{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,19]],"date-time":"2026-09-19T21:07:24Z","timestamp":1789852044284,"version":"4.0.1"},"reference-count":40,"publisher":"Elsevier BV","license":[{"start":{"date-parts":[[2027,1,1]],"date-time":"2027-01-01T00:00:00Z","timestamp":1798761600000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2027,1,1]],"date-time":"2027-01-01T00:00:00Z","timestamp":1798761600000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2027,1,1]],"date-time":"2027-01-01T00:00:00Z","timestamp":1798761600000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-017"},{"start":{"date-parts":[[2027,1,1]],"date-time":"2027-01-01T00:00:00Z","timestamp":1798761600000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-037"},{"start":{"date-parts":[[2027,1,1]],"date-time":"2027-01-01T00:00:00Z","timestamp":1798761600000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-012"},{"start":{"date-parts":[[2027,1,1]],"date-time":"2027-01-01T00:00:00Z","timestamp":1798761600000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-029"},{"start":{"date-parts":[[2027,1,1]],"date-time":"2027-01-01T00:00:00Z","timestamp":1798761600000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-004"}],"funder":[{"DOI":"10.13039\/501100012166","name":"National Key Research and Development Program of China","doi-asserted-by":"publisher","award":["2023YFF1103700"],"award-info":[{"award-number":["2023YFF1103700"]}],"id":[{"id":"10.13039\/501100012166","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Bioresource Technology"],"published-print":{"date-parts":[[2027,1]]},"DOI":"10.1016\/j.biortech.2026.135786","type":"journal-article","created":{"date-parts":[[2026,9,9]],"date-time":"2026-09-09T16:28:32Z","timestamp":1788971312000},"page":"135786","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":0,"special_numbering":"PA","title":["Rational design of heptaprenyl diphosphate synthase and metabolic optimization drive biosynthesis of menaquinone-7 by Escherichia coli"],"prefix":"10.1016","volume":"464","author":[{"given":"Zihao","family":"Li","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Kangjie","family":"Xu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yiyi","family":"Chen","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4493-9645","authenticated-orcid":false,"given":"Haitong","family":"Hou","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xiulan","family":"Sun","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3949-3733","authenticated-orcid":false,"given":"Jingwen","family":"Zhou","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"78","reference":[{"key":"10.1016\/j.biortech.2026.135786_b0005","doi-asserted-by":"crossref","first-page":"19","DOI":"10.1016\/j.softx.2015.06.001","article-title":"GROMACS: High performance molecular simulations through multi-level parallelism from laptops to supercomputers","volume":"1\u20132","author":"Abraham","year":"2015","journal-title":"SoftwareX"},{"issue":"8016","key":"10.1016\/j.biortech.2026.135786_b0010","doi-asserted-by":"crossref","first-page":"493","DOI":"10.1038\/s41586-024-07487-w","article-title":"Accurate structure prediction of biomolecular interactions with AlphaFold 3","volume":"630","author":"Abramson","year":"2024","journal-title":"Nature"},{"issue":"20","key":"10.1016\/j.biortech.2026.135786_b0015","doi-asserted-by":"crossref","first-page":"6183","DOI":"10.1021\/acs.jcim.3c01153","article-title":"The AmberTools","volume":"63","author":"Case","year":"2023","journal-title":"J. Chem Inf. Model."},{"issue":"5","key":"10.1016\/j.biortech.2026.135786_b0020","doi-asserted-by":"crossref","first-page":"1172","DOI":"10.1039\/C4CS00351A","article-title":"Synthetic biology for the directed evolution of protein biocatalysts: navigating sequence space intelligently","volume":"44","author":"Currin","year":"2015","journal-title":"Chem. Soc. Rev."},{"key":"10.1016\/j.biortech.2026.135786_b0025","unstructured":"Dassault Syst\u00e8mes BIOVIA. 2019. Discovery Studio Modeling Environment, Release 2019 [software], Vol. Release 2019, Dassault Syst\u00e8mes. San Diego, CA."},{"issue":"2","key":"10.1016\/j.biortech.2026.135786_b0030","doi-asserted-by":"crossref","first-page":"11","DOI":"10.1093\/bioinformatics\/btaf064","article-title":"FoldX force field revisited, an improved version","volume":"41","author":"Delgado","year":"2025","journal-title":"Bioinformatics"},{"issue":"11","key":"10.1016\/j.biortech.2026.135786_b0035","doi-asserted-by":"crossref","first-page":"1885","DOI":"10.1017\/S0007114523001034","article-title":"The study of bioavailability and endogenous circadian rhythm of menaquinone-7, a form of vitamin K2, in healthy subjects","volume":"130","author":"Du","year":"2023","journal-title":"Br. J. Nutr."},{"key":"10.1016\/j.biortech.2026.135786_b0040","first-page":"10","article-title":"Machine learning for enzyme engineering, selection and design","volume":"34","author":"Feehan","year":"2021","journal-title":"Protein Eng. Des. Sel."},{"issue":"4","key":"10.1016\/j.biortech.2026.135786_b0045","doi-asserted-by":"crossref","first-page":"756","DOI":"10.1021\/acssynbio.0c00568","article-title":"Highly efficient production of menaquinone-7 from glucose by metabolically engineered Escherichia coli","volume":"10","author":"Gao","year":"2021","journal-title":"ACS Synth. Biol."},{"issue":"9","key":"10.1016\/j.biortech.2026.135786_b0050","doi-asserted-by":"crossref","first-page":"8","DOI":"10.1007\/s11274-020-02880-9","article-title":"Menaquinone-7 production in engineered Escherichia coli","volume":"36","author":"Gao","year":"2020","journal-title":"World J. Microbiol. Biotechnol."},{"key":"10.1016\/j.biortech.2026.135786_b0055","doi-asserted-by":"crossref","first-page":"60","DOI":"10.1016\/j.ymben.2018.03.004","article-title":"Integrated analysis of isopentenyl pyrophosphate (IPP) toxicity in isoprenoid-producing Escherichia coli","volume":"47","author":"Georg","year":"2018","journal-title":"Metab. Eng."},{"key":"10.1016\/j.biortech.2026.135786_b0060","doi-asserted-by":"crossref","first-page":"18","DOI":"10.1016\/j.biotechadv.2023.108094","article-title":"Role of distal sites in enzyme engineering","volume":"63","author":"Gu","year":"2023","journal-title":"Biotechnol. Adv."},{"issue":"9","key":"10.1016\/j.biortech.2026.135786_b0065","doi-asserted-by":"crossref","first-page":"1582","DOI":"10.1093\/bioinformatics\/bty862","article-title":"The EVcouplings Python framework for coevolutionary sequence analysis","volume":"35","author":"Hopf","year":"2019","journal-title":"Bioinformatics"},{"key":"10.1016\/j.biortech.2026.135786_b0070","doi-asserted-by":"crossref","DOI":"10.3389\/fphar.2022.896920","article-title":"Molecular pathways and roles for vitamin K2-7 as a health-beneficial nutraceutical: challenges and opportunities","volume":"13","author":"Jadhav","year":"2022","journal-title":"Front. Pharmacol."},{"issue":"7","key":"10.1016\/j.biortech.2026.135786_b0075","doi-asserted-by":"crossref","first-page":"2506","DOI":"10.1128\/AEM.04023-14","article-title":"Multigene editing in the Escherichia coli genome via the CRISPR-Cas9 system","volume":"81","author":"Jiang","year":"2015","journal-title":"Appl. Environ. Microbiol."},{"key":"10.1016\/j.biortech.2026.135786_b0080","doi-asserted-by":"crossref","first-page":"10","DOI":"10.1093\/femsle\/fnae098","article-title":"Menaquinone production in genetically engineered E. coli","volume":"371","author":"Jumpathong","year":"2024","journal-title":"FEMS Microbiol. Lett."},{"issue":"7873","key":"10.1016\/j.biortech.2026.135786_b0085","doi-asserted-by":"crossref","first-page":"583","DOI":"10.1038\/s41586-021-03819-2","article-title":"Highly accurate protein structure prediction with AlphaFold","volume":"596","author":"Jumper","year":"2021","journal-title":"Nature"},{"issue":"17","key":"10.1016\/j.biortech.2026.135786_b0090","doi-asserted-by":"crossref","first-page":"18","DOI":"10.15252\/embj.2021108368","article-title":"Oligomeric interactions maintain active-site structure in a noncooperative enzyme family","volume":"41","author":"Li","year":"2022","journal-title":"EMBO J."},{"key":"10.1016\/j.biortech.2026.135786_b0095","doi-asserted-by":"crossref","first-page":"13","DOI":"10.3389\/fbioe.2021.695526","article-title":"Advances in enhanced menaquinone-7 production from Bacillus subtilis","volume":"9","author":"Liao","year":"2021","journal-title":"Front. Bioeng. Biotechnol."},{"issue":"4","key":"10.1016\/j.biortech.2026.135786_b0100","doi-asserted-by":"crossref","first-page":"589","DOI":"10.1002\/fbe2.70029","article-title":"Accelerating enzyme engineering with artificial intelligence in biocatalysis: challenges and opportunities","volume":"4","author":"Lu","year":"2025","journal-title":"Food Bioeng."},{"key":"10.1016\/j.biortech.2026.135786_b0105","doi-asserted-by":"crossref","first-page":"42","DOI":"10.1016\/j.synbio.2025.11.001","article-title":"High-level production of vitamin K2 in Escherichia coli via modular molecular engineering","volume":"12","author":"Lu","year":"2026","journal-title":"Synth. Syst. Biotechnol."},{"key":"10.1016\/j.biortech.2026.135786_b0110","doi-asserted-by":"crossref","first-page":"11","DOI":"10.3389\/fbioe.2022.944226","article-title":"Design of fusion enzymes for biocatalytic applications in aqueous and non-aqueous media","volume":"10","author":"Ma","year":"2022","journal-title":"Front. Bioeng. Biotechnol."},{"issue":"8","key":"10.1016\/j.biortech.2026.135786_b0115","doi-asserted-by":"crossref","first-page":"3696","DOI":"10.1021\/acs.jctc.5b00255","article-title":"ff14SB: improving the accuracy of protein side chain and backbone parameters from ff99SB","volume":"11","author":"Maier","year":"2015","journal-title":"Chem. Theory Comput."},{"issue":"3","key":"10.1016\/j.biortech.2026.135786_b0120","doi-asserted-by":"crossref","first-page":"538","DOI":"10.1002\/prot.21086","article-title":"ROSETTALIGAND: Protein-small molecule docking with full side-chain flexibility","volume":"65","author":"Meiler","year":"2006","journal-title":"Proteins"},{"key":"10.1016\/j.biortech.2026.135786_b0125","first-page":"21","volume":"eLife, 10","author":"Millard","year":"2021","journal-title":"Control and Regulation of Acetate Overflow in Escherichia Coli."},{"key":"10.1016\/j.biortech.2026.135786_b0130","doi-asserted-by":"crossref","first-page":"14","DOI":"10.1016\/j.biotechadv.2019.107453","article-title":"Microbial production of vitamin K2: current status and future prospects","volume":"39","author":"Ren","year":"2020","journal-title":"Biotechnol. Adv."},{"issue":"2","key":"10.1016\/j.biortech.2026.135786_b0135","doi-asserted-by":"crossref","first-page":"314","DOI":"10.1074\/jbc.REV119.006289","article-title":"A global analysis of function and conservation of catalytic residues in enzymes","volume":"295","author":"Ribeiro","year":"2020","journal-title":"J. Biol. Chem."},{"issue":"4","key":"10.1016\/j.biortech.2026.135786_b0140","doi-asserted-by":"crossref","DOI":"10.3390\/nu12040965","article-title":"MK-7 and its effects on bone quality and strength","volume":"12","author":"Sato","year":"2020","journal-title":"Nutrients"},{"key":"10.1016\/j.biortech.2026.135786_b0145","doi-asserted-by":"crossref","first-page":"101","DOI":"10.1016\/j.procbio.2025.07.007","article-title":"Metabolic engineering of Yarrowia lipolytica to produce menaquinone-7","volume":"157","author":"Shen","year":"2025","journal-title":"Process Biochem."},{"key":"10.1016\/j.biortech.2026.135786_b0150","first-page":"281","article-title":"Machine learning-assisted enzyme engineering","volume":"Vol. 643","author":"Siedhoff","year":"2020"},{"issue":"10","key":"10.1016\/j.biortech.2026.135786_b0155","doi-asserted-by":"crossref","first-page":"3338","DOI":"10.1002\/bit.28800","article-title":"Combinatorial metabolic engineering of Bacillus subtilis for menaquinone-7 biosynthesis","volume":"121","author":"Sun","year":"2024","journal-title":"Biotechnol. Bioeng."},{"issue":"2","key":"10.1016\/j.biortech.2026.135786_b0160","doi-asserted-by":"crossref","first-page":"455","DOI":"10.1002\/jcc.21334","article-title":"Software news and update AutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading","volume":"31","author":"Trott","year":"2010","journal-title":"J. Comput. Chem."},{"key":"10.1016\/j.biortech.2026.135786_b0165","article-title":"Integrated cofactor-centric engineering and energy flux optimization enable high-efficient d-pantothenic acid production in Escherichia coli","volume":"524","author":"Wang","year":"2025","journal-title":"Chem. Eng. J."},{"issue":"3","key":"10.1016\/j.biortech.2026.135786_b0170","doi-asserted-by":"crossref","first-page":"1841","DOI":"10.1021\/acscatal.4c06840","article-title":"Simultaneous engineering of the thermostability and activity of a novel aldehyde dehydrogenase","volume":"15","author":"Xu","year":"2025","journal-title":"ACS Catal."},{"issue":"7","key":"10.1016\/j.biortech.2026.135786_b0175","doi-asserted-by":"crossref","first-page":"745","DOI":"10.1016\/j.tibtech.2019.11.007","article-title":"Metabolic engineering of Escherichia coli for natural product biosynthesis","volume":"38","author":"Yang","year":"2020","journal-title":"Trends Biotechnol."},{"issue":"3","key":"10.1016\/j.biortech.2026.135786_b0180","doi-asserted-by":"crossref","first-page":"16","DOI":"10.3390\/microorganisms13030536","article-title":"A high-throughput screening strategy for Bacillus subtilis producing menaquinone-7 based on fluorescence-activated cell sorting","volume":"13","author":"Yang","year":"2025","journal-title":"Microorganisms"},{"key":"10.1016\/j.biortech.2026.135786_b0185","doi-asserted-by":"crossref","first-page":"11","DOI":"10.1016\/j.fm.2024.104599","article-title":"Soy protein hydrolysates induce menaquinone-7 biosynthesis by enhancing the biofilm formation of Bacillus subtilis natto","volume":"124","author":"Yi","year":"2024","journal-title":"Food Microbiol."},{"issue":"1","key":"10.1016\/j.biortech.2026.135786_b0190","doi-asserted-by":"crossref","first-page":"13","DOI":"10.1038\/s41467-023-44113-1","article-title":"UniKP: a unified framework for the prediction of enzyme kinetic parameters","volume":"14","author":"Yu","year":"2023","journal-title":"Nat. Commun."},{"issue":"1","key":"10.1016\/j.biortech.2026.135786_b0195","doi-asserted-by":"crossref","first-page":"8662","DOI":"10.1038\/s41467-025-63802-7","article-title":"Distal mutations enhance catalysis in designed enzymes by facilitating substrate binding and product release","volume":"16","author":"Zarifi","year":"2025","journal-title":"Nat. Commun."},{"issue":"1","key":"10.1016\/j.biortech.2026.135786_b0200","doi-asserted-by":"crossref","first-page":"12","DOI":"10.1186\/s12934-021-01574-7","article-title":"New aspects of microbial vitamin K2 production by expanding the product spectrum","volume":"20","author":"Zhang","year":"2021","journal-title":"Microb. Cell Fact."}],"container-title":["Bioresource Technology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0960852426018687?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0960852426018687?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2026,9,19]],"date-time":"2026-09-19T20:50:39Z","timestamp":1789851039000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S0960852426018687"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2027,1]]},"references-count":40,"alternative-id":["S0960852426018687"],"URL":"https:\/\/doi.org\/10.1016\/j.biortech.2026.135786","relation":{},"ISSN":["0960-8524"],"issn-type":[{"value":"0960-8524","type":"print"}],"subject":[],"published":{"date-parts":[[2027,1]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"Rational design of heptaprenyl diphosphate synthase and metabolic optimization drive biosynthesis of menaquinone-7 by Escherichia coli","name":"articletitle","label":"Article Title"},{"value":"Bioresource Technology","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.biortech.2026.135786","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2026 Published by Elsevier Ltd.","name":"copyright","label":"Copyright"}],"article-number":"135786"}}