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Here we report previously unknown alterations in the gut microbes and metabolism of BALB\/c mice infected with\n            <jats:named-content content-type=\"genus-species\">Eimeria falciformis<\/jats:named-content>\n            . Specifically, we observed a significant shift in the abundance of cecal bacteria and disrupted metabolism in parasitized animals. The relative abundances of\n            <jats:named-content content-type=\"genus-species\">Lachnospiraceae<\/jats:named-content>\n            bacterium NK4A136,\n            <jats:named-content content-type=\"genus-species\">Ruminiclostridium<\/jats:named-content>\n            ,\n            <jats:named-content content-type=\"genus-species\">Alistipes<\/jats:named-content>\n            , and\n            <jats:named-content content-type=\"genus-species\">Lactobacillus<\/jats:named-content>\n            declined in response to\n            <jats:named-content content-type=\"genus-species\">E. falciformis<\/jats:named-content>\n            infection, whereas\n            <jats:named-content content-type=\"genus-species\">Escherichia<\/jats:named-content>\n            ,\n            <jats:named-content content-type=\"genus-species\">Shigella<\/jats:named-content>\n            ,\n            <jats:named-content content-type=\"genus-species\">Helicobacter<\/jats:named-content>\n            ,\n            <jats:named-content content-type=\"genus-species\">Klebsiella<\/jats:named-content>\n            , and\n            <jats:named-content content-type=\"genus-species\">Bacteroides<\/jats:named-content>\n            were increased. Carbohydrate and amino acid metabolites in the serum samples of infected mice were significantly altered compared to na\u00efve controls. Levels of amino acids, including asparagine, histidine,\n            <jats:sc>l<\/jats:sc>\n            -cysteine, tryptophan, lysine, glycine, serine, alanine, proline, ornithine, methionine, and valine, decreased on day 7 postinfection before returning to baseline on day 14. In addition, increased levels of indolelactate and mannitol and a reduced amount of oxalic acid indicated impaired carbon metabolism upon parasitic infection. These data demonstrate that intestinal coccidial infection perturbs the microbiota and disrupts carbon and nitrogen metabolism.\n          <\/jats:p>","DOI":"10.1128\/iai.00073-18","type":"journal-article","created":{"date-parts":[[2018,2,10]],"date-time":"2018-02-10T12:54:34Z","timestamp":1518267274000},"update-policy":"https:\/\/doi.org\/10.1128\/asmj-crossmark-policy-page","source":"Crossref","is-referenced-by-count":46,"title":["Influence of Eimeria falciformis Infection on Gut Microbiota and Metabolic Pathways in Mice"],"prefix":"10.1128","volume":"86","author":[{"given":"Guangping","family":"Huang","sequence":"first","affiliation":[{"name":"Key Laboratory of Animal Epidemiology of the Ministry of Agriculture, College of Veterinary Medicine, Beijing, China"},{"name":"State Key Laboratory of Agrobiotechnology, China Agricultural University, Beijing, 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