{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,18]],"date-time":"2026-08-18T01:33:04Z","timestamp":1787016784072,"version":"build-2736575974"},"reference-count":49,"publisher":"American Society for Microbiology","issue":"10","license":[{"start":{"date-parts":[[2025,10,7]],"date-time":"2025-10-07T00:00:00Z","timestamp":1759795200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"},{"start":{"date-parts":[[2025,10,7]],"date-time":"2025-10-07T00:00:00Z","timestamp":1759795200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/journals.asm.org\/non-commercial-tdm-license"}],"funder":[{"DOI":"10.13039\/100000015","name":"U.S. Department of Energy","doi-asserted-by":"publisher","award":["DE-SC0018409"],"award-info":[{"award-number":["DE-SC0018409"]}],"id":[{"id":"10.13039\/100000015","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000015","name":"U.S. Department of Energy","doi-asserted-by":"publisher","award":["SC0018998"],"award-info":[{"award-number":["SC0018998"]}],"id":[{"id":"10.13039\/100000015","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["journals.asm.org"],"crossmark-restriction":true},"short-container-title":["Microbiol Spectr"],"published-print":{"date-parts":[[2025,10,7]]},"abstract":"<jats:title>ABSTRACT<\/jats:title>\n                  <jats:sec>\n                    <jats:title\/>\n                    <jats:p>\n                      <jats:italic toggle=\"yes\">Zymomonas mobilis<\/jats:italic>\n                      is a promising biocatalyst for the sustainable conversion of lignocellulosic sugars into biofuels and bioproducts, yet its response to lignocellulosic hydrolysates remains poorly understood. Here, we investigate the physiological response of\n                      <jats:italic toggle=\"yes\">Z. mobilis<\/jats:italic>\n                      to ammonia fiber expansion (AFEX)-pretreated switchgrass hydrolysate using a systems-level approach integrating LC\u2013MS\/MS-based lipidomics and shotgun proteomics. Growth on hydrolysate induced substantial shifts in fatty acid and membrane phospholipid composition, alongside broad proteomic remodeling. Notably,\n                      <jats:italic toggle=\"yes\">Z. mobilis<\/jats:italic>\n                      exhibited a stress response characterized by the upregulation of heat shock proteins and efflux transporters and the downregulation of cell motility proteins. Unexpectedly, hydrolysate exposure also led to a robust upregulation of the Entner\u2013Doudoroff pathway, the ethanol fermentation pathway, and other central carbon metabolism enzymes, indicating a substantial cellular investment potentially driven by additional nutrient availability in hydrolysate. These findings provide new insights into the metabolic adaptations of\n                      <jats:italic toggle=\"yes\">Z. mobilis<\/jats:italic>\n                      to lignocellulosic hydrolysates, informing strategies to enhance its biofuel production capabilities.\n                    <\/jats:p>\n                    <jats:sec>\n                      <jats:title>IMPORTANCE<\/jats:title>\n                      <jats:p>\n                        Biomass pretreatment processes release fermentable sugars from lignocellulosic biomass, but they also generate inhibitors that can impact microbial metabolism. This study provides a systems-level evaluation of how\n                        <jats:italic toggle=\"yes\">Zymomonas mobilis<\/jats:italic>\n                        responds to hydrolysate stress, revealing distinct physiological and lipid membrane remodeling responses. While some stress responses overlap with those induced by ethanol and isobutanol toxicity, both valuable biofuels, hydrolysate exposure elicits unique metabolic shifts. These findings offer valuable insights for engineering\n                        <jats:italic toggle=\"yes\">Z. mobilis<\/jats:italic>\n                        strains with improved tolerance and performance for efficient bioconversion of lignocellulosic hydrolysates into biofuels and bioproducts.\n                      <\/jats:p>\n                    <\/jats:sec>\n                  <\/jats:sec>","DOI":"10.1128\/spectrum.00610-25","type":"journal-article","created":{"date-parts":[[2025,9,17]],"date-time":"2025-09-17T13:02:16Z","timestamp":1758114136000},"update-policy":"https:\/\/doi.org\/10.1128\/asmj-crossmark-policy-page","source":"Crossref","is-referenced-by-count":3,"title":["Physiological and metabolic responses of\n                    <i>Zymomonas mobilis<\/i>\n                    to lignocellulosic hydrolysate"],"prefix":"10.1128","volume":"13","author":[{"ORCID":"https:\/\/orcid.org\/0009-0009-9202-4109","authenticated-orcid":false,"given":"Julio","family":"Rivera Vazquez","sequence":"first","affiliation":[{"id":[{"id":"https:\/\/ror.org\/01e4byj08","id-type":"ROR","asserted-by":"publisher"}],"name":"DOE Great Lakes Bioenergy Research Center, University of Wisconsin-Madison","place":["Madison, USA"]},{"id":[{"id":"https:\/\/ror.org\/01e4byj08","id-type":"ROR","asserted-by":"publisher"}],"name":"Department of Bacteriology, University of Wisconsin-Madison","place":["Madison, USA"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Edna","family":"Trujillo","sequence":"additional","affiliation":[{"id":[{"id":"https:\/\/ror.org\/01e4byj08","id-type":"ROR","asserted-by":"publisher"}],"name":"DOE Great Lakes Bioenergy Research Center, University of Wisconsin-Madison","place":["Madison, USA"]},{"name":"Genome Center of Wisconsin","place":["Madison, USA"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zach","family":"Wenger","sequence":"additional","affiliation":[{"id":[{"id":"https:\/\/ror.org\/01e4byj08","id-type":"ROR","asserted-by":"publisher"}],"name":"DOE Great Lakes Bioenergy Research Center, University of Wisconsin-Madison","place":["Madison, USA"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Michael","family":"Botts","sequence":"additional","affiliation":[{"id":[{"id":"https:\/\/ror.org\/01e4byj08","id-type":"ROR","asserted-by":"publisher"}],"name":"DOE Great Lakes Bioenergy Research Center, University of Wisconsin-Madison","place":["Madison, USA"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0004-8253","authenticated-orcid":true,"given":"Joshua J.","family":"Coon","sequence":"additional","affiliation":[{"id":[{"id":"https:\/\/ror.org\/01e4byj08","id-type":"ROR","asserted-by":"publisher"}],"name":"DOE Great Lakes Bioenergy Research Center, University of Wisconsin-Madison","place":["Madison, USA"]},{"id":[{"id":"https:\/\/ror.org\/05cb4rb43","id-type":"ROR","asserted-by":"publisher"}],"name":"Morgridge Institute for Research","place":["Madison, USA"]},{"id":[{"id":"https:\/\/ror.org\/01e4byj08","id-type":"ROR","asserted-by":"publisher"}],"name":"Department of Chemistry, University of Wisconsin-Madison","place":["Madison, USA"]},{"id":[{"id":"https:\/\/ror.org\/01e4byj08","id-type":"ROR","asserted-by":"publisher"}],"name":"Department of Biomolecular Chemistry, University of Wisconsin-Madison","place":["Madison, USA"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3568-3070","authenticated-orcid":true,"given":"Daniel","family":"Amador-Noguez","sequence":"additional","affiliation":[{"id":[{"id":"https:\/\/ror.org\/01e4byj08","id-type":"ROR","asserted-by":"publisher"}],"name":"DOE Great Lakes Bioenergy Research Center, University of Wisconsin-Madison","place":["Madison, USA"]},{"id":[{"id":"https:\/\/ror.org\/01e4byj08","id-type":"ROR","asserted-by":"publisher"}],"name":"Department of Bacteriology, University of Wisconsin-Madison","place":["Madison, USA"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"235","reference":[{"key":"e_1_3_4_2_2","doi-asserted-by":"publisher","DOI":"10.1007\/BF00504750"},{"key":"e_1_3_4_3_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.copbio.2016.11.006"},{"key":"e_1_3_4_4_2","doi-asserted-by":"publisher","DOI":"10.1111\/1751-7915.12408"},{"key":"e_1_3_4_5_2","doi-asserted-by":"publisher","DOI":"10.1186\/s40643-018-0193-9"},{"key":"e_1_3_4_6_2","doi-asserted-by":"publisher","DOI":"10.1186\/1754-6834-7-101"},{"key":"e_1_3_4_7_2","doi-asserted-by":"publisher","DOI":"10.1016\/0300-9467(83)80067-7"},{"key":"e_1_3_4_8_2","doi-asserted-by":"publisher","DOI":"10.1002\/jctb.1448"},{"key":"e_1_3_4_9_2","doi-asserted-by":"publisher","DOI":"10.1007\/BF01388142"},{"key":"e_1_3_4_10_2","doi-asserted-by":"publisher","DOI":"10.1128\/br.41.1.1-46.1977"},{"key":"e_1_3_4_11_2","doi-asserted-by":"publisher","DOI":"10.1128\/aem.57.6.1847-1849.1991"},{"key":"e_1_3_4_12_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.ymben.2018.04.001"},{"key":"e_1_3_4_13_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.biteb.2020.100517"},{"key":"e_1_3_4_14_2","doi-asserted-by":"publisher","DOI":"10.1186\/s13068-023-02450-9"},{"key":"e_1_3_4_15_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.cub.2018.02.006"},{"key":"e_1_3_4_16_2","doi-asserted-by":"publisher","DOI":"10.1007\/s002849900224"},{"key":"e_1_3_4_17_2","doi-asserted-by":"publisher","DOI":"10.1128\/mSystems.00284-18"},{"key":"e_1_3_4_18_2","doi-asserted-by":"publisher","DOI":"10.1002\/j.1460-2075.1993.tb06097.x"},{"key":"e_1_3_4_19_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.ymben.2012.07.009"},{"key":"e_1_3_4_20_2","doi-asserted-by":"publisher","DOI":"10.7860\/JCDR\/2016\/14568.7444"},{"key":"e_1_3_4_21_2","doi-asserted-by":"publisher","DOI":"10.1146\/annurev.mi.47.100193.001541"},{"key":"e_1_3_4_22_2","doi-asserted-by":"publisher","DOI":"10.1016\/S0924-8579(03)00209-7"},{"key":"e_1_3_4_23_2","doi-asserted-by":"publisher","DOI":"10.1099\/mic.0.001333"},{"key":"e_1_3_4_24_2","doi-asserted-by":"publisher","DOI":"10.1111\/j.1365-2958.1995.tb02390.x"},{"key":"e_1_3_4_25_2","doi-asserted-by":"publisher","DOI":"10.1146\/annurev.micro.56.012302.161038"},{"key":"e_1_3_4_26_2","doi-asserted-by":"publisher","DOI":"10.1021\/bi00232a009"},{"key":"e_1_3_4_27_2","doi-asserted-by":"publisher","DOI":"10.1016\/S0065-3233(04)69002-4"},{"key":"e_1_3_4_28_2","doi-asserted-by":"publisher","DOI":"10.1126\/science.1070118"},{"key":"e_1_3_4_29_2","doi-asserted-by":"crossref","unstructured":"Nakamura S Minamino T. 2019. Flagella-driven motility of bacteria. Available from: www.mdpi.com\/journal\/biomolecules. Retrieved 11 Oct 2023.","DOI":"10.3390\/biom9070279"},{"key":"e_1_3_4_30_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.biochi.2019.07.026"},{"key":"e_1_3_4_31_2","doi-asserted-by":"publisher","DOI":"10.1016\/s0092-8674(03)01030-4"},{"key":"e_1_3_4_32_2","doi-asserted-by":"publisher","DOI":"10.1046\/j.1365-2958.2003.03629.x"},{"key":"e_1_3_4_33_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.tibs.2008.04.012"},{"key":"e_1_3_4_34_2","doi-asserted-by":"publisher","DOI":"10.1146\/annurev.micro.112408.134247"},{"key":"e_1_3_4_35_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.sbi.2005.07.001"},{"key":"e_1_3_4_36_2","doi-asserted-by":"publisher","DOI":"10.1038\/s42003-019-0676-z"},{"key":"e_1_3_4_37_2","doi-asserted-by":"publisher","DOI":"10.1128\/JB.187.16.5723-5731.2005"},{"key":"e_1_3_4_38_2","doi-asserted-by":"publisher","DOI":"10.1101\/gad.7.12b.2618"},{"key":"e_1_3_4_39_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.bbamcr.2022.119387"},{"key":"e_1_3_4_40_2","doi-asserted-by":"publisher","DOI":"10.1146\/annurev-micro-090816-093411"},{"key":"e_1_3_4_41_2","doi-asserted-by":"publisher","DOI":"10.1128\/jb.36.5.521-545.1938"},{"key":"e_1_3_4_42_2","doi-asserted-by":"publisher","DOI":"10.1128\/mmbr.61.4.429-441.1997"},{"key":"e_1_3_4_43_2","doi-asserted-by":"crossref","unstructured":"Poger D Mark AE. 2015. A ring to rule them all: the effect of cyclopropane fatty acids on the fluidity of lipid bilayers. Available from: https:\/\/pubs.acs.org\/sharingguidelines. Retrieved 30 Mar 2020.","DOI":"10.1021\/acs.jpcb.5b00958"},{"key":"e_1_3_4_44_2","doi-asserted-by":"publisher","DOI":"10.1099\/mic.0.27265-0"},{"key":"e_1_3_4_45_2","doi-asserted-by":"publisher","DOI":"10.1128\/JB.182.15.4288-4294.2000"},{"key":"e_1_3_4_46_2","doi-asserted-by":"publisher","unstructured":"Khana DB Jen A Shishkova E Thusoo E Williams J Henkel A Stevenson DM Coon JJ Amador-Noguez D. 2025. Thermodynamics shape the in vivo enzyme burden of glycolytic pathways. bioRxiv:2025.01.31.635972. doi:10.1101\/2025.01.31.635972","DOI":"10.1101\/2025.01.31.635972"},{"key":"e_1_3_4_47_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.ymben.2019.05.006"},{"key":"e_1_3_4_48_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.01324-15"},{"key":"e_1_3_4_49_2","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-11-395"},{"key":"e_1_3_4_50_2","doi-asserted-by":"publisher","DOI":"10.1038\/nbt.1511"}],"container-title":["Microbiology Spectrum"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/journals.asm.org\/doi\/pdf\/10.1128\/spectrum.00610-25","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/journals.asm.org\/doi\/pdf\/10.1128\/spectrum.00610-25","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,10,7]],"date-time":"2025-10-07T21:30:16Z","timestamp":1759872616000},"score":1,"resource":{"primary":{"URL":"https:\/\/journals.asm.org\/doi\/10.1128\/spectrum.00610-25"}},"subtitle":[],"editor":[{"given":"Srujana Samhita S.","family":"Yadavalli","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"editor"}]}],"short-title":[],"issued":{"date-parts":[[2025,10,7]]},"references-count":49,"journal-issue":{"issue":"10","published-print":{"date-parts":[[2025,10,7]]}},"alternative-id":["10.1128\/spectrum.00610-25"],"URL":"https:\/\/doi.org\/10.1128\/spectrum.00610-25","relation":{},"ISSN":["2165-0497"],"issn-type":[{"value":"2165-0497","type":"electronic"}],"subject":[],"published":{"date-parts":[[2025,10,7]]},"assertion":[{"value":"2025-03-05","order":0,"name":"received","label":"Received","group":{"name":"publication_history","label":"Publication History"}},{"value":"2025-08-12","order":2,"name":"accepted","label":"Accepted","group":{"name":"publication_history","label":"Publication History"}},{"value":"2025-09-17","order":3,"name":"published","label":"Published","group":{"name":"publication_history","label":"Publication History"}}],"article-number":"e00610-25"}}