{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,16]],"date-time":"2026-09-16T00:48:26Z","timestamp":1789519706984,"version":"build-2803163510"},"reference-count":65,"publisher":"Frontiers Media SA","license":[{"start":{"date-parts":[[2026,5,20]],"date-time":"2026-05-20T00:00:00Z","timestamp":1779235200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":["frontiersin.org"],"crossmark-restriction":true},"short-container-title":["Front. Microbiol."],"abstract":"<jats:sec>\n                    <jats:title>Introduction<\/jats:title>\n                    <jats:p>\n                      <jats:italic>Pseudomonas<\/jats:italic>\n                      sp. ST4 is a potent biocontrol agent against sugarcane smut disease, acting primarily by inhibiting the sexual mating of the fungal pathogen\n                      <jats:italic>Sporisorium scitamineum<\/jats:italic>\n                      . However, the genetic basis of its antifungal activity has remained unexplored.\n                    <\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Methods<\/jats:title>\n                    <jats:p>\n                      To elucidate the genetic basis of ST4\u2019s biocontrol activity, we obtained its complete genome sequence and conducted comprehensive genomic, phylogenetic, and chemotaxonomic analyses. We additionally performed a genome-wide Tn5 transposon mutagenesis screen to identify genes critical for its inhibitory activity, followed by a broader phylogenomic analysis to assess the evolutionary conservation of these traits across the\n                      <jats:italic>Pseudomonadaceae<\/jats:italic>\n                      family.\n                    <\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Results<\/jats:title>\n                    <jats:p>\n                      Based on our analyses, we delineated ST4 as a novel species,\n                      <jats:italic>Pseudomonas shiyinii<\/jats:italic>\n                      sp. nov. The 5.14-Mb genome harbors numerous genes and biosynthetic gene clusters associated with plant-beneficial traits. The Tn5 mutagenesis screen revealed that the pyrroloquinoline quinone (PQQ)-dependent glucose dehydrogenase (Gcd) pathway is essential for the inhibitory activity of ST4, with 78% of loss-of-function mutants mapping to the\n                      <jats:italic>pqq<\/jats:italic>\n                      or\n                      <jats:italic>gcd<\/jats:italic>\n                      genes. We further demonstrated that acidification of the environment mediated by the PQQ-Gcd system in ST4 inhibits\n                      <jats:italic>S. scitamineum<\/jats:italic>\n                      mating\u2014a critical step in pathogenicity\u2014without compromising haploid sporidial viability. In addition to this primary mechanism, the ST4 genome contains complete biosynthesis pathways for the phytohormone indole-3-acetic acid (IAA), which may also serve as a precursor for the previously identified active metabolite indole-3-carbaldehyde (ICHO), a specific inhibitor of fungal sexual mating.\n                      <jats:italic>Phylogenomic<\/jats:italic>\n                      analysis showed that while the PQQ-Gcd system is broadly conserved across\n                      <jats:italic>Pseudomonadaceae<\/jats:italic>\n                      , the capacity for IAA\/I3C production is more specialized, confined to approximately 21% of Pseudomonas species.\n                    <\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Discussion<\/jats:title>\n                    <jats:p>\n                      Together, our findings decipher the molecular mechanism of a widely conserved biocontrol trait and establish\n                      <jats:italic>P. shiyinii<\/jats:italic>\n                      ST4 as a promising, ecologically adaptable candidate for sustainable crop protection.\n                    <\/jats:p>\n                  <\/jats:sec>","DOI":"10.3389\/fmicb.2026.1783009","type":"journal-article","created":{"date-parts":[[2026,5,20]],"date-time":"2026-05-20T15:02:45Z","timestamp":1779289365000},"update-policy":"https:\/\/doi.org\/10.3389\/crossmark-policy","source":"Crossref","is-referenced-by-count":2,"title":["Genomic and Functional Characterization of Pseudomonas shiyinii sp. nov. ST4 Reveals Conserved Biocontrol Mechanisms Against Sugarcane Smut"],"prefix":"10.3389","volume":"17","author":[{"given":"Yonglin","family":"Li","sequence":"first","affiliation":[{"name":"National Key Laboratory of Green Pesticide, Guangdong Provincial Key Laboratory of Microbial Signals and Disease Control, Engineering Research Center of Biological Control, Ministry of Education, Integrative Microbiology Research Center, South China Agricultural University","place":["Guangzhou, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Shiyin","family":"Liu","sequence":"additional","affiliation":[{"name":"National Key Laboratory of Green Pesticide, Guangdong Provincial Key Laboratory of Microbial Signals and Disease Control, Engineering Research Center of Biological Control, Ministry of Education, Integrative Microbiology Research Center, South China Agricultural University","place":["Guangzhou, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Changlong","family":"Yang","sequence":"additional","affiliation":[{"name":"National Key Laboratory of Green Pesticide, Guangdong Provincial Key Laboratory of Microbial Signals and Disease Control, Engineering Research Center of Biological Control, Ministry of Education, Integrative Microbiology Research Center, South China Agricultural University","place":["Guangzhou, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Changqing","family":"Chang","sequence":"additional","affiliation":[{"name":"National Key Laboratory of Green Pesticide, Guangdong Provincial Key Laboratory of Microbial Signals and Disease Control, Engineering Research Center of Biological Control, Ministry of Education, Integrative Microbiology Research Center, South China Agricultural University","place":["Guangzhou, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ming","family":"Hu","sequence":"additional","affiliation":[{"name":"National Key Laboratory of Green Pesticide, Guangdong Provincial Key Laboratory of Microbial Signals and Disease Control, Engineering Research Center of Biological Control, Ministry of Education, Integrative Microbiology Research Center, South China Agricultural University","place":["Guangzhou, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lianhui","family":"Zhang","sequence":"additional","affiliation":[{"name":"National Key Laboratory of Green Pesticide, Guangdong Provincial Key Laboratory of Microbial Signals and Disease Control, Engineering Research Center of Biological Control, Ministry of Education, Integrative Microbiology Research Center, South China Agricultural University","place":["Guangzhou, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jianuan","family":"Zhou","sequence":"additional","affiliation":[{"name":"National Key Laboratory of Green Pesticide, Guangdong Provincial Key Laboratory of Microbial Signals and Disease Control, Engineering Research Center of Biological Control, Ministry of Education, Integrative Microbiology Research Center, South China Agricultural University","place":["Guangzhou, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xiaofan","family":"Zhou","sequence":"additional","affiliation":[{"name":"National Key Laboratory of Green Pesticide, Guangdong Provincial Key Laboratory of Microbial Signals and Disease Control, Engineering Research Center of Biological Control, Ministry of Education, Integrative Microbiology Research Center, South China Agricultural University","place":["Guangzhou, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1965","published-online":{"date-parts":[[2026,5,20]]},"reference":[{"key":"ref1","doi-asserted-by":"publisher","first-page":"403","DOI":"10.1016\/S0022-2836(05)80360-2","article-title":"Basic local alignment search tool","volume":"215","author":"Altschul","year":"1990","journal-title":"J. Mol. Biol."},{"key":"ref2","doi-asserted-by":"publisher","first-page":"e00191-16","DOI":"10.1128\/mSystems.00191-16","article-title":"Deblur rapidly resolves single-nucleotide community sequence patterns","volume":"2","author":"Amir","year":"2017","journal-title":"mSystems"},{"key":"ref3","doi-asserted-by":"publisher","first-page":"644","DOI":"10.1128\/JB.00659-15","article-title":"HexR controls glucose-responsive genes and central carbon metabolism in Neisseria meningitidis","volume":"198","author":"Antunes","year":"2016","journal-title":"J. Bacteriol."},{"key":"ref4","doi-asserted-by":"publisher","first-page":"2251","DOI":"10.1093\/bioinformatics\/btz859","article-title":"KofamKOALA: KEGG ortholog assignment based on profile HMM and adaptive score threshold","volume":"36","author":"Aramaki","year":"2020","journal-title":"Bioinformatics"},{"key":"ref5","doi-asserted-by":"publisher","first-page":"11","DOI":"10.1007\/s00253-009-2092-7","article-title":"Plant-microbe interactions promoting plant growth and health: perspectives for controlled use of microorganisms in agriculture","volume":"84","author":"Berg","year":"2009","journal-title":"Appl. Microbiol. Biotechnol."},{"key":"ref6","doi-asserted-by":"publisher","first-page":"591","DOI":"10.1007\/s13313-012-0139-1","article-title":"Laboratory and field evaluation of fungicides for the management of sugarcane smut caused by Sporisorium scitamineum in seedcane","volume":"41","author":"Bhuiyan","year":"2012","journal-title":"Australas. Plant Pathol."},{"key":"ref7","doi-asserted-by":"publisher","first-page":"W46","DOI":"10.1093\/nar\/gkad344","article-title":"antiSMASH 7.0: new and improved predictions for secondary metabolites, expanding to transgenic sequences and short fungi","volume":"51","author":"Blin","year":"2023","journal-title":"Nucleic Acids Res."},{"key":"ref8","doi-asserted-by":"publisher","first-page":"139","DOI":"10.1111\/1758-2229.12231","article-title":"Gac-mediated changes in pyrroloquinoline quinone biosynthesis enhance the antimicrobial activity of Pseudomonas fluorescens SBW25","volume":"7","author":"Cheng","year":"2015","journal-title":"Environ. Microbiol."},{"key":"ref9","doi-asserted-by":"publisher","first-page":"1613","DOI":"10.1111\/1751-7915.13827","article-title":"Role of phenazine-enzyme physiology for current generation in a bioelectrochemical system","volume":"14","author":"Chukwubuikem","year":"2021","journal-title":"Microb. Biotechnol."},{"key":"ref10","first-page":"329","volume-title":"Methods in Microbiology","author":"Collins","year":"1985"},{"key":"ref11","doi-asserted-by":"publisher","first-page":"4951","DOI":"10.1128\/AEM.71.9.4951-4959.2005","article-title":"Use of plant growth-promoting bacteria for biocontrol of plant diseases: principles, mechanisms of action, and future prospects","volume":"71","author":"Compant","year":"2005","journal-title":"Appl. Environ. Microbiol."},{"key":"ref12","doi-asserted-by":"publisher","first-page":"26","DOI":"10.1071\/AP07083","article-title":"Sugarcane smut in Queensland: arrival and emergency response","volume":"37","author":"Croft","year":"2008","journal-title":"Australas. Plant Pathol."},{"key":"ref13","doi-asserted-by":"publisher","first-page":"e0057022","DOI":"10.1128\/spectrum.00570-22","article-title":"Aminotransferase SsAro8 regulates tryptophan metabolism essential for filamentous growth of sugarcane smut fungus Sporisorium scitamineum","volume":"10","author":"Cui","year":"2022","journal-title":"Microbiol. Spectrum"},{"key":"ref14","doi-asserted-by":"publisher","first-page":"e1010998","DOI":"10.1371\/journal.pcbi.1010998","article-title":"GenoVi: an open-source automated circular genome visualizer for bacteria and archaea","volume":"19","author":"Cumsille","year":"2023","journal-title":"PLoS Comput. Biol."},{"key":"ref15","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1111\/j.1365-3040.2009.02028.x","article-title":"Plant-rhizobacteria interactions alleviate the stress conditions of plant growth: antibodies, siderophores, and phytohormones","volume":"67","author":"Dimkpa","year":"2009","journal-title":"FEMS Microbiol. Ecol."},{"key":"ref16","doi-asserted-by":"publisher","first-page":"85","DOI":"10.1007\/s10482-013-0095-y","article-title":"Indole-3-acetic acid in plant-microbe interactions","volume":"106","author":"Duca","year":"2014","journal-title":"Antonie Van Leeuwenhoek"},{"key":"ref17","doi-asserted-by":"publisher","first-page":"2429","DOI":"10.1128\/AEM.65.6.2429-2438.1999","article-title":"Environmental factors modulating antibiotic and siderophore biosynthesis by Pseudomonas fluorescens biocontrol strains","volume":"65","author":"Duffy","year":"1999","journal-title":"Appl. Environ. Microbiol."},{"key":"ref18","doi-asserted-by":"publisher","first-page":"613","DOI":"10.1038\/nrmicro1932","article-title":"Carbon catabolite repression in bacteria: many ways to make the most out of nutrients","volume":"6","author":"G\u00f6rke","year":"2008","journal-title":"Nat. Rev. Microbiol."},{"key":"ref19","doi-asserted-by":"publisher","first-page":"396","DOI":"10.1093\/sysbio\/syab060","article-title":"Improving phylogenies based on average nucleotide identity, incorporating saturation correction and nonparametric bootstrap support","volume":"71","author":"Gosselin","year":"2022","journal-title":"Syst. Biol."},{"key":"ref20","doi-asserted-by":"publisher","first-page":"307","DOI":"10.1038\/nrmicro1129","article-title":"Biological control of soil-borne pathogens by fluorescent pseudomonads","volume":"3","author":"Haas","year":"2005","journal-title":"Nat. Rev. Microbiol."},{"key":"ref21","doi-asserted-by":"publisher","first-page":"123","DOI":"10.1007\/s11756-023-01406-6","article-title":"Isolation and whole genome sequencing of Pseudomonas aeruginosa strain RK1 and its biocontrol potential against phytopathogens of rice","volume":"78","author":"Jatan","year":"2023","journal-title":"Biologia"},{"key":"ref22","doi-asserted-by":"publisher","first-page":"105743","DOI":"10.1016\/j.biocontrol.2025.105743","article-title":"Streptomyces toxytricini, a biocontrol plant growth-promoting bacterium against smut of broomcorn millet (Panicum miliaceum L.)","volume":"204","author":"Jin","year":"2025","journal-title":"Biol. Control"},{"key":"ref23","doi-asserted-by":"publisher","first-page":"D587","DOI":"10.1093\/nar\/gkac963","article-title":"KEGG for taxonomy-based analysis of pathways and genomes","volume":"51","author":"Kanehisa","year":"2023","journal-title":"Nucleic Acids Res."},{"key":"ref24","doi-asserted-by":"crossref","first-page":"4","DOI":"10.1094\/MPMI-5-004","article-title":"Suppression of root diseases by Pseudomonas fluorescens CHA0: importance of the bacterial secondary metabolite 2,4-diacetylphloroglucinol","volume":"5","author":"Keel","year":"1992","journal-title":"Mol. Plant-Microbe Interact."},{"key":"ref25","doi-asserted-by":"publisher","first-page":"722","DOI":"10.1101\/gr.215087.116","article-title":"Canu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation","volume":"27","author":"Koren","year":"2017","journal-title":"Genome Res."},{"key":"ref26","doi-asserted-by":"publisher","first-page":"510","DOI":"10.1128\/MMBR.00001-09","article-title":"Cytochrome c biogenesis: mechanisms for covalent modifications and trafficking of heme and for heme-iron redox control","volume":"73","author":"Kranz","year":"2009","journal-title":"Microbiol. Mol. Biol. Rev."},{"key":"ref27","doi-asserted-by":"publisher","first-page":"426","DOI":"10.1111\/j.1574-6976.2009.00204.x","article-title":"Indole as an intercellular signal in microbial communities","volume":"34","author":"Lee","year":"2010","journal-title":"FEMS Microbiol. Rev."},{"key":"ref28","doi-asserted-by":"publisher","first-page":"W293","DOI":"10.1093\/nar\/gkab301","article-title":"Interactive tree of life (iTOL) v5: an online tool for phylogenetic tree display and annotation","volume":"49","author":"Letunic","year":"2021","journal-title":"Nucleic Acids Res."},{"key":"ref29","doi-asserted-by":"publisher","first-page":"3094","DOI":"10.1093\/bioinformatics\/bty191","article-title":"Minimap2: pairwise alignment for nucleotide sequences","volume":"34","author":"Li","year":"2018","journal-title":"Bioinformatics"},{"key":"ref30","doi-asserted-by":"publisher","first-page":"1754","DOI":"10.1093\/bioinformatics\/btp324","article-title":"Fast and accurate short read alignment with burrows\u2013wheeler transform","volume":"25","author":"Li","year":"2009","journal-title":"Bioinformatics"},{"key":"ref31","doi-asserted-by":"publisher","first-page":"2078","DOI":"10.1093\/bioinformatics\/btp352","article-title":"The sequence alignment\/map format and SAMtools","volume":"25","author":"Li","year":"2009","journal-title":"Bioinformatics"},{"key":"ref32","doi-asserted-by":"publisher","first-page":"649","DOI":"10.2144\/000112601","article-title":"High-efficiency thermal asymmetric interlaced PCR for amplification of unknown flanking sequences","volume":"43","author":"Liu","year":"2007","journal-title":"BioTechniques"},{"key":"ref33","doi-asserted-by":"publisher","first-page":"107","DOI":"10.1111\/1751-7915.13289","article-title":"Pseudomonas sp. ST4 produces variety of active compounds to interfere fungal sexual mating and hyphal growth","volume":"13","author":"Liu","year":"2018","journal-title":"Microb. Biotechnol."},{"key":"ref34","doi-asserted-by":"publisher","first-page":"778","DOI":"10.3389\/fmicb.2017.00778","article-title":"Biocontrol of sugarcane smut disease by interference of fungal sexual mating and hyphal growth using a bacterial isolate","volume":"8","author":"Liu","year":"2017","journal-title":"Front. Microbiol."},{"key":"ref35","doi-asserted-by":"publisher","first-page":"D687","DOI":"10.1093\/nar\/gky1080","article-title":"VFDB 2019: a comparative pathogenomic platform with an interactive web interface","volume":"47","author":"Liu","year":"2019","journal-title":"Nucleic Acids Res."},{"key":"ref36","doi-asserted-by":"publisher","first-page":"4647","DOI":"10.1093\/molbev\/msab199","article-title":"BUSCO update: novel and streamlined workflows along with broader and deeper phylogenetic coverage for scoring of eukaryotic, prokaryotic, and viral genomes","volume":"38","author":"Manni","year":"2021","journal-title":"Mol. Biol. Evol."},{"key":"ref37","doi-asserted-by":"publisher","first-page":"e1005944","DOI":"10.1371\/journal.pcbi.1005944","article-title":"MUMmer4: A fast and versatile genome alignment system","volume":"14","author":"Mar\u00e7ais","year":"2018","journal-title":"PLoS Comput. Biol."},{"key":"ref38","doi-asserted-by":"publisher","first-page":"60","DOI":"10.1186\/1471-2105-14-60","article-title":"Genome sequence-based species delimitation with confidence intervals and improved distance functions","volume":"14","author":"Meier-Kolthoff","year":"2013","journal-title":"BMC Bioinformatics"},{"key":"ref39","doi-asserted-by":"publisher","first-page":"367","DOI":"10.1007\/s10482-007-9167-1","article-title":"Interactions between plants and beneficial Pseudomonas spp.: exploiting bacterial traits for crop protection","volume":"92","author":"Mercado-Blanco","year":"2007","journal-title":"Antonie Van Leeuwenhoek"},{"key":"ref40","doi-asserted-by":"publisher","first-page":"233","DOI":"10.1016\/0167-7012(84)90018-6","article-title":"An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids","volume":"2","author":"Minnikin","year":"1984","journal-title":"J. Microbiol. Methods"},{"key":"ref41","doi-asserted-by":"publisher","first-page":"101624","DOI":"10.1016\/j.isci.2020.101624","article-title":"Environmental atlas of prokaryotes enables powerful and intuitive habitat-based analysis of community structures","volume":"23","author":"Mise","year":"2020","journal-title":"iScience"},{"key":"ref42","volume-title":"Bergey's Manual of Systematics of Archaea and Bacteria","author":"Palleroni","year":"2015"},{"key":"ref43","doi-asserted-by":"publisher","first-page":"1043","DOI":"10.1101\/gr.186072.114","article-title":"CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes","volume":"25","author":"Parks","year":"2015","journal-title":"Genome Res."},{"key":"ref44","doi-asserted-by":"publisher","first-page":"207","DOI":"10.1139\/m96-032","article-title":"Bacterial biosynthesis of indole-3-acetic acid","volume":"42","author":"Patten","year":"1996","journal-title":"Can. J. Microbiol."},{"key":"ref45","doi-asserted-by":"publisher","first-page":"3795","DOI":"10.1128\/AEM.68.8.3795-3801.2002","article-title":"Role of Pseudomonas putida indoleacetic acid in development of the host plant root system","volume":"68","author":"Patten","year":"2002","journal-title":"Appl. Environ. Microbiol."},{"key":"ref46","doi-asserted-by":"publisher","first-page":"100905","DOI":"10.1016\/j.rhisph.2024.100905","article-title":"PGPg_finder: a comprehensive and user-friendly pipeline for identifying plant growth-promoting genes in genomic and metagenomic data","volume":"30","author":"Pellegrinetti","year":"2024","journal-title":"Rhizosphere"},{"key":"ref47","doi-asserted-by":"publisher","first-page":"12","DOI":"10.1039\/C5AY02550H","article-title":"Genomics and taxonomy in diagnostics for food security: soft-rotting enterobacterial plant pathogens","volume":"8","author":"Pritchard","year":"2016","journal-title":"Anal. Methods"},{"key":"ref48","doi-asserted-by":"publisher","first-page":"1095","DOI":"10.3390\/jof7121095","article-title":"Sugarcane smut: current knowledge and the way forward for management","volume":"7","author":"Rajput","year":"2021","journal-title":"J. Fungi"},{"key":"ref49","doi-asserted-by":"publisher","first-page":"180","DOI":"10.1016\/j.syapm.2010.10.005","article-title":"Pseudomonas protegens sp. nov., widespread plant-protecting bacteria producing the biocontrol compounds 2,4-diacetylphloroglucinol and pyoluteorin","volume":"34","author":"Ramette","year":"2011","journal-title":"Syst. Appl. Microbiol."},{"key":"ref50","doi-asserted-by":"publisher","first-page":"278","DOI":"10.1016\/j.gpb.2015.08.002","article-title":"PacBio sequencing and its applications","volume":"13","author":"Rhoads","year":"2015","journal-title":"Genomics Proteomics Bioinformatics"},{"key":"ref51","doi-asserted-by":"publisher","first-page":"319","DOI":"10.1016\/S0734-9750(99)00014-2","article-title":"Phosphate solubilizing bacteria and their role in plant growth promotion","volume":"17","author":"Rodriguez","year":"1999","journal-title":"Biotechnol. Adv."},{"key":"ref53","doi-asserted-by":"publisher","first-page":"1546","DOI":"10.1126\/science.1195330","article-title":"Pathogenicity determinants in smut fungi revealed by genome comparison","volume":"330","author":"Schirawski","year":"2010","journal-title":"Science"},{"key":"ref54","doi-asserted-by":"publisher","first-page":"e03818","DOI":"10.1128\/spectrum.03818-22","article-title":"Glucose-6-phosphate dehydrogenase, ZwfA, a dual cofactor-specific isozyme is predominantly involved in the glucose metabolism of Pseudomonas bharatica CSV86T","volume":"10","author":"Shah","year":"2022","journal-title":"Microbiol. Spectrum"},{"key":"ref55","doi-asserted-by":"publisher","first-page":"1661","DOI":"10.1038\/s41592-023-02018-3","article-title":"Fast and robust metagenomic profiling with Skani","volume":"20","author":"Shaw","year":"2023","journal-title":"Nat. Methods"},{"key":"ref56","doi-asserted-by":"publisher","first-page":"368","DOI":"10.1590\/S1982-56762014000500003","article-title":"Evaluation of BC1 and BC2 from the crossing Erianthus arundinaceus with Saccharum for resistance to sugarcane smut caused by Sporisorium scitamineum","volume":"39","author":"Shen","year":"2014","journal-title":"Trop. Plant Pathol."},{"key":"ref57","doi-asserted-by":"publisher","first-page":"784","DOI":"10.1038\/nbt1183-784","article-title":"A broad host range mobilization system for in vivo genetic engineering: transposon mutagenesis in gram negative bacteria","volume":"1","author":"Simon","year":"1983","journal-title":"Bio\/Technology"},{"key":"ref58","doi-asserted-by":"publisher","first-page":"a001438","DOI":"10.1101\/cshperspect.a001438","article-title":"Auxin and plant-microbe interactions","volume":"3","author":"Spaepen","year":"2011","journal-title":"Cold Spring Harb. Perspect. Biol."},{"key":"ref59","doi-asserted-by":"publisher","first-page":"6614","DOI":"10.1093\/nar\/gkw569","article-title":"NCBI prokaryotic genome annotation pipeline","volume":"44","author":"Tatusova","year":"2016","journal-title":"Nucleic Acids Res."},{"key":"ref60","doi-asserted-by":"publisher","first-page":"4413","DOI":"10.1099\/ijs.0.051193-0","article-title":"Pseudomonas guariconensis sp. nov., isolated from rhizospheric soil","volume":"63","author":"Toro","year":"2013","journal-title":"Int. J. Syst. Evol. Microbiol."},{"key":"ref61","doi-asserted-by":"publisher","first-page":"e112963","DOI":"10.1371\/journal.pone.0112963","article-title":"Pilon: an integrated tool for comprehensive microbial variant detection and genome assembly improvement","volume":"9","author":"Walker","year":"2014","journal-title":"PLoS One"},{"key":"ref62","doi-asserted-by":"publisher","first-page":"8147","DOI":"10.1007\/s10661-013-3163-x","article-title":"Use of Pseudomonas spp. for the bioremediation of environmental pollutants: a review","volume":"185","author":"Wasi","year":"2013","journal-title":"Environ. Monit. Assess."},{"key":"ref63","doi-asserted-by":"publisher","first-page":"250","DOI":"10.1094\/PHYTO-97-2-0250","article-title":"Pseudomonas biocontrol agents of soilborne pathogens: looking back over 30 years","volume":"97","author":"Weller","year":"2007","journal-title":"Phytopathology"},{"key":"ref64","doi-asserted-by":"publisher","first-page":"2052","DOI":"10.1016\/j.chom.2025.10.016","article-title":"Keystone Pseudomonas species in the wheat phyllosphere microbiome mitigate fusarium head blight by altering host pH","volume":"33","author":"Xu","year":"2025","journal-title":"Cell Host Microbe"},{"key":"ref65","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1016\/j.fgb.2015.11.005","article-title":"The mating-type locus b of the sugarcane smut Sporisorium scitamineum is essential for mating, filamentous growth and pathogenicity","volume":"86","author":"Yan","year":"2016","journal-title":"Fungal Genet. Biol."},{"key":"ref66","doi-asserted-by":"publisher","first-page":"347","DOI":"10.1007\/s13205-023-03755-0","article-title":"Comprehensive genome analysis of Pseudomonas sp. SWRIQ11, a new plant growth-promoting bacterium that alleviates salinity stress in olive","volume":"13","author":"Zamanzadeh-Nasrabadi","year":"2023","journal-title":"3 Biotech"}],"updated-by":[{"DOI":"10.3389\/fmicb.2026.1910926","type":"correction","label":"Correction","source":"publisher","updated":{"date-parts":[[2026,7,9]],"date-time":"2026-07-09T00:00:00Z","timestamp":1783555200000}}],"container-title":["Frontiers in Microbiology"],"original-title":[],"link":[{"URL":"https:\/\/www.frontiersin.org\/articles\/10.3389\/fmicb.2026.1783009\/full","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,5,20]],"date-time":"2026-05-20T15:02:47Z","timestamp":1779289367000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.frontiersin.org\/articles\/10.3389\/fmicb.2026.1783009\/full"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,5,20]]},"references-count":65,"alternative-id":["10.3389\/fmicb.2026.1783009"],"URL":"https:\/\/doi.org\/10.3389\/fmicb.2026.1783009","relation":{},"ISSN":["1664-302X"],"issn-type":[{"value":"1664-302X","type":"electronic"}],"subject":[],"published":{"date-parts":[[2026,5,20]]},"article-number":"1783009"}}