{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,21]],"date-time":"2026-10-21T17:09:13Z","timestamp":1792602553331,"version":"4.5.0"},"reference-count":65,"publisher":"Wiley","issue":"1","license":[{"start":{"date-parts":[[2023,12,10]],"date-time":"2023-12-10T00:00:00Z","timestamp":1702166400000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100003141","name":"Consejo Nacional de Ciencia y Tecnolog\u00eda","doi-asserted-by":"publisher","award":["FOINS\u20102015\u201001\u2010006"],"award-info":[{"award-number":["FOINS\u20102015\u201001\u2010006"]}],"id":[{"id":"10.13039\/501100003141","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["enviromicro-journals.onlinelibrary.wiley.com"],"crossmark-restriction":true},"short-container-title":["Environmental Microbiology"],"published-print":{"date-parts":[[2024,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>\n                    <jats:italic>Rhizopus microsporus<\/jats:italic>\n                    often lives in association with bacterial and viral symbionts that alter its biology. This fungal model represents an example of the complex interactions established among diverse organisms in functional holobionts. We constructed a Genome\u2010Scale Model (GSM) of the fungal\u2010bacterial\u2010viral holobiont (\n                    <jats:italic>i<\/jats:italic>\n                    Hol). We employed a constraint\u2010based method to calculate the metabolic fluxes to decipher the metabolic interactions of the symbionts with their host. Our computational analyses of\n                    <jats:italic>i<\/jats:italic>\n                    Hol simulate the holobiont's growth and the production of the toxin rhizoxin. Analyses of the calculated fluxes between\n                    <jats:italic>R. microsporus<\/jats:italic>\n                    in symbiotic (\n                    <jats:italic>i<\/jats:italic>\n                    Hol) versus asymbiotic conditions suggest that changes in the lipid and nucleotide metabolism of the host are necessary for the functionality of the holobiont. Glycerol plays a pivotal role in the fungal\u2010bacterial metabolic interaction, as its production does not compromise fungal growth, and\n                    <jats:italic>Mycetohabitans<\/jats:italic>\n                    bacteria can efficiently consume it.\n                    <jats:italic>Narnavirus<\/jats:italic>\n                    RmNV\u201020S and RmNV\u201023S affected the nucleotide metabolism without impacting the fungal\u2010bacterial symbiosis. Our analyses highlighted the metabolic stability of\n                    <jats:italic>Mycetohabitans<\/jats:italic>\n                    throughout its co\u2010evolution with the fungal host. We also predicted changes in reactions of the bacterial metabolism required for the active production of rhizoxin. This\n                    <jats:italic>i<\/jats:italic>\n                    Hol is the first GSM of a fungal holobiont.\n                  <\/jats:p>","DOI":"10.1111\/1462-2920.16551","type":"journal-article","created":{"date-parts":[[2023,12,10]],"date-time":"2023-12-10T22:40:05Z","timestamp":1702248005000},"update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":9,"title":["Genome\u2010Scale Model of\n                    <i>Rhizopus microsporus<\/i>\n                    : Metabolic integration of a fungal holobiont with its bacterial and viral endosymbionts"],"prefix":"10.1111","volume":"26","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-2022-1612","authenticated-orcid":false,"given":"Cecilio","family":"Valadez\u2010Cano","sequence":"first","affiliation":[{"name":"Departamento de Ingenier\u00eda Gen\u00e9tica Centro de Investigaci\u00f3n y de Estudios Avanzados del Instituto Polit\u00e9cnico Nacional (Cinvestav)  Irapuato Mexico"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8431-4052","authenticated-orcid":false,"given":"Roberto","family":"Olivares\u2010Hern\u00e1ndez","sequence":"additional","affiliation":[{"name":"Departamento de Procesos y Tecnolog\u00eda Universidad Aut\u00f3noma Metropolitana, Unidad Cuajimalpa  Ciudad de M\u00e9xico Mexico"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6021-6597","authenticated-orcid":false,"given":"Astrid N.","family":"Espino\u2010V\u00e1zquez","sequence":"additional","affiliation":[{"name":"Departamento de Ingenier\u00eda Gen\u00e9tica Centro de Investigaci\u00f3n y de Estudios Avanzados del Instituto Polit\u00e9cnico Nacional (Cinvestav)  Irapuato Mexico"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8037-2856","authenticated-orcid":false,"given":"Laila P.","family":"Partida\u2010Mart\u00ednez","sequence":"additional","affiliation":[{"name":"Departamento de Ingenier\u00eda Gen\u00e9tica Centro de Investigaci\u00f3n y de Estudios Avanzados del Instituto Polit\u00e9cnico Nacional (Cinvestav)  Irapuato Mexico"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"311","published-online":{"date-parts":[[2023,12,10]]},"reference":[{"key":"e_1_2_10_2_1","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pcbi.1006146"},{"key":"e_1_2_10_3_1","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.00660-18"},{"key":"e_1_2_10_4_1","doi-asserted-by":"publisher","DOI":"10.1128\/mBio.01433-18"},{"key":"e_1_2_10_5_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.csbj.2020.10.011"},{"key":"e_1_2_10_6_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btz859"},{"key":"e_1_2_10_7_1","doi-asserted-by":"publisher","DOI":"10.1128\/JB.00997-13"},{"key":"e_1_2_10_8_1","doi-asserted-by":"publisher","DOI":"10.1128\/mBio.00402-20"},{"key":"e_1_2_10_9_1","doi-asserted-by":"publisher","DOI":"10.1007\/s10529-015-1782-8"},{"key":"e_1_2_10_10_1","doi-asserted-by":"publisher","DOI":"10.3389\/ffunb.2022.893700"},{"key":"e_1_2_10_11_1","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.2003857117"},{"key":"e_1_2_10_12_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkt1103"},{"key":"e_1_2_10_13_1","doi-asserted-by":"publisher","DOI":"10.1093\/femsyr\/foac003"},{"key":"e_1_2_10_14_1","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.02411-13"},{"key":"e_1_2_10_15_1","doi-asserted-by":"publisher","DOI":"10.7554\/eLife.51850"},{"key":"e_1_2_10_16_1","doi-asserted-by":"publisher","DOI":"10.1093\/femsre\/fuy008"},{"key":"e_1_2_10_17_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-020-16484-2"},{"key":"e_1_2_10_18_1","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pcbi.1003126"},{"key":"e_1_2_10_19_1","doi-asserted-by":"publisher","DOI":"10.1186\/1752-0509-7-74"},{"key":"e_1_2_10_20_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41396-020-0638-y"},{"key":"e_1_2_10_21_1","doi-asserted-by":"publisher","DOI":"10.3390\/genes9080389"},{"key":"e_1_2_10_22_1","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2180-12-S1-S5"},{"key":"e_1_2_10_23_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkr947"},{"key":"e_1_2_10_24_1","doi-asserted-by":"publisher","DOI":"10.1186\/s13059-019-1730-3"},{"key":"e_1_2_10_25_1","doi-asserted-by":"publisher","DOI":"10.1099\/mgen.0.000378"},{"key":"e_1_2_10_26_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.coisb.2021.05.007"},{"key":"e_1_2_10_27_1","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-11-119"},{"key":"e_1_2_10_28_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/28.1.27"},{"key":"e_1_2_10_29_1","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.0409727102"},{"key":"e_1_2_10_30_1","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.01765-08"},{"key":"e_1_2_10_31_1","doi-asserted-by":"publisher","DOI":"10.1038\/ismej.2010.126"},{"key":"e_1_2_10_32_1","doi-asserted-by":"publisher","DOI":"10.1128\/JB.01318-10"},{"key":"e_1_2_10_33_1","doi-asserted-by":"publisher","DOI":"10.3390\/genes11020139"},{"key":"e_1_2_10_34_1","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.1615148113"},{"key":"e_1_2_10_35_1","doi-asserted-by":"publisher","DOI":"10.1099\/ijsem.0.000760"},{"key":"e_1_2_10_36_1","doi-asserted-by":"publisher","DOI":"10.1002\/anie.201003301"},{"key":"e_1_2_10_37_1","doi-asserted-by":"publisher","DOI":"10.1101\/gr.1224503"},{"key":"e_1_2_10_38_1","doi-asserted-by":"publisher","DOI":"10.1038\/srep32590"},{"key":"e_1_2_10_39_1","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-14-60"},{"key":"e_1_2_10_40_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.enzmictec.2004.09.007"},{"key":"e_1_2_10_41_1","doi-asserted-by":"publisher","DOI":"10.7554\/eLife.03007"},{"key":"e_1_2_10_42_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-017-02052-8"},{"key":"e_1_2_10_43_1","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.93.7.2873"},{"key":"e_1_2_10_44_1","doi-asserted-by":"publisher","DOI":"10.1146\/annurev-micro-091213-112901"},{"key":"e_1_2_10_45_1","doi-asserted-by":"publisher","DOI":"10.1038\/nrg2319"},{"key":"e_1_2_10_46_1","doi-asserted-by":"publisher","DOI":"10.1007\/s00248-012-0100-4"},{"key":"e_1_2_10_47_1","doi-asserted-by":"publisher","DOI":"10.1002\/cbic.201800400"},{"key":"e_1_2_10_48_1","doi-asserted-by":"publisher","DOI":"10.1039\/C8OB01515E"},{"key":"e_1_2_10_49_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkt1069"},{"key":"e_1_2_10_50_1","doi-asserted-by":"publisher","DOI":"10.1038\/msb.2011.65"},{"key":"e_1_2_10_51_1","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.01784-06"},{"key":"e_1_2_10_52_1","doi-asserted-by":"publisher","DOI":"10.1099\/ijs.0.64660-0"},{"key":"e_1_2_10_53_1","doi-asserted-by":"publisher","DOI":"10.1038\/nature03997"},{"key":"e_1_2_10_54_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.cub.2007.03.039"},{"key":"e_1_2_10_55_1","doi-asserted-by":"publisher","DOI":"10.3390\/metabo12010014"},{"key":"e_1_2_10_56_1","doi-asserted-by":"publisher","DOI":"10.1146\/annurev-phyto-080417-045914"},{"key":"e_1_2_10_57_1","doi-asserted-by":"publisher","DOI":"10.3389\/fmicb.2017.02290"},{"key":"e_1_2_10_58_1","doi-asserted-by":"publisher","DOI":"10.1186\/gb-2003-4-9-r54"},{"key":"e_1_2_10_59_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.cub.2023.05.028"},{"key":"e_1_2_10_60_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41396-021-01056-z"},{"key":"e_1_2_10_61_1","doi-asserted-by":"publisher","DOI":"10.3389\/fmicb.2019.02463"},{"key":"e_1_2_10_62_1","doi-asserted-by":"publisher","DOI":"10.1186\/s12915-019-0678-9"},{"key":"e_1_2_10_63_1","doi-asserted-by":"publisher","DOI":"10.1186\/1752-0509-3-24"},{"key":"e_1_2_10_64_1","doi-asserted-by":"publisher","DOI":"10.1007\/978-3-031-29199-9_8"},{"key":"e_1_2_10_65_1","doi-asserted-by":"publisher","DOI":"10.1186\/s12862-017-0947-6"},{"key":"e_1_2_10_66_1","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.0913022107"}],"container-title":["Environmental Microbiology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/sfamjournals.onlinelibrary.wiley.com\/doi\/pdf\/10.1111\/1462-2920.16551","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,10,30]],"date-time":"2025-10-30T21:47:30Z","timestamp":1761860850000},"score":1,"resource":{"primary":{"URL":"https:\/\/sfamjournals.onlinelibrary.wiley.com\/doi\/10.1111\/1462-2920.16551"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2023,12,10]]},"references-count":65,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2024,1]]}},"alternative-id":["10.1111\/1462-2920.16551"],"URL":"https:\/\/doi.org\/10.1111\/1462-2920.16551","archive":["Portico"],"relation":{},"ISSN":["1462-2912","1462-2920"],"issn-type":[{"value":"1462-2912","type":"print"},{"value":"1462-2920","type":"electronic"}],"subject":[],"published":{"date-parts":[[2023,12,10]]},"assertion":[{"value":"2023-08-22","order":0,"name":"received","label":"Received","group":{"name":"publication_history","label":"Publication History"}},{"value":"2023-11-24","order":2,"name":"accepted","label":"Accepted","group":{"name":"publication_history","label":"Publication History"}},{"value":"2023-12-10","order":3,"name":"published","label":"Published","group":{"name":"publication_history","label":"Publication History"}}],"article-number":"e16551"}}