235. https:\/\/doi.org\/10.1128\/AEM.71.12.8228-8235.2005","journal-title":"Appl Environ Microbiol"},{"key":"7775_CR31","doi-asserted-by":"publisher","unstructured":"Martin, M (2011) Cutadapt removes adapter sequences from high-throughput sequencing reads. EMBnet J 17 https:\/\/doi.org\/10.14806\/ej.17.1.200","DOI":"10.14806\/ej.17.1.200"},{"key":"7775_CR32","unstructured":"Martinez Arbizu, P (2020) pairwiseAdonis: pairwise multilevel comparison using adonis.\u00a0https:\/\/github.com\/pmartinezarbizu\/pairwiseAdonis.\u00a0Accessed 07\/04\/2022"},{"key":"7775_CR33","doi-asserted-by":"publisher","first-page":"e61217","DOI":"10.1371\/journal.pone.0061217","volume":"8","author":"PJ McMurdie","year":"2013","unstructured":"McMurdie PJ, Holmes S (2013) phyloseq: an R package for reproducible interactive analysis and graphics of microbiome census data. PLoS ONE 8:e61217. https:\/\/doi.org\/10.1371\/journal.pone.0061217","journal-title":"PLoS ONE"},{"key":"7775_CR34","unstructured":"Neuwirth, E (2014) RColorBrewer: ColorBrewer Palettes. R package version 1.1\u20132.\u00a0https:\/\/cran.r-project.org\/package=RColorBrewer\/.\u00a0Accessed 07\/04\/2022"},{"key":"7775_CR35","doi-asserted-by":"publisher","first-page":"2969","DOI":"10.1007\/s00436-019-06427-2","volume":"118","author":"OC Oliveira-Lima","year":"2019","unstructured":"Oliveira-Lima OC, Almeida NL, Almeida-Leite CM, Carvalho-Tavares J (2019) Mice chronically fed a high-fat diet are resistant to malaria induced by Plasmodium berghei ANKA. Parasitol Res 118:2969\u20132977. https:\/\/doi.org\/10.1007\/s00436-019-06427-2","journal-title":"Parasitol Res"},{"key":"7775_CR36","doi-asserted-by":"publisher","first-page":"e12502","DOI":"10.1111\/pim.12502","volume":"40","author":"J Palomo","year":"2018","unstructured":"Palomo J, Quesniaux VFJ, Togbe D, Reverchon F, Ryffel B (2018) Unravelling the roles of innate lymphoid cells in cerebral malaria pathogenesis. Parasite Immunol 40:e12502. https:\/\/doi.org\/10.1111\/pim.12502","journal-title":"Parasite Immunol"},{"key":"7775_CR37","doi-asserted-by":"publisher","first-page":"2232","DOI":"10.1136\/gutjnl-2020-322260","volume":"69","author":"P Paone","year":"2020","unstructured":"Paone P, Cani PD (2020) Mucus barrier, mucins and gut microbiota: the expected slimy partners? Gut 69:2232\u20132243. https:\/\/doi.org\/10.1136\/gutjnl-2020-322260","journal-title":"Gut"},{"key":"7775_CR38","doi-asserted-by":"publisher","first-page":"277","DOI":"10.3389\/fimmu.2019.00277","volume":"10","author":"D Parada Venegas","year":"2019","unstructured":"Parada Venegas D, De la Fuente MK, Landskron G, Gonz\u00e1lez MJ, Quera R, Dijkstra G, Harmsen HJM, Faber KN, Hermoso MA (2019) Short chain fatty acids (SCFAs)-mediated gut epithelial and immune regulation and its relevance for inflammatory bowel diseases. Front Immunol 10:277. https:\/\/doi.org\/10.3389\/fimmu.2019.00277","journal-title":"Front Immunol"},{"key":"7775_CR39","doi-asserted-by":"publisher","first-page":"906","DOI":"10.3389\/fimmu.2020.00906","volume":"11","author":"BJ Parker","year":"2020","unstructured":"Parker BJ, Wearsch PA, Veloo ACM, Rodriguez-Palacios A (2020) The genus Alistipes: gut bacteria with emerging implications to inflammation, cancer, and mental health. Front Immunol 11:906. https:\/\/doi.org\/10.3389\/fimmu.2020.00906","journal-title":"Front Immunol"},{"key":"7775_CR40","first-page":"2825","volume":"12","author":"F Pedregosa","year":"2011","unstructured":"Pedregosa F, Varoquaux G, Gramfort A, Michel V, Thirion B, Grisel O, Blondel M, Prettenhofer P, Weiss R, Dubourg V, Vanderplas J et al (2011) Scikit-learn: machine learning in python. J Mach Learn Res 12:2825\u20132830","journal-title":"J Mach Learn Res"},{"key":"7775_CR41","doi-asserted-by":"publisher","first-page":"e9490","DOI":"10.1371\/journal.pone.0009490","volume":"5","author":"MN Price","year":"2010","unstructured":"Price MN, Dehal PS, Arkin AP (2010) FastTree 2 - approximately maximum-likelihood trees for large alignments. PLoS ONE 5:e9490. https:\/\/doi.org\/10.1371\/journal.pone.0009490","journal-title":"PLoS ONE"},{"key":"7775_CR42","doi-asserted-by":"publisher","first-page":"D590","DOI":"10.1093\/nar\/gks1219","volume":"41","author":"C Quast","year":"2012","unstructured":"Quast C, Pruesse E, Yilmaz P, Gerken J, Schweer T, Yarza P, Peplies J, Gl\u00f6ckner FO (2012) The SILVA ribosomal RNA gene database project: improved data processing and web-based tools. Nucleic Acids Res 41:D590\u2013D596. https:\/\/doi.org\/10.1093\/nar\/gks1219","journal-title":"Nucleic Acids Res"},{"key":"7775_CR43","unstructured":"R Core Team (2017) R: a language and environment for statistical computing.\u00a0https:\/\/www.R-project.org\/.\u00a0Accessed 07\/04\/2022"},{"key":"7775_CR44","doi-asserted-by":"publisher","first-page":"e005218","DOI":"10.1136\/bmjgh-2021-005218","volume":"6","author":"N Rakislova","year":"2021","unstructured":"Rakislova N, Jordao D, Ismail MR, Mayor A, Cister\u00f3 P, Marimon L, Ferrando M, Hurtado JC, Lovane L, Carrilho C, Lorenzoni C et al (2021) Accuracy of verbal autopsy, clinical data and minimally invasive autopsy in the evaluation of malaria-specific mortality: an observational study. BMJ Glob Health 6:e005218. https:\/\/doi.org\/10.1136\/bmjgh-2021-005218","journal-title":"BMJ Glob Health"},{"key":"7775_CR45","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1186\/s40101-020-00251-9","volume":"40","author":"S Sato","year":"2021","unstructured":"Sato S (2021) Plasmodium-a brief introduction to the parasites causing human malaria and their basic biology. J Physiol Anthropol 40:1. https:\/\/doi.org\/10.1186\/s40101-020-00251-9","journal-title":"J Physiol Anthropol"},{"key":"7775_CR46","doi-asserted-by":"publisher","first-page":"1782","DOI":"10.1053\/j.gastro.2011.06.072","volume":"141","author":"DM Saulnier","year":"2011","unstructured":"Saulnier DM, Riehle K, Mistretta TA, Diaz MA, Mandal D, Raza S, Weidler EM, Qin X, Coarfa C, Milosavljevic A, Petrosino JF et al (2011) Gastrointestinal microbiome signatures of pediatric patients with irritable bowel syndrome. Gastroenterology 141:1782\u20131791. https:\/\/doi.org\/10.1053\/j.gastro.2011.06.072","journal-title":"Gastroenterology"},{"key":"7775_CR47","doi-asserted-by":"publisher","first-page":"1125","DOI":"10.1016\/j.cell.2016.10.020","volume":"167","author":"M Schirmer","year":"2016","unstructured":"Schirmer M, Smeekens SP, Vlamakis H, Jaeger M, Oosting M, Franzosa EA, ter Horst R, Jansen T, Jacobs L, Bonder MJ, Kurilshikov A et al (2016) Linking the human gut microbiome to inflammatory cytokine production capacity. Cell 167:1125-1136.e1128. https:\/\/doi.org\/10.1016\/j.cell.2016.10.020","journal-title":"Cell"},{"key":"7775_CR48","doi-asserted-by":"publisher","first-page":"271","DOI":"10.1016\/j.cell.2018.05.014","volume":"174","author":"C Schneider","year":"2018","unstructured":"Schneider C, O\u2019Leary CE, von Moltke J, Liang H-E, Ang QY, Turnbaugh PJ, Radhakrishnan S, Pellizzon M, Ma A, Locksley RM (2018) A metabolite-triggered tuft cell-ILC2 circuit drives small intestinal remodeling. Cell 174:271-284.e214. https:\/\/doi.org\/10.1016\/j.cell.2018.05.014","journal-title":"Cell"},{"key":"7775_CR49","doi-asserted-by":"publisher","first-page":"722","DOI":"10.1038\/nri1686","volume":"5","author":"L Schofield","year":"2005","unstructured":"Schofield L, Grau GE (2005) Immunological processes in malaria pathogenesis. Nat Rev Immunol 5:722\u2013735. https:\/\/doi.org\/10.1038\/nri1686","journal-title":"Nat Rev Immunol"},{"key":"7775_CR50","doi-asserted-by":"publisher","first-page":"589379","DOI":"10.3389\/fmed.2020.589379","volume":"7","author":"ICM Sey","year":"2020","unstructured":"Sey ICM, Ehimiyein AM, Bottomley C, Riley EM, Mooney JP (2020) Does malaria cause diarrhoea? A Systematic Review Front Med (lausanne) 7:589379. https:\/\/doi.org\/10.3389\/fmed.2020.589379","journal-title":"A Systematic Review Front Med (lausanne)"},{"key":"7775_CR51","doi-asserted-by":"publisher","first-page":"18","DOI":"10.1186\/s41182-019-0146-9","volume":"47","author":"M Shimada","year":"2019","unstructured":"Shimada M, Hirose Y, Shimizu K, Yamamoto DS, Hayakawa EH, Matsuoka H (2019) Upper gastrointestinal pathophysiology due to mouse malaria Plasmodium berghei ANKA infection. Trop Med Health 47:18. https:\/\/doi.org\/10.1186\/s41182-019-0146-9","journal-title":"Trop Med Health"},{"key":"7775_CR52","doi-asserted-by":"publisher","first-page":"830","DOI":"10.3389\/fimmu.2019.00830","volume":"10","author":"F Sierro","year":"2019","unstructured":"Sierro F, Grau GER (2019) The ins and outs of cerebral malaria pathogenesis: immunopathology, extracellular vesicles, immunometabolism, and trained immunity. Front Immunol 10:830. https:\/\/doi.org\/10.3389\/fimmu.2019.00830","journal-title":"Front Immunol"},{"key":"7775_CR53","doi-asserted-by":"publisher","first-page":"e22459","DOI":"10.1371\/journal.pone.0022459","volume":"6","author":"P Songhet","year":"2011","unstructured":"Songhet P, Barthel M, Stecher B, M\u00fcller AJ, Kremer M, Hansson GC, Hardt W-D (2011) Stromal IFN-\u03b3R-signaling modulates goblet cell function during Salmonella Typhimurium infection. PLoS ONE 6:e22459. https:\/\/doi.org\/10.1371\/journal.pone.0022459","journal-title":"PLoS ONE"},{"key":"7775_CR54","doi-asserted-by":"publisher","first-page":"e00338","DOI":"10.1128\/CMR.00338-20","volume":"35","author":"SG Sorboni","year":"2022","unstructured":"Sorboni SG, Moghaddam HS, Jafarzadeh-Esfehani R, Soleimanpour S (2022) A comprehensive review on the role of the gut microbiome in human neurological disorders. Clin Microbiol Rev 35:e00338-e320. https:\/\/doi.org\/10.1128\/CMR.00338-20","journal-title":"Clin Microbiol Rev"},{"key":"7775_CR55","doi-asserted-by":"publisher","first-page":"273","DOI":"10.1038\/nrmicro.2016.17","volume":"14","author":"P Spanogiannopoulos","year":"2016","unstructured":"Spanogiannopoulos P, Bess EN, Carmody RN, Turnbaugh PJ (2016) The microbial pharmacists within us: a metagenomic view of xenobiotic metabolism. Nat Rev Micro 14:273\u2013287. https:\/\/doi.org\/10.1038\/nrmicro.2016.17","journal-title":"Nat Rev Micro"},{"key":"7775_CR56","doi-asserted-by":"publisher","first-page":"369","DOI":"10.3389\/fcimb.2019.00369","volume":"9","author":"Y Sun","year":"2019","unstructured":"Sun Y, Chen Q, Lin P, Xu R, He D, Ji W, Bian Y, Shen Y, Li Q, Liu C, Dong K et al (2019) Characteristics of gut microbiota in patients with rheumatoid arthritis in Shanghai. China Front Cell Infect Microbiol 9:369. https:\/\/doi.org\/10.3389\/fcimb.2019.00369","journal-title":"China Front Cell Infect Microbiol"},{"key":"7775_CR57","doi-asserted-by":"publisher","first-page":"15699","DOI":"10.1038\/srep15699","volume":"5","author":"T Taniguchi","year":"2015","unstructured":"Taniguchi T, Miyauchi E, Nakamura S, Hirai M, Suzue K, Imai T, Nomura T, Handa T, Okada H, Shimokawa C, Onishi R et al (2015) Plasmodium berghei ANKA causes intestinal malaria associated with dysbiosis. Sci Rep 5:15699. https:\/\/doi.org\/10.1038\/srep15699","journal-title":"Sci Rep"},{"key":"7775_CR58","doi-asserted-by":"publisher","first-page":"207","DOI":"10.1038\/nature11234","volume":"486","author":"The Human Microbiome Project Consortium","year":"2012","unstructured":"The Human Microbiome Project Consortium (2012) Structure, function and diversity of the healthy human microbiome. Nature 486:207\u2013214. https:\/\/doi.org\/10.1038\/nature11234","journal-title":"Nature"},{"key":"7775_CR59","doi-asserted-by":"publisher","first-page":"6217","DOI":"10.1038\/s41467-020-19940-1","volume":"11","author":"L Tian","year":"2020","unstructured":"Tian L, Wang X-W, Wu A-K, Fan Y, Friedman J, Dahlin A, Waldor MK, Weinstock GM, Weiss ST, Liu Y-Y (2020) Deciphering functional redundancy in the human microbiome. Nat Commun 11:6217. https:\/\/doi.org\/10.1038\/s41467-020-19940-1","journal-title":"Nat Commun"},{"key":"7775_CR60","doi-asserted-by":"publisher","first-page":"488","DOI":"10.1007\/s00335-018-9752-9","volume":"29","author":"S Torre","year":"2018","unstructured":"Torre S, Langlais D, Gros P (2018) Genetic analysis of cerebral malaria in the mouse model infected with Plasmodium berghei. Mamm Genome 29:488\u2013506. https:\/\/doi.org\/10.1007\/s00335-018-9752-9","journal-title":"Mamm Genome"},{"key":"7775_CR61","doi-asserted-by":"publisher","first-page":"k2179","DOI":"10.1136\/bmj.k2179","volume":"361","author":"AM Valdes","year":"2018","unstructured":"Valdes AM, Walter J, Segal E, Spector TD (2018) Role of the gut microbiota in nutrition and health. BMJ 361:k2179. https:\/\/doi.org\/10.1136\/bmj.k2179","journal-title":"BMJ"},{"key":"7775_CR62","doi-asserted-by":"publisher","first-page":"2235","DOI":"10.1073\/pnas.1504887113","volume":"113","author":"NF Villarino","year":"2016","unstructured":"Villarino NF, LeCleir GR, Denny JE, Dearth SP, Harding CL, Sloan SS, Gribble JL, Campagna SR, Wilhelm SW, Schmidt NW (2016) Composition of the gut microbiota modulates the severity of malaria. Proc Natl Acad Sci USA 113:2235\u20132240. https:\/\/doi.org\/10.1073\/pnas.1504887113","journal-title":"Proc Natl Acad Sci USA"},{"key":"7775_CR63","doi-asserted-by":"publisher","unstructured":"Wickham, H, Sievert, C (2016) ggplot2: elegant graphics for data analysis, 2nd edn. Springer, Cham https:\/\/doi.org\/10.1007\/978-3-319-24277-4","DOI":"10.1007\/978-3-319-24277-4"},{"key":"7775_CR64","unstructured":"World Health Organization (2021) World malaria report 2021. Geneva, Switzerland.\u00a0https:\/\/www.who.int\/publications\/i\/item\/9789240040496. Accessed 07\/04\/2022"},{"key":"7775_CR65","doi-asserted-by":"publisher","first-page":"572","DOI":"10.1016\/j.cels.2016.10.004","volume":"3","author":"H Xie","year":"2016","unstructured":"Xie H, Guo R, Zhong H, Feng Q, Lan Z, Qin B, Ward KJ, Jackson MA, Xia Y, Chen X, Chen B et al (2016) Shotgun metagenomics of 250 adult twins reveals genetic and environmental impacts on the gut microbiome. Cell Syst 3:572-584.e573. https:\/\/doi.org\/10.1016\/j.cels.2016.10.004","journal-title":"Cell Syst"},{"key":"7775_CR66","doi-asserted-by":"publisher","first-page":"181","DOI":"10.1111\/apt.13456","volume":"43","author":"CK Yao","year":"2016","unstructured":"Yao CK, Muir JG, Gibson PR (2016) Review article: insights into colonic protein fermentation, its modulation and potential health implications. Aliment Pharmacol Ther 43:181\u2013196. https:\/\/doi.org\/10.1111\/apt.13456","journal-title":"Aliment Pharmacol Ther"},{"key":"7775_CR67","doi-asserted-by":"publisher","first-page":"5785","DOI":"10.1007\/s00253-021-11453-1","volume":"105","author":"T Zhang","year":"2021","unstructured":"Zhang T, Ji X, Lu G, Zhang F (2021) The potential of Akkermansia muciniphila in inflammatory bowel disease. Appl Microbiol Biotechnol 105:5785\u20135794. https:\/\/doi.org\/10.1007\/s00253-021-11453-1","journal-title":"Appl Microbiol Biotechnol"}],"container-title":["Parasitology Research"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/s00436-022-07775-2.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/article\/10.1007\/s00436-022-07775-2\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/s00436-022-07775-2.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,3,6]],"date-time":"2023-03-06T09:09:36Z","timestamp":1678093776000},"score":1,"resource":{"primary":{"URL":"https:\/\/link.springer.com\/10.1007\/s00436-022-07775-2"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2023,1,5]]},"references-count":67,"journal-issue":{"issue":"3","published-print":{"date-parts":[[2023,3]]}},"alternative-id":["7775"],"URL":"https:\/\/doi.org\/10.1007\/s00436-022-07775-2","relation":{},"ISSN":["0932-0113","1432-1955"],"issn-type":[{"value":"0932-0113","type":"print"},{"value":"1432-1955","type":"electronic"}],"subject":[],"published":{"date-parts":[[2023,1,5]]},"assertion":[{"value":"7 June 2022","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"20 December 2022","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"5 January 2023","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"order":1,"name":"Ethics","group":{"name":"EthicsHeading","label":"Declarations"}},{"value":"The experiment was performed in strict accordance with the recommendations of the National Health and Medical Research Council Australian \u2018Code of practice for the care and use of animals for scientific purposes.\u2019 The protocols were approved by the Deakin University Animal Welfare Committee (approval number G11-2017).","order":2,"name":"Ethics","group":{"name":"EthicsHeading","label":"Ethics approval"}},{"value":"Not applicable.","order":3,"name":"Ethics","group":{"name":"EthicsHeading","label":"Consent to participate"}},{"value":"Not applicable.","order":4,"name":"Ethics","group":{"name":"EthicsHeading","label":"Consent for publication"}},{"value":"The authors declare no competing interests.","order":5,"name":"Ethics","group":{"name":"EthicsHeading","label":"Competing interests"}}]}}