{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,4]],"date-time":"2026-09-04T06:12:49Z","timestamp":1788502369279,"version":"build-2803163510"},"reference-count":79,"publisher":"Frontiers Media SA","license":[{"start":{"date-parts":[[2026,9,4]],"date-time":"2026-09-04T00:00:00Z","timestamp":1788480000000},"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. Fungal Biol."],"abstract":"<jats:p>\n                    White rust disease elicited by the biotrophic pathogen\n                    <jats:italic>Albugo candida<\/jats:italic>\n                    is a leading cause of yield losses in oilseed\n                    <jats:italic>Brassica<\/jats:italic>\n                    crops, especially in the widely cultivated\n                    <jats:italic>Brassica juncea<\/jats:italic>\n                    . In the present investigation, the high-quality draft genome of a virulent Ac2V race of\n                    <jats:italic>A. candida<\/jats:italic>\n                    infecting\n                    <jats:italic>B. juncea<\/jats:italic>\n                    was sequenced using Illumina and Nanopore technologies. The raw data were assembled into a genome of 36.88 Mb with 415 scaffolds and N50\u00a0=\u00a0301.91 kb. The variant analysis showed 124,974 single nucleotide polymorphisms (SNPs) with an average density of 3.3 SNP per kb genome against the Ac2VPB reference assembly. Approximately 24.29% of the genome was constituted of repetitive elements, including 1,039 SSRs. A total number of 13,715 coding genes were revealed in the genome with an average distribution of 359.03 genes per Mb. Out of these predicted genes, 11,556 were annotated based on sequence homology and 355 were predicted as effectors with no transmembrane domain and N-terminal signal peptide. The annotation of 355 effectors revealed that 141 of them had homologs, while the remaining 214 were novel. Depending on the conserved motifs, these effectors were characterized, and their role in pathogenesis was established through qPCR in\n                    <jats:italic>B. juncea<\/jats:italic>\n                    . Additionally, phylogenetic analysis through average nucleotide identity revealed a similarity of 99.6% between the Canadian and Indian Ac2V isolate. Furthermore, 62 new contigs were identified in the Indian isolate that showed no sequence similarity to the Canadian isolate, suggesting variation within the race. Altogether, the present work provides genomic resources and framework for the dissection of this pathogen, which will refine our understanding of the\n                    <jats:italic>Albugo<\/jats:italic>\n                    \u2013\n                    <jats:italic>Brassica<\/jats:italic>\n                    interaction.\n                  <\/jats:p>","DOI":"10.3389\/ffunb.2026.1756853","type":"journal-article","created":{"date-parts":[[2026,9,4]],"date-time":"2026-09-04T05:29:46Z","timestamp":1788499786000},"update-policy":"https:\/\/doi.org\/10.3389\/crossmark-policy","source":"Crossref","is-referenced-by-count":0,"title":["Comprehensive whole genome hybrid assembly unravels genes and secretome of Albugo candida (Indian isolate), causing white rust disease in Brassica juncea"],"prefix":"10.3389","volume":"7","author":[{"given":"Samridhi","family":"Mehta","sequence":"first","affiliation":[{"name":"ICAR- National Institute for Plant Biotechnology","place":["New Delhi, India"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Laxmi","family":"Awasthi","sequence":"additional","affiliation":[{"name":"ICAR- National Institute for Plant Biotechnology","place":["New Delhi, India"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Rakhi","family":"Tomar","sequence":"additional","affiliation":[{"name":"ICAR- National Institute for Plant Biotechnology","place":["New Delhi, India"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yashwant\u00a0Kumar","family":"Yadava","sequence":"additional","affiliation":[{"name":"ICAR- National Institute for Plant Biotechnology","place":["New Delhi, India"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mahesh","family":"Rao","sequence":"additional","affiliation":[{"name":"ICAR- National Institute for Plant Biotechnology","place":["New Delhi, India"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yuvaraj","family":"Iyyappan","sequence":"additional","affiliation":[{"name":"ICAR- National Institute for Plant Biotechnology","place":["New Delhi, India"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Bishnu Maya","family":"Bashyal","sequence":"additional","affiliation":[{"name":"ICAR-Indian Agricultural Research Institute","place":["New Delhi, India"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jameel","family":"Akhtar","sequence":"additional","affiliation":[{"name":"ICAR-National Bureau of Plant Genetic Resources","place":["New Delhi, India"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ram Charan","family":"Bhattacharya","sequence":"additional","affiliation":[{"name":"ICAR- National Institute for Plant Biotechnology","place":["New Delhi, India"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Pramod Kumar","family":"Rai","sequence":"additional","affiliation":[{"name":"ICAR- National Institute of Biotic Stress Management","place":["Raipur, Chhattisgarh, India"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ashish Kumar","family":"Gupta","sequence":"additional","affiliation":[{"name":"ICAR- National Institute for Plant Biotechnology","place":["New Delhi, India"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1965","published-online":{"date-parts":[[2026,9,4]]},"reference":[{"key":"B1","doi-asserted-by":"publisher","first-page":"25","DOI":"10.1038\/75556","article-title":"Gene ontology: tool for the unification of biology. The Gene Ontology Consortium","volume":"25","author":"Ashburner","year":"2000","journal-title":"Nat. Genet."},{"key":"B2","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2164-15-538","article-title":"Transcriptome dynamics of Arabidopsis thaliana root penetration by the oomycete pathogen Phytophthora parasitica","volume":"15","author":"Attard","year":"2014","journal-title":"BMC Genomics"},{"key":"B3","doi-asserted-by":"publisher","first-page":"W39","DOI":"10.1093\/nar\/gkv416","article-title":"The MEME suite","volume":"43","author":"Bailey","year":"2015","journal-title":"Nucleic Acids Res."},{"key":"B4","doi-asserted-by":"publisher","first-page":"757","DOI":"10.1094\/mpmi-21-6-0757","article-title":"WRR4 encodes a TIR-NB-LRR protein that confers broad-spectrum white rust resistance in Arabidopsis thaliana to four physiological races of Albugo candida","volume":"21","author":"Borhan","year":"2008","journal-title":"Mol. Plant-Microbe Interact."},{"key":"B5","article-title":"GeneMark-EP+: eukaryotic gene prediction with self-training in the space of genes and proteins","volume":"2","author":"Bruna","year":"2020","journal-title":"NAR Genomics Bioinf."},{"key":"B6","doi-asserted-by":"crossref","first-page":"108","DOI":"10.1093\/nargab\/lqaa108","article-title":"BRAKER2: Automatic eukaryotic genome annotation with GeneMark-EP+ and AUGUSTUS supported by a protein database","volume":"3","author":"Bruna","year":"2021","journal-title":"NAR Genomics Bioinf."},{"key":"B7","doi-asserted-by":"publisher","first-page":"5825","DOI":"10.1093\/molbev\/msab293","article-title":"eggNOG-mapper v2: Functional annotation, orthology assignments, and domain prediction at the metagenomic scale","volume":"38","author":"Cantalapiedra","year":"2021","journal-title":"Mol. Biol. Evol."},{"key":"B8","doi-asserted-by":"publisher","first-page":"9077","DOI":"10.1093\/nar\/gkab688","article-title":"tRNAscan-SE 2.0: Improved detection and functional classification of transfer RNA genes","volume":"49","author":"Chan","year":"2021","journal-title":"Nucleic Acids Res."},{"key":"B9","doi-asserted-by":"publisher","first-page":"757","DOI":"10.1080\/00275514.2022.2060007","article-title":"Biochemical aspects of pathogenic variability in white rust infected Indian mustard","volume":"114","author":"Chatterjee","year":"2022","journal-title":"Mycologia"},{"key":"B10","doi-asserted-by":"publisher","first-page":"i884","DOI":"10.1093\/bioinformatics\/bty560","article-title":"fastp: An ultra-fast all-in-one FASTQ preprocessor","volume":"34","author":"Chen","year":"2018","journal-title":"Bioinformatics"},{"key":"B11","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2164-15-980","article-title":"Transcriptomic analysis of the phytopathogenic oomycete Phytophthora cactorum provides insights into infection-related effectors","volume":"15","author":"Chen","year":"2014","journal-title":"BMC Genomics"},{"key":"B12","doi-asserted-by":"publisher","first-page":"60","DOI":"10.1038\/s41467-020-20236-7","article-title":"Efficient assembly of nanopore reads via highly accurate and intact error correction","volume":"12","author":"Chen","year":"2021","journal-title":"Nat. Commun."},{"key":"B13","doi-asserted-by":"publisher","first-page":"400","DOI":"10.1300\/j137v03n03_18","article-title":"Genetic diversity within the Albugo candida complex (Peronosporales, Oomycota) inferred from phylogenetic analysis of ITS rDNA and COX2 mtDNA sequences","volume":"40","author":"Choi","year":"2006","journal-title":"Mol. Phylogenet. Evol."},{"key":"B14","doi-asserted-by":"publisher","DOI":"10.1002\/cpz1.733","article-title":"ntLink: A toolkit for de novo genome assembly scaffolding and mapping using long reads","volume":"3","author":"Coombe","year":"2023","journal-title":"Curr. Protocol."},{"key":"B15","doi-asserted-by":"crossref","first-page":"745","DOI":"10.1094\/MPMI-21-6-0745","article-title":"Basic compatibility of Albugo candida in Arabidopsis thaliana and Brassica juncea causes broad-spectrum suppression of innate immunity","volume":"21","author":"Cooper","year":"2008","journal-title":"Mol. Plant-Microbe Interact."},{"key":"B16","doi-asserted-by":"publisher","DOI":"10.1093\/gigascience\/giab008","article-title":"Twelve years of SAMtools and BCFtools","volume":"10","author":"Danecek","year":"2021","journal-title":"GigaScience"},{"key":"B17","doi-asserted-by":"publisher","first-page":"D571","DOI":"10.1093\/nar\/gkab1045","article-title":"The carbohydrate-active enzyme database: functions and literature","volume":"50","author":"Drula","year":"2022","journal-title":"Nucleic Acids Res."},{"key":"B18","doi-asserted-by":"publisher","first-page":"9451","DOI":"10.1073\/pnas.1921046117","article-title":"RepeatModeler2 for automated genomic discovery of transposable element families","volume":"117","author":"Flynn","year":"2020","journal-title":"Proc. Natl. Acad. Sci."},{"key":"B19","doi-asserted-by":"publisher","first-page":"1193","DOI":"10.1534\/g3.119.400864","article-title":"LongQC: A quality control tool for third generation sequencing long read data","volume":"10","author":"Fukasawa","year":"2020","journal-title":"G3"},{"key":"B20","doi-asserted-by":"publisher","first-page":"39","DOI":"10.1094\/mpmi-04-21-0075-r","article-title":"An improved assembly of the Albugo candida Ac2V genome reveals the expansion of the \u201cCCG\u201d class of effectors","volume":"35","author":"Furzer","year":"2022","journal-title":"Mol. Plant-Microbe Interact."},{"key":"B21","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2164-7-245","article-title":"Survey and analysis of microsatellites from transcript sequences in Phytophthora species: frequency, distribution, and potential as markers for the genus","volume":"7","author":"Garnica","year":"2006","journal-title":"BMC Genomics"},{"key":"B22","doi-asserted-by":"publisher","first-page":"227","DOI":"10.1186\/s12859-015-0654-5","article-title":"Red: an intelligent, rapid, accurate tool for detecting repeats de-novo on the genomic scale","volume":"16","author":"Girgis","year":"2015","journal-title":"BMC Bioinf."},{"key":"B23","doi-asserted-by":"publisher","first-page":"2896","DOI":"10.1093\/bioinformatics\/btaa025","article-title":"Identifying and removing haplotypic duplication in primary genome assemblies","volume":"36","author":"Guan","year":"2020","journal-title":"Bioinformatics"},{"key":"B24","doi-asserted-by":"publisher","first-page":"229","DOI":"10.1007\/s40011-016-0749-4","article-title":"Management of major diseases of Indian mustard through balanced fertilization, cultural practices and fungicides in calcareous soils","volume":"88","author":"Gupta","year":"2018","journal-title":"Proc. Natl. Acad. Sciences India Section\u2009B: Biol. Sci."},{"key":"B25","doi-asserted-by":"publisher","first-page":"21855","DOI":"10.1038\/s41598-022-22028-z","article-title":"Draft genome sequencing and secretome profiling of Sclerotinia sclerotiorum revealed effector repertoire diversity and allied broad-host range necrotrophy","volume":"12","author":"Gupta","year":"2022","journal-title":"Sci. Rep."},{"key":"B26","doi-asserted-by":"publisher","first-page":"5114","DOI":"10.1038\/s41467-018-07641-9","article-title":"High throughput ANI analysis of 90K prokaryotic genomes reveals clear species boundaries","volume":"9","author":"Jain","year":"2018","journal-title":"Nat. Commun."},{"key":"B27","doi-asserted-by":"publisher","first-page":"338","DOI":"10.1093\/molbev\/msj039","article-title":"Ancient origin of elicitin gene clusters in Phytophthora genomes","volume":"23","author":"Jiang","year":"2006","journal-title":"Mol. Biol. Evol."},{"key":"B28","doi-asserted-by":"publisher","first-page":"1236","DOI":"10.1093\/bioinformatics\/btu031","article-title":"InterProScan 5: Genome-scale protein function classification","volume":"30","author":"Jones","year":"2014","journal-title":"Bioinformatics"},{"key":"B29","doi-asserted-by":"crossref","first-page":"1529","DOI":"10.1111\/nph.15417","article-title":"Albugo candida race diversity, ploidy and host\u2010associated microbes revealed using DNA sequence capture on diseased plants in the field","volume":"221","author":"Jouet","year":"2019","journal-title":"New Phytol."},{"key":"B30","doi-asserted-by":"publisher","first-page":"D192","DOI":"10.1093\/nar\/gkaa1047","article-title":"Rfam 14: Expanded coverage of metagenomic, viral and microRNA families","volume":"49","author":"Kalvari","year":"2021","journal-title":"Nucleic Acids Res."},{"key":"B31","doi-asserted-by":"publisher","first-page":"27","DOI":"10.1093\/nar\/28.1.27","article-title":"KEGG: kyoto encyclopedia of genes and genomes","volume":"28","author":"Kanehisa","year":"2000","journal-title":"Nucleic Acids Res."},{"key":"B32","doi-asserted-by":"publisher","first-page":"772","DOI":"10.1093\/molbev\/mst010","article-title":"MAFFT multiple sequence alignment software version 7: improvements in performance and usability","volume":"30","author":"Katoh","year":"2013","journal-title":"Mol. Biol. Evol."},{"key":"B33","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pbio.1001094","article-title":"Gene gain and loss during evolution of obligate parasitism in the white rust pathogen of Arabidopsis thaliana","volume":"9","author":"Kemen","year":"2011","journal-title":"PloS Biol."},{"key":"B34","doi-asserted-by":"publisher","first-page":"22","DOI":"10.1139\/g01-123","article-title":"Linkage mapping of genes controlling resistance to white rust (Albugo candida) in Brassica rapa (syn. campestris) and comparative mapping to Brassica napus and Arabidopsis thaliana","volume":"45","author":"Kole","year":"2002","journal-title":"Genome"},{"key":"B35","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":"B36","doi-asserted-by":"publisher","first-page":"567","DOI":"10.1006\/jmbi.2000.4315","article-title":"Predicting transmembrane protein topology with a hidden Markov model: Application to complete genomes","volume":"305","author":"Krogh","year":"2001","journal-title":"J. Mol. Biol."},{"key":"B37","doi-asserted-by":"publisher","first-page":"3100","DOI":"10.1093\/nar\/gkm160","article-title":"RNAmmer: Consistent and rapid annotation of ribosomal RNA genes","volume":"35","author":"Lagesen","year":"2007","journal-title":"Nucleic Acids Res."},{"key":"B38","doi-asserted-by":"publisher","first-page":"W78","DOI":"10.1093\/nar\/gkae268","article-title":"Interactive Tree of Life (iTOL) v6: recent updates to the phylogenetic tree display and annotation tool","volume":"52","author":"Letunic","year":"2024","journal-title":"Nucleic Acids Res."},{"key":"B39","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":"B40","doi-asserted-by":"publisher","first-page":"1754","DOI":"10.1093\/bioinformatics\/btp324","article-title":"Fast and accurate short read alignment with Burrows-Wheeler transform","volume":"25","author":"Li","year":"2009","journal-title":"Bioinformatics"},{"key":"B41","doi-asserted-by":"publisher","first-page":"503","DOI":"10.1371\/journal.pone.0049755","article-title":"De novo sequence assembly of Albugo candida reveals a small genome relative to other biotrophic oomycetes","volume":"12","author":"Links","year":"2011","journal-title":"BMC Genomics"},{"key":"B42","doi-asserted-by":"publisher","first-page":"W521","DOI":"10.1093\/nar\/gkae241","article-title":"The EMBL-EBI Job Dispatcher sequence analysis tools framework in 2024","volume":"52","author":"Madeira","year":"2024","journal-title":"Nucleic Acids Res."},{"key":"B43","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":"B44","doi-asserted-by":"publisher","DOI":"10.3389\/fmicb.2022.799396","article-title":"Infection strategies and pathogenicity of biotrophic plant fungal pathogens","volume":"13","author":"Mapuranga","year":"2022","journal-title":"Front. Microbiol."},{"key":"B45","doi-asserted-by":"publisher","first-page":"1045","DOI":"10.1094\/mpmi.1997.10.9.1045","article-title":"Cloning and characterization of a cDNA encoding an elicitor of Phytophthora parasitica var. nicotianae that shows cellulose-binding and lectin-like activities","volume":"10","author":"Mateos","year":"1997","journal-title":"Mol. Plant-Microbe Interact."},{"key":"B46","doi-asserted-by":"publisher","first-page":"1366","DOI":"10.1094\/mpmi.2004.17.12.1366","article-title":"Identification and characterization of Nip, necrosis-inducing virulence protein of Erwinia carotovora subsp. carotovora","volume":"17","author":"Mattinen","year":"2004","journal-title":"Mol. Plant-Microbe Interact."},{"key":"B47","doi-asserted-by":"publisher","DOI":"10.3390\/agronomy13051215","article-title":"Potential source of resistance in introgressed, mutant and synthetic Brassica juncea L. lines against diverse isolates of white rust pathogen, Albugo candida","volume":"13","author":"Mehta","year":"2023","journal-title":"Agronomy"},{"key":"B48","doi-asserted-by":"publisher","first-page":"1530","DOI":"10.1093\/molbev\/msaa015","article-title":"IQ-TREE 2: New models and efficient methods for phylogenetic inference in the genomic era","volume":"37","author":"Minh","year":"2020","journal-title":"Mol. Biol. Evol."},{"key":"B49","doi-asserted-by":"crossref","first-page":"D412","DOI":"10.1093\/nar\/gkaa913","article-title":"Nucleic acids research database issue","volume":"49","author":"Mistry","year":"2020","journal-title":"Nucleic Acids Res."},{"key":"B50","doi-asserted-by":"crossref","first-page":"771","DOI":"10.1038\/nrmicro.2017.143","article-title":"Evolution and genome architecture in fungal plant pathogens","volume":"15","author":"Moller","year":"2017","journal-title":"Nat. Rev. Microbiol."},{"key":"B51","doi-asserted-by":"crossref","first-page":"790","DOI":"10.1094\/MPMI-22-7-0790","article-title":"Molecular characterization and functional analysis of MgNLP, the sole NPP1 domain\u2013containing protein, from the fungal wheat leaf pathogen Mycosphaerella graminicola","volume":"22","author":"Motteram","year":"2009","journal-title":"Mol. Plant-Microbe Interact."},{"key":"B52","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2164-11-525","article-title":"The CAZyome of Phytophthora spp.: a comprehensive analysis of the gene complement coding for carbohydrate-active enzymes in species of the genus Phytophthora","volume":"11","author":"Ospina-Giraldo","year":"2010","journal-title":"BMC Genomics"},{"key":"B53","doi-asserted-by":"publisher","first-page":"137","DOI":"10.1007\/s00122-010-1297-6","article-title":"Molecular mapping reveals two independent loci conferring resistance to Albugo candida in the east European germplasm of oilseed mustard Brassica juncea","volume":"121","author":"Panjabi-Massand","year":"2010","journal-title":"Theor. Appl. Genet."},{"key":"B54","doi-asserted-by":"publisher","first-page":"343","DOI":"10.1094\/mpmi-18-0343","article-title":"Novel quorum-sensing-controlled genes in Erwinia carotovora subsp. carotovora: Identification of a fungal elicitor homologue in a soft-rotting bacterium","volume":"18","author":"Pemberton","year":"2005","journal-title":"Mol. Plant-Microbe Interact."},{"key":"B55","doi-asserted-by":"publisher","first-page":"142","DOI":"10.2307\/2842800","article-title":"Races of Albugo candida (white rust and staghead) on cultivated Cruciferae in Saskatchewan","volume":"10","author":"Petrie","year":"1988","journal-title":"Can. J. Plant Pathol."},{"key":"B56","first-page":"1146","article-title":"Biological races of Albugo candida","volume":"53","author":"Pound","year":"1963","journal-title":"Phytopathology"},{"key":"B57","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2164-11-637","article-title":"Analyses of genome architecture and gene expression reveal novel candidate virulence factors in the secretome of Phytophthora infestans","volume":"11","author":"Raffaele","year":"2010","journal-title":"BMC Genomics"},{"key":"B58","doi-asserted-by":"publisher","first-page":"376","DOI":"10.1080\/17429145.2012.694681","article-title":"Effectors in plant\u2013microbe interactions","volume":"7","author":"Raman","year":"2012","journal-title":"J. Plant Interact."},{"key":"B59","first-page":"42","article-title":"Analysis of white rust research progress through bibliography","volume":"1","author":"Saharan","year":"2014","journal-title":"J. Oilseed Brassica"},{"key":"B60","doi-asserted-by":"publisher","first-page":"139","DOI":"10.1007\/s42161-020-00690-4","article-title":"Morpho-molecular variability and host reactivity of Albugo candida isolates infecting Brassica juncea genotypes in India","volume":"103","author":"Singh","year":"2021","journal-title":"J. Plant Pathol."},{"key":"B61","unstructured":"RepeatMasker 4.1.5\n          \n          \n            \n              Smit\n              A. F. A.\n            \n            \n              Hubley\n              R.\n            \n            \n              Green\n              P.\n            \n          \n          \n          2023"},{"key":"B62","doi-asserted-by":"publisher","first-page":"146","DOI":"10.1101\/2021.07.28.454080","article-title":"EffectorP 3.0: Prediction of apoplastic and cytoplasmic effectors in fungi and oomycetes","volume":"35","author":"Sperschneider","year":"2022","journal-title":"Mol. Plant-Microbe Interact."},{"key":"B63","doi-asserted-by":"publisher","DOI":"10.1371\/annotation\/90bd45cb-33a7-426f-a928-9ddc351b08cc","article-title":"Correction: Identification and characterisation CRN effectors in Phytophthora capsici shows modularity and functional diversity","volume":"8","author":"Stam","year":"2013","journal-title":"PloS One"},{"key":"B64","doi-asserted-by":"publisher","first-page":"435","DOI":"10.1093\/nar\/gkl200","article-title":"AUGUSTUS: ab initio prediction of alternative transcripts","volume":"34","author":"Stanke","year":"2006","journal-title":"Nucleic Acids Res."},{"key":"B65","doi-asserted-by":"publisher","first-page":"33","DOI":"10.1093\/nar\/28.1.33","article-title":"The COG database: a tool for genome-scale analysis of protein functions and evolution","volume":"28","author":"Tatusov","year":"2000","journal-title":"Nucleic Acids Res."},{"key":"B66","doi-asserted-by":"publisher","first-page":"1979","DOI":"10.1101\/gr.081612.108","article-title":"Gene prediction in novel fungal genomes using an ab initio algorithm with unsupervised training","volume":"18","author":"Ter-Hovhannisyan","year":"2008","journal-title":"Genome Res."},{"key":"B67","doi-asserted-by":"publisher","first-page":"1023","DOI":"10.1038\/s41587-021-01156-3","article-title":"SignalP 6.0 predicts all five types of signal peptides using protein language models","volume":"40","author":"Teufel","year":"2022","journal-title":"Nat. Biotechnol."},{"key":"B68","doi-asserted-by":"publisher","first-page":"411","DOI":"10.1007\/s00122-002-1031-0","article-title":"Exploiting EST databases for the development and characterization of gene-derived SSR-markers in barley (Hordeum vulgare L.)","volume":"106","author":"Thiel","year":"2003","journal-title":"Theor. Appl. Genet."},{"key":"B69","doi-asserted-by":"publisher","first-page":"431","DOI":"10.1007\/s10658-013-0366-5","article-title":"Phylogeny and evolution of plant pathogenic oomycetes\u2014a global overview","volume":"138","author":"Thines","year":"2014","journal-title":"Eur. J. Plant Pathol."},{"key":"B70","doi-asserted-by":"publisher","first-page":"D837","DOI":"10.1093\/nar\/gkab1037","article-title":"PHI-base in 2022: a multi-species phenotype database for Pathogen-Host Interactions","volume":"50","author":"Urban","year":"2022","journal-title":"Nucleic Acids Res."},{"key":"B71","doi-asserted-by":"publisher","first-page":"737","DOI":"10.1101\/gr.214270.116","article-title":"Fast and accurate de novo genome assembly from long uncorrected reads","volume":"27","author":"Vaser","year":"2017","journal-title":"Genome Res."},{"key":"B72","doi-asserted-by":"crossref","first-page":"148","DOI":"10.1079\/9781780644837.0148","article-title":"Albugo candida","volume-title":"Brassica Oilseeds Breeding and Management","author":"Verma","year":"2015"},{"key":"B73","doi-asserted-by":"publisher","first-page":"751","DOI":"10.1016\/s2095-3119(21)63681-x","article-title":"PnSCR82, a small cysteine-rich secretory protein of Phytophthora nicotianae, can enhance defense responses in plants","volume":"21","author":"Wang","year":"2022","journal-title":"J. Integr. Agric."},{"key":"B74","first-page":"315","article-title":"Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics","volume-title":"PCR Protocols: A Guide to Methods and Applications","author":"White","year":"1990"},{"key":"B75","doi-asserted-by":"publisher","DOI":"10.1099\/mgen.0.000132","article-title":"Completing bacterial genome assemblies with multiplex MinION sequencing","volume":"3","author":"Wick","year":"2017","journal-title":"Microb. Genomics"},{"key":"B76","doi-asserted-by":"publisher","first-page":"1944","DOI":"10.4161\/psb.3.4.5182","article-title":"Adaptive evolution has targeted the C-terminal domain of the RXLR effectors of plant pathogenic oomycetes","volume":"20","author":"Win","year":"2008","journal-title":"Plant Cell"},{"key":"B77","doi-asserted-by":"publisher","first-page":"237","DOI":"10.5958\/2230-7338.2018.00007.1","article-title":"Genetic variability in Albugo candida pathogen isolates collected from Indian mustard in Northern Madhya Pradesh using RAPD marker analysis","volume":"7","author":"Yadav","year":"2019","journal-title":"IJCS"},{"key":"B78","doi-asserted-by":"publisher","first-page":"203","DOI":"10.1089\/10665270050081478","article-title":"A greedy algorithm for aligning DNA sequences","volume":"7","author":"Zhang","year":"2000","journal-title":"J. Comput. Biol."},{"key":"B79","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pcbi.1009860","article-title":"The SAMBA tool uses long reads to improve the contiguity of genome assemblies","volume":"18","author":"Zimin","year":"2022","journal-title":"PloS Comput. Biol."}],"container-title":["Frontiers in Fungal Biology"],"original-title":[],"link":[{"URL":"https:\/\/www.frontiersin.org\/articles\/10.3389\/ffunb.2026.1756853\/full","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,9,4]],"date-time":"2026-09-04T05:29:49Z","timestamp":1788499789000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.frontiersin.org\/articles\/10.3389\/ffunb.2026.1756853\/full"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,9,4]]},"references-count":79,"alternative-id":["10.3389\/ffunb.2026.1756853"],"URL":"https:\/\/doi.org\/10.3389\/ffunb.2026.1756853","relation":{},"ISSN":["2673-6128"],"issn-type":[{"value":"2673-6128","type":"electronic"}],"subject":[],"published":{"date-parts":[[2026,9,4]]},"article-number":"1756853"}}