Table_1_Genome-Wide Mapping of Loci Associated With Resistance to Clubroot in Brassica napus ssp. napobrassica (Rutabaga) Accessions From Nordic Countries.XLSX
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...
Main Authors: | , , , |
---|---|
Format: | Dataset |
Language: | unknown |
Published: |
2020
|
Subjects: | |
Online Access: | https://doi.org/10.3389/fpls.2020.00742.s001 https://figshare.com/articles/Table_1_Genome-Wide_Mapping_of_Loci_Associated_With_Resistance_to_Clubroot_in_Brassica_napus_ssp_napobrassica_Rutabaga_Accessions_From_Nordic_Countries_XLSX/12471179 |
id |
ftfrontimediafig:oai:figshare.com:article/12471179 |
---|---|
record_format |
openpolar |
spelling |
ftfrontimediafig:oai:figshare.com:article/12471179 2023-05-15T16:51:59+02:00 Table_1_Genome-Wide Mapping of Loci Associated With Resistance to Clubroot in Brassica napus ssp. napobrassica (Rutabaga) Accessions From Nordic Countries.XLSX Rudolph Fredua-Agyeman Zhiyu Yu Sheau-Fang Hwang Stephen E. Strelkov 2020-06-12T04:34:45Z https://doi.org/10.3389/fpls.2020.00742.s001 https://figshare.com/articles/Table_1_Genome-Wide_Mapping_of_Loci_Associated_With_Resistance_to_Clubroot_in_Brassica_napus_ssp_napobrassica_Rutabaga_Accessions_From_Nordic_Countries_XLSX/12471179 unknown doi:10.3389/fpls.2020.00742.s001 https://figshare.com/articles/Table_1_Genome-Wide_Mapping_of_Loci_Associated_With_Resistance_to_Clubroot_in_Brassica_napus_ssp_napobrassica_Rutabaga_Accessions_From_Nordic_Countries_XLSX/12471179 CC BY 4.0 CC-BY Botany Plant Biology Plant Systematics and Taxonomy Plant Cell and Molecular Biology Plant Developmental and Reproductive Biology Plant Pathology Plant Physiology Plant Biology not elsewhere classified rutabaga marker-clubroot association Plasmodiophora brassicae pathotypes genomic hotspot Dataset 2020 ftfrontimediafig https://doi.org/10.3389/fpls.2020.00742.s001 2020-06-17T22:54:54Z 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. Dataset Iceland Frontiers: Figshare Norway |
institution |
Open Polar |
collection |
Frontiers: Figshare |
op_collection_id |
ftfrontimediafig |
language |
unknown |
topic |
Botany Plant Biology Plant Systematics and Taxonomy Plant Cell and Molecular Biology Plant Developmental and Reproductive Biology Plant Pathology Plant Physiology Plant Biology not elsewhere classified rutabaga marker-clubroot association Plasmodiophora brassicae pathotypes genomic hotspot |
spellingShingle |
Botany Plant Biology Plant Systematics and Taxonomy Plant Cell and Molecular Biology Plant Developmental and Reproductive Biology Plant Pathology Plant Physiology Plant Biology not elsewhere classified rutabaga marker-clubroot association Plasmodiophora brassicae pathotypes genomic hotspot Rudolph Fredua-Agyeman Zhiyu Yu Sheau-Fang Hwang Stephen E. Strelkov Table_1_Genome-Wide Mapping of Loci Associated With Resistance to Clubroot in Brassica napus ssp. napobrassica (Rutabaga) Accessions From Nordic Countries.XLSX |
topic_facet |
Botany Plant Biology Plant Systematics and Taxonomy Plant Cell and Molecular Biology Plant Developmental and Reproductive Biology Plant Pathology Plant Physiology Plant Biology not elsewhere classified rutabaga marker-clubroot association Plasmodiophora brassicae pathotypes genomic hotspot |
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 |
Dataset |
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 |
Table_1_Genome-Wide Mapping of Loci Associated With Resistance to Clubroot in Brassica napus ssp. napobrassica (Rutabaga) Accessions From Nordic Countries.XLSX |
title_short |
Table_1_Genome-Wide Mapping of Loci Associated With Resistance to Clubroot in Brassica napus ssp. napobrassica (Rutabaga) Accessions From Nordic Countries.XLSX |
title_full |
Table_1_Genome-Wide Mapping of Loci Associated With Resistance to Clubroot in Brassica napus ssp. napobrassica (Rutabaga) Accessions From Nordic Countries.XLSX |
title_fullStr |
Table_1_Genome-Wide Mapping of Loci Associated With Resistance to Clubroot in Brassica napus ssp. napobrassica (Rutabaga) Accessions From Nordic Countries.XLSX |
title_full_unstemmed |
Table_1_Genome-Wide Mapping of Loci Associated With Resistance to Clubroot in Brassica napus ssp. napobrassica (Rutabaga) Accessions From Nordic Countries.XLSX |
title_sort |
table_1_genome-wide mapping of loci associated with resistance to clubroot in brassica napus ssp. napobrassica (rutabaga) accessions from nordic countries.xlsx |
publishDate |
2020 |
url |
https://doi.org/10.3389/fpls.2020.00742.s001 https://figshare.com/articles/Table_1_Genome-Wide_Mapping_of_Loci_Associated_With_Resistance_to_Clubroot_in_Brassica_napus_ssp_napobrassica_Rutabaga_Accessions_From_Nordic_Countries_XLSX/12471179 |
geographic |
Norway |
geographic_facet |
Norway |
genre |
Iceland |
genre_facet |
Iceland |
op_relation |
doi:10.3389/fpls.2020.00742.s001 https://figshare.com/articles/Table_1_Genome-Wide_Mapping_of_Loci_Associated_With_Resistance_to_Clubroot_in_Brassica_napus_ssp_napobrassica_Rutabaga_Accessions_From_Nordic_Countries_XLSX/12471179 |
op_rights |
CC BY 4.0 |
op_rightsnorm |
CC-BY |
op_doi |
https://doi.org/10.3389/fpls.2020.00742.s001 |
_version_ |
1766042108120006656 |