{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,29]],"date-time":"2026-10-29T15:32:44Z","timestamp":1793287964102,"version":"4.5.0"},"reference-count":148,"publisher":"Springer Science and Business Media LLC","issue":"10","license":[{"start":{"date-parts":[[2026,10,1]],"date-time":"2026-10-01T00:00:00Z","timestamp":1790812800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.springernature.com\/gp\/researchers\/text-and-data-mining"},{"start":{"date-parts":[[2026,10,1]],"date-time":"2026-10-01T00:00:00Z","timestamp":1790812800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/www.springernature.com\/gp\/researchers\/text-and-data-mining"}],"funder":[{"name":"Qinghai Provincial Key Laboratory of Tibetan Medicine Pharmacology and Safety Evaluation, Northwest Institute of Plateau Biology","award":["2025-ZY-01"],"award-info":[{"award-number":["2025-ZY-01"]}],"id":[{"id":"https:\/\/ror.org\/03ep8d157","id-type":"ROR","asserted-by":"crossref"}]},{"name":"the National Natural Science Foundation of China","award":["32570149"],"award-info":[{"award-number":["32570149"]}],"id":[{"id":"https:\/\/ror.org\/01h0zpd94","id-type":"ROR","asserted-by":"crossref"}]}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["World J Microbiol Biotechnol"],"DOI":"10.1007\/s11274-026-05289-y","type":"journal-article","created":{"date-parts":[[2026,10,1]],"date-time":"2026-10-01T12:17:41Z","timestamp":1790857061000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":0,"title":["Exploring archaeal resources for biomass-derived pentose utilization: pathways, extremozymes, and bioprocessing applications"],"prefix":"10.1007","volume":"42","author":[{"given":"Zixuan","family":"Wan","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Meng","family":"Liao","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Longqing","family":"Wang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Hongtao","family":"Bi","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2198-6342","authenticated-orcid":false,"given":"Chunjie","family":"Gong","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2026,10,1]]},"reference":[{"issue":"7933","key":"5289_CR1","doi-asserted-by":"publisher","first-page":"731","DOI":"10.1038\/s41586-022-05256-1","volume":"610","author":"B Al-Shayeb","year":"2022","unstructured":"Al-Shayeb B, Schoelmerich MC, West-Roberts J, Valentin-Alvarado LE, Sachdeva R, Mullen S, Crits-Christoph A, Wilkins MJ, Williams KH, Doudna JA, Banfield JF (2022) Borgs are giant genetic elements with potential to expand metabolic capacity. Nature 610(7933):731\u2013736. https:\/\/doi.org\/10.1038\/s41586-022-05256-1","journal-title":"Nature"},{"issue":"5","key":"5289_CR3","doi-asserted-by":"publisher","first-page":"355","DOI":"10.1038\/nchembio.1786","volume":"11","author":"R Aono","year":"2015","unstructured":"Aono R, Sato T, Imanaka T, Atomi H (2015) A pentose bisphosphate pathway for nucleoside degradation in Archaea. Nat Chem Biol 11(5):355\u2013360. https:\/\/doi.org\/10.1038\/nchembio.1786","journal-title":"Nat Chem Biol"},{"issue":"24","key":"5289_CR2","doi-asserted-by":"publisher","first-page":"6847","DOI":"10.1128\/jb.01335-12","volume":"194","author":"R Aono","year":"2012","unstructured":"Aono R, Sato T, Yano A, Yoshida S, Nishitani Y, Miki K, Imanaka T, Atomi H (2012) Enzymatic characterization of AMP phosphorylase and ribose-1,5-bisphosphate isomerase functioning in an archaeal AMP metabolic pathway. J Bacteriol 194(24):6847\u20136855. https:\/\/doi.org\/10.1128\/jb.01335-12","journal-title":"J Bacteriol"},{"issue":"7","key":"5289_CR4","doi-asserted-by":"publisher","first-page":"104080","DOI":"10.1016\/j.resmic.2023.104080","volume":"174","author":"D Aparici-Carratal\u00e1","year":"2023","unstructured":"Aparici-Carratal\u00e1 D, Esclapez J, Bautista V, Bonete MJ, Camacho M (2023) Archaea: current and potential biotechnological applications. Res Microbiol 174(7):104080. https:\/\/doi.org\/10.1016\/j.resmic.2023.104080","journal-title":"Res Microbiol"},{"issue":"23","key":"5289_CR5","doi-asserted-by":"publisher","first-page":"e40822","DOI":"10.1016\/j.heliyon.2024.e40822","volume":"10","author":"H Baati","year":"2024","unstructured":"Baati H, Siala M, Benali S, Azri C, Dunlap C, Mart\u00ednez-Espinosa RM, Trigui M (2024) Elucidating metabolic pathways through genomic analysis in highly heavy metal-resistant Halobacterium salinarum strains. Heliyon 10(23):e40822. https:\/\/doi.org\/10.1016\/j.heliyon.2024.e40822","journal-title":"Heliyon"},{"key":"5289_CR6","doi-asserted-by":"publisher","first-page":"16002","DOI":"10.1038\/nmicrobiol.2016.2","volume":"1","author":"BJ Baker","year":"2016","unstructured":"Baker BJ, Saw JH, Lind AE, Lazar CS, Hinrichs KU, Teske AP, Ettema TJ (2016) Genomic inference of the metabolism of cosmopolitan subsurface Archaea. Hadesarchaea Nat Microbiol 1:16002. https:\/\/doi.org\/10.1038\/nmicrobiol.2016.2","journal-title":"Hadesarchaea Nat Microbiol"},{"issue":"10","key":"5289_CR7","doi-asserted-by":"publisher","first-page":"1789","DOI":"10.1038\/s41396-023-01474-1","volume":"17","author":"I Banas","year":"2023","unstructured":"Banas I, Esser SP, Turzynski V, Soares A, Novikova P, May P, Moraru C, Hasenberg M, Rahlff J, Wilmes P, Klingl A, Probst AJ (2023) Spatio-functional organization in virocells of small uncultivated archaea from the deep biosphere. ISME J 17(10):1789\u20131792. https:\/\/doi.org\/10.1038\/s41396-023-01474-1","journal-title":"ISME J"},{"issue":"1","key":"5289_CR8","doi-asserted-by":"publisher","first-page":"20","DOI":"10.1186\/s13068-024-02467-8","volume":"17","author":"KO Barros","year":"2024","unstructured":"Barros KO, Mader M, Krause DJ, Pangilinan J, Andreopoulos B, Lipzen A, Mondo SJ, Grigoriev IV, Rosa CA, Sato TK, Hittinger CT (2024) Oxygenation influences xylose fermentation and gene expression in the yeast genera Spathaspora and Scheffersomyces. Biotechnol Biofuels Bioprod 17(1):20. https:\/\/doi.org\/10.1186\/s13068-024-02467-8","journal-title":"Biotechnol Biofuels Bioprod"},{"key":"5289_CR9","doi-asserted-by":"publisher","unstructured":"Bei Q, Reitz T, Sch\u00e4dler M, Hodgskiss LH, Peng J, Schnabel B, Buscot F, Eisenhauer N, Schleper C, Heintz-Buschart A (2024) Metabolic potential of Nitrososphaera-associated clades. ISME J 18(1). https:\/\/doi.org\/10.1093\/ismejo\/wrae086","DOI":"10.1093\/ismejo\/wrae086"},{"issue":"1","key":"5289_CR10","doi-asserted-by":"publisher","first-page":"16","DOI":"10.1186\/1754-6834-1-16","volume":"1","author":"M Bettiga","year":"2008","unstructured":"Bettiga M, Hahn-H\u00e4gerdal B, Gorwa-Grauslund MF (2008) Comparing the xylose reductase\/xylitol dehydrogenase and xylose isomerase pathways in arabinose and xylose fermenting Saccharomyces cerevisiae strains. Biotechnol Biofuels 1(1):16. https:\/\/doi.org\/10.1186\/1754-6834-1-16","journal-title":"Biotechnol Biofuels"},{"issue":"35","key":"5289_CR11","doi-asserted-by":"publisher","first-page":"14273","DOI":"10.1039\/d4sc03788j","volume":"15","author":"A Bhattacharya","year":"2024","unstructured":"Bhattacharya A, Falk ID, Moss FR 3rd, Weiss TM, Tran KN, Burns NZ, Boxer SG (2024) Structure-function relationships in pure archaeal bipolar tetraether lipids. Chem Sci 15(35):14273\u201314286. https:\/\/doi.org\/10.1039\/d4sc03788j","journal-title":"Chem Sci"},{"key":"5289_CR12","doi-asserted-by":"publisher","first-page":"e6459","DOI":"10.7717\/peerj.6459","volume":"7","author":"LF Bischof","year":"2019","unstructured":"Bischof LF, Haurat MF, Albers SV (2019) Two membrane-bound transcription factors regulate expression of various type-IV-pili surface structures in Sulfolobus acidocaldarius. PeerJ 7:e6459. https:\/\/doi.org\/10.7717\/peerj.6459","journal-title":"PeerJ"},{"key":"5289_CR13","doi-asserted-by":"publisher","unstructured":"Bolzico BC, Racca S, Khawam JN, Leonardi RJ, Tomassi AH, Benzzo MT, Comelli RN (2024) Exploring xylose metabolism in non-conventional yeasts: kinetic characterization and product accumulation under different aeration conditions. J Ind Microbiol Biotechnol 51. https:\/\/doi.org\/10.1093\/jimb\/kuae023","DOI":"10.1093\/jimb\/kuae023"},{"issue":"1","key":"5289_CR14","doi-asserted-by":"publisher","first-page":"89","DOI":"10.1128\/mmbr.00041-13","volume":"78","author":"C Br\u00e4sen","year":"2014","unstructured":"Br\u00e4sen C, Esser D, Rauch B, Siebers B (2014) Carbohydrate metabolism in Archaea: current insights into unusual enzymes and pathways and their regulation. Microbiol Mol Biol Rev 78(1):89\u2013175. https:\/\/doi.org\/10.1128\/mmbr.00041-13","journal-title":"Microbiol Mol Biol Rev"},{"key":"5289_CR15","doi-asserted-by":"publisher","first-page":"1197877","DOI":"10.3389\/fmicb.2023.1197877","volume":"14","author":"R Breuer","year":"2023","unstructured":"Breuer R, Gomes-Filho JV, Yuan J, Randau L (2023) Transcriptome profiling of Nudix hydrolase gene deletions in the thermoacidophilic archaeon Sulfolobus acidocaldarius. Front Microbiol 14:1197877. https:\/\/doi.org\/10.3389\/fmicb.2023.1197877","journal-title":"Front Microbiol"},{"key":"5289_CR16","doi-asserted-by":"publisher","first-page":"e00090","DOI":"10.1016\/j.mec.2019.e00090","volume":"9","author":"C Br\u00fcsseler","year":"2019","unstructured":"Br\u00fcsseler C, Sp\u00e4th A, Sokolowsky S, Marienhagen J (2019) Alone at last! - Heterologous expression of a single gene is sufficient for establishing the five-step Weimberg pathway in Corynebacterium glutamicum. Metab Eng Commun 9:e00090. https:\/\/doi.org\/10.1016\/j.mec.2019.e00090","journal-title":"Metab Eng Commun"},{"issue":"20","key":"5289_CR17","doi-asserted-by":"publisher","first-page":"5668","DOI":"10.1128\/jb.05394-11","volume":"193","author":"K Buckoreelall","year":"2011","unstructured":"Buckoreelall K, Wilson L, Parker WB (2011) Identification and characterization of two adenosine phosphorylase activities in Mycobacterium smegmatis. J Bacteriol 193(20):5668\u20135674. https:\/\/doi.org\/10.1128\/jb.05394-11","journal-title":"J Bacteriol"},{"key":"5289_CR18","doi-asserted-by":"publisher","first-page":"1447278","DOI":"10.3389\/fbioe.2024.1447278","volume":"12","author":"S Costa","year":"2024","unstructured":"Costa S, Summa D, Radice M, Vertuani S, Manfredini S, Tamburini E (2024) Lactic acid production by Lactobacillus casei using a sequence of seasonally available fruit wastes as sustainable carbon sources. Front Bioeng Biotechnol 12:1447278. https:\/\/doi.org\/10.3389\/fbioe.2024.1447278","journal-title":"Front Bioeng Biotechnol"},{"key":"5289_CR19","doi-asserted-by":"publisher","first-page":"100533","DOI":"10.1016\/j.cscee.2023.100533","volume":"8","author":"M Cozannet","year":"2023","unstructured":"Cozannet M, Le Guellec S, Alain K (2023) A variety of substrates for methanogenesis. Case Stud Chem Environ Eng 8:100533. https:\/\/doi.org\/10.1016\/j.cscee.2023.100533","journal-title":"Case Stud Chem Environ Eng"},{"key":"5289_CR20","doi-asserted-by":"publisher","unstructured":"Crozier L, Marshall J, Holmes A, Wright KM, Rossez Y, Merget B, Humphris S, Toth I, Jackson RW, Holden NJ (2021) The role of l-arabinose metabolism for Escherichia coli O157:H7 in edible plants. Microbiol (Reading) 167(7). https:\/\/doi.org\/10.1099\/mic.0.001070","DOI":"10.1099\/mic.0.001070"},{"key":"5289_CR21","doi-asserted-by":"publisher","first-page":"20","DOI":"10.1186\/s13068-019-1360-8","volume":"12","author":"JT Cunha","year":"2019","unstructured":"Cunha JT, Soares PO, Roman\u00ed A, Thevelein JM, Domingues L (2019) Xylose fermentation efficiency of industrial Saccharomyces cerevisiae yeast with separate or combined xylose reductase\/xylitol dehydrogenase and xylose isomerase pathways. Biotechnol Biofuels 12:20. https:\/\/doi.org\/10.1186\/s13068-019-1360-8","journal-title":"Biotechnol Biofuels"},{"issue":"3","key":"5289_CR22","doi-asserted-by":"publisher","first-page":"e70127","DOI":"10.1111\/1751-7915.70127","volume":"18","author":"I De La Torre","year":"2025","unstructured":"De La Torre I, Acedos MG, Cestero JJ, Barriuso J, Garc\u00eda JL (2025) Engineering Xylose Isomerase and Reductase Pathways in Yarrowia lipolytica for Efficient Lipid Production. Microb Biotechnol 18(3):e70127. https:\/\/doi.org\/10.1111\/1751-7915.70127","journal-title":"Microb Biotechnol"},{"issue":"1","key":"5289_CR23","doi-asserted-by":"publisher","first-page":"70","DOI":"10.1128\/mr.50.1.70-80.1986","volume":"50","author":"M De Rosa","year":"1986","unstructured":"De Rosa M, Gambacorta A, Gliozzi A (1986) Structure, biosynthesis, and physicochemical properties of archaebacterial lipids. Microbiol Rev 50(1):70\u201380. https:\/\/doi.org\/10.1128\/mr.50.1.70-80.1986","journal-title":"Microbiol Rev"},{"issue":"10","key":"5289_CR24","doi-asserted-by":"publisher","first-page":"1973","DOI":"10.1007\/s10529-015-1893-2","volume":"37","author":"BB de Sales","year":"2015","unstructured":"de Sales BB, Scheid B, Gon\u00e7alves DL, Knychala MM, Matsushika A, Bon EP, Stambuk BU (2015) Cloning novel sugar transporters from Scheffersomyces (Pichia) stipitis allowing D-xylose fermentation by recombinant Saccharomyces cerevisiae. Biotechnol Lett 37(10):1973\u20131982. https:\/\/doi.org\/10.1007\/s10529-015-1893-2","journal-title":"Biotechnol Lett"},{"key":"5289_CR25","doi-asserted-by":"publisher","first-page":"616086","DOI":"10.3389\/fmicb.2020.616086","volume":"11","author":"EF DeLong","year":"2020","unstructured":"DeLong EF (2020) Exploring Marine Planktonic Archaea: Then and Now. Front Microbiol 11:616086. https:\/\/doi.org\/10.3389\/fmicb.2020.616086","journal-title":"Front Microbiol"},{"key":"5289_CR26","doi-asserted-by":"publisher","unstructured":"Demeke MM, Echemendia D, Belo E, Foulqui\u00e9-Moreno MR, Thevelein JM (2024) Enhancing xylose-fermentation capacity of engineered Saccharomyces cerevisiae by multistep evolutionary engineering in inhibitor-rich lignocellulose hydrolysate. FEMS Yeast Res 24. https:\/\/doi.org\/10.1093\/femsyr\/foae013","DOI":"10.1093\/femsyr\/foae013"},{"issue":"4","key":"5289_CR27","doi-asserted-by":"publisher","first-page":"1820","DOI":"10.1007\/s12155-022-10401-9","volume":"15","author":"A Devi","year":"2022","unstructured":"Devi A, Bajar S, Kour H, Kothari R, Pant D, Singh A (2022) Lignocellulosic Biomass Valorization for Bioethanol Production: a Circular Bioeconomy Approach. Bioenergy Res 15(4):1820\u20131841. https:\/\/doi.org\/10.1007\/s12155-022-10401-9","journal-title":"Bioenergy Res"},{"issue":"6","key":"5289_CR28","doi-asserted-by":"publisher","first-page":"2948","DOI":"10.1039\/d4cs00799a","volume":"54","author":"D Dhara","year":"2025","unstructured":"Dhara D, Mulard LA, Hollenstein M (2025) Natural, modified and conjugated carbohydrates in nucleic acids. Chem Soc Rev 54(6):2948\u20132983. https:\/\/doi.org\/10.1039\/d4cs00799a","journal-title":"Chem Soc Rev"},{"key":"5289_CR29","doi-asserted-by":"publisher","unstructured":"Dombrowski N, Lee JH, Williams TA, Offre P, Spang A (2019) Genomic diversity, lifestyles and evolutionary origins of DPANN archaea. FEMS Microbiol Lett 366(2). https:\/\/doi.org\/10.1093\/femsle\/fnz008","DOI":"10.1093\/femsle\/fnz008"},{"issue":"10","key":"5289_CR30","doi-asserted-by":"publisher","first-page":"2579","DOI":"10.1038\/s41564-025-02121-5","volume":"10","author":"L Dong","year":"2025","unstructured":"Dong L, Jing Y, Hou J, Zhou J, Yu T, Chen S, Liang L, Zhu P, Zhao X, Hinrichs KU, Wang F (2025) A dominant subgroup of marine Bathyarchaeia assimilates organic and inorganic carbon into unconventional membrane lipids. Nat Microbiol 10(10):2579\u20132590. https:\/\/doi.org\/10.1038\/s41564-025-02121-5","journal-title":"Nat Microbiol"},{"issue":"1","key":"5289_CR31","doi-asserted-by":"publisher","first-page":"2666","DOI":"10.1038\/s41467-024-46812-9","volume":"15","author":"P Dvo\u0159\u00e1k","year":"2024","unstructured":"Dvo\u0159\u00e1k P, Bur\u00fd\u0161kov\u00e1 B, Popel\u00e1\u0159ov\u00e1 B, Ebert BE, Botka T, Bujdo\u0161 D, S\u00e1nchez-Pascuala A, Sch\u00f6ttler H, Hayen H, de Lorenzo V, Blank LM, Bene\u0161\u00edk M (2024) Synthetically-primed adaptation of Pseudomonas putida to a non-native substrate D-xylose. Nat Commun 15(1):2666. https:\/\/doi.org\/10.1038\/s41467-024-46812-9","journal-title":"Nat Commun"},{"key":"5289_CR32","doi-asserted-by":"publisher","unstructured":"Flechsler J, Heimerl T, Huber H, Rachel R, Berg IA (2021) Functional compartmentalization and metabolic separation in a prokaryotic cell. Proc Natl Acad Sci U S A 118(25). https:\/\/doi.org\/10.1073\/pnas.2022114118","DOI":"10.1073\/pnas.2022114118"},{"key":"5289_CR33","doi-asserted-by":"publisher","unstructured":"Gaenssle ALO, Bertran-Llorens S, Deuss PJ, Jurak E (2024) Enrichment of aquatic xylan-degrading microbial communities. Microorganisms 12(8). https:\/\/doi.org\/10.3390\/microorganisms12081715","DOI":"10.3390\/microorganisms12081715"},{"key":"5289_CR34","doi-asserted-by":"publisher","unstructured":"Gaines MC, Isupov MN, McLaren M, Haque RU, Recalde A, Bargiela R, Gold VAM, Albers SV, Golyshin PN, Golyshina OV, Daum B (2025) Unusual cell surfaces, pili, and archaella of Thermoplasmatales archaea. ISME J 19(1). https:\/\/doi.org\/10.1093\/ismejo\/wraf176","DOI":"10.1093\/ismejo\/wraf176"},{"key":"5289_CR35","doi-asserted-by":"publisher","unstructured":"Gambelli L, McLaren M, Conners R, Sanders K, Gaines MC, Clark L, Gold VAM, Kattnig D, Sikora M, Hanus C, Isupov MN, Daum B (2024) Structure of the two-component S-layer of the archaeon Sulfolobus acidocaldarius. Elife 13. https:\/\/doi.org\/10.7554\/eLife.84617","DOI":"10.7554\/eLife.84617"},{"issue":"12","key":"5289_CR36","doi-asserted-by":"publisher","first-page":"1524","DOI":"10.1038\/s41589-023-01402-6","volume":"19","author":"J Gao","year":"2023","unstructured":"Gao J, Yu W, Li Y, Jin M, Yao L, Zhou YJ (2023) Engineering co-utilization of glucose and xylose for chemical overproduction from lignocellulose. Nat Chem Biol 19(12):1524\u20131531. https:\/\/doi.org\/10.1038\/s41589-023-01402-6","journal-title":"Nat Chem Biol"},{"key":"5289_CR37","doi-asserted-by":"publisher","first-page":"100879","DOI":"10.1016\/j.carpta.2025.100879","volume":"11","author":"Q Gao","year":"2025","unstructured":"Gao Q, Guo L-n, Li S-h, Wu W, Ding Jw, Xu H-j, Luo C-b, Li J, Li D-q, Liu Z-q (2025) Biodegradation mechanism of cellulose, hemicellulose, and lignin in bacteria-dominant aerobic composting from agricultural biomass waste: A review. Carbohydr Polym Technol Appl 11:100879. https:\/\/doi.org\/10.1016\/j.carpta.2025.100879","journal-title":"Carbohydr Polym Technol Appl"},{"issue":"6","key":"5289_CR38","doi-asserted-by":"publisher","first-page":"e70258","DOI":"10.1002\/biot.70258","volume":"21","author":"S Gao","year":"2026","unstructured":"Gao S, Liu ZH, Zhang HR, Zhao GR, Zha J, Yuan YJ (2026) Systems-Level Metabolic Regulation Strategies of Xylose Metabolism in Saccharomyces cerevisiae. Biotechnol J 21(6):e70258. https:\/\/doi.org\/10.1002\/biot.70258","journal-title":"Biotechnol J"},{"issue":"29","key":"5289_CR39","doi-asserted-by":"publisher","first-page":"18848","DOI":"10.1039\/d1ra09396g","volume":"12","author":"Y Guo","year":"2022","unstructured":"Guo Y, Liu Y, Guan M, Tang H, Wang Z, Lin L, Pang H (2022) Production of butanol from lignocellulosic biomass: recent advances, challenges, and prospects. RSC Adv 12(29):18848\u201318863. https:\/\/doi.org\/10.1039\/d1ra09396g","journal-title":"RSC Adv"},{"key":"5289_CR40","doi-asserted-by":"publisher","first-page":"476","DOI":"10.3389\/fbioe.2019.00476","volume":"7","author":"B Halmschlag","year":"2019","unstructured":"Halmschlag B, Hoffmann K, Hanke R, Putri SP, Fukusaki E, B\u00fcchs J, Blank LM (2019) Comparison of Isomerase and Weimberg Pathway for \u03b3-PGA Production From Xylose by Engineered Bacillus subtilis. Front Bioeng Biotechnol 7:476. https:\/\/doi.org\/10.3389\/fbioe.2019.00476","journal-title":"Front Bioeng Biotechnol"},{"issue":"10","key":"5289_CR41","doi-asserted-by":"publisher","first-page":"e0073225","DOI":"10.1128\/msystems.00732-25","volume":"10","author":"LH Hodgskiss","year":"2025","unstructured":"Hodgskiss LH, Kerou M, Luo ZH, Bayer B, Maier A, Weckwerth W, N\u00e4gele T, Schleper C (2025) Metabolic response of a chemolithoautotrophic archaeon to carbon limitation. mSystems 10(10):e0073225. https:\/\/doi.org\/10.1128\/msystems.00732-25","journal-title":"mSystems"},{"issue":"1","key":"5289_CR42","doi-asserted-by":"publisher","first-page":"227","DOI":"10.1038\/s41396-018-0253-3","volume":"13","author":"T Hoshino","year":"2019","unstructured":"Hoshino T, Inagaki F (2019) Abundance and distribution of Archaea in the subseafloor sedimentary biosphere. ISME J 13(1):227\u2013231. https:\/\/doi.org\/10.1038\/s41396-018-0253-3","journal-title":"ISME J"},{"issue":"8","key":"5289_CR43","doi-asserted-by":"publisher","first-page":"3925","DOI":"10.1128\/aem.68.8.3925-3931.2002","volume":"68","author":"Y Hotta","year":"2002","unstructured":"Hotta Y, Ezaki S, Atomi H, Imanaka T (2002) Extremely stable and versatile carboxylesterase from a hyperthermophilic archaeon. Appl Environ Microbiol 68(8):3925\u20133931. https:\/\/doi.org\/10.1128\/aem.68.8.3925-3931.2002","journal-title":"Appl Environ Microbiol"},{"key":"5289_CR44","doi-asserted-by":"publisher","unstructured":"Hou J, Qiu C, Shen Y, Li H, Bao X (2017) Engineering of Saccharomyces cerevisiae for the efficient co-utilization of glucose and xylose. FEMS Yeast Res 17(4). https:\/\/doi.org\/10.1093\/femsyr\/fox034","DOI":"10.1093\/femsyr\/fox034"},{"key":"5289_CR45","doi-asserted-by":"publisher","unstructured":"Hou J, Yang C, Wang F (2025) Carbon metabolic versatility underpins Bathyarchaeia ecological significance across the global deep subsurface. ISME J 19(1). https:\/\/doi.org\/10.1093\/ismejo\/wraf259","DOI":"10.1093\/ismejo\/wraf259"},{"issue":"8","key":"5289_CR46","doi-asserted-by":"publisher","first-page":"1058","DOI":"10.1080\/10826068.2024.2315479","volume":"54","author":"M Huang","year":"2024","unstructured":"Huang M, Cui X, Zhang P, Jin Z, Li H, Liu J, Jiang Z (2024) Engineered Saccharomyces cerevisiae harbors xylose isomerase and xylose transporter improves co-fermentation of xylose and glucose for ethanol production. Prep Biochem Biotechnol 54(8):1058\u20131067. https:\/\/doi.org\/10.1080\/10826068.2024.2315479","journal-title":"Prep Biochem Biotechnol"},{"issue":"7791","key":"5289_CR47","doi-asserted-by":"publisher","first-page":"519","DOI":"10.1038\/s41586-019-1916-6","volume":"577","author":"H Imachi","year":"2020","unstructured":"Imachi H, Nobu MK, Nakahara N, Morono Y, Ogawara M, Takaki Y, Takano Y, Uematsu K, Ikuta T, Ito M, Matsui Y, Miyazaki M, Murata K, Saito Y, Sakai S, Song C, Tasumi E, Yamanaka Y, Yamaguchi T, Takai K (2020) Isolation of an archaeon at the prokaryote-eukaryote interface. Nature 577(7791):519\u2013525. https:\/\/doi.org\/10.1038\/s41586-019-1916-6","journal-title":"Nature"},{"key":"5289_CR48","doi-asserted-by":"publisher","first-page":"133113","DOI":"10.1016\/j.biortech.2025.133113","volume":"437","author":"D Jeong","year":"2025","unstructured":"Jeong D, Lee D, Liu J, Kim SR, Jin YS, Zhao J, Oh EJ (2025) Acetate metabolism during xylose fermentation enhances 3-hydroxypropionic acid production in engineered acid-tolerant Issatchenkia orientalis. Bioresour Technol 437:133113. https:\/\/doi.org\/10.1016\/j.biortech.2025.133113","journal-title":"Bioresour Technol"},{"issue":"3","key":"5289_CR49","doi-asserted-by":"publisher","first-page":"277","DOI":"10.1111\/j.1567-1364.2002.tb00095.x","volume":"2","author":"B Johansson","year":"2002","unstructured":"Johansson B, Hahn-H\u00e4gerdal B (2002) The non-oxidative pentose phosphate pathway controls the fermentation rate of xylulose but not of xylose in Saccharomyces cerevisiae TMB3001. FEMS Yeast Res 2(3):277\u2013282. https:\/\/doi.org\/10.1111\/j.1567-1364.2002.tb00095.x","journal-title":"FEMS Yeast Res"},{"issue":"40","key":"5289_CR50","doi-asserted-by":"publisher","first-page":"27290","DOI":"10.1074\/jbc.M109.003814","volume":"284","author":"U Johnsen","year":"2009","unstructured":"Johnsen U, Dambeck M, Zaiss H, Fuhrer T, Soppa J, Sauer U, Sch\u00f6nheit P (2009) D-xylose degradation pathway in the halophilic archaeon Haloferax volcanii. J Biol Chem 284(40):27290\u201327303. https:\/\/doi.org\/10.1074\/jbc.M109.003814","journal-title":"J Biol Chem"},{"issue":"2","key":"5289_CR53","doi-asserted-by":"publisher","first-page":"224","DOI":"10.1111\/mmi.15114","volume":"120","author":"U Johnsen","year":"2023","unstructured":"Johnsen U, Ortjohann M, Reinhardt A, Turner JM, Stratton C, Weber KR, Sanchez KM, Maupin-Furlow J, Davies C, Sch\u00f6nheit P (2023) Discovery of a novel transcriptional regulator of sugar catabolism in archaea. Mol Microbiol 120(2):224\u2013240. https:\/\/doi.org\/10.1111\/mmi.15114","journal-title":"Mol Microbiol"},{"key":"5289_CR52","doi-asserted-by":"publisher","DOI":"10.1128\/jb.00608-19","author":"U Johnsen","year":"2020","unstructured":"Johnsen U, Sutter JM, Reinhardt A, Pickl A, Wang R, Xiang H, Sch\u00f6nheit P (2020) D-Ribose catabolism in Archaea: discovery of a novel oxidative pathway in Haloarcula species. J Bacteriol. https:\/\/doi.org\/10.1128\/jb.00608-19","journal-title":"J Bacteriol"},{"issue":"6","key":"5289_CR51","doi-asserted-by":"publisher","first-page":"897","DOI":"10.1007\/s00792-013-0572-2","volume":"17","author":"U Johnsen","year":"2013","unstructured":"Johnsen U, Sutter JM, Zai\u00df H, Sch\u00f6nheit P (2013) L-Arabinose degradation pathway in the haloarchaeon Haloferax volcanii involves a novel type of L-arabinose dehydrogenase. Extremophiles 17(6):897\u2013909. https:\/\/doi.org\/10.1007\/s00792-013-0572-2","journal-title":"Extremophiles"},{"key":"5289_CR54","doi-asserted-by":"publisher","unstructured":"Johnson MD, Sakai HD, Paul B, Nunoura T, Dalvi S, Mudaliyar M, Shepherd DC, Shimizu M, Udupa S, Ohkuma M, Kurosawa N, Ghosal D (2024) Large attachment organelle mediates interaction between Nanobdellota archaeon YN1 and its host. ISME J 18(1). https:\/\/doi.org\/10.1093\/ismejo\/wrae154","DOI":"10.1093\/ismejo\/wrae154"},{"issue":"1\u20132","key":"5289_CR55","doi-asserted-by":"publisher","first-page":"57","DOI":"10.1007\/bf00428580","volume":"113","author":"O Kandler","year":"1977","unstructured":"Kandler O, Hippe H (1977) Lack of peptidoglycan in the cell walls of Methanosarcina barkeri. Arch Microbiol 113(1\u20132):57\u201360. https:\/\/doi.org\/10.1007\/bf00428580","journal-title":"Arch Microbiol"},{"issue":"23","key":"5289_CR56","doi-asserted-by":"publisher","first-page":"eabb2236","DOI":"10.1126\/sciadv.abb2236","volume":"6","author":"H Kemble","year":"2020","unstructured":"Kemble H, Eisenhauer C, Couce A, Chapron A, Magnan M, Gautier G, Le Nagard H, Nghe P, Tenaillon O (2020) Flux, toxicity, and expression costs generate complex genetic interactions in a metabolic pathway. Sci Adv 6(23):eabb2236. https:\/\/doi.org\/10.1126\/sciadv.abb2236","journal-title":"Sci Adv"},{"issue":"5","key":"5289_CR57","doi-asserted-by":"publisher","first-page":"889","DOI":"10.4014\/jmb.0912.12020","volume":"20","author":"HW Kim","year":"2010","unstructured":"Kim HW, Ishikawa K (2010) Complete saccharification of cellulose at high temperature using endocellulase and beta-glucosidase from Pyrococcus sp. J Microbiol Biotechnol 20(5):889\u2013892. https:\/\/doi.org\/10.4014\/jmb.0912.12020","journal-title":"J Microbiol Biotechnol"},{"issue":"2","key":"5289_CR58","doi-asserted-by":"publisher","first-page":"597","DOI":"10.1074\/jbc.RA119.011363","volume":"295","author":"T Kim","year":"2020","unstructured":"Kim T, Stogios PJ, Khusnutdinova AN, Nemr K, Skarina T, Flick R, Joo JC, Mahadevan R, Savchenko A, Yakunin AF (2020) Rational engineering of 2-deoxyribose-5-phosphate aldolases for the biosynthesis of (R)-1,3-butanediol. J Biol Chem 295(2):597\u2013609. https:\/\/doi.org\/10.1074\/jbc.RA119.011363","journal-title":"J Biol Chem"},{"key":"5289_CR59","doi-asserted-by":"publisher","first-page":"204","DOI":"10.1016\/j.ymben.2016.08.005","volume":"38","author":"T Kogure","year":"2016","unstructured":"Kogure T, Kubota T, Suda M, Hiraga K, Inui M (2016) Metabolic engineering of Corynebacterium glutamicum for shikimate overproduction by growth-arrested cell reaction. Metab Eng 38:204\u2013216. https:\/\/doi.org\/10.1016\/j.ymben.2016.08.005","journal-title":"Metab Eng"},{"issue":"1","key":"5289_CR60","doi-asserted-by":"publisher","first-page":"72","DOI":"10.1186\/s13068-024-02508-2","volume":"17","author":"V Kumar","year":"2024","unstructured":"Kumar V, Kumar P, Maity SK, Agrawal D, Narisetty V, Jacob S, Kumar G, Bhatia SK, Kumar D, Vivekanand V (2024) Recent advances in bio-based production of top platform chemical, succinic acid: an alternative to conventional chemistry. Biotechnol Biofuels Bioprod 17(1):72. https:\/\/doi.org\/10.1186\/s13068-024-02508-2","journal-title":"Biotechnol Biofuels Bioprod"},{"key":"5289_CR62","doi-asserted-by":"publisher","first-page":"76","DOI":"10.1186\/s13068-015-0258-3","volume":"8","author":"K Kurosawa","year":"2015","unstructured":"Kurosawa K, Laser J, Sinskey AJ (2015) Tolerance and adaptive evolution of triacylglycerol-producing Rhodococcus opacus to lignocellulose-derived inhibitors. Biotechnol Biofuels 8:76. https:\/\/doi.org\/10.1186\/s13068-015-0258-3","journal-title":"Biotechnol Biofuels"},{"issue":"1","key":"5289_CR61","doi-asserted-by":"publisher","first-page":"134","DOI":"10.1186\/1754-6834-6-134","volume":"6","author":"K Kurosawa","year":"2013","unstructured":"Kurosawa K, Wewetzer SJ, Sinskey AJ (2013) Engineering xylose metabolism in triacylglycerol-producing Rhodococcus opacus for lignocellulosic fuel production. Biotechnol Biofuels 6(1):134. https:\/\/doi.org\/10.1186\/1754-6834-6-134","journal-title":"Biotechnol Biofuels"},{"issue":"1","key":"5289_CR63","doi-asserted-by":"publisher","first-page":"82","DOI":"10.1186\/s12934-017-0694-9","volume":"16","author":"S Kwak","year":"2017","unstructured":"Kwak S, Jin YS (2017) Production of fuels and chemicals from xylose by engineered Saccharomyces cerevisiae: a review and perspective. Microb Cell Fact 16(1):82. https:\/\/doi.org\/10.1186\/s12934-017-0694-9","journal-title":"Microb Cell Fact"},{"issue":"9","key":"5289_CR64","doi-asserted-by":"publisher","first-page":"1803","DOI":"10.1111\/1751-7915.14272","volume":"16","author":"V La Cono","year":"2023","unstructured":"La Cono V, Messina E, Reva O, Smedile F, La Spada G, Crisafi F, Marturano L, Miguez N, Ferrer M, Selivanova EA, Golyshina OV, Golyshin PN, Rohde M, Krupovic M, Merkel AY, Sorokin DY, Hallsworth JE, Yakimov MM (2023) Nanohaloarchaea as beneficiaries of xylan degradation by haloarchaea. Microb Biotechnol 16(9):1803\u20131822. https:\/\/doi.org\/10.1111\/1751-7915.14272","journal-title":"Microb Biotechnol"},{"key":"5289_CR65","doi-asserted-by":"publisher","first-page":"658781","DOI":"10.3389\/fmicb.2021.658781","volume":"12","author":"KP Law","year":"2021","unstructured":"Law KP, He W, Tao J, Zhang C (2021) Characterization of the Exometabolome of Nitrosopumilus maritimus SCM1 by Liquid Chromatography-Ion Mobility Mass Spectrometry. Front Microbiol 12:658781. https:\/\/doi.org\/10.3389\/fmicb.2021.658781","journal-title":"Front Microbiol"},{"key":"5289_CR67","doi-asserted-by":"publisher","first-page":"131996","DOI":"10.1016\/j.biortech.2024.131996","volume":"418","author":"SJ Lee","year":"2025","unstructured":"Lee SJ, Kim J, Ahn JH, Gong G, Um Y, Lee S-M, Kim KH, Ko JK (2025) Engineering xylose utilization in Cupriavidus necator for enhanced poly(3-hydroxybutyrate) production from mixed sugars. Bioresour Technol 418:131996. https:\/\/doi.org\/10.1016\/j.biortech.2024.131996","journal-title":"Bioresour Technol"},{"key":"5289_CR66","doi-asserted-by":"publisher","first-page":"179","DOI":"10.1016\/j.ymben.2015.06.002","volume":"30","author":"TC Lee","year":"2015","unstructured":"Lee TC, Xiong W, Paddock T, Carrieri D, Chang IF, Chiu HF, Ungerer J, Juo H, Maness SH, P. C., Yu J (2015) Engineered xylose utilization enhances bio-products productivity in the cyanobacterium Synechocystis sp. PCC 6803 Metab Eng 30:179\u2013189. https:\/\/doi.org\/10.1016\/j.ymben.2015.06.002","journal-title":"PCC 6803 Metab Eng"},{"key":"5289_CR69","doi-asserted-by":"publisher","unstructured":"Li F, Bai W, Zhang Y, Zhang Z, Zhang D, Shen N, Yuan J, Zhao G, Wang X (2024) Construction of an economical xylose-utilizing Saccharomyces cerevisiae and its ethanol fermentation. FEMS Yeast Res 24. https:\/\/doi.org\/10.1093\/femsyr\/foae001","DOI":"10.1093\/femsyr\/foae001"},{"issue":"1","key":"5289_CR68","doi-asserted-by":"publisher","first-page":"51","DOI":"10.1186\/s40643-016-0126-4","volume":"3","author":"H Li","year":"2016","unstructured":"Li H, Shen Y, Wu M, Hou J, Jiao C, Li Z, Liu X, Bao X (2016) Engineering a wild-type diploid Saccharomyces cerevisiae strain for second-generation bioethanol production. Bioresour Bioprocess 3(1):51. https:\/\/doi.org\/10.1186\/s40643-016-0126-4","journal-title":"Bioresour Bioprocess"},{"issue":"1","key":"5289_CR70","doi-asserted-by":"publisher","first-page":"8764","DOI":"10.1038\/s41467-024-53129-0","volume":"15","author":"B Liang","year":"2024","unstructured":"Liang B, Yang J, Meng CF, Zhang YR, Wang L, Zhang L, Liu J, Li ZC, Cosnier S, Liu AH, Yang JM (2024) Efficient conversion of hemicellulose into high-value product and electric power by enzyme-engineered bacterial consortia. Nat Commun 15(1):8764. https:\/\/doi.org\/10.1038\/s41467-024-53129-0","journal-title":"Nat Commun"},{"issue":"1","key":"5289_CR71","doi-asserted-by":"publisher","first-page":"4925","DOI":"10.1038\/s41467-022-32296-y","volume":"13","author":"C Ling","year":"2022","unstructured":"Ling C, Peabody GL, Salvach\u00faa D, Kim YM, Kneucker CM, Calvey CH, Monninger MA, Munoz NM, Poirier BC, Ramirez KJ, John S, Woodworth PC, Magnuson SP, Burnum-Johnson JK, Guss KE, Johnson AM, C. W., Beckham GT (2022) Muconic acid production from glucose and xylose in Pseudomonas putida via evolution and metabolic engineering. Nat Commun 13(1):4925. https:\/\/doi.org\/10.1038\/s41467-022-32296-y","journal-title":"Nat Commun"},{"issue":"6","key":"5289_CR72","doi-asserted-by":"publisher","first-page":"e0001223","DOI":"10.1128\/aem.00012-23","volume":"89","author":"GL Lipscomb","year":"2023","unstructured":"Lipscomb GL, Crowley AT, Nguyen DMN, Keller MW, O\u2019Quinn HC, Tanwee TNN, Vailionis JL, Zhang K, Zhang Y, Kelly RM, Adams MWW (2023) Manipulating Fermentation Pathways in the Hyperthermophilic Archaeon Pyrococcus furiosus for Ethanol Production up to 95\u00b0C Driven by Carbon Monoxide Oxidation. Appl Environ Microbiol 89(6):e0001223. https:\/\/doi.org\/10.1128\/aem.00012-23","journal-title":"Appl Environ Microbiol"},{"issue":"1","key":"5289_CR73","doi-asserted-by":"publisher","first-page":"13","DOI":"10.1186\/s13068-023-02266-7","volume":"16","author":"D Liu","year":"2023","unstructured":"Liu D, Zhang Y, Li J, Sun W, Yao Y, Tian C (2023) The Weimberg pathway: an alternative for Myceliophthora thermophila to utilize D-xylose. Biotechnol Biofuels Bioprod 16(1):13. https:\/\/doi.org\/10.1186\/s13068-023-02266-7","journal-title":"Biotechnol Biofuels Bioprod"},{"issue":"8","key":"5289_CR74","doi-asserted-by":"publisher","first-page":"2838","DOI":"10.1007\/s11427-025-3201-4","volume":"69","author":"L Liu","year":"2026","unstructured":"Liu L, Gu C, Feng X, Li M (2026) A pentose bisphosphate pathway of nucleotide degradation in Promethearchaeum syntrophicum. Sci China Life Sci 69(8):2838\u20132846. https:\/\/doi.org\/10.1007\/s11427-025-3201-4","journal-title":"Sci China Life Sci"},{"issue":"1","key":"5289_CR75","doi-asserted-by":"publisher","first-page":"231","DOI":"10.1186\/s13068-021-02082-x","volume":"14","author":"J Lou","year":"2021","unstructured":"Lou J, Wang J, Yang Y, Yang Q, Li R, Hu M, He Q, Du J, Wang X, Li M, Yang S (2021) Development and characterization of efficient xylose utilization strains of Zymomonas mobilis. Biotechnol Biofuels 14(1):231. https:\/\/doi.org\/10.1186\/s13068-021-02082-x","journal-title":"Biotechnol Biofuels"},{"issue":"1","key":"5289_CR76","doi-asserted-by":"publisher","first-page":"59","DOI":"10.1186\/s12934-025-02683-3","volume":"24","author":"X Lu","year":"2025","unstructured":"Lu X, Chang M, Li X, Cao W, Zhuang Z, Wu Q, Yu T, Yu A, Tang H (2025) Metabolic engineering for sustainable xylitol production from diverse carbon sources in Pichia pastoris. Microb Cell Fact 24(1):59. https:\/\/doi.org\/10.1186\/s12934-025-02683-3","journal-title":"Microb Cell Fact"},{"key":"5289_CR77","doi-asserted-by":"publisher","first-page":"125799","DOI":"10.1016\/j.biortech.2021.125799","volume":"341","author":"Q Lv","year":"2021","unstructured":"Lv Q, Hu M, Tian L, Liu F, Wang Q, Xu M, Rao Z (2021) Enhancing l-glutamine production in Corynebacterium glutamicum by rational metabolic engineering combined with a two-stage pH control strategy. Bioresour Technol 341:125799. https:\/\/doi.org\/10.1016\/j.biortech.2021.125799","journal-title":"Bioresour Technol"},{"issue":"6","key":"5289_CR78","doi-asserted-by":"publisher","first-page":"e70039","DOI":"10.1111\/1758-2229.70039","volume":"16","author":"L Matarredona","year":"2024","unstructured":"Matarredona L, Zafrilla B, Camacho M, Bonete MJ, Esclapez J (2024) Understanding the tolerance of halophilic archaea to stress landscapes. Environ Microbiol Rep 16(6):e70039. https:\/\/doi.org\/10.1111\/1758-2229.70039","journal-title":"Environ Microbiol Rep"},{"key":"5289_CR79","doi-asserted-by":"publisher","first-page":"1593936","DOI":"10.3389\/fmicb.2025.1593936","volume":"16","author":"Y Moalic","year":"2025","unstructured":"Moalic Y, Nguyen TBH, Hartunians J, Birien T, Thiel A, Jebbar M (2025) Regulation of gene expression under high hydrostatic pressure: the versatile role of the master regulator SurR in energy metabolism. Front Microbiol 16:1593936. https:\/\/doi.org\/10.3389\/fmicb.2025.1593936","journal-title":"Front Microbiol"},{"issue":"9","key":"5289_CR80","doi-asserted-by":"publisher","first-page":"597","DOI":"10.3390\/catal14090597","volume":"14","author":"KH Nam","year":"2024","unstructured":"Nam KH (2024) Engineering Xylose Isomerase for Industrial Applications. Catalysts 14(9):597. https:\/\/www.mdpi.com\/2073-4344\/14\/9\/597","journal-title":"Catalysts"},{"issue":"1","key":"5289_CR81","doi-asserted-by":"publisher","first-page":"29","DOI":"10.1039\/d1se00927c","volume":"6","author":"V Narisetty","year":"2021","unstructured":"Narisetty V, Cox R, Bommareddy R, Agrawal D, Ahmad E, Pant KK, Chandel AK, Bhatia SK, Kumar D, Binod P, Gupta VK, Kumar V (2021) Valorisation of xylose to renewable fuels and chemicals, an essential step in augmenting the commercial viability of lignocellulosic biorefineries. Sustain Energy Fuels 6(1):29\u201365. https:\/\/doi.org\/10.1039\/d1se00927c","journal-title":"Sustain Energy Fuels"},{"key":"5289_CR82","doi-asserted-by":"publisher","unstructured":"Naz Z, Lubkowski J, Saleem M, Aslam M, Rahman M, Wlodawer A, Rashid N (2024) Biophysical characterization of a novel phosphopentomutase from the hyperthermophilic archaeon Thermococcus kodakarensis. Int J Mol Sci 25(23). https:\/\/doi.org\/10.3390\/ijms252312893","DOI":"10.3390\/ijms252312893"},{"issue":"1","key":"5289_CR83","doi-asserted-by":"publisher","first-page":"102","DOI":"10.1186\/s13068-021-01949-3","volume":"14","author":"P Ning","year":"2021","unstructured":"Ning P, Yang G, Hu L, Sun J, Shi L, Zhou Y, Wang Z, Yang J (2021) Recent advances in the valorization of plant biomass. Biotechnol Biofuels 14(1):102. https:\/\/doi.org\/10.1186\/s13068-021-01949-3","journal-title":"Biotechnol Biofuels"},{"issue":"11","key":"5289_CR84","doi-asserted-by":"publisher","first-page":"e0171225","DOI":"10.1128\/aem.01712-25","volume":"91","author":"T Nishida","year":"2025","unstructured":"Nishida T, Chen Y, Azuma T, Orita I, Fukui T (2025) Pentose bisphosphate pathway can act in central metabolism for nucleoside-dependent growth of Thermococcus kodakarensis strains. Appl Environ Microbiol 91(11):e0171225. https:\/\/doi.org\/10.1128\/aem.01712-25","journal-title":"Appl Environ Microbiol"},{"key":"5289_CR85","doi-asserted-by":"publisher","first-page":"62","DOI":"10.1016\/j.pep.2016.05.009","volume":"126","author":"T Ohshida","year":"2016","unstructured":"Ohshida T, Hayashi J, Satomura T, Kawakami R, Ohshima T, Sakuraba H (2016) First characterization of extremely halophilic 2-deoxy-D-ribose-5-phosphate aldolase. Protein Expr Purif 126:62\u201368. https:\/\/doi.org\/10.1016\/j.pep.2016.05.009","journal-title":"Protein Expr Purif"},{"issue":"24","key":"5289_CR86","doi-asserted-by":"publisher","first-page":"7858","DOI":"10.1128\/aem.01692-09","volume":"75","author":"K Okano","year":"2009","unstructured":"Okano K, Yoshida S, Yamada R, Tanaka T, Ogino C, Fukuda H, Kondo A (2009) Improved production of homo-D-lactic acid via xylose fermentation by introduction of xylose assimilation genes and redirection of the phosphoketolase pathway to the pentose phosphate pathway in L-Lactate dehydrogenase gene-deficient Lactobacillus plantarum. Appl Environ Microbiol 75(24):7858\u20137861. https:\/\/doi.org\/10.1128\/aem.01692-09","journal-title":"Appl Environ Microbiol"},{"issue":"5","key":"5289_CR87","doi-asserted-by":"publisher","first-page":"1758","DOI":"10.1021\/jacsau.4c00290","volume":"4","author":"Y Oku","year":"2024","unstructured":"Oku Y, Matsuda T (2024) Substrate Promiscuity of Thermoplasma acidophilum Malic Enzyme for CO2 Fixation Reaction. JACS Au 4(5):1758\u20131762. https:\/\/doi.org\/10.1021\/jacsau.4c00290","journal-title":"JACS Au"},{"key":"5289_CR88","doi-asserted-by":"publisher","first-page":"1023","DOI":"10.3389\/fmicb.2020.01023","volume":"11","author":"GC Oliver","year":"2020","unstructured":"Oliver GC, Cario A, Rogers KL (2020) Rate and Extent of Growth of a Model Extremophile, Archaeoglobus fulgidus, Under High Hydrostatic Pressures. Front Microbiol 11:1023. https:\/\/doi.org\/10.3389\/fmicb.2020.01023","journal-title":"Front Microbiol"},{"issue":"18","key":"5289_CR89","doi-asserted-by":"publisher","first-page":"8469","DOI":"10.1039\/d4cs01125b","volume":"54","author":"LJD Opsommer","year":"2025","unstructured":"Opsommer LJD, Schalck T, Yogiswara S, Verstrepen KJ, Michiels J, Sels BF (2025) \u03b1-Ketoglutaric acid as a promising platform chemical for sustainable bio-based industries. Chem Soc Rev 54(18):8469\u20138523. https:\/\/doi.org\/10.1039\/d4cs01125b","journal-title":"Chem Soc Rev"},{"issue":"1","key":"5289_CR90","doi-asserted-by":"publisher","first-page":"18","DOI":"10.1038\/s44185-024-00050-w","volume":"3","author":"A Oren","year":"2024","unstructured":"Oren A (2024) Novel insights into the diversity of halophilic microorganisms and their functioning in hypersaline ecosystems. NPJ Biodivers 3(1):18. https:\/\/doi.org\/10.1038\/s44185-024-00050-w","journal-title":"NPJ Biodivers"},{"issue":"3","key":"5289_CR91","doi-asserted-by":"publisher","first-page":"48","DOI":"10.1007\/s00792-024-01365-z","volume":"28","author":"M Ortjohann","year":"2024","unstructured":"Ortjohann M, Sch\u00f6nheit P (2024) Sugar alcohol degradation in Archaea: uptake and degradation of mannitol and sorbitol in Haloarcula hispanica. Extremophiles 28(3):48. https:\/\/doi.org\/10.1007\/s00792-024-01365-z","journal-title":"Extremophiles"},{"key":"5289_CR92","doi-asserted-by":"publisher","unstructured":"Qiao J, Yu Z, Zhou H, Wang W, Wu H, Ye J (2025) The pentose phosphate pathway: from mechanisms to implications for gastrointestinal cancers. Int J Mol Sci 26(2). https:\/\/doi.org\/10.3390\/ijms26020610","DOI":"10.3390\/ijms26020610"},{"issue":"3","key":"5289_CR93","doi-asserted-by":"publisher","first-page":"100084","DOI":"10.1016\/j.engmic.2023.100084","volume":"3","author":"Y Qiu","year":"2023","unstructured":"Qiu Y, Wu M, Bao H, Liu W, Shen Y (2023) Engineering of Saccharomyces cerevisiae for co-fermentation of glucose and xylose: Current state and perspectives. Eng Microbiol 3(3):100084. https:\/\/doi.org\/10.1016\/j.engmic.2023.100084","journal-title":"Eng Microbiol"},{"issue":"3","key":"5289_CR94","doi-asserted-by":"publisher","first-page":"112158","DOI":"10.1016\/j.celrep.2023.112158","volume":"42","author":"Y-N Qu","year":"2023","unstructured":"Qu Y-N, Rao Y-Z, Qi Y-L, Li Y-X, Li A, Palmer M, Hedlund BP, Shu W-S, Evans PN, Nie G-X, Hua Z-S, Li W-J (2023) Panguiarchaeum symbiosum, a potential hyperthermophilic symbiont in the TACK superphylum. Cell Rep 42(3):112158. https:\/\/doi.org\/10.1016\/j.celrep.2023.112158","journal-title":"Cell Rep"},{"key":"5289_CR95","doi-asserted-by":"publisher","first-page":"1204876","DOI":"10.3389\/fmicb.2023.1204876","volume":"14","author":"T Rados","year":"2023","unstructured":"Rados T, Andre K, Cerletti M, Bisson A (2023) A sweet new set of inducible and constitutive promoters in Haloferax volcanii. Front Microbiol 14:1204876. https:\/\/doi.org\/10.3389\/fmicb.2023.1204876","journal-title":"Front Microbiol"},{"issue":"13","key":"5289_CR96","doi-asserted-by":"publisher","first-page":"4185","DOI":"10.1128\/jb.186.13.4185-4191.2004","volume":"186","author":"N Rashid","year":"2004","unstructured":"Rashid N, Imanaka H, Fukui T, Atomi H, Imanaka T (2004) Presence of a novel phosphopentomutase and a 2-deoxyribose 5-phosphate aldolase reveals a metabolic link between pentoses and central carbon metabolism in the hyperthermophilic archaeon Thermococcus kodakaraensis. J Bacteriol 186(13):4185\u20134191. https:\/\/doi.org\/10.1128\/jb.186.13.4185-4191.2004","journal-title":"J Bacteriol"},{"issue":"1","key":"5289_CR97","doi-asserted-by":"publisher","first-page":"147","DOI":"10.1186\/s13068-022-02252-5","volume":"15","author":"Y Ren","year":"2022","unstructured":"Ren Y, Eronen V, Blomster Andberg M, Koivula A, Hakulinen N (2022) Structure and function of aldopentose catabolism enzymes involved in oxidative non-phosphorylative pathways. Biotechnol Biofuels Bioprod 15(1):147. https:\/\/doi.org\/10.1186\/s13068-022-02252-5","journal-title":"Biotechnol Biofuels Bioprod"},{"issue":"2","key":"5289_CR98","doi-asserted-by":"publisher","first-page":"111749","DOI":"10.1016\/j.isci.2025.111749","volume":"28","author":"ON Reva","year":"2025","unstructured":"Reva ON, La Cono V, Marturano L, Crisafi F, Smedile F, Mudaliyar M, Ghosal D, Selivanova EA, Ignatenko ME, Ferrer M, Fernandez-Lopez L, Krupovic M, Yakimov MM (2025) DPANN symbiont of Haloferax volcanii accelerates xylan degradation by the non-host haloarchaeon Halorhabdus sp. iScience 28(2):111749. https:\/\/doi.org\/10.1016\/j.isci.2025.111749","journal-title":"iScience"},{"issue":"3","key":"5289_CR99","doi-asserted-by":"publisher","first-page":"287","DOI":"10.1099\/mic.0.000611","volume":"164","author":"L Rossoni","year":"2018","unstructured":"Rossoni L, Carr R, Baxter S, Cortis R, Thorpe T, Eastham G, Stephens G (2018) Engineering Escherichia coli to grow constitutively on D-xylose using the carbon-efficient Weimberg pathway. Microbiol (Reading) 164(3):287\u2013298. https:\/\/doi.org\/10.1099\/mic.0.000611","journal-title":"Microbiol (Reading)"},{"key":"5289_CR100","doi-asserted-by":"publisher","unstructured":"Sakai HD, Nur N, Kato S, Yuki M, Shimizu M, Itoh T, Ohkuma M, Suwanto A, Kurosawa N (2022) Insight into the symbiotic lifestyle of DPANN archaea revealed by cultivation and genome analyses. Proc Natl Acad Sci U S A 119(3). https:\/\/doi.org\/10.1073\/pnas.2115449119","DOI":"10.1073\/pnas.2115449119"},{"issue":"12","key":"5289_CR101","doi-asserted-by":"publisher","first-page":"10799","DOI":"10.1074\/jbc.M212449200","volume":"278","author":"H Sakuraba","year":"2003","unstructured":"Sakuraba H, Tsuge H, Shimoya I, Kawakami R, Goda S, Kawarabayasi Y, Katunuma N, Ago H, Miyano M, Ohshima T (2003) The first crystal structure of archaeal aldolase. Unique tetrameric structure of 2-deoxy-d-ribose-5-phosphate aldolase from the hyperthermophilic archaea Aeropyrum pernix. J Biol Chem 278(12):10799\u201310806. https:\/\/doi.org\/10.1074\/jbc.M212449200","journal-title":"J Biol Chem"},{"issue":"22","key":"5289_CR102","doi-asserted-by":"publisher","first-page":"7427","DOI":"10.1128\/aem.01101-07","volume":"73","author":"H Sakuraba","year":"2007","unstructured":"Sakuraba H, Yoneda K, Yoshihara K, Satoh K, Kawakami R, Uto Y, Tsuge H, Takahashi K, Hori H, Ohshima T (2007) Sequential aldol condensation catalyzed by hyperthermophilic 2-deoxy-d-ribose-5-phosphate aldolase. Appl Environ Microbiol 73(22):7427\u20137434. https:\/\/doi.org\/10.1128\/aem.01101-07","journal-title":"Appl Environ Microbiol"},{"issue":"1","key":"5289_CR103","doi-asserted-by":"publisher","first-page":"653","DOI":"10.1038\/s42003-021-02178-y","volume":"4","author":"M Salvador-Castell","year":"2021","unstructured":"Salvador-Castell M, Golub M, Erwin N, Dem\u00e9 B, Brooks NJ, Winter R, Peters J, Oger PM (2021) Characterisation of a synthetic Archeal membrane reveals a possible new adaptation route to extreme conditions. Commun Biol 4(1):653. https:\/\/doi.org\/10.1038\/s42003-021-02178-y","journal-title":"Commun Biol"},{"issue":"1","key":"5289_CR104","doi-asserted-by":"publisher","first-page":"1290","DOI":"10.1038\/s42003-022-04247-2","volume":"5","author":"T Sato","year":"2022","unstructured":"Sato T, Utashima SH, Yoshii Y, Hirata K, Kanda S, Onoda Y, Jin JQ, Xiao S, Minami R, Fukushima H, Noguchi A, Manabe Y, Fukase K, Atomi H (2022) A non-carboxylating pentose bisphosphate pathway in halophilic archaea. Commun Biol 5(1):1290. https:\/\/doi.org\/10.1038\/s42003-022-04247-2","journal-title":"Commun Biol"},{"key":"5289_CR105","doi-asserted-by":"publisher","first-page":"25542","DOI":"10.1038\/srep25542","volume":"6","author":"C Sayer","year":"2016","unstructured":"Sayer C, Finnigan W, Isupov MN, Levisson M, Kengen SW, van der Oost J, Harmer NJ, Littlechild JA (2016) Structural and biochemical characterisation of Archaeoglobus fulgidus esterase reveals a bound CoA molecule in the vicinity of the active site. Sci Rep 6:25542. https:\/\/doi.org\/10.1038\/srep25542","journal-title":"Sci Rep"},{"issue":"9","key":"5289_CR106","doi-asserted-by":"publisher","first-page":"2559","DOI":"10.1039\/d3su00412k","volume":"2","author":"A Schindl","year":"2024","unstructured":"Schindl A, Hagen ML, Cooley I, J\u00e4ger CM, Warden AC, Zelzer M, Allers T, Croft AK (2024) Ion-combination specific effects driving the enzymatic activity of halophilic alcohol dehydrogenase 2 from Haloferax volcanii in aqueous ionic liquid solvent mixtures. RSC Sustain 2(9):2559\u20132580. https:\/\/doi.org\/10.1039\/d3su00412k","journal-title":"RSC Sustain"},{"key":"5289_CR107","doi-asserted-by":"publisher","first-page":"71","DOI":"10.1016\/j.copbio.2019.02.012","volume":"59","author":"L Schocke","year":"2019","unstructured":"Schocke L, Br\u00e4sen C, Siebers B (2019) Thermoacidophilic Sulfolobus species as source for extremozymes and as novel archaeal platform organisms. Curr Opin Biotechnol 59:71\u201377. https:\/\/doi.org\/10.1016\/j.copbio.2019.02.012","journal-title":"Curr Opin Biotechnol"},{"key":"5289_CR108","doi-asserted-by":"publisher","first-page":"1475385","DOI":"10.3389\/fmicb.2024.1475385","volume":"15","author":"VL Sedlmayr","year":"2024","unstructured":"Sedlmayr VL, Sz\u00e9liov\u00e1 D, De Kock V, Gansemans Y, Van Nieuwerburgh F, Peeters E, Quehenberger J, Zanghellini J, Spadiut O (2024) Impact of nutrient excess on physiology and metabolism of Sulfolobus acidocaldarius. Front Microbiol 15:1475385. https:\/\/doi.org\/10.3389\/fmicb.2024.1475385","journal-title":"Front Microbiol"},{"issue":"1","key":"5289_CR109","doi-asserted-by":"publisher","first-page":"6","DOI":"10.1016\/j.jbiosc.2019.06.014","volume":"129","author":"NA Shakir","year":"2020","unstructured":"Shakir NA, Bibi T, Aslam M, Rashid N (2020) Biochemical characterization of a highly active ADP-dependent phosphofructokinase from Thermococcus kodakarensis. J Biosci Bioeng 129(1):6\u201315. https:\/\/doi.org\/10.1016\/j.jbiosc.2019.06.014","journal-title":"J Biosci Bioeng"},{"issue":"1","key":"5289_CR110","doi-asserted-by":"publisher","first-page":"1098","DOI":"10.1038\/s41467-020-14830-y","volume":"11","author":"L Shen","year":"2020","unstructured":"Shen L, Kohlhaas M, Enoki J, Meier R, Sch\u00f6nenberger B, Wohlgemuth R, Kourist R, Niemeyer F, van Niekerk D, Br\u00e4sen C, Niemeyer J, Snoep J, Siebers B (2020) A combined experimental and modelling approach for the Weimberg pathway optimisation. Nat Commun 11(1):1098. https:\/\/doi.org\/10.1038\/s41467-020-14830-y","journal-title":"Nat Commun"},{"issue":"10","key":"5289_CR111","doi-asserted-by":"publisher","first-page":"e24222","DOI":"10.1371\/journal.pone.0024222","volume":"6","author":"B Siebers","year":"2011","unstructured":"Siebers B, Zaparty M, Raddatz G, Tjaden B, Albers SV, Bell SD, Blombach F, Kletzin A, Kyrpides N, Lanz C, Plagens A, Rampp M, Rosinus A, von Jan M, Makarova KS, Klenk HP, Schuster SC, Hensel R (2011) The complete genome sequence of Thermoproteus tenax: a physiologically versatile member of the Crenarchaeota. PLoS ONE 6(10):e24222. https:\/\/doi.org\/10.1371\/journal.pone.0024222","journal-title":"PLoS ONE"},{"key":"5289_CR112","doi-asserted-by":"publisher","unstructured":"Sierra-Ibarra E, Vargas-Tah A, Moss-Acosta CL, Trujillo-Mart\u00ednez B, Molina-V\u00e1zquez ER, Rosas-Aburto A, Valdivia-L\u00f3pez \u00c1, Hern\u00e1ndez-Luna MG, Vivaldo-Lima E, Mart\u00ednez A (2022) Co-fermentation of glucose-xylose mixtures from agroindustrial residues by ethanologenic Escherichia coli: a study on the lack of carbon catabolite repression in strain MS04. Molecules 27(24). https:\/\/doi.org\/10.3390\/molecules27248941","DOI":"10.3390\/molecules27248941"},{"issue":"19","key":"5289_CR113","doi-asserted-by":"publisher","first-page":"8399","DOI":"10.1007\/s00253-016-7601-x","volume":"100","author":"SK Sinha","year":"2016","unstructured":"Sinha SK, Datta S (2016) \u03b2-Glucosidase from the hyperthermophilic archaeon Thermococcus sp. is a salt-tolerant enzyme that is stabilized by its reaction product glucose. Appl Microbiol Biotechnol 100(19):8399\u20138409. https:\/\/doi.org\/10.1007\/s00253-016-7601-x","journal-title":"Appl Microbiol Biotechnol"},{"key":"5289_CR114","doi-asserted-by":"publisher","unstructured":"Souza BC, Vargas BO, Seguchi G, Carazzolle MF, Guimar\u00e3es Pereira GA, de Mello F (2025) Promoter choice for XKS1 overexpression impacts xylose metabolism in Saccharomyces cerevisiae. J Appl Microbiol 136(3). https:\/\/doi.org\/10.1093\/jambio\/lxaf042","DOI":"10.1093\/jambio\/lxaf042"},{"issue":"7551","key":"5289_CR115","doi-asserted-by":"publisher","first-page":"173","DOI":"10.1038\/nature14447","volume":"521","author":"A Spang","year":"2015","unstructured":"Spang A, Saw JH, J\u00f8rgensen SL, Zaremba-Niedzwiedzka K, Martijn J, Lind AE, van Eijk R, Schleper C, Guy L, Ettema TJG (2015) Complex archaea that bridge the gap between prokaryotes and eukaryotes. Nature 521(7551):173\u2013179. https:\/\/doi.org\/10.1038\/nature14447","journal-title":"Nature"},{"issue":"5","key":"5289_CR117","doi-asserted-by":"publisher","first-page":"759","DOI":"10.1007\/s00792-020-01192-y","volume":"24","author":"J-M Sutter","year":"2020","unstructured":"Sutter J-M, Johnsen U, Reinhardt A, Sch\u00f6nheit P (2020) Pentose degradation in archaea: Halorhabdus species degrade D-xylose, L-arabinose and D-ribose via bacterial-type pathways. Extremophiles 24(5):759\u2013772. https:\/\/doi.org\/10.1007\/s00792-020-01192-y","journal-title":"Extremophiles"},{"key":"5289_CR116","doi-asserted-by":"publisher","DOI":"10.1093\/femsle\/fnx140","author":"J-M Sutter","year":"2017","unstructured":"Sutter J-M, Johnsen U, Sch\u00f6nheit P (2017) Characterization of a pentonolactonase involved in D-xylose and L-arabinose catabolism in the haloarchaeon Haloferax volcanii. FEMS Microbiol Lett. https:\/\/doi.org\/10.1093\/femsle\/fnx140","journal-title":"FEMS Microbiol Lett"},{"issue":"4","key":"5289_CR118","doi-asserted-by":"publisher","first-page":"247","DOI":"10.1038\/nchembio.2020","volume":"12","author":"YS Tai","year":"2016","unstructured":"Tai YS, Xiong M, Jambunathan P, Wang J, Wang J, Stapleton C, Zhang K (2016) Engineering nonphosphorylative metabolism to generate lignocellulose-derived products. Nat Chem Biol 12(4):247\u2013253. https:\/\/doi.org\/10.1038\/nchembio.2020","journal-title":"Nat Chem Biol"},{"issue":"1","key":"5289_CR119","doi-asserted-by":"publisher","first-page":"30","DOI":"10.1007\/s00253-025-13417-1","volume":"109","author":"K Tanaka","year":"2025","unstructured":"Tanaka K, Yukawa T, Bamba T, Wakiya M, Kumokita R, Jin YS, Kondo A, Hasunuma T (2025) Engineering Saccharomyces cerevisiae for growth on xylose using an oxidative pathway. Appl Microbiol Biotechnol 109(1):30. https:\/\/doi.org\/10.1007\/s00253-025-13417-1","journal-title":"Appl Microbiol Biotechnol"},{"key":"5289_CR120","doi-asserted-by":"publisher","first-page":"1452240","DOI":"10.3389\/fmicb.2024.1452240","volume":"15","author":"IC Taveira","year":"2024","unstructured":"Taveira IC, Carraro CB, Nogueira KMV, Pereira LMS, Bueno JGR, Fiamenghi MB, Santos D, L. V., Silva RN (2024) Structural and biochemical insights of xylose MFS and SWEET transporters in microbial cell factories: challenges to lignocellulosic hydrolysates fermentation. Front Microbiol 15:1452240. https:\/\/doi.org\/10.3389\/fmicb.2024.1452240","journal-title":"Front Microbiol"},{"issue":"9","key":"5289_CR121","doi-asserted-by":"publisher","first-page":"e2100043","DOI":"10.1002\/biot.202100043","volume":"16","author":"N Tenhaef","year":"2021","unstructured":"Tenhaef N, Kappelmann J, Eich A, Weiske M, Brie\u00df L, Br\u00fcsseler C, Marienhagen J, Wiechert W, Noack S (2021) Microaerobic growth-decoupled production of \u03b1-ketoglutarate and succinate from xylose in a one-pot process using Corynebacterium glutamicum. Biotechnol J 16(9):e2100043. https:\/\/doi.org\/10.1002\/biot.202100043","journal-title":"Biotechnol J"},{"issue":"8","key":"5289_CR122","doi-asserted-by":"publisher","first-page":"1275","DOI":"10.1038\/s42255-023-00863-2","volume":"5","author":"T TeSlaa","year":"2023","unstructured":"TeSlaa T, Ralser M, Fan J, Rabinowitz JD (2023) The pentose phosphate pathway in health and disease. Nat Metab 5(8):1275\u20131289. https:\/\/doi.org\/10.1038\/s42255-023-00863-2","journal-title":"Nat Metab"},{"key":"5289_CR123","doi-asserted-by":"publisher","first-page":"105285","DOI":"10.1016\/j.jtice.2023.105285","volume":"160","author":"JC Tsai","year":"2024","unstructured":"Tsai JC, Lai MJ, Lan EI (2024) Expression of Weimberg xylose utilization pathway for succinate production by cyanobacteria under diurnal condition. J Taiwan Inst Chem Eng 160:105285. https:\/\/doi.org\/10.1016\/j.jtice.2023.105285","journal-title":"J Taiwan Inst Chem Eng"},{"key":"5289_CR124","doi-asserted-by":"publisher","first-page":"1066","DOI":"10.3389\/fmicb.2020.01066","volume":"11","author":"N van der Kolk","year":"2020","unstructured":"van der Kolk N, Wagner A, Wagner M, Wa\u00dfmer B, Siebers B, Albers SV (2020) Identification of XylR, the Activator of Arabinose\/Xylose Inducible Regulon in Sulfolobus acidocaldarius and Its Application for Homologous Protein Expression. Front Microbiol 11:1066. https:\/\/doi.org\/10.3389\/fmicb.2020.01066","journal-title":"Front Microbiol"},{"key":"5289_CR125","doi-asserted-by":"publisher","unstructured":"Vasylyshyn R, Ruchala J, Dmytruk K, Sibirny A (2025) Recent progress in engineering yeast producers of cellulosic ethanol. FEMS Yeast Res 25. https:\/\/doi.org\/10.1093\/femsyr\/foaf035","DOI":"10.1093\/femsyr\/foaf035"},{"issue":"3","key":"5289_CR126","doi-asserted-by":"publisher","first-page":"e2416971122","DOI":"10.1073\/pnas.2416971122","volume":"122","author":"RW Voland","year":"2025","unstructured":"Voland RW, Wang H, Abru\u00f1a HD, Lancaster KM (2025) Nitrous oxide production via enzymatic nitroxyl from the nitrifying archaeon Nitrosopumilus maritimus. Proc Natl Acad Sci U S A 122(3):e2416971122. https:\/\/doi.org\/10.1073\/pnas.2416971122","journal-title":"Proc Natl Acad Sci U S A"},{"issue":"24","key":"5289_CR127","doi-asserted-by":"publisher","first-page":"10515","DOI":"10.1007\/s00253-020-10960-x","volume":"104","author":"S Voutilainen","year":"2020","unstructured":"Voutilainen S, Heinonen M, Andberg M, Jokinen E, Maaheimo H, P\u00e4\u00e4kk\u00f6nen J, Hakulinen N, Rouvinen J, L\u00e4hdesm\u00e4ki H, Kaski S, Rousu J, Penttil\u00e4 M, Koivula A (2020) Substrate specificity of 2-deoxy-D-ribose 5-phosphate aldolase (DERA) assessed by different protein engineering and machine learning methods. Appl Microbiol Biotechnol 104(24):10515\u201310529. https:\/\/doi.org\/10.1007\/s00253-020-10960-x","journal-title":"Appl Microbiol Biotechnol"},{"issue":"7","key":"5289_CR129","doi-asserted-by":"publisher","first-page":"e1010593","DOI":"10.1371\/journal.pgen.1010593","volume":"19","author":"ER Wagner","year":"2023","unstructured":"Wagner ER, Nightingale NM, Jen A, Overmyer KA, McGee M, Coon JJ, Gasch AP (2023) PKA regulatory subunit Bcy1 couples growth, lipid metabolism, and fermentation during anaerobic xylose growth in Saccharomyces cerevisiae. PLoS Genet 19(7):e1010593. https:\/\/doi.org\/10.1371\/journal.pgen.1010593","journal-title":"PLoS Genet"},{"key":"5289_CR128","doi-asserted-by":"publisher","unstructured":"Wagner M, Shen L, Albersmeier A, van der Kolk N, Kim S, Cha J, Br\u00e4sen C, Kalinowski J, Siebers B, Albers SV (2018) Sulfolobus acidocaldarius transports pentoses via a carbohydrate uptake transporter 2 (CUT2)-type ABC transporter and metabolizes them through the aldolase-independent Weimberg pathway. Appl Environ Microbiol 84(3). https:\/\/doi.org\/10.1128\/aem.01273-17","DOI":"10.1128\/aem.01273-17"},{"key":"5289_CR130","doi-asserted-by":"publisher","first-page":"126982","DOI":"10.1016\/j.fuel.2022.126982","volume":"339","author":"NI Wan Azelee","year":"2023","unstructured":"Wan Azelee NI, Mahdi HI, Cheng Y-S, Nordin N, Illias RM, Rahman RA, Shaarani SM, Bhatt P, Yadav S, Chang SW, Ravindran B, Ashokkumar V (2023) Biomass degradation: Challenges and strategies in extraction and fractionation of hemicellulose. Fuel 339:126982. https:\/\/doi.org\/10.1016\/j.fuel.2022.126982","journal-title":"Fuel"},{"issue":"8","key":"5289_CR131","doi-asserted-by":"publisher","first-page":"841","DOI":"10.1007\/s10295-013-1282-6","volume":"40","author":"R Wang","year":"2013","unstructured":"Wang R, Li L, Zhang B, Gao X, Wang D, Hong J (2013) Improved xylose fermentation of Kluyveromyces marxianus at elevated temperature through construction of a xylose isomerase pathway. J Ind Microbiol Biotechnol 40(8):841\u2013854. https:\/\/doi.org\/10.1007\/s10295-013-1282-6","journal-title":"J Ind Microbiol Biotechnol"},{"issue":"11","key":"5289_CR132","doi-asserted-by":"publisher","first-page":"1257","DOI":"10.1002\/1873-3468.13424","volume":"593","author":"Y Watanabe","year":"2019","unstructured":"Watanabe Y, Iga C, Watanabe Y, Watanabe S (2019) Structural insights into the catalytic and substrate recognition mechanisms of bacterial l-arabinose 1-dehydrogenase. FEBS Lett 593(11):1257\u20131266. https:\/\/doi.org\/10.1002\/1873-3468.13424","journal-title":"FEBS Lett"},{"key":"5289_CR133","doi-asserted-by":"publisher","first-page":"134","DOI":"10.1016\/j.ymben.2021.11.010","volume":"69","author":"L Wei","year":"2022","unstructured":"Wei L, Zhao J, Wang Y, Gao J, Du M, Zhang Y, Xu N, Du H, Ju J, Liu Q, Liu J (2022) Engineering of Corynebacterium glutamicum for high-level \u03b3-aminobutyric acid production from glycerol by dynamic metabolic control. Metab Eng 69:134\u2013146. https:\/\/doi.org\/10.1016\/j.ymben.2021.11.010","journal-title":"Metab Eng"},{"issue":"8","key":"5289_CR134","doi-asserted-by":"publisher","first-page":"2525","DOI":"10.1111\/1462-2920.12393","volume":"16","author":"J Werner","year":"2014","unstructured":"Werner J, Ferrer M, Michel G, Mann AJ, Huang S, Juarez S, Ciordia S, Albar JP, Alcaide M, Cono L, Yakimov V, Antunes MM, Taborda A, da Costa M, Hai MS, Gl\u00f6ckner T, Golyshina FO, Golyshin OV, P. N., Teeling H (2014) Halorhabdus tiamatea: proteogenomics and glycosidase activity measurements identify the first cultivated euryarchaeon from a deep-sea anoxic brine lake as potential polysaccharide degrader. Environ Microbiol 16(8):2525\u20132537. https:\/\/doi.org\/10.1111\/1462-2920.12393","journal-title":"Environ Microbiol"},{"issue":"11","key":"5289_CR135","doi-asserted-by":"publisher","first-page":"2702","DOI":"10.1038\/ismej.2016.53","volume":"10","author":"KC Wrighton","year":"2016","unstructured":"Wrighton KC, Castelle CJ, Varaljay VA, Satagopan S, Brown CT, Wilkins MJ, Thomas BC, Sharon I, Williams KH, Tabita FR, Banfield JF (2016) RubisCO of a nucleoside pathway known from Archaea is found in diverse uncultivated phyla in bacteria. ISME J 10(11):2702\u20132714. https:\/\/doi.org\/10.1038\/ismej.2016.53","journal-title":"ISME J"},{"issue":"9","key":"5289_CR136","doi-asserted-by":"publisher","first-page":"2165","DOI":"10.1007\/s00726-014-1768-1","volume":"46","author":"J Xu","year":"2014","unstructured":"Xu J, Han M, Zhang J, Guo Y, Zhang W (2014) Metabolic engineering Corynebacterium glutamicum for the L-lysine production by increasing the flux into L-lysine biosynthetic pathway. Amino Acids 46(9):2165\u20132175. https:\/\/doi.org\/10.1007\/s00726-014-1768-1","journal-title":"Amino Acids"},{"key":"5289_CR137","doi-asserted-by":"publisher","first-page":"131806","DOI":"10.1016\/j.biortech.2024.131806","volume":"416","author":"S Yook","year":"2025","unstructured":"Yook S, Deewan A, Ziolkowski L, Lane S, Tohidifar P, Cheng MH, Singh V, Stasiewicz MJ, Rao CV, Jin YS (2025) Engineering and evolution of Yarrowia lipolytica for producing lipids from lignocellulosic hydrolysates. Bioresour Technol 416:131806. https:\/\/doi.org\/10.1016\/j.biortech.2024.131806","journal-title":"Bioresour Technol"},{"key":"5289_CR138","doi-asserted-by":"publisher","unstructured":"Zannini E, Bravo N\u00fa\u00f1ez \u00c1, Sahin AW, Arendt EK (2022) Arabinoxylans as Funct Food Ingredients: Rev Foods 11(7). https:\/\/doi.org\/10.3390\/foods11071026","DOI":"10.3390\/foods11071026"},{"issue":"7637","key":"5289_CR139","doi-asserted-by":"publisher","first-page":"353","DOI":"10.1038\/nature21031","volume":"541","author":"K Zaremba-Niedzwiedzka","year":"2017","unstructured":"Zaremba-Niedzwiedzka K, Caceres EF, Saw JH, B\u00e4ckstr\u00f6m D, Juzokaite L, Vancaester E, Seitz KW, Anantharaman K, Starnawski P, Kjeldsen KU, Stott MB, Nunoura T, Banfield JF, Schramm A, Baker BJ, Spang A, Ettema TJ (2017) Asgard archaea illuminate the origin of eukaryotic cellular complexity. Nature 541(7637):353\u2013358. https:\/\/doi.org\/10.1038\/nature21031","journal-title":"Nature"},{"issue":"7","key":"5289_CR140","doi-asserted-by":"publisher","first-page":"e0159298","DOI":"10.1371\/journal.pone.0159298","volume":"11","author":"B Zhang","year":"2016","unstructured":"Zhang B, Li XL, Fu J, Li N, Wang Z, Tang YJ, Chen T (2016) Production of Acetoin through Simultaneous Utilization of Glucose, Xylose, and Arabinose by Engineered Bacillus subtilis. PLoS ONE 11(7):e0159298. https:\/\/doi.org\/10.1371\/journal.pone.0159298","journal-title":"PLoS ONE"},{"key":"5289_CR141","doi-asserted-by":"publisher","unstructured":"Zhang C, Wipfler RL, Li Y, Wang Z, Hallett EN, Whitaker RJ (2019a) Cell structure changes in the hyperthermophilic crenarchaeon Sulfolobus islandicus lacking the S-layer. mBio 10(4). https:\/\/doi.org\/10.1128\/mBio.01589-19","DOI":"10.1128\/mBio.01589-19"},{"issue":"6","key":"5289_CR142","doi-asserted-by":"publisher","first-page":"e1800497","DOI":"10.1002\/biot.201800497","volume":"14","author":"X Zhang","year":"2019","unstructured":"Zhang X, Lai L, Xu G, Zhang X, Shi J, Koffas MAG, Xu Z (2019b) Rewiring the Central Metabolic Pathway for High-Yield l-Serine Production in Corynebacterium glutamicum by Using Glucose. Biotechnol J 14(6):e1800497. https:\/\/doi.org\/10.1002\/biot.201800497","journal-title":"Biotechnol J"},{"issue":"6","key":"5289_CR143","doi-asserted-by":"publisher","first-page":"925","DOI":"10.1007\/s10529-024-03535-7","volume":"46","author":"XY Zhang","year":"2024","unstructured":"Zhang XY, Zhao XM, Shi XY, Mei YJ, Ren XJ, Zhao XH (2024) Research progress in the biosynthesis of xylitol: feedstock evolution from xylose to glucose. Biotechnol Lett 46(6):925\u2013943. https:\/\/doi.org\/10.1007\/s10529-024-03535-7","journal-title":"Biotechnol Lett"},{"issue":"49","key":"5289_CR145","doi-asserted-by":"publisher","first-page":"27326","DOI":"10.1021\/acs.jafc.4c08879","volume":"72","author":"J Zhao","year":"2024","unstructured":"Zhao J, Wang J, Wang J, Nie M, Mao Y, Chen Z, Ma Z, Zhang K (2024a) Evolving Nonphosphorylative Metabolism for Improving Production of 2-Oxoglutarate Derivatives. J Agric Food Chem 72(49):27326\u201327333. https:\/\/doi.org\/10.1021\/acs.jafc.4c08879","journal-title":"J Agric Food Chem"},{"key":"5289_CR146","doi-asserted-by":"publisher","first-page":"1364355","DOI":"10.3389\/fmicb.2024.1364355","volume":"15","author":"M Zhao","year":"2024","unstructured":"Zhao M, Sun Y, Dong M, Zhang K, Zhang J, Qin X, Yao Y (2024b) Hexose\/pentose ratio in rhizosphere exudates-mediated soil eutrophic\/oligotrophic bacteria regulates the growth pattern of host plant in young apple-aromatic plant intercropping systems. Front Microbiol 15:1364355. https:\/\/doi.org\/10.3389\/fmicb.2024.1364355","journal-title":"Front Microbiol"},{"key":"5289_CR144","doi-asserted-by":"publisher","first-page":"21","DOI":"10.1186\/s13068-020-1662-x","volume":"13","author":"Z Zhao","year":"2020","unstructured":"Zhao Z, Xian M, Liu M, Zhao G (2020) Biochemical routes for uptake and conversion of xylose by microorganisms. Biotechnol Biofuels 13:21. https:\/\/doi.org\/10.1186\/s13068-020-1662-x","journal-title":"Biotechnol Biofuels"},{"issue":"1","key":"5289_CR147","doi-asserted-by":"publisher","first-page":"5477","DOI":"10.1038\/s41467-019-13443-4","volume":"10","author":"Q Zhu","year":"2019","unstructured":"Zhu Q, Mai U, Pfeiffer W, Janssen S, Asnicar F, Sanders JG, Belda-Ferre P, Al-Ghalith GA, Kopylova E, McDonald D, Kosciolek T, Yin JB, Huang S, Salam N, Jiao JY, Wu Z, Xu ZZ, Cantrell K, Yang Y, Knight R (2019) Phylogenomics of 10,575 genomes reveals evolutionary proximity between domains Bacteria and Archaea. Nat Commun 10(1):5477. https:\/\/doi.org\/10.1038\/s41467-019-13443-4","journal-title":"Nat Commun"},{"key":"5289_CR148","doi-asserted-by":"publisher","first-page":"639595","DOI":"10.3389\/fbioe.2021.639595","volume":"9","author":"Y Zhu","year":"2021","unstructured":"Zhu Y, Zhang J, Zhu L, Jia Z, Li Q, Xiao W, Cao L (2021) Minimize the Xylitol Production in Saccharomyces cerevisiae by Balancing the Xylose Redox Metabolic Pathway. Front Bioeng Biotechnol 9:639595. https:\/\/doi.org\/10.3389\/fbioe.2021.639595","journal-title":"Front Bioeng Biotechnol"}],"container-title":["World Journal of Microbiology and Biotechnology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/s11274-026-05289-y.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/article\/10.1007\/s11274-026-05289-y","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/s11274-026-05289-y.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,10,29]],"date-time":"2026-10-29T14:44:26Z","timestamp":1793285066000},"score":1,"resource":{"primary":{"URL":"https:\/\/link.springer.com\/article\/10.1007\/s11274-026-05289-y"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,10,1]]},"references-count":148,"journal-issue":{"issue":"10","published-online":{"date-parts":[[2026,10]]}},"alternative-id":["5289"],"URL":"https:\/\/doi.org\/10.1007\/s11274-026-05289-y","relation":{},"ISSN":["1573-0972"],"issn-type":[{"value":"1573-0972","type":"electronic"}],"subject":[],"published":{"date-parts":[[2026,10,1]]},"assertion":[{"value":"11 August 2026","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"18 September 2026","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"1 October 2026","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"The authors declare no competing interests.","order":1,"name":"Ethics","label":"Competing interests","group":{"name":"EthicsHeading","label":"Declarations"}}],"article-number":"566"}}