{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,6,3]],"date-time":"2026-06-03T11:05:41Z","timestamp":1780484741358,"version":"3.54.1"},"reference-count":84,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2025,12,19]],"date-time":"2025-12-19T00:00:00Z","timestamp":1766102400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.springernature.com\/gp\/researchers\/text-and-data-mining"},{"start":{"date-parts":[[2025,12,19]],"date-time":"2025-12-19T00:00:00Z","timestamp":1766102400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/www.springernature.com\/gp\/researchers\/text-and-data-mining"}],"funder":[{"name":"United States Department of Energy Office of Science, Office of Biological and Environmental Research","award":["DE-SC0021137"],"award-info":[{"award-number":["DE-SC0021137"]}]}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["Antonie van Leeuwenhoek"],"published-print":{"date-parts":[[2026,1]]},"DOI":"10.1007\/s10482-025-02214-5","type":"journal-article","created":{"date-parts":[[2025,12,19]],"date-time":"2025-12-19T12:26:17Z","timestamp":1766147177000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":1,"title":["Sphingobium salicis sp. nov., a novel endophyte with two subspecies from pioneer plants growing on primary substrates"],"prefix":"10.1007","volume":"119","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-9526-6183","authenticated-orcid":false,"given":"Robert J.","family":"Tournay","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3403-9360","authenticated-orcid":false,"given":"John L.","family":"Freeman","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0004-7505-2638","authenticated-orcid":false,"given":"Misha","family":"Levish","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0009-0760-6455","authenticated-orcid":false,"given":"Douglas","family":"Baker","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5768-3170","authenticated-orcid":false,"given":"Andrea","family":"Firrincieli","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9546-315X","authenticated-orcid":false,"given":"Sharon L.","family":"Doty","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2025,12,19]]},"reference":[{"key":"2214_CR1","doi-asserted-by":"publisher","first-page":"341","DOI":"10.1007\/s42398-018-00030-4","volume":"1","author":"S Ali","year":"2018","unstructured":"Ali S, Isaacson J, Kroner Y, Saldias S, Kandasamy S, Lazarovits G (2018) Corn sap bacterial endophytes and their potential in plant growth-promotion. Environ Sustain 1:341\u2013355. https:\/\/doi.org\/10.1007\/s42398-018-00030-4","journal-title":"Environ Sustain"},{"key":"2214_CR2","doi-asserted-by":"publisher","first-page":"2251","DOI":"10.1093\/bioinformatics\/btz859","volume":"36","author":"T Aramaki","year":"2020","unstructured":"Aramaki T, Blanc-Mathieu R, Endo H, Ohkubo K, Kanehisa M, Goto S, Ogata H (2020) KofamKOALA: KEGG ortholog assignment based on profile HMM and adaptive score threshold. Bioinformatics 36:2251\u20132252. https:\/\/doi.org\/10.1093\/bioinformatics\/btz859","journal-title":"Bioinformatics"},{"key":"2214_CR3","doi-asserted-by":"publisher","first-page":"1","DOI":"10.29321\/MAJ.2019.000249","volume":"106","author":"R Arunthavasu","year":"2019","unstructured":"Arunthavasu R, Thangavel K, Uthandi S (2019) Impact of drought-tolerant rice apoplastic fluid endophyte (Sphingobium yanoikuyae MH394206) on the morphological and physiological characteristics of rice (CO51) grown in moisture deficit condition. Madras Agric J 106:1\u20135. https:\/\/doi.org\/10.29321\/MAJ.2019.000249","journal-title":"Madras Agric J"},{"key":"2214_CR4","doi-asserted-by":"publisher","DOI":"10.1101\/2025.06.02.657501","author":"J Aufrecht","year":"2025","unstructured":"Aufrecht J, Velickovic D, Tournay R, Couvillion S, Balasubramanian V, Winkler T, Herrera D, Stanley R, Doty SL, Ahkami AH (2025) Endophytes induce systemic spatial reprogramming of metabolism in poplar roots under drought. bioRxiv. https:\/\/doi.org\/10.1101\/2025.06.02.657501","journal-title":"bioRxiv"},{"key":"2214_CR5","doi-asserted-by":"publisher","first-page":"3724","DOI":"10.1128\/AEM.00518-13","volume":"79","author":"FO Aylward","year":"2013","unstructured":"Aylward FO, McDonald BR, Adams SM, Valenzuela A, Schmidt RA, Goodwin LA, Woyke T, Currie CR, Suen G, Poulsen M (2013) Comparison of 26 Sphingomonad genomes reveals diverse environmental adaptations and biodegradative capabilities. Appl Environ Microbiol 79:3724\u20133733. https:\/\/doi.org\/10.1128\/AEM.00518-13","journal-title":"Appl Environ Microbiol"},{"key":"2214_CR6","doi-asserted-by":"publisher","first-page":"666","DOI":"10.1111\/j.1365-3040.2009.01926.x","volume":"32","author":"DV Badri","year":"2009","unstructured":"Badri DV, Vivanco JM (2009) Regulation and function of root exudates. Plant Cell Environ 32:666\u2013681. https:\/\/doi.org\/10.1111\/j.1365-3040.2009.01926.x","journal-title":"Plant Cell Environ"},{"key":"2214_CR7","doi-asserted-by":"publisher","first-page":"455","DOI":"10.1089\/cmb.2012.0021","volume":"19","author":"A Bankevich","year":"2012","unstructured":"Bankevich A, Nurk S, Antipov D, Gurevich AA, Dvorkin M, Kulikov AS, Lesin VM, Nikolenko SI, Pham S, Prjibelski AD, Pyshkin AV, Sirotkin AV, Vyahhi N, Tesler G, Alekseyev MA, Pevzner PA (2012) SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. J Comput Biol 19:455\u2013477. https:\/\/doi.org\/10.1089\/cmb.2012.0021","journal-title":"J Comput Biol"},{"key":"2214_CR8","doi-asserted-by":"publisher","first-page":"40","DOI":"10.1186\/s40643-019-0276-2","volume":"6","author":"N Bhardwaj","year":"2019","unstructured":"Bhardwaj N, Kumar B, Verma P (2019) A detailed overview of xylanases: an emerging biomolecule for current and future prospective. Bioresour Bioprocess 6:40. https:\/\/doi.org\/10.1186\/s40643-019-0276-2","journal-title":"Bioresour Bioprocess"},{"key":"2214_CR9","doi-asserted-by":"publisher","first-page":"911","DOI":"10.1139\/o59-099","volume":"17","author":"EG Bligh","year":"1959","unstructured":"Bligh EG, Dyer WJ (1959) A rapid method of total lipid extraction and purification. Can J Biochem Physiol 17:911\u2013917. https:\/\/doi.org\/10.1139\/o59-099","journal-title":"Can J Biochem Physiol"},{"key":"2214_CR10","doi-asserted-by":"publisher","DOI":"10.1186\/s12864-022-08738-8","volume":"23","author":"BL Boss","year":"2022","unstructured":"Boss BL, Wanees AE, Zaslow SJ, Normile TG, Izquierdo JA (2022) Comparative genomics of the plant-growth-promoting bacterium Sphingobium sp. strain AEW4 isolated from the rhizosphere of the beachgrass Ammophila breviligulata. BMC Genomics 23:508. https:\/\/doi.org\/10.1186\/s12864-022-08738-8","journal-title":"BMC Genomics"},{"key":"2214_CR11","doi-asserted-by":"publisher","first-page":"8365","DOI":"10.1038\/srep08365","volume":"5","author":"T Brettin","year":"2015","unstructured":"Brettin T, Davis JJ, Disz T, Edwards RA, Gerdes S, Olsen GJ, Olson R, Overbeek R, Parrello B, Pusch GD, Shukla M, Thomason JA, Stevens R, Vonstein V, Wattam AR, Xia F (2015) RASTtk: a modular and extensible implementation of the RAST algorithm for building custom annotation pipelines and annotating batches of genomes. Sci Rep 5:8365. https:\/\/doi.org\/10.1038\/srep08365","journal-title":"Sci Rep"},{"key":"2214_CR12","doi-asserted-by":"publisher","first-page":"384","DOI":"10.1016\/0076-6879(91)04019-8","volume":"204","author":"GA Cangelosi","year":"1991","unstructured":"Cangelosi GA, Abest E, Martinetti G, Nester EW (1991) Genetic analysis of Agrobacterium. Methods Enzymol 204:384\u2013397. https:\/\/doi.org\/10.1016\/0076-6879(91)04019-8","journal-title":"Methods Enzymol"},{"key":"2214_CR13","doi-asserted-by":"publisher","DOI":"10.1099\/ijsem.0.006421","volume":"74","author":"M Chalita","year":"2024","unstructured":"Chalita M, Kim YO, Park S, Oh H-S, Cho JH, Moon J, Baek N, Moon C, Lee K, Yang J, Nam GG, Jung Y, Na S-I, Bailey MJ, Chun J (2024) EzBioCloud: a genome-driven database and platform for microbiome identification and discovery. Int J Syst Evol Microbiol 74:006421. https:\/\/doi.org\/10.1099\/ijsem.0.006421","journal-title":"Int J Syst Evol Microbiol"},{"key":"2214_CR14","doi-asserted-by":"publisher","first-page":"5315","DOI":"10.1093\/bioinformatics\/btac672","volume":"38","author":"P-A Chaumeil","year":"2022","unstructured":"Chaumeil P-A, Mussig AJ, Hugenholtz P, Parks DH (2022) GTDB-Tk v2: memory friendly classification with the genome taxonomy database. Bioinformatics 38:5315\u20135316. https:\/\/doi.org\/10.1093\/bioinformatics\/btac672","journal-title":"Bioinformatics"},{"key":"2214_CR15","doi-asserted-by":"publisher","first-page":"1685","DOI":"10.1128\/AEM.71.4.1685-1693.2005","volume":"71","author":"S Compant","year":"2005","unstructured":"Compant S, Reiter B, Sessitsch A, Nowak J, Cl\u00e9ment C, Ait Barka E (2005) Endophytic colonization of Vitis vinifera L. by plant growth-promoting bacterium Burkholderia sp. strain PsJN. Appl Environ Microbiol 71:1685\u20131693. https:\/\/doi.org\/10.1128\/AEM.71.4.1685-1693.2005","journal-title":"Appl Environ Microbiol"},{"key":"2214_CR16","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0077302","volume":"8","author":"S Cosentino","year":"2013","unstructured":"Cosentino S, Larsen MV, Aarestrup FM, Lund O (2013) PathogenFinder: distinguishing friend from foe using bacterial whole genome sequence data. PLoS ONE 8:e77302. https:\/\/doi.org\/10.1371\/journal.pone.0077302","journal-title":"PLoS ONE"},{"key":"2214_CR17","doi-asserted-by":"publisher","first-page":"118","DOI":"10.3389\/fmicb.2016.00118","volume":"7","author":"JJ Davis","year":"2016","unstructured":"Davis JJ, Gerdes S, Olsen GJ, Olson R, Pusch GD, Shukla M, Vonstein V, Wattam AR, Yoo H (2016) PATtyFams: protein families for the microbial genomes in the PATRIC database. Front Microbiol 7:118. https:\/\/doi.org\/10.3389\/fmicb.2016.00118","journal-title":"Front Microbiol"},{"key":"2214_CR18","doi-asserted-by":"publisher","first-page":"939","DOI":"10.1128\/MMBR.00024-06","volume":"70","author":"J Deutscher","year":"2006","unstructured":"Deutscher J, Francke C, Postma PW (2006) How phosphotransferase system-related protein phosphorylation regulates carbohydrate metabolism in bacteria. Microbiol Mol Biol Rev 70:939\u20131031. https:\/\/doi.org\/10.1128\/MMBR.00024-06","journal-title":"Microbiol Mol Biol Rev"},{"key":"2214_CR19","first-page":"27","volume":"39","author":"SL Doty","year":"2005","unstructured":"Doty SL, Dosher MR, Singleton GL, Moore AL, Van Aken B, Stettler RF, Strand SE, Gordon MP (2005) Identification of an endophytic Rhizobium in stems of Populus. Symbiosis 39:27\u201335","journal-title":"Symbiosis"},{"key":"2214_CR20","doi-asserted-by":"publisher","first-page":"23","DOI":"10.1007\/BF03179967","volume":"47","author":"SL Doty","year":"2009","unstructured":"Doty SL, Oakley B, Xin G, Kang JW, Singleton G, Khan Z, Vajzovic A, Staley JT (2009) Diazotrophic endophytes of native black cottonwood and willow. Symbiosis 47:23\u201333. https:\/\/doi.org\/10.1007\/BF03179967","journal-title":"Symbiosis"},{"key":"2214_CR21","doi-asserted-by":"publisher","DOI":"10.3390\/pathogens12010013","volume":"12","author":"SL Doty","year":"2023","unstructured":"Doty SL, Joubert PM, Firrincieli A, Sher AW, Tournay R, Kill C, Parikh SS, Okubara P (2023) Potential biocontrol activities of Populus endophytes against several plant pathogens using different inhibitory mechanisms. Pathogens 12:13. https:\/\/doi.org\/10.3390\/pathogens12010013","journal-title":"Pathogens"},{"key":"2214_CR22","doi-asserted-by":"publisher","first-page":"151","DOI":"10.2436\/20.1501.01.55","volume":"11","author":"N Empadinhas","year":"2008","unstructured":"Empadinhas N, da Costa MS (2008) Osmoadaptation mechanisms in prokaryotes: distribution of compatible solutes. Int Microbiol 11:151\u2013161. https:\/\/doi.org\/10.2436\/20.1501.01.55","journal-title":"Int Microbiol"},{"key":"2214_CR23","doi-asserted-by":"publisher","first-page":"88","DOI":"10.1007\/s10482-025-02100-0","volume":"118","author":"TG Ercole","year":"2025","unstructured":"Ercole TG, Bonotto DR, Hungria M, Kava VM, Galli LV (2025) The role of endophytic bacteria in enhancing plant growth and health for sustainable agriculture. Antonie Van Leeuwenhoek 118:88. https:\/\/doi.org\/10.1007\/s10482-025-02100-0","journal-title":"Antonie Van Leeuwenhoek"},{"key":"2214_CR24","doi-asserted-by":"publisher","first-page":"2461","DOI":"10.1128\/AEM.02272-07","volume":"74","author":"JA Frank","year":"2008","unstructured":"Frank JA, Reich CI, Sharma S, Weisbaum JS, Wilson BA, Olsen GJ (2008) Critical evaluation of two primers commonly used for amplification of bacterial 16S rRNA genes. Appl Environ Microbiol 74:2461\u20132470. https:\/\/doi.org\/10.1128\/AEM.02272-07","journal-title":"Appl Environ Microbiol"},{"key":"2214_CR25","doi-asserted-by":"publisher","first-page":"295","DOI":"10.1126\/science.1098377","volume":"189","author":"DT Gibson","year":"1975","unstructured":"Gibson DT, Mahadevan V, Jerina DM, Yagi H, Yeh HJC (1975) Oxidation of the carcinogens benzo[a]pyrene and benzo[a]anthracene to dihydrodiols by a bacterium. Science 189:295\u2013297. https:\/\/doi.org\/10.1126\/science.1098377","journal-title":"Science"},{"key":"2214_CR26","doi-asserted-by":"publisher","first-page":"237","DOI":"10.1016\/j.syapm.2015.03.007","volume":"38","author":"SP Glaeser","year":"2015","unstructured":"Glaeser SP, K\u00e4mpfer P (2015) Multilocus sequence analysis (MLSA) in prokaryotic taxonomy. Syst Appl Microbiol 38:237\u2013245. https:\/\/doi.org\/10.1016\/j.syapm.2015.03.007","journal-title":"Syst Appl Microbiol"},{"key":"2214_CR27","doi-asserted-by":"publisher","first-page":"293","DOI":"10.1128\/MMBR.00050-14","volume":"79","author":"PR Hardoim","year":"2015","unstructured":"Hardoim PR, van Overbeek LS, Berg G, Pirttil\u00e4 AM, Compant S, Campisano A, D\u00f6ring M, Sessitsch A (2015) The hidden world within plants: ecological and evolutionary considerations for defining functioning of microbial endophytes. Microbiol Mol Biol Rev 79:293\u2013320. https:\/\/doi.org\/10.1128\/MMBR.00050-14","journal-title":"Microbiol Mol Biol Rev"},{"key":"2214_CR28","doi-asserted-by":"publisher","first-page":"553","DOI":"10.1146\/annurev.micro.50.1.553","volume":"50","author":"CS Harwood","year":"1996","unstructured":"Harwood CS, Parales RE (1996) The beta-ketoadipate pathway and the biology of self-identity. Annu Rev Microbiol 50:553\u2013590. https:\/\/doi.org\/10.1146\/annurev.micro.50.1.553","journal-title":"Annu Rev Microbiol"},{"key":"2214_CR29","doi-asserted-by":"publisher","first-page":"2612","DOI":"10.1128\/jcm.27.11.2612-2615.1989","volume":"27","author":"ME Heimbrook","year":"1989","unstructured":"Heimbrook ME, Wang WL, Campbell G (1989) Staining bacterial flagella easily. J Clin Microbiol 27:2612\u20132615. https:\/\/doi.org\/10.1128\/jcm.27.11.2612-2615.1989","journal-title":"J Clin Microbiol"},{"issue":"Pt 1","key":"2214_CR30","doi-asserted-by":"publisher","first-page":"113","DOI":"10.1042\/bj3090113","volume":"309","author":"L Hernandez","year":"1995","unstructured":"Hernandez L, Arrieta J, Menendez C, Vazquez R, Coego A, Suarez V, Selman G, Petit-Glatron MF, Chambert R (1995) Isolation and enzymic properties of levansucrase secreted by Acetobacter diazotrophicus SRT4, a bacterium associated with sugar cane. Biochem J 309(Pt 1):113\u2013118. https:\/\/doi.org\/10.1042\/bj3090113","journal-title":"Biochem J"},{"key":"2214_CR31","doi-asserted-by":"publisher","first-page":"443","DOI":"10.1038\/nrmicro3032","volume":"11","author":"JA Imlay","year":"2013","unstructured":"Imlay JA (2013) The molecular mechanisms and physiological consequences of oxidative stress: lessons from a model bacterium. Nat Rev Microbiol 11:443\u2013454. https:\/\/doi.org\/10.1038\/nrmicro3032","journal-title":"Nat Rev Microbiol"},{"key":"2214_CR32","doi-asserted-by":"publisher","first-page":"3793","DOI":"10.3390\/ijms10093793","volume":"10","author":"G Iturriaga","year":"2009","unstructured":"Iturriaga G, Su\u00e1rez R, Nova-Franco B (2009) Trehalose metabolism: from osmoprotection to signaling. Int J Mol Sci 10:3793\u20133810. https:\/\/doi.org\/10.3390\/ijms10093793","journal-title":"Int J Mol Sci"},{"key":"2214_CR33","doi-asserted-by":"publisher","first-page":"1501","DOI":"10.1128\/JCM.03617-13","volume":"52","author":"KG Joensen","year":"2014","unstructured":"Joensen KG, Scheutz F, Lund O, Hasman H, Kaas RS, Nielsen EM, Aarestrup FM (2014) Real-time whole-genome sequencing for routine typing, surveillance, and outbreak detection of verotoxigenic Escherichia coli. J Clin Microbiol 52:1501\u20131510. https:\/\/doi.org\/10.1128\/JCM.03617-13","journal-title":"J Clin Microbiol"},{"key":"2214_CR34","doi-asserted-by":"publisher","first-page":"25","DOI":"10.1023\/A:1004356007312","volume":"205","author":"DL Jones","year":"1998","unstructured":"Jones DL (1998) Organic acids in the rhizosphere \u2013 a critical review. Plant Soil 205:25\u201344. https:\/\/doi.org\/10.1023\/A:1004356007312","journal-title":"Plant Soil"},{"key":"2214_CR35","doi-asserted-by":"publisher","first-page":"1890","DOI":"10.3390\/agriculture12111890","volume":"12","author":"Y-T Jou","year":"2022","unstructured":"Jou Y-T, Tarigan EJ, Prayogo C, Kobua CK, Weng Y-T, Wang Y-M (2022) Effects of Sphingobium yanoikuyae SJTF8 on rice (Oryza sativa) seed germination and root development. Agriculture 12:1890. https:\/\/doi.org\/10.3390\/agriculture12111890","journal-title":"Agriculture"},{"key":"2214_CR36","doi-asserted-by":"publisher","first-page":"81","DOI":"10.1007\/s12010-014-1042-8","volume":"174","author":"V Juturu","year":"2014","unstructured":"Juturu V, Wu JC (2014) Microbial exo-xylanases: a mini review. Appl Biochem Biotechnol 174:81\u201392. https:\/\/doi.org\/10.1007\/s12010-014-1042-8","journal-title":"Appl Biochem Biotechnol"},{"key":"2214_CR37","doi-asserted-by":"publisher","first-page":"466","DOI":"10.1099\/00207713-46-2-466","volume":"46","author":"AA Khan","year":"1996","unstructured":"Khan AA, Wang RF, Cao WW, Franklin W, Cerniglia CE (1996) Reclassification of a polycyclic aromatic hydrocarbon-metabolizing bacterium, Beijerinckia sp. strain B1, as Sphingomonas yanoikuyae by fatty acid analysis, protein pattern analysis, DNA-DNA hybridization, and 16S ribosomal DNA sequencing. Int J Syst Evol Microbiol 46:466\u2013469. https:\/\/doi.org\/10.1099\/00207713-46-2-466","journal-title":"Int J Syst Evol Microbiol"},{"key":"2214_CR38","doi-asserted-by":"publisher","first-page":"111","DOI":"10.1007\/BF01731581","volume":"16","author":"M Kimura","year":"1980","unstructured":"Kimura M (1980) A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16:111\u2013120. https:\/\/doi.org\/10.1007\/BF01731581","journal-title":"J Mol Evol"},{"key":"2214_CR39","doi-asserted-by":"publisher","DOI":"10.1128\/mSystems.00267-20","volume":"5","author":"AM Kloosterman","year":"2020","unstructured":"Kloosterman AM, Shelton KE, van Wezel GP, Medema MH, Mitchell DA (2020) RRE-finder: a genome-mining tool for class-independent RiPP discovery. mSystems 5:e00267-20. https:\/\/doi.org\/10.1128\/mSystems.00267-20","journal-title":"mSystems"},{"key":"2214_CR40","doi-asserted-by":"publisher","first-page":"215","DOI":"10.1016\/S1161-0301(02)00035-7","volume":"19","author":"U Knauff","year":"2003","unstructured":"Knauff U, Schulz M, Scherer HW (2003) Arylsulfatase activity in the rhizosphere and roots of different crop species. Eur J Agron 19:215\u2013223. https:\/\/doi.org\/10.1016\/S1161-0301(02)00035-7","journal-title":"Eur J Agron"},{"key":"2214_CR41","doi-asserted-by":"publisher","DOI":"10.1093\/molbev\/msae263","volume":"41","author":"S Kumar","year":"2024","unstructured":"Kumar S, Stecher G, Suleski M, Sanderford M, Sharma S, Tamura K (2024) MEGA12: molecular evolutionary genetic analysis version 12 for adaptive and green computing. Mol Biol Evol 41:msae263. https:\/\/doi.org\/10.1093\/molbev\/msae263","journal-title":"Mol Biol Evol"},{"key":"2214_CR42","first-page":"1","volume":"3","author":"C Kunitsky","year":"2006","unstructured":"Kunitsky C, Osterhout G, Sasser M (2006) Identification of microorganisms using fatty acid methyl ester (FAME) analysis and the MIDI Sherlock microbial identification system. MIDI Tech Note 3:1\u201318","journal-title":"MIDI Tech Note"},{"key":"2214_CR43","doi-asserted-by":"publisher","first-page":"947","DOI":"10.3390\/microorganisms13040947","volume":"13","author":"J Ma","year":"2025","unstructured":"Ma J, Peng Q, Chen S, Liu Z, Zhang W, Zhang C, Du X, Sun S, Peng W, Lei Z, Zhang L, Su P, Zhang D, Liu Y (2025) Microbiome migration from soil to leaves in maize and rice. Microorganisms 13:947. https:\/\/doi.org\/10.3390\/microorganisms13040947","journal-title":"Microorganisms"},{"key":"2214_CR44","doi-asserted-by":"publisher","first-page":"538","DOI":"10.1186\/1471-2105-11-538","volume":"11","author":"FA Matsen","year":"2010","unstructured":"Matsen FA, Kodner RB, Armbrust EV (2010) pplacer: linear time maximum-likelihood and Bayesian phylogenetic placement of sequences onto a fixed reference tree. BMC Bioinformatics 11:538. https:\/\/doi.org\/10.1186\/1471-2105-11-538","journal-title":"BMC Bioinformatics"},{"key":"2214_CR45","doi-asserted-by":"publisher","first-page":"2182","DOI":"10.1038\/s41467-019-10210-3","volume":"10","author":"JP Meier-Kolthoff","year":"2019","unstructured":"Meier-Kolthoff JP, G\u00f6ker M (2019) TYGS is an automated high-throughput platform for state-of-the-art genome-based taxonomy. Nat Commun 10:2182. https:\/\/doi.org\/10.1038\/s41467-019-10210-3","journal-title":"Nat Commun"},{"key":"2214_CR46","doi-asserted-by":"publisher","DOI":"10.12688\/f1000research.25284.1","volume":"9","author":"M Mitra","year":"2020","unstructured":"Mitra M, Nguyen KM-A-K, Box TW, Gilpin JS, Hamby SR, Berry TL, Duckett EH (2020) Isolation and characterization of a novel Sphingobium yanoikuyae strain variant that uses biohazardous saturated hydrocarbons and aromatic compounds as sole carbon sources. F1000Res 9:767. https:\/\/doi.org\/10.12688\/f1000research.25284.1","journal-title":"F1000Res"},{"key":"2214_CR47","doi-asserted-by":"publisher","first-page":"268","DOI":"10.1093\/molbev\/msu300","volume":"32","author":"L-T Nguyen","year":"2015","unstructured":"Nguyen L-T, Schmidt HA, von Haeseler A, Minh BQ (2015) IQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies. Mol Biol Evol 32:268\u2013274. https:\/\/doi.org\/10.1093\/molbev\/msu300","journal-title":"Mol Biol Evol"},{"key":"2214_CR48","doi-asserted-by":"publisher","first-page":"D678","DOI":"10.1093\/nar\/gkac1003","volume":"51","author":"RD Olson","year":"2023","unstructured":"Olson RD, Assaf R, Brettin T, Conrad N, Cucinell C, Davis JJ, Dempsey DM, Dickerman A, Dietrich EM, Kenyon RW, Kuscuoglu M, Lefkowitz EJ, Lu J, Machi D, Macken C, Mao C, Niewiadomska A, Nguyen M, Olsen GJ, Overbeek JC, Parrello B, Parrello V, Porter JS, Pusch GD, Shukla M, Singh I, Stewart L, Tan G, Thomas C, VanOeffelen M, Vonstein V, Wallace ZS, Warren AS, Wattam AR, Xia F, Yoo H, Zhang Y, Zmasek CM, Scheuermann RH, Stevens RL (2023) Introducing the bacterial and viral bioinformatics resource center (BV-BRC): a resource combining PATRIC, IRD and ViPR. Nucleic Acids Res 51:D678\u2013D689. https:\/\/doi.org\/10.1093\/nar\/gkac1003","journal-title":"Nucleic Acids Res"},{"key":"2214_CR49","doi-asserted-by":"publisher","DOI":"10.1038\/s41522-024-00494-9","volume":"10","author":"A Oren","year":"2024","unstructured":"Oren A (2024) On validly published names, correct names, and changes in the nomenclature of phyla and genera of prokaryotes: a guide for the perplexed. NPJ Biofilms Microbiomes 10:4. https:\/\/doi.org\/10.1038\/s41522-024-00494-9","journal-title":"NPJ Biofilms Microbiomes"},{"key":"2214_CR50","doi-asserted-by":"publisher","first-page":"1043","DOI":"10.1101\/gr.186072.114","volume":"25","author":"DH Parks","year":"2015","unstructured":"Parks DH, Imelfort M, Skennerton CT, Hugenholtz P, Tyson GW (2015) CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes. Genome Res 25:1043\u20131055. https:\/\/doi.org\/10.1101\/gr.186072.114","journal-title":"Genome Res"},{"key":"2214_CR51","doi-asserted-by":"publisher","first-page":"D785","DOI":"10.1093\/nar\/gkab776","volume":"50","author":"DH Parks","year":"2022","unstructured":"Parks DH, Chuvochina M, Rinke C, Mussig AJ, Chaumeil P-A, Hugenholtz P (2022) GTDB: an ongoing census of bacterial and archaeal diversity through a phylogenetically consistent, rank normalized and complete genome-based taxonomy. Nucleic Acids Res 50:D785\u2013D794. https:\/\/doi.org\/10.1093\/nar\/gkab776","journal-title":"Nucleic Acids Res"},{"key":"2214_CR52","doi-asserted-by":"publisher","first-page":"5607","DOI":"10.1099\/ijsem.0.004332","volume":"70","author":"AC Parte","year":"2020","unstructured":"Parte AC, Sard\u00e0 Carbasse J, Meier-Kolthoff JP, Reimer LC, G\u00f6ker M (2020) List of prokaryotic names with standing in nomenclature (LPSN) moves to the DSMZ. Int J Syst Evol Microbiol 70:5607\u20135612. https:\/\/doi.org\/10.1099\/ijsem.0.004332","journal-title":"Int J Syst Evol Microbiol"},{"key":"2214_CR53","doi-asserted-by":"publisher","first-page":"1","DOI":"10.2323\/jgam.49.1","volume":"49","author":"O Pinyakong","year":"2003","unstructured":"Pinyakong O, Habe H, Omori T (2003) The unique aromatic catabolic genes in sphingomonads degrading polycyclic aromatic hydrocarbons (PAHs). J Gen Appl Microbiol 49:1\u201319. https:\/\/doi.org\/10.2323\/jgam.49.1","journal-title":"J Gen Appl Microbiol"},{"key":"2214_CR54","doi-asserted-by":"publisher","first-page":"3049","DOI":"10.1128\/AEM.04253-14","volume":"81","author":"P Piromyou","year":"2015","unstructured":"Piromyou P, Greetatorn T, Teamtisong K, Okubo T, Shinoda R, Nuntakij A, Tittabutr P, Boonkerd N, Minamisawa K, Teaumroong N (2015) Preferential association of endophytic Bradyrhizobia with different rice cultivars and its implications for rice endophyte evolution. Appl Environ Microbiol 81:3049\u20133061. https:\/\/doi.org\/10.1128\/AEM.04253-14","journal-title":"Appl Environ Microbiol"},{"key":"2214_CR55","doi-asserted-by":"publisher","first-page":"7784","DOI":"10.3390\/ijms23147784","volume":"23","author":"J Raman","year":"2022","unstructured":"Raman J, Kim J-S, Choi KR, Eun H, Yang D, Ko Y-J, Kim S-J (2022) Application of lactic acid bacteria (LAB) in sustainable agriculture: advantages and limitations. Int J Mol Sci 23:7784. https:\/\/doi.org\/10.3390\/ijms23147784","journal-title":"Int J Mol Sci"},{"key":"2214_CR56","doi-asserted-by":"publisher","first-page":"435","DOI":"10.1016\/j.pbi.2011.04.004","volume":"14","author":"B Reinhold-Hurek","year":"2011","unstructured":"Reinhold-Hurek B, Hurek T (2011) Living inside plants: bacterial endophytes. Curr Opin Plant Biol 14:435\u2013443. https:\/\/doi.org\/10.1016\/j.pbi.2011.04.004","journal-title":"Curr Opin Plant Biol"},{"key":"2214_CR57","doi-asserted-by":"publisher","first-page":"8","DOI":"10.1139\/m81-002","volume":"27","author":"RJ Rennie","year":"1981","unstructured":"Rennie RJ (1981) A single medium for the isolation of acetylene-reducing (dinitrogen-fixing) bacteria from soils. Can J Microbiol 27:8\u201314. https:\/\/doi.org\/10.1139\/m81-002","journal-title":"Can J Microbiol"},{"key":"2214_CR58","doi-asserted-by":"publisher","first-page":"188","DOI":"10.3389\/fpls.2018.00188","volume":"9","author":"H Rho","year":"2018","unstructured":"Rho H, Van Epps V, Wegley N, Doty SL, Kim S-H (2018) Salicaceae endophytes modulate stomatal behavior and increase water use efficiency in rice. Front Plant Sci 9:188. https:\/\/doi.org\/10.3389\/fpls.2018.00188","journal-title":"Front Plant Sci"},{"key":"2214_CR59","doi-asserted-by":"publisher","first-page":"699","DOI":"10.3390\/microorganisms8050699","volume":"8","author":"H Rho","year":"2020","unstructured":"Rho H, Van Epps V, Kim S-H, Doty SL (2020) Endophytes increased fruit quality with higher soluble sugar production in Honeycrisp apple (Malus pumila). Microorganisms 8:699. https:\/\/doi.org\/10.3390\/microorganisms8050699","journal-title":"Microorganisms"},{"key":"2214_CR60","doi-asserted-by":"publisher","first-page":"19126","DOI":"10.1073\/pnas.0906412106","volume":"106","author":"M Richter","year":"2009","unstructured":"Richter M, Rossell\u00f3-M\u00f3ra R (2009) Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci U S A 106:19126\u201319131. https:\/\/doi.org\/10.1073\/pnas.0906412106","journal-title":"Proc Natl Acad Sci U S A"},{"key":"2214_CR61","doi-asserted-by":"publisher","first-page":"929","DOI":"10.1093\/bioinformatics\/btv681","volume":"32","author":"M Richter","year":"2016","unstructured":"Richter M, Rossell\u00f3-M\u00f3ra R, Gl\u00f6ckner FO, Peplies J (2016) JSpeciesWS: a web server for prokaryotic species circumscription based on pairwise genome comparison. Bioinformatics 32:929\u2013931. https:\/\/doi.org\/10.1093\/bioinformatics\/btv681","journal-title":"Bioinformatics"},{"key":"2214_CR62","doi-asserted-by":"publisher","first-page":"2811","DOI":"10.3389\/fmicb.2019.02811","volume":"10","author":"AA Richter","year":"2019","unstructured":"Richter AA, Mais C-N, Czech L, Geyer K, Hoeppner A, Smits SHJ, Erb TJ, Bange G, Bremer E (2019) Biosynthesis of the stress-protectant and chemical chaperone ectoine: biochemistry of the transaminase EctB. Front Microbiol 10:2811. https:\/\/doi.org\/10.3389\/fmicb.2019.02811","journal-title":"Front Microbiol"},{"key":"2214_CR63","doi-asserted-by":"publisher","DOI":"10.1016\/j.apsoil.2019.103390","volume":"146","author":"CI Rinc\u00f3n-Molina","year":"2020","unstructured":"Rinc\u00f3n-Molina CI, Mart\u00ednez-Romero E, Ruiz-Valdiviezo VM, Vel\u00e1zquez E, Ruiz-Lau N, Rogel-Hern\u00e1ndez MA, Villalobos-Maldonado JJ, Rinc\u00f3n-Rosales R (2020) Plant growth-promoting potential of bacteria associated with pioneer plants from an active volcanic site of Chiapas (Mexico). Appl Soil Ecol 146:103390. https:\/\/doi.org\/10.1016\/j.apsoil.2019.103390","journal-title":"Appl Soil Ecol"},{"key":"2214_CR64","doi-asserted-by":"publisher","first-page":"278","DOI":"10.3390\/ijerph6010278","volume":"6","author":"J-S Seo","year":"2009","unstructured":"Seo J-S, Keum Y-S, Li QX (2009) Bacterial degradation of aromatic compounds. Int J Environ Res Public Health 6:278\u2013309. https:\/\/doi.org\/10.3390\/ijerph6010278","journal-title":"Int J Environ Res Public Health"},{"key":"2214_CR65","doi-asserted-by":"publisher","first-page":"132","DOI":"10.3390\/microorganisms7050132","volume":"7","author":"SP Shaik","year":"2019","unstructured":"Shaik SP, Thomas P (2019) In vitro activation of seed-transmitted cultivation-recalcitrant endophytic bacteria in tomato and host\u2013endophyte mutualism. Microorganisms 7:132. https:\/\/doi.org\/10.3390\/microorganisms7050132","journal-title":"Microorganisms"},{"key":"2214_CR66","doi-asserted-by":"publisher","DOI":"10.1093\/ismejo\/wrad012","volume":"18","author":"AW Sher","year":"2024","unstructured":"Sher AW, Aufrecht JA, Herrera D, Zimmerman AE, Kim Y-M, Munoz N, Trejo JB, Paurus VL, Cliff JB, Hu D, Chrisler WB, Tournay RJ, Gomez-Rivas E, Orr G, Ahkami AH, Doty SL (2024a) Dynamic nitrogen fixation in an aerobic endophyte of Populus. ISME J 18:wrad012. https:\/\/doi.org\/10.1093\/ismejo\/wrad012","journal-title":"ISME J"},{"key":"2214_CR67","doi-asserted-by":"publisher","DOI":"10.1093\/ismeco\/ycae158","volume":"4","author":"AW Sher","year":"2024","unstructured":"Sher AW, Tournay RJ, Gomez-Rivas E, Doty SL (2024b) Bacterial synergies amplify nitrogenase activity in diverse systems. ISME Commun 4:ycae158. https:\/\/doi.org\/10.1093\/ismeco\/ycae158","journal-title":"ISME Commun"},{"key":"2214_CR68","doi-asserted-by":"publisher","first-page":"66","DOI":"10.1016\/j.ejsobi.2011.07.014","volume":"48","author":"S Slezack-Deschaumes","year":"2012","unstructured":"Slezack-Deschaumes S, Piutti S, Vong P-C, Benizri E (2012) Dynamics of cultivable arylsulfatase-producing bacterial and fungal communities along the phenology of field-grown rape. Eur J Soil Biol 48:66\u201372. https:\/\/doi.org\/10.1016\/j.ejsobi.2011.07.014","journal-title":"Eur J Soil Biol"},{"key":"2214_CR69","doi-asserted-by":"publisher","first-page":"793","DOI":"10.1007\/s00253-008-1752-3","volume":"81","author":"A Stolz","year":"2009","unstructured":"Stolz A (2009) Molecular characteristics of xenobiotic-degrading sphingomonads. Appl Microbiol Biotechnol 81:793\u2013811. https:\/\/doi.org\/10.1007\/s00253-008-1752-3","journal-title":"Appl Microbiol Biotechnol"},{"key":"2214_CR70","doi-asserted-by":"publisher","first-page":"1405","DOI":"10.1099\/00207713-51-4-1405","volume":"51","author":"M Takeuchi","year":"2001","unstructured":"Takeuchi M, Hamana K, Hiraishi A (2001) Proposal of the genus Sphingomonas sensu stricto and three new genera, Sphingobium, Novosphingobium and Sphingopyxis, on the basis of phylogenetic and chemotaxonomic analyses. Int J Syst Evol Microbiol 51:1405\u20131417. https:\/\/doi.org\/10.1099\/00207713-51-4-1405","journal-title":"Int J Syst Evol Microbiol"},{"key":"2214_CR71","doi-asserted-by":"publisher","first-page":"232","DOI":"10.1021\/es201842h","volume":"46","author":"A T\u00e1ncsics","year":"2012","unstructured":"T\u00e1ncsics A, Szoboszlay S, Szab\u00f3 I, Farkas M, Kov\u00e1cs B, Kukolya J, Mayer Z, Kriszt B (2012) Quantification of subfamily I.2.C catechol 2,3-dioxygenase mRNA transcripts in groundwater samples of an oxygen-limited BTEX-contaminated site. Environ Sci Technol 46:232\u2013240. https:\/\/doi.org\/10.1021\/es201842h","journal-title":"Environ Sci Technol"},{"key":"2214_CR72","doi-asserted-by":"publisher","first-page":"249","DOI":"10.1099\/ijs.0.016949-0","volume":"60","author":"BJ Tindall","year":"2010","unstructured":"Tindall BJ, Rossell\u00f3-M\u00f3ra R, Busse H-J, Ludwig W, K\u00e4mpfer P (2010) Notes on the characterization of prokaryote strains for taxonomic purposes. Int J Syst Evol Microbiol 60:249\u2013266. https:\/\/doi.org\/10.1099\/ijs.0.016949-0","journal-title":"Int J Syst Evol Microbiol"},{"key":"2214_CR73","doi-asserted-by":"publisher","first-page":"1485","DOI":"10.1007\/s00253-013-5438-0","volume":"98","author":"M Toesch","year":"2014","unstructured":"Toesch M, Schober M, Faber K (2014) Microbial alkyl- and aryl-sulfatases: mechanism, occurrence, screening and stereoselectivities. Appl Microbiol Biotechnol 98:1485\u20131496. https:\/\/doi.org\/10.1007\/s00253-013-5438-0","journal-title":"Appl Microbiol Biotechnol"},{"key":"2214_CR74","doi-asserted-by":"publisher","DOI":"10.3389\/fpls.2020.567918","volume":"11","author":"T Varga","year":"2020","unstructured":"Varga T, Hixson KK, Ahkami AH, Sher AW, Barnes ME, Chu RK, Battu AK, Nicora CD, Winkler TE, Reno LR, Fakra SC, Antipova O, Parkinson DY, Hall JR, Doty SL (2020) Endophyte-promoted phosphorus solubilization in Populus. Front Plant Sci 11:567918. https:\/\/doi.org\/10.3389\/fpls.2020.567918","journal-title":"Front Plant Sci"},{"key":"2214_CR75","doi-asserted-by":"publisher","first-page":"6761","DOI":"10.1093\/nar\/gkv657","volume":"43","author":"NJ Varghese","year":"2015","unstructured":"Varghese NJ, Mukherjee S, Ivanova N, Konstantinidis KT, Mavrommatis K, Kyrpides NC, Pati A (2015) Microbial species delineation using whole genome sequences. Nucleic Acids Res 43:6761\u20136771. https:\/\/doi.org\/10.1093\/nar\/gkv657","journal-title":"Nucleic Acids Res"},{"key":"2214_CR76","doi-asserted-by":"publisher","first-page":"737","DOI":"10.1101\/gr.214270.116","volume":"27","author":"R Vaser","year":"2017","unstructured":"Vaser R, Sovi\u0107 I, Nagarajan N, \u0160iki\u0107 M (2017) Fast and accurate de novo genome assembly from long uncorrected reads. Genome Res 27:737\u2013746. https:\/\/doi.org\/10.1101\/gr.214270.116","journal-title":"Genome Res"},{"key":"2214_CR77","doi-asserted-by":"publisher","first-page":"1956","DOI":"10.1016\/j.ygeno.2019.11.008","volume":"112","author":"H Verma","year":"2020","unstructured":"Verma H, Dhingra GG, Sharma M, Gupta V, Negi RK, Singh Y, Lal R (2020) Comparative genomics of Sphingopyxis spp. unravelled functional attributes. Genomics 112:1956\u20131969. https:\/\/doi.org\/10.1016\/j.ygeno.2019.11.008","journal-title":"Genomics"},{"key":"2214_CR78","doi-asserted-by":"publisher","DOI":"10.1099\/ijsem.0.004631","volume":"71","author":"S Vieira","year":"2021","unstructured":"Vieira S, Huber KJ, Neumann-Schaal M, Geppert A, Luckner M, Wanner G, Overmann J (2021) Usitatibacter rugosus gen. nov., sp. nov. and Usitatibacter palustris sp. nov., novel members of Usitatibacteraceae fam. nov. within the order Nitrosomonadales isolated from soil. Int J Syst Evol Microbiol 71:004631. https:\/\/doi.org\/10.1099\/ijsem.0.004631","journal-title":"Int J Syst Evol Microbiol"},{"key":"2214_CR79","doi-asserted-by":"publisher","first-page":"2238","DOI":"10.3389\/fmicb.2018.02238","volume":"9","author":"J Wang","year":"2018","unstructured":"Wang J, Wang C, Li J, Bai P, Li Q, Shen M, Li R, Li T, Zhao J (2018) Comparative genomics of degradative Novosphingobium strains with special reference to microcystin-degrading Novosphingobium sp. THN1. Front Microbiol 9:2238. https:\/\/doi.org\/10.3389\/fmicb.2018.02238","journal-title":"Front Microbiol"},{"key":"2214_CR80","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pcbi.1005595","volume":"13","author":"RR Wick","year":"2017","unstructured":"Wick RR, Judd LM, Gorrie CL, Holt KE (2017) Unicycler: resolving bacterial genome assemblies from short and long sequencing reads. PLoS Comput Biol 13:e1005595. https:\/\/doi.org\/10.1371\/journal.pcbi.1005595","journal-title":"PLoS Comput Biol"},{"key":"2214_CR81","doi-asserted-by":"publisher","first-page":"99","DOI":"10.1111\/j.1348-0421.1990.tb00996.x","volume":"34","author":"E Yabuuchi","year":"1990","unstructured":"Yabuuchi E, Yano I, Oyaizu H, Hashimoto Y, Ezaki T, Yamamoto H (1990) Proposals of Sphingomonas paucimobilis gen. nov. and comb. nov., Sphingomonas parapaucimobilis sp. nov., Sphingomonas yanoikuyae sp. nov., Sphingomonas adhaesiva sp. nov., Sphingomonas capsulata comb. nov., and two genospecies of the genus Sphingomonas. Microbiol Immunol 34:99\u2013119. https:\/\/doi.org\/10.1111\/j.1348-0421.1990.tb00996.x","journal-title":"Microbiol Immunol"},{"key":"2214_CR82","doi-asserted-by":"publisher","first-page":"635","DOI":"10.1038\/nrmicro3330","volume":"12","author":"P Yarza","year":"2014","unstructured":"Yarza P, Yilmaz P, Pruesse E, Gl\u00f6ckner FO, Ludwig W, Schleifer K-H, Whitman WB, Euz\u00e9by J, Amann R, Rossell\u00f3-M\u00f3ra R (2014) Uniting the classification of cultured and uncultured bacteria and archaea using 16S rRNA gene sequences. Nat Rev Microbiol 12:635\u2013645. https:\/\/doi.org\/10.1038\/nrmicro3330","journal-title":"Nat Rev Microbiol"},{"key":"2214_CR83","doi-asserted-by":"publisher","first-page":"1613","DOI":"10.1099\/ijsem.0.001755","volume":"67","author":"S-H Yoon","year":"2017","unstructured":"Yoon S-H, Ha S-M, Kwon S, Lim J, Kim Y, Seo H, Chun J (2017) Introducing EzBioCloud: a taxonomically united database of 16S rRNA gene sequences and whole-genome assemblies. Int J Syst Evol Microbiol 67:1613\u20131617. https:\/\/doi.org\/10.1099\/ijsem.0.001755","journal-title":"Int J Syst Evol Microbiol"},{"key":"2214_CR84","doi-asserted-by":"publisher","first-page":"1001","DOI":"10.1007\/s10482-015-0392-8","volume":"107","author":"L Zhu","year":"2015","unstructured":"Zhu L, Xin K, Chen C, Li C, Si M, Zhao L, Shi X, Zhang L, Shen X (2015) Sphingobium endophyticus sp. nov., isolated from the root of Hylomecon japonica. Antonie Van Leeuwenhoek 107:1001\u20131008. https:\/\/doi.org\/10.1007\/s10482-015-0392-8","journal-title":"Antonie Van Leeuwenhoek"}],"container-title":["Antonie van Leeuwenhoek"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/s10482-025-02214-5.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/article\/10.1007\/s10482-025-02214-5","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/s10482-025-02214-5.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,1,15]],"date-time":"2026-01-15T10:42:41Z","timestamp":1768473761000},"score":1,"resource":{"primary":{"URL":"https:\/\/link.springer.com\/10.1007\/s10482-025-02214-5"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2025,12,19]]},"references-count":84,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2026,1]]}},"alternative-id":["2214"],"URL":"https:\/\/doi.org\/10.1007\/s10482-025-02214-5","relation":{"has-preprint":[{"id-type":"doi","id":"10.21203\/rs.3.rs-6933765\/v1","asserted-by":"object"}]},"ISSN":["0003-6072","1572-9699"],"issn-type":[{"value":"0003-6072","type":"print"},{"value":"1572-9699","type":"electronic"}],"subject":[],"published":{"date-parts":[[2025,12,19]]},"assertion":[{"value":"19 June 2025","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"17 November 2025","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"19 December 2025","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"German Collection of Microorganisms and Cell Cultures (DSMZ) codes WW5T (DSM 120182\u00a0T), 11R-BB (DSM 35354), HT1-2\u00a0T (DSM 35353\u00a0T).WI-KNAW culture collection code; WW5T (NCCB 101075\u00a0T).Agricultural Research Culture Collection (NRRL) codes; WW5T (B-68079\u00a0T), 11R-BB (B-68483), HT1-2\u00a0T (B-68485\u00a0T).","order":1,"name":"Ethics","group":{"name":"EthicsHeading","label":"Repositories"}},{"value":"None.","order":2,"name":"Ethics","group":{"name":"EthicsHeading","label":"Declarations"}},{"value":"Intrinsyx Bio is developing agricultural products based on the microbial strains described in this study.","order":3,"name":"Ethics","group":{"name":"EthicsHeading","label":"Conflict of interest"}},{"value":"Not required.","order":4,"name":"Ethics","group":{"name":"EthicsHeading","label":"Ethical approval"}}],"article-number":"16"}}