{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,10]],"date-time":"2026-08-10T10:30:04Z","timestamp":1786357804538,"version":"build-2736575974"},"reference-count":69,"publisher":"MDPI AG","issue":"8","license":[{"start":{"date-parts":[[2026,8,10]],"date-time":"2026-08-10T00:00:00Z","timestamp":1786320000000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["32260018"],"award-info":[{"award-number":["32260018"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"award":["32260018"],"award-info":[{"award-number":["32260018"]}],"id":[{"id":"https:\/\/ror.org\/01h0zpd94","id-type":"ROR","asserted-by":"publisher"}]},{"name":"Xiangsihu Young Scholars Innovation Team of Guangxi Minzu University","award":["2022GXUNXSHQN05"],"award-info":[{"award-number":["2022GXUNXSHQN05"]}]},{"name":"Talent Introduction Project of Guangxi Minzu University","award":["2022KJQD19"],"award-info":[{"award-number":["2022KJQD19"]}]},{"name":"National College Student Innovation Training Program","award":["202410608024"],"award-info":[{"award-number":["202410608024"]}]},{"name":"Autonomous Region College Student Innovation Training Program of Guangxi","award":["S202410608332"],"award-info":[{"award-number":["S202410608332"]}]},{"name":"Autonomous Region College Student Innovation Training Program of Guangxi","award":["S202510608178"],"award-info":[{"award-number":["S202510608178"]}]},{"name":"Autonomous Region College Student Innovation Training Program of Guangxi","award":["S202510608050"],"award-info":[{"award-number":["S202510608050"]}]},{"name":"Graduate Education Innovation Program of Guangxi Minzu University","award":["gxmzu-chxs2025090"],"award-info":[{"award-number":["gxmzu-chxs2025090"]}]},{"name":"Graduate Education Innovation Program of Guangxi Minzu University","award":["gxmzu-chxs2025207"],"award-info":[{"award-number":["gxmzu-chxs2025207"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Life"],"abstract":"<jats:p>Sugarcane bagasse is an important renewable lignocellulosic resource, yet its bioconversion efficiency remains low, primarily because wild-type Saccharomyces cerevisiae cannot utilize xylose, which limits the industrial production of cellulosic ethanol. In this study, a high-ethanol-yielding strain 31.1 was obtained from Scheffersomyces stipitis (formerly known as Pichia stipitis) 1960 through 60Co mutagenesis and long-term domestication. Strain 31.1 exhibited an ethanol productivity of 0.78 g\/(L\u00b7h), a sugar-to-ethanol conversion rate of 0.38 g\/g, and a fermentation efficiency of 82.61%. Using the wild-type strain 1960 and a low-yielding strain 12.1 as controls, comparative genomics and transcriptomics were employed to elucidate the mechanism underlying the high ethanol production. Our findings are as follows: at the genomic level, there were 271 genomic structural variations. At the transcriptomic level, most genes involved in secondary metabolite synthesis, antibiotic synthesis, ribosomal pathways, amino acid biosynthesis, and oxidative phosphorylation pathways were down-regulated. Additionally, two key genes\u2014XYL1 (xylose reductase gene) and XUT4 (high-affinity xylose transporter gene)\u2014were significantly up-regulated. Through comprehensive integration of phenotypic comparison (e.g., fermentation performance of the high-yield strain 31.1 in yeast propagation and ethanol fermentation), comparative genomics, transcriptomics, and bioinformatics analyses of pathways involved in oxidative phosphorylation and the cell cycle (related to yeast cell growth), we identified 60 candidate key genes associated with high xylose-to-ethanol yield in S. stipitis. These genes are predominantly involved in the cell cycle pathway, including CDC15 and PHO81. In conclusion, our study preliminarily reveals the mechanisms underlying the high xylose ethanol production of the high-yield strain at the genomic and transcriptomic levels.<\/jats:p>","DOI":"10.3390\/life16081307","type":"journal-article","created":{"date-parts":[[2026,8,10]],"date-time":"2026-08-10T08:08:53Z","timestamp":1786349333000},"page":"1307","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":0,"title":["Comparative Genomic and Transcriptomic Analyses of 60Co-Mutagenized Scheffersomyces stipitis Strains: Identification of Candidate Genes Associated with High-Ethanol-Producing Xylose-to-Ethanol Fermentation"],"prefix":"10.3390","volume":"16","author":[{"given":"Hao","family":"Zou","sequence":"first","affiliation":[{"name":"Guangxi Key Laboratory of Polysaccharide Materials and Modification, Guangxi-Indonesia Joint Laboratory for Microbial Resources and Artificial Intelligence, School of Marine Sciences and Biotechnology, Guangxi Minzu University, Nanning 530008, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yuanjie","family":"Zhou","sequence":"additional","affiliation":[{"name":"Guangxi Key Laboratory of Polysaccharide Materials and Modification, Guangxi-Indonesia Joint Laboratory for Microbial Resources and Artificial Intelligence, School of Marine Sciences and Biotechnology, Guangxi Minzu University, Nanning 530008, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Suiyin","family":"Lin","sequence":"additional","affiliation":[{"name":"Guangxi Key Laboratory of Polysaccharide Materials and Modification, Guangxi-Indonesia Joint Laboratory for Microbial Resources and Artificial Intelligence, School of Marine Sciences and Biotechnology, Guangxi Minzu University, Nanning 530008, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Tingting","family":"Pang","sequence":"additional","affiliation":[{"name":"Guangxi Key Laboratory of Polysaccharide Materials and Modification, Guangxi-Indonesia Joint Laboratory for Microbial Resources and Artificial Intelligence, School of Marine Sciences and Biotechnology, Guangxi Minzu University, Nanning 530008, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Linxi","family":"Zhang","sequence":"additional","affiliation":[{"name":"Guangxi Key Laboratory of Polysaccharide Materials and Modification, Guangxi-Indonesia Joint Laboratory for Microbial Resources and Artificial Intelligence, School of Marine Sciences and Biotechnology, Guangxi Minzu University, Nanning 530008, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jing","family":"Zhou","sequence":"additional","affiliation":[{"name":"Guangxi Key Laboratory of Polysaccharide Materials and Modification, Guangxi-Indonesia Joint Laboratory for Microbial Resources and Artificial Intelligence, School of Marine Sciences and Biotechnology, Guangxi Minzu University, Nanning 530008, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Renzhi","family":"Wu","sequence":"additional","affiliation":[{"name":"Guangxi Key Laboratory of Polysaccharide Materials and Modification, Guangxi-Indonesia Joint Laboratory for Microbial Resources and Artificial Intelligence, School of Marine Sciences and Biotechnology, Guangxi Minzu University, Nanning 530008, China"},{"name":"National Key Laboratory of Non-Food Biomass Technology, National Engineering Research Center for Non-Food Biorefinery, Guangxi Academy of Sciences, Nanning 530007, China"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1968","published-online":{"date-parts":[[2026,8,10]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","first-page":"126534","DOI":"10.1016\/j.micres.2020.126534","article-title":"Current State-of-the-Art in Ethanol Production from Lignocellulosic Feedstocks","volume":"240","author":"Robak","year":"2020","journal-title":"Microbiol. Res."},{"key":"ref_2","doi-asserted-by":"crossref","first-page":"1411","DOI":"10.1002\/er.4292","article-title":"Future Prospects of Delignification Pretreatments for the Lignocellulosic Materials to Produce Second Generation Bioethanol","volume":"43","author":"Baig","year":"2019","journal-title":"Int. J. Energy Res."},{"key":"ref_3","doi-asserted-by":"crossref","first-page":"631","DOI":"10.1016\/j.rser.2016.07.015","article-title":"Second Generation Bioethanol Production: A Critical Review","volume":"66","author":"Aditiya","year":"2016","journal-title":"Renew. Sustain. Energy Rev."},{"key":"ref_4","doi-asserted-by":"crossref","first-page":"foaf035","DOI":"10.1093\/femsyr\/foaf035","article-title":"Recent Progress in Engineering Yeast Producers of Cellulosic Ethanol","volume":"25","author":"Vasylyshyn","year":"2025","journal-title":"FEMS Yeast Res."},{"key":"ref_5","doi-asserted-by":"crossref","first-page":"15","DOI":"10.1016\/j.jbiotec.2025.08.018","article-title":"Optimizing Lignocellulose Conversion: A Comparative Study of Alkali-Assisted Ball Milling Pretreatment of Cotton Stalk and Corn Stover","volume":"408","author":"Zhang","year":"2025","journal-title":"J. Biotechnol."},{"key":"ref_6","doi-asserted-by":"crossref","first-page":"475","DOI":"10.1016\/j.rser.2016.12.076","article-title":"Bioethanol Production from Renewable Sources: Current Perspectives and Technological Progress","volume":"71","author":"Zabed","year":"2017","journal-title":"Renew. Sustain. Energy Rev."},{"key":"ref_7","unstructured":"Chen, D. (2015). Study on Ultra-High Pressure Explosion Pretreatment of Lignocellulose and Ethanol Fermentation. [Ph.D. Thesis, Guangxi University]."},{"key":"ref_8","unstructured":"Kurtzman, C.P. (2005). Biology and Physiology of the D-Xylose Fermenting Yeast Pachysolen tannophilus. Advances in Biochemical Engineering\/Biotechnology, Springer."},{"key":"ref_9","doi-asserted-by":"crossref","first-page":"221","DOI":"10.1016\/S0065-2164(00)47006-1","article-title":"Ethanol and Thermotolerance in the Bioconversion of Xylose by Yeasts","volume":"47","author":"Jeffries","year":"2000","journal-title":"Adv. Appl. Microbiol."},{"key":"ref_10","doi-asserted-by":"crossref","first-page":"887","DOI":"10.1038\/321887a0","article-title":"Ethanol Production from Sugars Derived from Plant Biomass by a Novel Fungus","volume":"321","author":"Wu","year":"1986","journal-title":"Nature"},{"key":"ref_11","doi-asserted-by":"crossref","first-page":"2445","DOI":"10.1016\/j.renene.2019.08.010","article-title":"Experimental Data and Modelling of 2G Ethanol Production by Wickerhamomyces sp. UFFS-CE-3.1.2","volume":"145","author":"Bonatto","year":"2020","journal-title":"Renew. Energy"},{"key":"ref_12","doi-asserted-by":"crossref","first-page":"112218","DOI":"10.1016\/j.indcrop.2020.112218","article-title":"Conversion of Fermentable Sugars from Hydrolysates of Soybean and Oat Hulls into Ethanol and Xylitol by Spathaspora hagerdaliae UFMG-CM-Y303","volume":"146","author":"Cortivo","year":"2020","journal-title":"Ind. Crops Prod."},{"key":"ref_13","first-page":"127","article-title":"Fermentation of Hemicellulose Liquor from Brewer\u2019s Spent Grain Using Scheffersomyces stipitis and Pachysolen tannophilus for Production of 2G Ethanol and Xylitol","volume":"14","author":"Borges","year":"2019","journal-title":"Biofuels Bioprod. Biorefin."},{"key":"ref_14","doi-asserted-by":"crossref","first-page":"21","DOI":"10.1007\/s13205-020-02595-6","article-title":"Co-Culture of Saccharomyces cerevisiae (VS3) and Pichia Stipitis (NCIM 3498) Enhances Bioethanol Yield from Concentrated Prosopis juliflora Hydrolysate","volume":"11","author":"Naseeruddin","year":"2021","journal-title":"3 Biotech"},{"key":"ref_15","unstructured":"Zhang, L. (2008). Screening and Molecular Biological Modification of Xylose-Fermenting Yeast for Ethanol Production. [Ph.D. Thesis, Jiangnan University]."},{"key":"ref_16","doi-asserted-by":"crossref","first-page":"109","DOI":"10.1007\/s10295-019-02242-x","article-title":"Construction of Advanced Producers of First- and Second-Generation Ethanol in Saccharomyces cerevisiae and Selected Species of Non-Conventional Yeasts (Scheffersomyces stipitis, Ogataea polymorpha)","volume":"47","author":"Ruchala","year":"2020","journal-title":"J. Ind. Microbiol. Biotechnol."},{"key":"ref_17","doi-asserted-by":"crossref","first-page":"134456","DOI":"10.1016\/j.biortech.2026.134456","article-title":"Adaptive Evolution of Thermotolerant Xylose-Utilizing Saccharomyces cerevisiae for Lignocellulosic Ethanol Production via High-Temperature Simultaneous Saccharification and Co-Fermentation","volume":"450","author":"Lu","year":"2026","journal-title":"Bioresour. Technol."},{"key":"ref_18","doi-asserted-by":"crossref","unstructured":"Vargas, B.d.O., Carazzolle, M.F., Galhardo, J.P., Jos\u00e9, J., de Souza, B.C., Correia, J.B.d.L., dos Santos, J.R., Pereira, G.A.G., and Mello, F.d.S.B.d.d. (2025). Engineering Saccharomyces cerevisiae with Novel Functional Xylose Isomerases from Rumen Microbiota for Enhanced Biofuel Production. Biotechnol. J.","DOI":"10.22541\/au.174100785.54855403\/v1"},{"key":"ref_19","doi-asserted-by":"crossref","first-page":"foae001","DOI":"10.1093\/femsyr\/foae001","article-title":"Construction of an Economical Xylose-Utilizing Saccharomyces cerevisiae and Its Ethanol Fermentation","volume":"24","author":"Li","year":"2024","journal-title":"FEMS Yeast Res."},{"key":"ref_20","doi-asserted-by":"crossref","first-page":"319","DOI":"10.1038\/nbt1290","article-title":"Genome Sequence of the Lignocellulose-Bioconverting and Xylose-Fermenting Yeast Pichia Stipitis","volume":"25","author":"Jeffries","year":"2007","journal-title":"Nat. Biotechnol."},{"key":"ref_21","doi-asserted-by":"crossref","first-page":"793","DOI":"10.1111\/j.1567-1364.2009.00525.x","article-title":"Pichia Stipitis Genomics, Transcriptomics, and Gene Clusters","volume":"9","author":"Jeffries","year":"2009","journal-title":"FEMS Yeast Res."},{"key":"ref_22","doi-asserted-by":"crossref","first-page":"581","DOI":"10.1007\/s00203-018-1600-5","article-title":"Transcriptome and Metabolome Analysis of Pichia Stipitis to Three Representative Lignocellulosic Inhibitors","volume":"201","author":"Zhu","year":"2019","journal-title":"Arch. Microbiol."},{"key":"ref_23","first-page":"75","article-title":"Metabolic trait of S. stipitis based on genome sequence","volume":"13","author":"Liu","year":"2015","journal-title":"Chin. J. Bioprocess Eng."},{"key":"ref_24","doi-asserted-by":"crossref","first-page":"34","DOI":"10.1186\/1754-6834-6-34","article-title":"Comparative Proteomic Analysis of a New Adaptive Pichia Stipitis Strain to Furfural, a Lignocellulosic Inhibitory Compound","volume":"6","author":"Hao","year":"2013","journal-title":"Biotechnol. Biofuels"},{"key":"ref_25","doi-asserted-by":"crossref","first-page":"140","DOI":"10.1186\/s12934-018-0983-y","article-title":"Elucidating Redox Balance Shift in Scheffersomyces stipitis\u2019 Fermentative Metabolism Using a Modified Genome-Scale Metabolic Model","volume":"17","author":"Hilliard","year":"2018","journal-title":"Microb. Cell Fact."},{"key":"ref_26","doi-asserted-by":"crossref","first-page":"507","DOI":"10.1002\/cbin.11284","article-title":"Insertional Tagging of the Scheffersomyces stipitis Gene HEM25 Involved in Regulation of Glucose and Xylose Alcoholic Fermentation","volume":"45","author":"Berezka","year":"2021","journal-title":"Cell Biol. Int."},{"key":"ref_27","first-page":"11","article-title":"Strain Improvement of Pachysolen tannophilus by Co60 Mutagenesis for Xylose Alcoholic Fermentation","volume":"43","author":"Ren","year":"2009","journal-title":"Biomass Chem. Eng."},{"key":"ref_28","doi-asserted-by":"crossref","first-page":"378","DOI":"10.1007\/s12010-008-8308-y","article-title":"The Ethanol Tolerance of Pachysolen tannophilus in Fermentation on Xylose","volume":"160","author":"Zhao","year":"2010","journal-title":"Appl. Biochem. Biotechnol."},{"key":"ref_29","unstructured":"Zhao, L. (2008). Xylose Fermentation to Produce Ethanol by Pachysolen tannophilus. [Master\u2019s Thesis, Beijing University of Chemical Technology]. Available online: https:\/\/kns.cnki.net\/kcms2\/article\/abstract?v=CK5qQJ1_U0xZvsOBPmo9sRP8KsgI25baM2IQkPa9EuaYCCCqFcgCXdxrVPf9RUbPl837kV3Te9viU18okW8YnHZFmEl-CxHQJ_YJkH7ZkELD5yh7Rv2Y3MgNZiZ-ppZbacUcSDZyrf0yDC4gmsWO5NTWhesHzG9wR2_RsPFdk0nkBE4U4H_1mw==&uniplatform=NZKPT&language=CHS."},{"key":"ref_30","doi-asserted-by":"crossref","first-page":"1156","DOI":"10.1016\/j.biombioe.2008.02.011","article-title":"Influence of Various Glucose\/Xylose Mixtures on Ethanol Production by Pachysolen tannophilus","volume":"32","author":"Zhao","year":"2008","journal-title":"Biomass Bioenergy"},{"key":"ref_31","doi-asserted-by":"crossref","first-page":"1844","DOI":"10.1016\/j.biortech.2010.09.087","article-title":"A UV-Induced Mutant of Pichia Stipitis with Increased Ethanol Production from Xylose and Selection of a Spontaneous Mutant with Increased Ethanol Tolerance","volume":"102","author":"Watanabe","year":"2011","journal-title":"Bioresour. Technol."},{"key":"ref_32","first-page":"368","article-title":"Screening Three High-yield Saccharomyces cerevisiae Strains for Alcohol Fermentation of Sugarcane Molasses","volume":"17","author":"Lu","year":"2010","journal-title":"Guangxi Sci."},{"key":"ref_33","first-page":"112","article-title":"Effect of xylose concentration and fed-batch fermentation on S. stipitis fermentation for ethanol production from xylose","volume":"37","author":"Wu","year":"2018","journal-title":"China Brew."},{"key":"ref_34","first-page":"64","article-title":"The pretreatment of sugarcane molasses and analysis on component","volume":"35","author":"Wang","year":"2010","journal-title":"China Condiment"},{"key":"ref_35","doi-asserted-by":"crossref","first-page":"156","DOI":"10.1016\/0003-2697(87)90021-2","article-title":"Single-Step Method of RNA Isolation by Acid Guanidinium Thiocyanate-Phenol-Chloroform Extraction","volume":"162","author":"Chomczynski","year":"1987","journal-title":"Anal. Biochem."},{"key":"ref_36","doi-asserted-by":"crossref","first-page":"402","DOI":"10.1006\/meth.2001.1262","article-title":"Analysis of Relative Gene Expression Data Using Real-Time Quantitative PCR and the 2\u2212\u0394\u0394CT Method","volume":"25","author":"Livak","year":"2001","journal-title":"Methods"},{"key":"ref_37","doi-asserted-by":"crossref","first-page":"1143","DOI":"10.1007\/s00253-023-12362-1","article-title":"Identification of Traits to Improve Co-Assimilation of Glucose and Xylose by Adaptive Evolution of Spathaspora Passalidarum and Scheffersomyces stipitis Yeasts","volume":"107","author":"Trichez","year":"2023","journal-title":"Appl. Microbiol. Biotechnol."},{"key":"ref_38","doi-asserted-by":"crossref","first-page":"777","DOI":"10.1002\/bit.23021","article-title":"Adaptation Yields a Highly Efficient Xylose-fermenting Zymomonas mobilis Strain","volume":"108","author":"Agrawal","year":"2010","journal-title":"Biotechnol. Bioeng."},{"key":"ref_39","first-page":"1026","article-title":"Physiological and metabolic characteristics of five xylose utilizing yeasts","volume":"55","author":"Fan","year":"2015","journal-title":"Acta Microbiol. Sin."},{"key":"ref_40","doi-asserted-by":"crossref","first-page":"639","DOI":"10.1016\/j.funbio.2020.03.005","article-title":"Production of Ethanol and Xylanolytic Enzymes by Yeasts Inhabiting Rotting Wood Isolated in Sugarcane Bagasse Hydrolysate","volume":"124","author":"Morais","year":"2020","journal-title":"Fungal Biol."},{"key":"ref_41","doi-asserted-by":"crossref","first-page":"390","DOI":"10.1021\/ie50424a025","article-title":"Fermentation of Wood Sugars to Ethyl Alcohol","volume":"37","author":"Leonard","year":"1945","journal-title":"Ind. Eng. Chem."},{"key":"ref_42","doi-asserted-by":"crossref","first-page":"261","DOI":"10.1007\/BF00251848","article-title":"The Effect of Aeration on Xylose Fermentation by Candida Shehatae and Pachysolen tannophilus","volume":"19","author":"Prior","year":"1984","journal-title":"Appl. Microbiol. Biotechnol."},{"key":"ref_43","doi-asserted-by":"crossref","first-page":"371","DOI":"10.1002\/bit.260240210","article-title":"Conversion of D-xylose to Ethanol by the Yeast Pachysolen tannophilus","volume":"24","author":"Slininger","year":"1982","journal-title":"Biotechnol. Bioeng."},{"key":"ref_44","doi-asserted-by":"crossref","first-page":"169","DOI":"10.1016\/0141-0229(82)90111-9","article-title":"Ethanol Production from Pentoses and Sugar-Cane Bagasse Hemicellulose Hydrolysate by Mucor and Fusarium Species","volume":"4","author":"Ueng","year":"1982","journal-title":"Enzym. Microb. Technol."},{"key":"ref_45","doi-asserted-by":"crossref","first-page":"1144","DOI":"10.1002\/bit.260290915","article-title":"Fermentation to Ethanol of Pentose-containing Spent Sulphite Liquor","volume":"29","author":"Yu","year":"1987","journal-title":"Biotechnol. Bioeng."},{"key":"ref_46","doi-asserted-by":"crossref","first-page":"583","DOI":"10.1016\/0141-0229(89)90086-0","article-title":"Fermentation of Lignocellulose Hydrolysates with Yeasts and Xylose Isomerase","volume":"11","year":"1989","journal-title":"Enzym. Microb. Technol."},{"key":"ref_47","doi-asserted-by":"crossref","first-page":"927","DOI":"10.1007\/s10295-010-0862-y","article-title":"Fermentation of Xylose into Ethanol by a New Fungus Strain Pestalotiopsis sp. XE-1","volume":"38","author":"Pang","year":"2010","journal-title":"J. Ind. Microbiol. Biotechnol."},{"key":"ref_48","doi-asserted-by":"crossref","first-page":"83","DOI":"10.1007\/s00449-018-2016-y","article-title":"Fermentation of Hexoses and Pentoses from Sugarcane Bagasse Hydrolysates into Ethanol by Spathaspora hagerdaliae","volume":"42","author":"Rech","year":"2018","journal-title":"Bioprocess. Biosyst. Eng."},{"key":"ref_49","first-page":"283","article-title":"Determination of in Vivo Kinetics of the Starvation-Induced Hxt5 Glucose Transporter of Saccharomyces cerevisiae","volume":"2","author":"Buziol","year":"2002","journal-title":"FEMS Yeast Res."},{"key":"ref_50","doi-asserted-by":"crossref","first-page":"729","DOI":"10.1101\/gr.277515.122","article-title":"Highly Complete Long-Read Genomes Reveal Pangenomic Variation Underlying Yeast Phenotypic Diversity","volume":"33","author":"Weller","year":"2023","journal-title":"Genome Res."},{"key":"ref_51","doi-asserted-by":"crossref","first-page":"15","DOI":"10.1128\/AEM.00551-19","article-title":"Coordination of the Cell Wall Integrity and High-Osmolarity Glycerol Pathways in Response to Ethanol Stress in Saccharomyces cerevisiae","volume":"85","author":"Udom","year":"2019","journal-title":"Appl. Environ. Microbiol."},{"key":"ref_52","doi-asserted-by":"crossref","unstructured":"Chang, X., Xu, B., Bai, Y., Luo, H., Ma, R., Shi, P., and Yao, B. (2017). Role of N-Linked Glycosylation in the Enzymatic Properties of a Thermophilic GH 10 Xylanase from Aspergillus fumigatus Expressed in Pichia Pastoris. PLoS ONE, 12.","DOI":"10.1371\/journal.pone.0171111"},{"key":"ref_53","doi-asserted-by":"crossref","first-page":"1438","DOI":"10.1111\/j.1365-2958.2008.06243.x","article-title":"Protein N-glycosylation Determines Functionality of the Saccharomyces cerevisiae Cell Wall Integrity Sensor Mid2p","volume":"68","author":"Hutzler","year":"2008","journal-title":"Mol. Microbiol."},{"key":"ref_54","doi-asserted-by":"crossref","first-page":"136","DOI":"10.1186\/1475-2859-11-136","article-title":"Scheffersomyces stipitis: A Comparative Systems Biology Study with the Crabtree Positive Yeast Saccharomyces cerevisiae","volume":"11","author":"Papini","year":"2012","journal-title":"Microb. Cell Factories"},{"key":"ref_55","doi-asserted-by":"crossref","first-page":"foab005","DOI":"10.1093\/femsyr\/foab005","article-title":"Inhibition of Alternative Respiration System of Scheffersomyces stipitis and Effect on Glucose or Xylose Fermentation","volume":"21","year":"2021","journal-title":"FEMS Yeast Res."},{"key":"ref_56","doi-asserted-by":"crossref","first-page":"2181","DOI":"10.1128\/JB.01438-06","article-title":"Genetic Analysis of a Novel Pathway for d-Xylose Metabolism in Caulobacter crescentus","volume":"189","author":"Stephens","year":"2007","journal-title":"J. Bacteriol."},{"key":"ref_57","first-page":"950","article-title":"Metabolic Engineering for Improving Ethanol Fermentation of Xylose by Wild Yeast","volume":"24","author":"Zhang","year":"2008","journal-title":"Chin. J. Biotechnol."},{"key":"ref_58","doi-asserted-by":"crossref","first-page":"977","DOI":"10.1007\/s42770-022-00693-6","article-title":"Physiological Comparisons among Spathaspora Passalidarum, Spathaspora Arborariae, and Scheffersomyces stipitis Reveal the Bottlenecks for Their Use in the Production of Second-Generation Ethanol","volume":"53","author":"Campos","year":"2022","journal-title":"Braz. J. Microbiol."},{"key":"ref_59","doi-asserted-by":"crossref","first-page":"1001","DOI":"10.1007\/s12155-022-10514-1","article-title":"Fermentation of D-Xylose to Ethanol by Saccharomyces cerevisiae CAT-1 Recombinant Strains","volume":"16","author":"Coimbra","year":"2022","journal-title":"BioEnergy Res."},{"key":"ref_60","doi-asserted-by":"crossref","first-page":"2425","DOI":"10.1109\/JBHI.2021.3085313","article-title":"Metabolic and Transcriptional Analysis of Recombinant Saccharomyces cerevisiae for Xylose Fermentation: A Feasible and Efficient Approach","volume":"26","author":"Shi","year":"2022","journal-title":"IEEE J. Biomed. Health Inform."},{"key":"ref_61","doi-asserted-by":"crossref","first-page":"ovad077","DOI":"10.1093\/lambio\/ovad077","article-title":"Engineering Xylose Fermentation in an Industrial Yeast: Continuous Cultivation as a Tool for Selecting Improved Strains","volume":"76","author":"Basso","year":"2023","journal-title":"Lett. Appl. Microbiol."},{"key":"ref_62","doi-asserted-by":"crossref","unstructured":"Monteiro de Oliveira, P., Aborneva, D., Bonturi, N., and Lahtvee, P.-J. (2021). Screening and Growth Characterization of Non-Conventional Yeasts in a Hemicellulosic Hydrolysate. Front. Bioeng. Biotechnol., 9.","DOI":"10.3389\/fbioe.2021.659472"},{"key":"ref_63","doi-asserted-by":"crossref","first-page":"521","DOI":"10.1146\/annurev.biochem.76.061005.092322","article-title":"Glycosyltransferases: Structures, Functions, and Mechanisms","volume":"77","author":"Lairson","year":"2008","journal-title":"Annu. Rev. Biochem."},{"key":"ref_64","doi-asserted-by":"crossref","first-page":"499","DOI":"10.1038\/nature18015","article-title":"Synchronized Mitochondrial and Cytosolic Translation Programs","volume":"533","author":"Couvillion","year":"2016","journal-title":"Nature"},{"key":"ref_65","doi-asserted-by":"crossref","unstructured":"Walvekar, A.S., and Laxman, S. (2019). Methionine at the Heart of Anabolism and Signaling: Perspectives from Budding Yeast. Front. Microbiol., 10.","DOI":"10.3389\/fmicb.2019.02624"},{"key":"ref_66","doi-asserted-by":"crossref","first-page":"535","DOI":"10.17113\/ftb.57.04.19.5665","article-title":"Methionine and Glycine Stabilize Mitochondrial Activity in Sake Yeast During Ethanol Fermentation","volume":"57","author":"Ferdouse","year":"2019","journal-title":"Food Technol. Biotechnol."},{"key":"ref_67","doi-asserted-by":"crossref","first-page":"jcs253781","DOI":"10.1242\/jcs.253781","article-title":"Atg32-Dependent Mitophagy Sustains Spermidine and Nitric Oxide Required for Heat-Stress Tolerance in Saccharomyces cerevisiae","volume":"134","author":"Kaur","year":"2021","journal-title":"J. Cell Sci."},{"key":"ref_68","doi-asserted-by":"crossref","first-page":"e00224-23","DOI":"10.1128\/msphere.00224-23","article-title":"Brian BLINCAR: A Reusable Bioluminescent and Cas9-Based Genetic Toolset for Repeatedly Modifying Wild-Type Scheffersomyces stipitis","volume":"8","author":"Robertson","year":"2023","journal-title":"mSphere"},{"key":"ref_69","doi-asserted-by":"crossref","first-page":"107695","DOI":"10.1016\/j.biotechadv.2021.107695","article-title":"Recent Advances in Systems and Synthetic Biology Approaches for Developing Novel Cell-Factories in Non-Conventional Yeasts","volume":"47","author":"Patra","year":"2021","journal-title":"Biotechnol. 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