Genome-Wide Mapping of Loci Associated With Resistance to Clubroot in Brassica napus ssp. napobrassica (Rutabaga) Accessions From Nordic Countries
Rutabaga [Brassica napus ssp. napobrassica (L.) Hanelt] is reported to be an excellent source of clubroot (Plasmodiophora brassicae) resistance genes. In this study, 124 rutabaga accessions from the Nordic countries (Norway, Sweden, Finland, Denmark, and Iceland) were evaluated for their reaction to...
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ftdoajarticles:oai:doaj.org/article:bac14da85e06402fa53360eecbee0a00 2023-05-15T16:51:55+02:00 Genome-Wide Mapping of Loci Associated With Resistance to Clubroot in Brassica napus ssp. napobrassica (Rutabaga) Accessions From Nordic Countries Rudolph Fredua-Agyeman Zhiyu Yu Sheau-Fang Hwang Stephen E. Strelkov 2020-06-01T00:00:00Z https://doi.org/10.3389/fpls.2020.00742 https://doaj.org/article/bac14da85e06402fa53360eecbee0a00 EN eng Frontiers Media S.A. https://www.frontiersin.org/article/10.3389/fpls.2020.00742/full https://doaj.org/toc/1664-462X 1664-462X doi:10.3389/fpls.2020.00742 https://doaj.org/article/bac14da85e06402fa53360eecbee0a00 Frontiers in Plant Science, Vol 11 (2020) rutabaga marker-clubroot association Plasmodiophora brassicae pathotypes genomic hotspot Plant culture SB1-1110 article 2020 ftdoajarticles https://doi.org/10.3389/fpls.2020.00742 2022-12-30T21:04:15Z Rutabaga [Brassica napus ssp. napobrassica (L.) Hanelt] is reported to be an excellent source of clubroot (Plasmodiophora brassicae) resistance genes. In this study, 124 rutabaga accessions from the Nordic countries (Norway, Sweden, Finland, Denmark, and Iceland) were evaluated for their reaction to five single-spore isolates representing P. brassicae pathotypes 2F, 3H, 5I, 6M, and 8N and 12 field isolates representing pathotypes 2B, 3A, 3O, 5C, 5G, 5K, 5L, 5X (two isolates, L-G2 and L-G3), 8E, 8J, and 8P. The accessions were also genotyped using a 15K Brassica SNP array and 60 PCR-based primers linked to previously identified clubroot resistance genes. Six thousand eight hundred sixty-one SNP markers were retained after filtering with TASSEL 5.0, and used to evaluate four general linear models (GLM) and four mixed linear models (MLM). The PCA + K and Q + K MLM models gave the minimal deviance of the observed from the expected distribution in quantile-quantile plots, and hence were used for SNP-clubroot association analyses. In addition, 108 alleles derived from the PCR-based markers and the phenotypic data were analyzed with the PCA + K model. Forty-five SNPs and four PCR-based markers were identified to be associated strongly with resistance to isolates representing 13 pathotypes (2F, 3H, 5I, 6M, 8N, 2B, 3A, 3O, 5C, 5G, 5K, 5L, and 8P). These markers revealed the top and bottom segments of rutabaga chromosome A03 and the middle segment of chromosome A08 as genomic hotspots associated with resistance to the different P. brassicae pathotypes. Article in Journal/Newspaper Iceland Directory of Open Access Journals: DOAJ Articles Norway Frontiers in Plant Science 11 |
institution |
Open Polar |
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Directory of Open Access Journals: DOAJ Articles |
op_collection_id |
ftdoajarticles |
language |
English |
topic |
rutabaga marker-clubroot association Plasmodiophora brassicae pathotypes genomic hotspot Plant culture SB1-1110 |
spellingShingle |
rutabaga marker-clubroot association Plasmodiophora brassicae pathotypes genomic hotspot Plant culture SB1-1110 Rudolph Fredua-Agyeman Zhiyu Yu Sheau-Fang Hwang Stephen E. Strelkov Genome-Wide Mapping of Loci Associated With Resistance to Clubroot in Brassica napus ssp. napobrassica (Rutabaga) Accessions From Nordic Countries |
topic_facet |
rutabaga marker-clubroot association Plasmodiophora brassicae pathotypes genomic hotspot Plant culture SB1-1110 |
description |
Rutabaga [Brassica napus ssp. napobrassica (L.) Hanelt] is reported to be an excellent source of clubroot (Plasmodiophora brassicae) resistance genes. In this study, 124 rutabaga accessions from the Nordic countries (Norway, Sweden, Finland, Denmark, and Iceland) were evaluated for their reaction to five single-spore isolates representing P. brassicae pathotypes 2F, 3H, 5I, 6M, and 8N and 12 field isolates representing pathotypes 2B, 3A, 3O, 5C, 5G, 5K, 5L, 5X (two isolates, L-G2 and L-G3), 8E, 8J, and 8P. The accessions were also genotyped using a 15K Brassica SNP array and 60 PCR-based primers linked to previously identified clubroot resistance genes. Six thousand eight hundred sixty-one SNP markers were retained after filtering with TASSEL 5.0, and used to evaluate four general linear models (GLM) and four mixed linear models (MLM). The PCA + K and Q + K MLM models gave the minimal deviance of the observed from the expected distribution in quantile-quantile plots, and hence were used for SNP-clubroot association analyses. In addition, 108 alleles derived from the PCR-based markers and the phenotypic data were analyzed with the PCA + K model. Forty-five SNPs and four PCR-based markers were identified to be associated strongly with resistance to isolates representing 13 pathotypes (2F, 3H, 5I, 6M, 8N, 2B, 3A, 3O, 5C, 5G, 5K, 5L, and 8P). These markers revealed the top and bottom segments of rutabaga chromosome A03 and the middle segment of chromosome A08 as genomic hotspots associated with resistance to the different P. brassicae pathotypes. |
format |
Article in Journal/Newspaper |
author |
Rudolph Fredua-Agyeman Zhiyu Yu Sheau-Fang Hwang Stephen E. Strelkov |
author_facet |
Rudolph Fredua-Agyeman Zhiyu Yu Sheau-Fang Hwang Stephen E. Strelkov |
author_sort |
Rudolph Fredua-Agyeman |
title |
Genome-Wide Mapping of Loci Associated With Resistance to Clubroot in Brassica napus ssp. napobrassica (Rutabaga) Accessions From Nordic Countries |
title_short |
Genome-Wide Mapping of Loci Associated With Resistance to Clubroot in Brassica napus ssp. napobrassica (Rutabaga) Accessions From Nordic Countries |
title_full |
Genome-Wide Mapping of Loci Associated With Resistance to Clubroot in Brassica napus ssp. napobrassica (Rutabaga) Accessions From Nordic Countries |
title_fullStr |
Genome-Wide Mapping of Loci Associated With Resistance to Clubroot in Brassica napus ssp. napobrassica (Rutabaga) Accessions From Nordic Countries |
title_full_unstemmed |
Genome-Wide Mapping of Loci Associated With Resistance to Clubroot in Brassica napus ssp. napobrassica (Rutabaga) Accessions From Nordic Countries |
title_sort |
genome-wide mapping of loci associated with resistance to clubroot in brassica napus ssp. napobrassica (rutabaga) accessions from nordic countries |
publisher |
Frontiers Media S.A. |
publishDate |
2020 |
url |
https://doi.org/10.3389/fpls.2020.00742 https://doaj.org/article/bac14da85e06402fa53360eecbee0a00 |
geographic |
Norway |
geographic_facet |
Norway |
genre |
Iceland |
genre_facet |
Iceland |
op_source |
Frontiers in Plant Science, Vol 11 (2020) |
op_relation |
https://www.frontiersin.org/article/10.3389/fpls.2020.00742/full https://doaj.org/toc/1664-462X 1664-462X doi:10.3389/fpls.2020.00742 https://doaj.org/article/bac14da85e06402fa53360eecbee0a00 |
op_doi |
https://doi.org/10.3389/fpls.2020.00742 |
container_title |
Frontiers in Plant Science |
container_volume |
11 |
_version_ |
1766042053035163648 |