{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,14]],"date-time":"2026-09-14T14:45:13Z","timestamp":1789397113195,"version":"build-2803163510"},"reference-count":59,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2024,7,23]],"date-time":"2024-07-23T00:00:00Z","timestamp":1721692800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0"},{"start":{"date-parts":[[2024,7,23]],"date-time":"2024-07-23T00:00:00Z","timestamp":1721692800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0"}],"funder":[{"DOI":"10.13039\/100014440","name":"Ministerio de Ciencia, Innovaci\u00f3n y Universidades","doi-asserted-by":"publisher","award":["JDC2022-050269-I"],"award-info":[{"award-number":["JDC2022-050269-I"]}],"id":[{"id":"10.13039\/100014440","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100004837","name":"Ministerio de Ciencia e Innovaci\u00f3n","doi-asserted-by":"publisher","award":["CEX2021-001189-S\/ MCIN\/AEI \/ 10.13039\/501100011033"],"award-info":[{"award-number":["CEX2021-001189-S\/ MCIN\/AEI \/ 10.13039\/501100011033"]}],"id":[{"id":"10.13039\/501100004837","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100004837","name":"Ministerio de Ciencia e Innovaci\u00f3n","doi-asserted-by":"publisher","award":["MICIN\/AEI\/FEDER (CEX2021-001234-M)"],"award-info":[{"award-number":["MICIN\/AEI\/FEDER (CEX2021-001234-M)"]}],"id":[{"id":"10.13039\/501100004837","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100003329","name":"Ministerio de Econom\u00eda y Competitividad","doi-asserted-by":"publisher","award":["PID2019-107479RB-I00"],"award-info":[{"award-number":["PID2019-107479RB-I00"]}],"id":[{"id":"10.13039\/501100003329","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100002809","name":"Generalitat de Catalunya","doi-asserted-by":"publisher","award":["2021SGR300"],"award-info":[{"award-number":["2021SGR300"]}],"id":[{"id":"10.13039\/501100002809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100003359","name":"Generalitat Valenciana","doi-asserted-by":"publisher","award":["CDEIGENT 2020-02"],"award-info":[{"award-number":["CDEIGENT 2020-02"]}],"id":[{"id":"10.13039\/501100003359","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["Sci Rep"],"DOI":"10.1038\/s41598-024-67731-1","type":"journal-article","created":{"date-parts":[[2024,7,24]],"date-time":"2024-07-24T02:05:41Z","timestamp":1721786741000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":3,"title":["Infection of mice by the enteroaggregative E. coli strain 042 and two mutant derivatives overexpressing virulence factors: impact on disease markers, gut microbiota and concentration of SCFAs in feces"],"prefix":"10.1038","volume":"14","author":[{"given":"M.","family":"Bernabeu","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"A.","family":"Prieto","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"D.","family":"Salguero","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"L.","family":"Mir\u00f3","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"R.","family":"Cabrera-Rubio","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"M. C.","family":"Collado","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"M.","family":"H\u00fcttener","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"A.","family":"P\u00e9rez-Bosque","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"A.","family":"Ju\u00e1rez","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2024,7,23]]},"reference":[{"key":"67731_CR1","doi-asserted-by":"publisher","first-page":"909","DOI":"10.1016\/S1473-3099(17)30276-1","volume":"17","author":"C Troeger","year":"2017","unstructured":"Troeger, C. et al. Estimates of global, regional, and national morbidity, mortality, and aetiologies of diarrhoeal diseases: A systematic analysis for the Global Burden of Disease Study 2015. Lancet Infect. Dis. 17, 909\u2013948 (2017).","journal-title":"Lancet Infect. Dis."},{"key":"67731_CR2","doi-asserted-by":"publisher","first-page":"209","DOI":"10.1016\/S0140-6736(13)60844-2","volume":"382","author":"KL Kotloff","year":"2013","unstructured":"Kotloff, K. L. et al. Burden and aetiology of diarrhoeal disease in infants and young children in developing countries (the Global enteric multicenter study, GEMS): A prospective, case-control study. The Lancet 382, 209\u2013222 (2013).","journal-title":"The Lancet"},{"key":"67731_CR3","doi-asserted-by":"publisher","first-page":"142","DOI":"10.1128\/CMR.11.1.142","volume":"11","author":"JP Nataro","year":"1998","unstructured":"Nataro, J. P. & Kaper, J. B. Diarrheagenic Escherichia coli. Clin. Microbiol. Rev. 11, 142\u2013201 (1998).","journal-title":"Clin. Microbiol. Rev."},{"key":"67731_CR4","doi-asserted-by":"publisher","first-page":"123","DOI":"10.1038\/nrmicro818","volume":"2","author":"JB Kaper","year":"2004","unstructured":"Kaper, J. B., Nataro, J. P. & Mobley, H. L. T. Pathogenic Escherichia coli. Nat. Rev. Microbiol. 2, 123\u2013140 (2004).","journal-title":"Nat. Rev. Microbiol."},{"key":"67731_CR5","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0069971","volume":"8","author":"FLS Fran\u00e7a","year":"2013","unstructured":"Fran\u00e7a, F. L. S. et al. Genotypic and Phenotypic Characterisation of Enteroaggregative Escherichia coli from Children in Rio de Janeiro Brazil. PLoS One 8, e69971 (2013).","journal-title":"PLoS One"},{"key":"67731_CR6","doi-asserted-by":"publisher","first-page":"281","DOI":"10.1111\/j.1574-695X.2012.01008.x","volume":"66","author":"T Estrada-Garcia","year":"2012","unstructured":"Estrada-Garcia, T. & Navarro-Garcia, F. Enteroaggregative Escherichia coli pathotype: A genetically heterogeneous emerging foodborne enteropathogen. FEMS Immunol. Med. Microbiol. 66, 281\u2013298 (2012).","journal-title":"FEMS Immunol. Med. Microbiol."},{"key":"67731_CR7","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pntd.0008613","volume":"14","author":"N Boisen","year":"2020","unstructured":"Boisen, N. et al. Redefining enteroaggregative Escherichia coli (EAEC): Genomic characterization of epidemiological EAEC strains. PLoS Negl. Trop. Dis. 14, e0008613 (2020).","journal-title":"PLoS Negl. Trop. Dis."},{"key":"67731_CR8","doi-asserted-by":"publisher","first-page":"829","DOI":"10.1097\/00006454-198709000-00008","volume":"6","author":"JP Nataro","year":"1987","unstructured":"Nataro, J. P. et al. Patterns of adherence of diarrheagenic Escherichia coli to HEp-2 cells. Pediatr. Infect. Dis. J. 6, 829\u2013831 (1987).","journal-title":"Pediatr. Infect. Dis. J."},{"key":"67731_CR9","doi-asserted-by":"publisher","first-page":"1061","DOI":"10.1093\/infdis\/159.6.1061","volume":"159","author":"MK Bhan","year":"1989","unstructured":"Bhan, M. K. et al. Enteroaggregative Escherichia coli associated with persistent diarrhea in a cohort of rural children in India. J. Infect. Dis. 159, 1061\u20131064 (1989).","journal-title":"J. Infect. Dis."},{"key":"67731_CR10","first-page":"137","volume":"21","author":"GD Fang","year":"1995","unstructured":"Fang, G. D., Lima, A. A. M., Martins, C. V., Nataro, J. P. & Guerrant, R. L. Etiology and epidemiology of persistent diarrhea in northeastern Brazil. J. Pediatr. Gastroenterol. Nutr. 21, 137\u2013144 (1995).","journal-title":"J. Pediatr. Gastroenterol. Nutr."},{"key":"67731_CR11","doi-asserted-by":"publisher","first-page":"7","DOI":"10.1128\/JCM.38.1.7-12.2000","volume":"38","author":"IN Okeke","year":"2000","unstructured":"Okeke, I. N., Lamikanra, A., Steinr\u00fcck, H. & Kaper, J. B. Characterization of Escherichia coli strains from cases of childhood diarrhea in provincial southwestern Nigeria. J. Clin. Microbiol. 38, 7\u201312 (2000).","journal-title":"J. Clin. Microbiol."},{"key":"67731_CR12","doi-asserted-by":"publisher","first-page":"1125","DOI":"10.1023\/A:1021224915322","volume":"17","author":"A Wilson","year":"2001","unstructured":"Wilson, A. et al. Characterisation of strains of enteroaggregative Escherichia coli isolated during the infectious intestinal disease study in England. Eur. J. Epidemiol. 17, 1125\u20131130 (2001).","journal-title":"Eur. J. Epidemiol."},{"key":"67731_CR13","doi-asserted-by":"publisher","first-page":"1706","DOI":"10.1086\/320756","volume":"32","author":"JA Adachi","year":"2001","unstructured":"Adachi, J. A. et al. Enteroaggregative Escherichia coli as a major etiologic agent in Traveler\u2019s Diarrhea in 3 Regions of the world. Clin. Infect. Dis. 32, 1706\u20131709 (2001).","journal-title":"Clin. Infect. Dis."},{"key":"67731_CR14","doi-asserted-by":"publisher","first-page":"1164","DOI":"10.1128\/IAI.01376-12","volume":"81","author":"EJ Boll","year":"2013","unstructured":"Boll, E. J. et al. Role of enteroaggregative Escherichia coli virulence factors in uropathogenesis. Infect. Immun. 81, 1164\u20131171 (2013).","journal-title":"Infect. Immun."},{"key":"67731_CR15","doi-asserted-by":"crossref","unstructured":"Scheutz, F. et al. Characteristics of the enteroaggregative Shiga toxin\/verotoxin-producing Escherichia coli O104:H4 strain causing the outbreak of haemolytic uraemic syndrome in Germany, May to June 2011. Eurosurveillance 16, (2011).","DOI":"10.2807\/ese.16.24.19889-en"},{"key":"67731_CR16","doi-asserted-by":"publisher","first-page":"465","DOI":"10.1093\/infdis\/171.2.465","volume":"171","author":"JP Nataro","year":"1995","unstructured":"Nataro, J. P. et al. Heterogeneity of enteroaggregative Escherichia coli virulence demonstrated. J. Infect. Dis. 171, 465\u2013468 (1995).","journal-title":"J. Infect. Dis."},{"key":"67731_CR17","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0008801","volume":"5","author":"RR Chaudhuri","year":"2010","unstructured":"Chaudhuri, R. R. et al. Complete genome sequence and comparative metabolic profiling of the prototypical Enteroaggregative Escherichia coli strain 042. PLoS One 5, e8801 (2010).","journal-title":"PLoS One"},{"key":"67731_CR18","doi-asserted-by":"publisher","first-page":"378","DOI":"10.1128\/iai.48.2.378-383.1985","volume":"48","author":"JP Nataro","year":"1985","unstructured":"Nataro, J. P., Scaletsky, I. C., Kaper, J. B., Levine, M. M. & Trabulsi, L. R. Plasmid-mediated factors conferring diffuse and localized adherence of enteropathogenic Escherichia coli. Infect. Immun. 48, 378\u2013383 (1985).","journal-title":"Infect. Immun."},{"key":"67731_CR19","doi-asserted-by":"publisher","first-page":"4135","DOI":"10.1128\/iai.65.10.4135-4145.1997","volume":"65","author":"JR Czeczulin","year":"1997","unstructured":"Czeczulin, J. R. et al. Aggregative adherence fimbria II, a second fimbrial antigen mediating aggregative adherence in enteroaggregative Escherichia coli. Infect. Immun. 65, 4135\u20134145 (1997).","journal-title":"Infect. Immun."},{"key":"67731_CR20","doi-asserted-by":"publisher","first-page":"122","DOI":"10.1128\/IAI.00676-12","volume":"81","author":"N Morin","year":"2013","unstructured":"Morin, N., Santiago, A. E., Ernst, R. K., Guillot, S. J. & Nataro, J. P. Characterization of the AggR Regulon in Enteroaggregative Escherichia coli. Infect. Immun. 81, 122\u2013132 (2013).","journal-title":"Infect. Immun."},{"key":"67731_CR21","doi-asserted-by":"publisher","first-page":"534","DOI":"10.1111\/mmi.14172","volume":"111","author":"M Yasir","year":"2019","unstructured":"Yasir, M. et al. Organization and architecture of AggR-dependent promoters from enteroaggregative Escherichia coli. Mol. Microbiol. 111, 534\u2013551 (2019).","journal-title":"Mol. Microbiol."},{"key":"67731_CR22","doi-asserted-by":"publisher","first-page":"1329","DOI":"10.1172\/JCI16172","volume":"110","author":"J Sheikh","year":"2002","unstructured":"Sheikh, J. et al. A novel dispersin protein in enteroaggregative Escherichia coli. J. Clin. Investig. 110, 1329\u20131337 (2002).","journal-title":"J. Clin. Investig."},{"key":"67731_CR23","doi-asserted-by":"publisher","first-page":"45680","DOI":"10.1074\/jbc.M306413200","volume":"278","author":"J Nishi","year":"2003","unstructured":"Nishi, J. et al. The export of coat protein from enteroaggregative Escherichia coli by a specific ATP-binding cassette transporter system. J. Biol. Chem. 278, 45680\u201345689 (2003).","journal-title":"J. Biol. Chem."},{"key":"67731_CR24","doi-asserted-by":"crossref","unstructured":"Prieto, A. et al. Modulation of AggR levels reveals features of virulence regulation in enteroaggregative E. coli. Commun. Biol. 4, 1295 (2021).","DOI":"10.1038\/s42003-021-02820-9"},{"key":"67731_CR25","doi-asserted-by":"publisher","first-page":"10957","DOI":"10.1038\/s41598-017-11438-z","volume":"7","author":"J Dibbern","year":"2017","unstructured":"Dibbern, J., Eggers, L. & Schneider, B. E. Sex differences in the C57BL\/6 model of Mycobacterium tuberculosis infection. Sci. Rep. 7, 10957 (2017).","journal-title":"Sci. Rep."},{"key":"67731_CR26","doi-asserted-by":"publisher","first-page":"137","DOI":"10.1097\/TA.0000000000003599","volume":"93","author":"PA Efron","year":"2022","unstructured":"Efron, P. A. et al. Sex differences associate with late microbiome alterations after murine surgical sepsis. J. Trauma Acute Care Surg. 93, 137\u2013146 (2022).","journal-title":"J. Trauma Acute Care Surg."},{"key":"67731_CR27","doi-asserted-by":"publisher","first-page":"959","DOI":"10.3390\/ani12080959","volume":"12","author":"L He","year":"2022","unstructured":"He, L. et al. Effects of pathogenic Escherichia coli infection on the flora composition, function, and content of short-chain fatty acids in Calf Feces. Animals 12, 959 (2022).","journal-title":"Animals"},{"key":"67731_CR28","doi-asserted-by":"crossref","unstructured":"Pace, F. et al. The Short-Chain Fatty Acids Propionate and Butyrate Augment Adherent-Invasive Escherichia coli virulence but repress inflammation in a human intestinal enteroid model of infection. Microbiol Spectr 9, (2021).","DOI":"10.1128\/Spectrum.01369-21"},{"key":"67731_CR29","first-page":"521","volume":"155","author":"N Nakanishi","year":"2009","unstructured":"Nakanishi, N. et al. Regulation of virulence by butyrate sensing in enterohaemorrhagic Escherichia coli. Microbiology (N Y) 155, 521\u2013530 (2009).","journal-title":"Microbiology (N Y)"},{"key":"67731_CR30","doi-asserted-by":"publisher","first-page":"79","DOI":"10.1186\/s40168-022-01269-0","volume":"10","author":"Z He","year":"2022","unstructured":"He, Z. et al. Gut microbiota-derived ursodeoxycholic acid from neonatal dairy calves improves intestinal homeostasis and colitis to attenuate extended-spectrum \u03b2-lactamase-producing enteroaggregative Escherichia coli infection. Microbiome 10, 79 (2022).","journal-title":"Microbiome"},{"key":"67731_CR31","doi-asserted-by":"crossref","unstructured":"Higginson, E. E. et al. Microbiome profiling of enterotoxigenic Escherichia coli (ETEC) carriers highlights signature differences between symptomatic and asymptomatic individuals. mBio 13, (2022).","DOI":"10.1128\/mbio.00157-22"},{"key":"67731_CR32","doi-asserted-by":"crossref","unstructured":"Ducarmon, Q. R. et al. Gut microbiota and colonization resistance against bacterial enteric infection. Microbiol. Mol. Biol. Rev. 83, (2019).","DOI":"10.1128\/MMBR.00007-19"},{"key":"67731_CR33","doi-asserted-by":"publisher","first-page":"1332","DOI":"10.1016\/j.cell.2016.05.041","volume":"165","author":"A Koh","year":"2016","unstructured":"Koh, A., De Vadder, F., Kovatcheva-Datchary, P. & B\u00e4ckhed, F. From dietary fiber to host physiology: Short-chain fatty acids as key bacterial metabolites. Cell 165, 1332\u20131345 (2016).","journal-title":"Cell"},{"issue":"357","key":"67731_CR34","doi-asserted-by":"publisher","first-page":"570","DOI":"10.1126\/science.aam9949","volume":"1979","author":"MX Byndloss","year":"2017","unstructured":"Byndloss, M. X. et al. Microbiota-activated PPAR-\u03b3 signaling inhibits dysbiotic Enterobacteriaceae expansion. Science 1979(357), 570\u2013575 (2017).","journal-title":"Science"},{"key":"67731_CR35","doi-asserted-by":"publisher","first-page":"84","DOI":"10.1084\/jem.20181639","volume":"216","author":"MT Sorbara","year":"2019","unstructured":"Sorbara, M. T. et al. Inhibiting antibiotic-resistant Enterobacteriaceae by microbiota-mediated intracellular acidification. J. Exp. Med. 216, 84\u201398 (2019).","journal-title":"J. Exp. Med."},{"key":"67731_CR36","doi-asserted-by":"crossref","unstructured":"Moran-Garcia, N. et al. A novel adult murine model of typical enteroaggregative Escherichia coli Infection reveals microbiota dysbiosis, mucus secretion, and AAF\/II-mediated expression and localization of \u03b2-catenin and expression of MUC1 in ileum. Front. Cell Infect. Microbiol. 12, (2022).","DOI":"10.3389\/fcimb.2022.885191"},{"key":"67731_CR37","doi-asserted-by":"publisher","first-page":"6760","DOI":"10.3390\/ijms21186760","volume":"21","author":"L Mir\u00f3","year":"2020","unstructured":"Mir\u00f3, L. et al. Dietary supplementation with spray-dried porcine plasma attenuates colon inflammation in a genetic mouse model of inflammatory bowel disease. Int. J. Mol. Sci. 21, 6760 (2020).","journal-title":"Int. J. Mol. Sci."},{"key":"67731_CR38","doi-asserted-by":"publisher","DOI":"10.1371\/journal.ppat.1000899","volume":"6","author":"P Das","year":"2010","unstructured":"Das, P., Lahiri, A., Lahiri, A. & Chakravortty, D. Modulation of the arginase pathway in the context of microbial pathogenesis: A metabolic enzyme moonlighting as an immune modulator. PLoS Pathog 6, e1000899 (2010).","journal-title":"PLoS Pathog"},{"key":"67731_CR39","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0154823","volume":"11","author":"A P\u00e9rez-Bosque","year":"2016","unstructured":"P\u00e9rez-Bosque, A. et al. Oral serum-derived bovine immunoglobulin\/protein isolate has immunomodulatory effects on the colon of mice that spontaneously develop colitis. PLoS One 11, e0154823 (2016).","journal-title":"PLoS One"},{"key":"67731_CR40","doi-asserted-by":"publisher","first-page":"1","DOI":"10.3389\/fimmu.2023.1279837","volume":"14","author":"X Fan","year":"2023","unstructured":"Fan, X., Shu, P., Wang, Y., Ji, N. & Zhang, D. Interactions between neutrophils and T-helper 17 cells. Front. Immunol. 14, 1 (2023).","journal-title":"Front. Immunol."},{"key":"67731_CR41","doi-asserted-by":"crossref","unstructured":"Gallardo, P. et al. Gut microbiota-metabolome changes in children with diarrhea by diarrheagenic E. coli. Front. Cell Infect. Microbiol. 10, (2020).","DOI":"10.3389\/fcimb.2020.00485"},{"key":"67731_CR42","doi-asserted-by":"publisher","unstructured":"Shi, Z. et al. Multi-omics strategy reveals potential role of antimicrobial resistance and virulence factor genes responsible for Simmental diarrheic calves caused by Escherichia coli. mSystems. https:\/\/doi.org\/10.1128\/msystems.01348-23 (2024).","DOI":"10.1128\/msystems.01348-23"},{"key":"67731_CR43","doi-asserted-by":"publisher","first-page":"954","DOI":"10.1016\/j.micinf.2014.09.005","volume":"16","author":"W Ren","year":"2014","unstructured":"Ren, W. et al. Mouse intestinal innate immune responses altered by enterotoxigenic Escherichia coli (ETEC) infection. Microbes Infect. 16, 954\u2013961 (2014).","journal-title":"Microbes Infect."},{"key":"67731_CR44","doi-asserted-by":"publisher","first-page":"1346","DOI":"10.3390\/nu9121346","volume":"9","author":"L Mir\u00f3","year":"2017","unstructured":"Mir\u00f3, L. et al. Dietary animal plasma proteins improve the intestinal immune response in senescent mice. Nutrients 9, 1346 (2017).","journal-title":"Nutrients"},{"key":"67731_CR45","doi-asserted-by":"publisher","first-page":"657","DOI":"10.3390\/nu8100657","volume":"8","author":"A P\u00e9rez-Bosque","year":"2016","unstructured":"P\u00e9rez-Bosque, A., Mir\u00f3, L., Amat, C., Polo, J. & Moret\u00f3, M. The anti-inflammatory effect of spray-dried plasma is mediated by a reduction in mucosal lymphocyte activation and infiltration in a mouse model of intestinal inflammation. Nutrients 8, 657 (2016).","journal-title":"Nutrients"},{"key":"67731_CR46","doi-asserted-by":"publisher","first-page":"1101","DOI":"10.1038\/nprot.2008.73","volume":"3","author":"TD Schmittgen","year":"2008","unstructured":"Schmittgen, T. D. & Livak, K. J. Analyzing real-time PCR data by the comparative CT method. Nat. Protoc. 3, 1101\u20131108 (2008).","journal-title":"Nat. Protoc."},{"key":"67731_CR47","doi-asserted-by":"publisher","first-page":"2926","DOI":"10.1038\/s41598-020-59756-z","volume":"10","author":"M Moret\u00f3","year":"2020","unstructured":"Moret\u00f3, M. et al. Dietary supplementation with spray-dried porcine plasma has prebiotic effects on gut microbiota in mice. Sci. Rep. 10, 2926 (2020).","journal-title":"Sci. Rep."},{"key":"67731_CR48","doi-asserted-by":"publisher","first-page":"863","DOI":"10.1093\/bioinformatics\/btr026","volume":"27","author":"R Schmieder","year":"2011","unstructured":"Schmieder, R. & Edwards, R. Quality control and preprocessing of metagenomic datasets. Bioinformatics 27, 863\u2013864 (2011).","journal-title":"Bioinformatics"},{"key":"67731_CR49","doi-asserted-by":"publisher","first-page":"1","DOI":"10.2174\/1875036201307010001","volume":"7","author":"E Aronesty","year":"2013","unstructured":"Aronesty, E. Comparison of sequencing utility programs. Open Bioinf. J. 7, 1\u20138 (2013).","journal-title":"Open Bioinf. J."},{"key":"67731_CR50","doi-asserted-by":"publisher","unstructured":"Edgar, R. C. UNOISE2: improved error-correction for Illumina 16S and ITS amplicon sequencing. https:\/\/doi.org\/10.1101\/081257 (2016).","DOI":"10.1101\/081257"},{"key":"67731_CR51","doi-asserted-by":"publisher","first-page":"D633","DOI":"10.1093\/nar\/gkt1244","volume":"42","author":"JR Cole","year":"2014","unstructured":"Cole, J. R. et al. Ribosomal Database Project: Data and tools for high throughput rRNA analysis. Nucleic Acids Res. 42, D633\u2013D642 (2014).","journal-title":"Nucleic Acids Res."},{"key":"67731_CR52","doi-asserted-by":"publisher","first-page":"772","DOI":"10.1093\/molbev\/mst010","volume":"30","author":"K Katoh","year":"2013","unstructured":"Katoh, K. & Standley, D. M. MAFFT multiple sequence alignment software version 7: Improvements in performance and usability. Mol. Biol. Evol. 30, 772\u2013780 (2013).","journal-title":"Mol. Biol. Evol."},{"key":"67731_CR53","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0009490","volume":"5","author":"MN Price","year":"2010","unstructured":"Price, M. N., Dehal, P. S. & Arkin, A. P. FastTree 2\u2014approximately maximum-likelihood trees for large alignments. PLoS One 5, e9490 (2010).","journal-title":"PLoS One"},{"key":"67731_CR54","doi-asserted-by":"publisher","first-page":"D590","DOI":"10.1093\/nar\/gks1219","volume":"41","author":"C Quast","year":"2012","unstructured":"Quast, C. et al. The SILVA ribosomal RNA gene database project: Improved data processing and web-based tools. Nucleic Acids Res. 41, D590\u2013D596 (2012).","journal-title":"Nucleic Acids Res."},{"key":"67731_CR55","doi-asserted-by":"publisher","DOI":"10.1016\/j.ab.2020.114016","volume":"612","author":"BL Eberhart","year":"2021","unstructured":"Eberhart, B. L., Wilson, A. S., O\u2019Keefe, S. J. D., Ramaboli, M. C. & Nesengani, L. T. A simplified method for the quantitation of short-chain fatty acids in human stool. Anal. Biochem. 612, 114016 (2021).","journal-title":"Anal. Biochem."},{"key":"67731_CR56","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. UniFrac: A new phylogenetic method for comparing microbial communities. Appl. Environ. Microbiol. 71, 8228\u20138235 (2005).","journal-title":"Appl. Environ. Microbiol."},{"key":"67731_CR57","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0061217","volume":"8","author":"PJ McMurdie","year":"2013","unstructured":"McMurdie, P. J. & Holmes, S. phyloseq: An R package for reproducible interactive analysis and graphics of microbiome census data. PLoS One 8, e61217 (2013).","journal-title":"PLoS One"},{"key":"67731_CR58","unstructured":"Oksanen, J. et al. vegan: Community Ecology Package. R package version 2.6\u20135 (2024)."},{"key":"67731_CR59","doi-asserted-by":"publisher","first-page":"R60","DOI":"10.1186\/gb-2011-12-6-r60","volume":"12","author":"N Segata","year":"2011","unstructured":"Segata, N. et al. Metagenomic biomarker discovery and explanation. Genome Biol. 12, R60 (2011).","journal-title":"Genome Biol."}],"container-title":["Scientific Reports"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.nature.com\/articles\/s41598-024-67731-1.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/www.nature.com\/articles\/s41598-024-67731-1","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/www.nature.com\/articles\/s41598-024-67731-1.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,7,24]],"date-time":"2024-07-24T02:24:06Z","timestamp":1721787846000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.nature.com\/articles\/s41598-024-67731-1"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2024,7,23]]},"references-count":59,"journal-issue":{"issue":"1","published-online":{"date-parts":[[2024,12]]}},"alternative-id":["67731"],"URL":"https:\/\/doi.org\/10.1038\/s41598-024-67731-1","relation":{},"ISSN":["2045-2322"],"issn-type":[{"value":"2045-2322","type":"electronic"}],"subject":[],"published":{"date-parts":[[2024,7,23]]},"assertion":[{"value":"16 April 2024","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"15 July 2024","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"23 July 2024","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"The authors declare no competing interests.","order":1,"name":"Ethics","group":{"name":"EthicsHeading","label":"Competing interests"}}],"article-number":"16945"}}