Dixon GR. The occurrence and economic impact of Plasmodiophora brassicae and clubroot disease. J Plant Growth Regul. 2009;28(3):194–202.
Article
CAS
Google Scholar
Burki F, Kudryavtsev A, Matz MV, Aglyamova GV, Bulman S, Fiers M, et al. Evolution of Rhizaria: new insights from phylogenomic analysis of uncultivated protists. BMC Evol Biol. 2010;10(1):377.
Article
CAS
PubMed
PubMed Central
Google Scholar
Hwang SF, Strelkov SE, Feng J, Gossen BD, Howard RJ. Plasmodiophora brassicae: a review of an emerging pathogen of the Canadian canola (Brassica napus) crop. Mol Plant Pathol. 2012;13(2):105-13.
Howard RJ, Strelkov SE, Harding MW. Clubroot of cruciferous crops–new perspectives on an old disease. Can J Plant Pathol. 2010;32(1):43–57.
Article
Google Scholar
Tewari JP, Strelkov SE, Orchard D, Hartman M, Lange RM, Turkington TK. Identification of clubroot of crucifers on canola (Brassica napus) in Alberta. Can J Plant Pathol. 2005;27(1):143–4.
Article
Google Scholar
Rempel CB, Hutton SN, Jurke CJ. Clubroot and the importance of canola in Canada. Can J Plant Pathol. 2014;36(Suppl 1):19–26.
Article
Google Scholar
Gossen BD, Strelkov SE, Manolii VP, Rennie DC, Cao T, Hwang SF, et al. Spread of Plasmodiophora brassicae on canola in Canada, 2003–2014: old pathogen, new home. Can J Plant Pathol. 2015;37(4):403–13.
Article
Google Scholar
Strelkov SE, Hwang SF. Clubroot in the Canadian canola crop: 10 years into the outbreak. Can J Plant Pathol. 2014;36(Suppl 1):27–36.
Article
Google Scholar
Strelkov SE, Hwang SF, Manolii VP, Cao T, Feindel D. Emergence of new virulence phenotypes of Plasmodiophora brassicae on canola (Brassica napus) in Alberta, Canada. Eur J Plant Pathol. 2016;145(3):517–29.
Article
Google Scholar
Williams PH. A system for the determination of races of Plasmodiophora brassicae that infect cabbage and rutabaga. Phytopathology. 1966;56(6):624–6.
Google Scholar
Strelkov SE, Tewari JP, Smith-Degenhardt E. Characterization of Plasmodiophora brassicae populations from Alberta, Canada. Can J Plant Pathol. 2006;28(3):467–74.
Article
Google Scholar
Xue S, Cao T, Howard RJ, Hwang SF, Strelkov SE. Isolation and variation in virulence of single-spore isolates of Plasmodiophora brassicae from Canada. Plant Dis. 2008;92(3):456–62.
Article
Google Scholar
Siemens J, Bulman S, Rehn F, Sundelin T. Molecular biology of Plasmodiophora brassicae. J Plant Growth Regul. 2009;28(3):245–51.
Article
CAS
Google Scholar
Heo SH, Jang SJ, Choi JS, Jang CS, Song JY, Kim HG. Chinese cabbage clubroot pathogen, Plasmodiophora brassicae, is genetically stable. Mycobiology. 2009;37(3):225–9.
Article
CAS
PubMed
PubMed Central
Google Scholar
Schwelm A, Fogelqvist J, Knaust A, Jülke S, Lilja T, Bonilla-Rosso G, et al. The Plasmodiophora brassicae genome reveals insights in its life cycle and ancestry of chitin synthases. Sci Rep. 2015;5:11153.
Article
PubMed
PubMed Central
Google Scholar
Rolfe SA, Strelkov SE, Links MG, Clarke WE, Robinson SJ, Djavaheri M, Malinowski R, Haddadi P, Kagale S, Parkin IAP, Taheri A, Borhan MH. The compact genome of the plant pathogen Plasmodiophora brassicae is adapted to intracellular interactions with host Brassica spp. BMC Genomics. 2016;17(1):272.
Article
PubMed
PubMed Central
Google Scholar
Wang X, Wang H, Wang J, Sun R, Wu J, Liu S, et al. The genome of the mesopolyploid crop species Brassica rapa. Nat Genet. 2011;43(10):1035–9.
Article
CAS
PubMed
Google Scholar
Chalhoub B, Denoeud F, Liu S, Parkin IA, Tang H, Wang X, et al. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science. 2014;345(6199):950–3.
Article
CAS
PubMed
Google Scholar
Davey JW, Blaxter ML. RADSeq: next-generation population genetics. Brief Funct Genomics. 2011;9(5-6):416–23.
Article
PubMed Central
Google Scholar
Andrews KR, Good JM, Miller MR, Luikart G, Hohenlohe PA. Harnessing the power of RADseq for ecological and evolutionary genomics. Nat Rev Genet. 2016;17(2):81–92.
Article
CAS
PubMed
PubMed Central
Google Scholar
LeBoldus JM, Kinzer K, Richards J, Ya Z, Yan C, Friesen TL, Brueggeman R. Genotype-by-sequencing of the plant-pathogenic fungi Pyrenophora teres and Sphaerulina musiva utilizing ion torrent sequence technology. Mol Plant Pathol. 2014;16(6):623–32.
Article
PubMed
Google Scholar
Hubbard A, Lewis CM, Yoshida K, Ramirez-Gonzalez RH, de Vallavieille-Pope C, Thomas J, Kamoun S, Bayles R, Uauy C. Field pathogenomics reveals the emergence of a diverse wheat yellow rust population. Genome Biol. 2015;16(1):23.
Article
PubMed
PubMed Central
Google Scholar
Buhariwalla H, Greaves S, Magrath R, Mithen R. Development of specific PCR primers for the amplification of polymorphic DNA from the obligate root pathogen Plasmodiophora brassicae. Physiol Mol Plant P. 1995;47(2):83–94.
Article
CAS
Google Scholar
Yano S, Tanaka S, Ito S, Kameya-Iwaki M. Variations of random amplified polymorphic DNA (RAPD) patterns among field populations of Plasmodiophora brassicae. Ann Phytopathol Soc Jpn. 1997;63(3):179–82.
Article
CAS
Google Scholar
Manzanares-Dauleux MJ, Divaret I, Baron F, Thomas G. Assessment of biological and molecular variability between and within field isolates of Plasmodiophora brassicae. Plant Pathol. 2001;50(2):165–73.
Article
CAS
Google Scholar
Strehlow B, de Mol F, Struck C. History of oilseed rape cropping and geographic origin influence the genetic structure of Plasmodiophora brassicae populations. Phytopathology. 2014;104(5):532–8.
Article
PubMed
Google Scholar
Milgroom MG, del Mar J-GM, García CO, Drott MT, Jiménez-Díaz RM. Recombination between clonal lineages of the asexual fungus Verticillium dahliae detected by genotyping by sequencing. PLoS One. 2014;9(9):e106740.
Article
PubMed
PubMed Central
Google Scholar
Davey JW, Cezard T, Fuentes-Utrilla P, Eland C, Gharbi K, Blaxter ML. Special features of RAD sequencing data: implications for genotyping. Mol Ecol. 2013;22(11):3151–64.
Article
CAS
PubMed
Google Scholar
Mesak F, Tatarenkov A, Earley RL, Avise JC. Hundreds of SNPs vs. dozens of SSRs: which dataset better characterizes natural clonal lineages in a self-fertilizing fish? Front Ecol Evol. 2014;12(2):74.
Google Scholar
Donald EC, Porter IJ. Clubroot in Australia: the history and impact of Plasmodiophora brassicae in Brassica crops and research efforts directed towards its control. Can J Plant Pathol. 2014;36(Suppl 1):66–84.
Article
Google Scholar
Raj A, Stephens M, Pritchard JK. fastSTRUCTURE: Variational inference of population structure in large SNP datasets. Genetics. 2014;197(2):573–89.
Article
PubMed
PubMed Central
Google Scholar
Grünwald NJ, Goss EM. Evolution and population genetics of exotic and re-emerging pathogens: novel tools and approaches. Annu Rev Phytopathol. 2011;49:249–67.
Article
PubMed
Google Scholar
Kageyama K, Asano T. Life cycle of Plasmodiophora brassicae. J Plant Growth Regul. 2009;28(3):203–11.
Article
CAS
Google Scholar
Klewer A, Luerben H, Graf H, Siemens J. Restriction fragment length polymorphism markers to characterize Plasmodiophora brassicae single-spore isolates with different virulence patterns. J Phytopathol. 2001;149(3-4):121–7.
Article
CAS
Google Scholar
Castlebury LA, Maddox JV, Glawe DA. A technique for the extraction and purification of viable Plasmodiophora brassicae resting spores from host root tissue. Mycologia. 1994;86:458–60.
Article
Google Scholar
Schmieder R, Edwards R. Fast identification and removal of sequence contamination from genomic and metagenomic datasets. PLoS One. 2011;6(3):e17288.
Article
CAS
PubMed
PubMed Central
Google Scholar
Lee WP, Stromberg MP, Ward A, Stewart C, Garrison EP, Marth G. MOSAIK: a hash-based algorithm for accurate next-generation sequencing short-read mapping. PLoS One. 2014;9(3):e90581. https://doi.org/10.1371/journal.pone.0090581.
Article
PubMed
PubMed Central
Google Scholar
Garrison E, Marth G. Haplotype-based variant detection from short-read sequencing. arXiv Preprint arXiv. 2012;1207:3907. q-bio.GN
Google Scholar
Kamvar ZN, Tabima JF, Grünwald NJ. Poppr: an R package for genetic analysis of populations with clonal, partially clonal, and/or sexual reproduction. Peer J. 2014;2:e281.
Article
PubMed
PubMed Central
Google Scholar
Paradis E, Claude J, Strimmer K. APE: analysis of phylogenetics and evolution in R language. Bioinformatics. 2004;20(2):289–90.
Article
CAS
PubMed
Google Scholar
Jombart T, Devillard S, Balloux F. Discriminant analysis of principal components: a new method for the analysis of genetically structured populations. BMC Genet. 2010;11(1):94.
Article
PubMed
PubMed Central
Google Scholar
Jombart T. Adegenet: a R package for the multivariate analysis of genetic markers. Bioinformatics. 2008;24(11):1403–5.
Article
CAS
PubMed
Google Scholar
Danecek P, Auton A, Abecasis G, Albers CA, Banks E, DePristo MA, et al. The variant call format and VCFtools. Bioinformatics. 2011;27(15):2156–8.
Article
CAS
PubMed
PubMed Central
Google Scholar
Agapow PM, Burt A. Indices of multilocus linkage disequilibrium. Mol Ecol Notes. 2001;1(1-2):101–2.
Article
CAS
Google Scholar
McLaren W, Gil L, Hunt SE, Riat HS, Ritchie GR, Thormann A, et al. The ensembl variant effect predictor. Genome Biol. 2016;17(1):122.
Article
PubMed
PubMed Central
Google Scholar
Cingolani P, Patel VM, Coon M, Nguyen T, Land SJ, Ruden DM, Lu X. Using Drosophila melanogaster as a model for genotoxic chemical mutational studies with a new program, SnpSift. Toxicogenomics Non-mammalian Species. Front Genet. 2012;3:35. https://doi.org/10.3389/fgene.2012.00035.
Google Scholar