{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,18]],"date-time":"2026-09-18T04:27:20Z","timestamp":1789705640011,"version":"4.0.1"},"reference-count":28,"publisher":"Elsevier BV","issue":"1","license":[{"start":{"date-parts":[[2025,3,1]],"date-time":"2025-03-01T00:00:00Z","timestamp":1740787200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2025,3,1]],"date-time":"2025-03-01T00:00:00Z","timestamp":1740787200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2024,9,21]],"date-time":"2024-09-21T00:00:00Z","timestamp":1726876800000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["32201206"],"award-info":[{"award-number":["32201206"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100002858","name":"China Postdoctoral Science Foundation","doi-asserted-by":"publisher","award":["2022M711146"],"award-info":[{"award-number":["2022M711146"]}],"id":[{"id":"10.13039\/501100002858","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100012166","name":"National Key Research and Development Program of China","doi-asserted-by":"publisher","award":["2022YFC2805102"],"award-info":[{"award-number":["2022YFC2805102"]}],"id":[{"id":"10.13039\/501100012166","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Synthetic and Systems Biotechnology"],"published-print":{"date-parts":[[2025,3]]},"DOI":"10.1016\/j.synbio.2024.09.008","type":"journal-article","created":{"date-parts":[[2024,9,23]],"date-time":"2024-09-23T17:00:22Z","timestamp":1727110822000},"page":"133-139","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":8,"title":["Transcriptome analysis reveals methanol metabolism variations for the growth damage caused by overexpression of chimeric transactivators in Pichia pastoris"],"prefix":"10.1016","volume":"10","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-0596-5579","authenticated-orcid":false,"given":"Qi","family":"Liu","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ziyu","family":"He","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6225-8515","authenticated-orcid":false,"given":"Menghao","family":"Cai","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"78","reference":[{"issue":"8","key":"10.1016\/j.synbio.2024.09.008_bib1","doi-asserted-by":"crossref","first-page":"2548","DOI":"10.1021\/acssynbio.2c00110","article-title":"Toward methanol-based biomanufacturing: emerging strategies for engineering synthetic methylotrophy in Saccharomyces cerevisiae","volume":"11","author":"Kelso","year":"2022","journal-title":"ACS Synth Biol"},{"key":"10.1016\/j.synbio.2024.09.008_bib2","doi-asserted-by":"crossref","DOI":"10.1016\/j.biotechadv.2019.107467","article-title":"Engineering unnatural methylotrophic cell factories for methanol-based biomanufacturing: challenges and opportunities","volume":"39","author":"Zhu","year":"2020","journal-title":"Biotechnol Adv"},{"issue":"2","key":"10.1016\/j.synbio.2024.09.008_bib3","doi-asserted-by":"crossref","first-page":"110","DOI":"10.1016\/j.synbio.2021.04.005","article-title":"Development of synthetic biology tools to engineer Pichia pastoris as a chassis for the production of natural products","volume":"6","author":"Gao","year":"2021","journal-title":"Synth Syst Biotechnol"},{"issue":"12","key":"10.1016\/j.synbio.2024.09.008_bib4","doi-asserted-by":"crossref","first-page":"6245","DOI":"10.1074\/jbc.M115.692053","article-title":"Mit1 transcription factor mediates methanol signaling and regulates the Alcohol Oxidase 1 (AOX1) promoter in Pichia pastoris","volume":"291","author":"Wang","year":"2016","journal-title":"J Biol Chem"},{"issue":"3","key":"10.1016\/j.synbio.2024.09.008_bib5","doi-asserted-by":"crossref","first-page":"883","DOI":"10.1128\/MCB.26.3.883-897.2006","article-title":"Mxr1p, a key regulator of the methanol utilization pathway and peroxisomal genes in Pichia pastoris","volume":"26","author":"Lin-Cereghino","year":"2006","journal-title":"Mol Cell Biol"},{"issue":"1","key":"10.1016\/j.synbio.2024.09.008_bib6","doi-asserted-by":"crossref","first-page":"158","DOI":"10.1016\/j.bbrc.2014.07.094","article-title":"Trm1p, a Zn(II)(2)Cys(6)-type transcription factor, is essential for the transcriptional activation of genes of methanol utilization pathway, in Pichia pastoris","volume":"451","author":"Sahu","year":"2014","journal-title":"Biochem Biophys Res Commun"},{"issue":"2","key":"10.1016\/j.synbio.2024.09.008_bib7","doi-asserted-by":"crossref","first-page":"291","DOI":"10.1007\/s10529-015-1972-4","article-title":"PpNrg1 is a transcriptional repressor for glucose and glycerol repression of AOX1 promoter in methylotrophic yeast Pichia pastoris","volume":"38","author":"Wang","year":"2016","journal-title":"Biotechnol Lett"},{"issue":"2","key":"10.1016\/j.synbio.2024.09.008_bib8","doi-asserted-by":"crossref","first-page":"282","DOI":"10.1111\/j.1365-2958.2012.08112.x","article-title":"Pichia pastoris 14-3-3 regulates transcriptional activity of the methanol inducible transcription factor Mxr1 by direct interaction","volume":"85","author":"Parua","year":"2012","journal-title":"Mol Microbiol"},{"issue":"41","key":"10.1016\/j.synbio.2024.09.008_bib9","doi-asserted-by":"crossref","first-page":"34465","DOI":"10.1074\/jbc.M112.365304","article-title":"The zinc finger proteins Mxr1p and repressor of phosphoenolpyruvate carboxykinase (ROP) have the same DNA binding specificity but regulate methanol metabolism antagonistically in Pichia pastoris","volume":"287","author":"Kumar","year":"2012","journal-title":"J Biol Chem"},{"issue":"4","key":"10.1016\/j.synbio.2024.09.008_bib10","doi-asserted-by":"crossref","first-page":"399","DOI":"10.1007\/s13258-017-0641-5","article-title":"Transcriptome analysis of \u0394mig1\u0394mig2 mutant reveals their roles in methanol catabolism, peroxisome biogenesis and autophagy in methylotrophic yeast Pichia pastoris","volume":"40","author":"Shi","year":"2018","journal-title":"Genes Genom"},{"key":"10.1016\/j.synbio.2024.09.008_bib11","article-title":"Methanol-independent protein expression by AOX1 promoter with trans-acting elements engineering and glucose-glycerol-shift induction in Pichia pastoris","volume":"7","author":"Wang","year":"2017","journal-title":"Sci Rep"},{"issue":"1","key":"10.1016\/j.synbio.2024.09.008_bib12","doi-asserted-by":"crossref","first-page":"81","DOI":"10.1186\/s12896-018-0492-4","article-title":"Enhancing the efficiency of the Pichia pastoris AOX1 promoter via the synthetic positive feedback circuit of transcription factor Mxr1","volume":"18","author":"Chang","year":"2018","journal-title":"BMC Biotechnol"},{"issue":"4","key":"10.1016\/j.synbio.2024.09.008_bib13","doi-asserted-by":"crossref","first-page":"1037","DOI":"10.1002\/bit.26529","article-title":"Methanol independent induction in Pichia pastoris by simple derepressed overexpression of single transcription factors","volume":"115","author":"Vogl","year":"2018","journal-title":"Biotechnol Bioeng"},{"issue":"7","key":"10.1016\/j.synbio.2024.09.008_bib14","doi-asserted-by":"crossref","first-page":"1710","DOI":"10.1002\/bit.26947","article-title":"Deregulation of methanol metabolism reverts transcriptional limitations of recombinant Pichia pastoris (Komagataella spp) with multiple expression cassettes under control of the AOX1 promoter","volume":"116","author":"Camara","year":"2019","journal-title":"Biotechnol Bioeng"},{"issue":"18","key":"10.1016\/j.synbio.2024.09.008_bib15","doi-asserted-by":"crossref","first-page":"e111","DOI":"10.1093\/nar\/gky558","article-title":"A universal gene expression system for fungi","volume":"46","author":"Rantasalo","year":"2018","journal-title":"Nucleic Acids Res"},{"issue":"1","key":"10.1016\/j.synbio.2024.09.008_bib16","doi-asserted-by":"crossref","DOI":"10.1038\/ncomms12211","article-title":"Synthetic biology and microbioreactor platforms for programmable production of biologics at the point-of-care","volume":"7","author":"Perez-Pinera","year":"2016","journal-title":"Nat Commun"},{"issue":"6","key":"10.1016\/j.synbio.2024.09.008_bib17","doi-asserted-by":"crossref","DOI":"10.1126\/sciadv.abl5166","article-title":"A programmable high-expression yeast platform responsive to user-defined signals","volume":"8","author":"Liu","year":"2022","journal-title":"Sci Adv"},{"key":"10.1016\/j.synbio.2024.09.008_bib18","doi-asserted-by":"crossref","first-page":"275","DOI":"10.1016\/j.ymben.2019.05.001","article-title":"Engineered ethanol-driven biosynthetic system for improving production of acetyl-CoA derived drugs in Crabtree-negative yeast","volume":"54","author":"Liu","year":"2019","journal-title":"Metab Eng"},{"issue":"17","key":"10.1016\/j.synbio.2024.09.008_bib19","doi-asserted-by":"crossref","first-page":"10187","DOI":"10.1093\/nar\/gkac765","article-title":"Yeast transcriptional device libraries enable precise synthesis of value-added chemicals from methanol","volume":"50","author":"Zhu","year":"2022","journal-title":"Nucleic Acids Res"},{"issue":"4","key":"10.1016\/j.synbio.2024.09.008_bib20","doi-asserted-by":"crossref","first-page":"312","DOI":"10.1016\/j.jbiotec.2011.04.014","article-title":"High-quality genome sequence of Pichia pastoris CBS7435","volume":"154","author":"Kuberl","year":"2011","journal-title":"J Biotechnol"},{"issue":"11","key":"10.1016\/j.synbio.2024.09.008_bib21","doi-asserted-by":"crossref","first-page":"3600","DOI":"10.1128\/AEM.02843-10","article-title":"GAP promoter library for fine-tuning of gene expression in Pichia pastoris","volume":"77","author":"Qin","year":"2011","journal-title":"Appl Environ Microbiol"},{"issue":"6","key":"10.1016\/j.synbio.2024.09.008_bib22","doi-asserted-by":"crossref","DOI":"10.1002\/biot.202400082","article-title":"ER stress-induced transcriptional response reveals tolerance genes in yeast","volume":"19","author":"Xie","year":"2024","journal-title":"Biotechnol J"},{"issue":"2","key":"10.1016\/j.synbio.2024.09.008_bib23","doi-asserted-by":"crossref","first-page":"242","DOI":"10.1016\/j.synbio.2023.03.003","article-title":"Engineering Komagataella phaffii to biosynthesize cordycepin from methanol which drives global metabolic alterations at the transcription level","volume":"8","author":"Tan","year":"2023","journal-title":"Synth Syst Biotechnol"},{"key":"10.1016\/j.synbio.2024.09.008_bib24","doi-asserted-by":"crossref","first-page":"80","DOI":"10.1186\/s12915-015-0186-5","article-title":"Systems-level organization of yeast methylotrophic lifestyle","volume":"13","author":"Russmayer","year":"2015","journal-title":"BMC Biol"},{"issue":"2","key":"10.1016\/j.synbio.2024.09.008_bib25","doi-asserted-by":"crossref","first-page":"349","DOI":"10.1111\/mmi.13631","article-title":"Novel function of Wsc proteins as a methanol-sensing machinery in the yeast Pichia pastoris","volume":"104","author":"Ohsawa","year":"2017","journal-title":"Mol Microbiol"},{"issue":"3","key":"10.1016\/j.synbio.2024.09.008_bib26","doi-asserted-by":"crossref","first-page":"365","DOI":"10.1016\/j.devcel.2007.12.011","article-title":"PpAtg30 tags peroxisomes for turnover by selective autophagy","volume":"14","author":"Farre","year":"2008","journal-title":"Dev Cell"},{"key":"10.1016\/j.synbio.2024.09.008_bib27","doi-asserted-by":"crossref","DOI":"10.3389\/fcell.2022.887806","article-title":"Regulation of peroxisome homeostasis by post-translational modification in the methylotrophic yeast Komagataella phaffii","volume":"10","author":"Ohsawa","year":"2022","journal-title":"Front Cell Dev Biol"},{"key":"10.1016\/j.synbio.2024.09.008_bib28","doi-asserted-by":"crossref","DOI":"10.1038\/srep44302","article-title":"Increased dosage of AOX1 promoter-regulated expression cassettes leads to transcription attenuation of the methanol metabolism in Pichia pastoris","volume":"7","author":"Camara","year":"2017","journal-title":"Sci Rep"}],"container-title":["Synthetic and Systems Biotechnology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S2405805X24001273?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S2405805X24001273?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2025,11,8]],"date-time":"2025-11-08T17:38:57Z","timestamp":1762623537000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S2405805X24001273"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2025,3]]},"references-count":28,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2025,3]]}},"alternative-id":["S2405805X24001273"],"URL":"https:\/\/doi.org\/10.1016\/j.synbio.2024.09.008","relation":{},"ISSN":["2405-805X"],"issn-type":[{"value":"2405-805X","type":"print"}],"subject":[],"published":{"date-parts":[[2025,3]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"Transcriptome analysis reveals methanol metabolism variations for the growth damage caused by overexpression of chimeric transactivators in Pichia pastoris","name":"articletitle","label":"Article Title"},{"value":"Synthetic and Systems Biotechnology","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.synbio.2024.09.008","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2024 The Authors. Publishing services by Elsevier B.V. on behalf of KeAi Communications Co. Ltd.","name":"copyright","label":"Copyright"}]}}