Data from: Fine mapping of the soybean aphid-resistance genes Rag6 and Rag3c from Glycine soja 85-32

Project Title:  View help for Project Title Data from: Fine mapping of the soybean aphid-resistance genes Rag6 and Rag3c from Glycine soja 85-32

Summary:  View help for Summary Rag6 and Rag3c were delimited to a 49-kb interval on chromosome 8 and a 150-kb interval on chromosome 16, respectively. Structural variants in the exons of candidate genes were identified.

The soybean aphid, an invasive species, has significantly threatened soybean production in North America since 2000. Host-plant resistance is known as an ideal management strategy for aphids. Two novel aphid-resistance loci, Rag6 and Rag3c, from Glycine soja 85-32, were previously detected in a 10.5-cM interval on chromosome 8 and a 7.5-cM interval on chromosome 16, respectively. Defining the exact genomic position of these two genes is critical for improving the effectiveness of marker-assisted selection for aphid resistance and for identification of the functional genes. To pinpoint the locations of Rag6 and Rag3c, four populations segregating for Rag6 and Rag3c were used to fine map these two genes. The availability of the Illumina Infinium SoySNP50K/8K iSelect BeadChip, combined with single-nucleotide polymorphism (SNP) markers discovered through the whole-genome re-sequencing of E12901, facilitated the fine mapping process. Rag6 was refined to a 49-kb interval on chromosome 8 with four candidate genes, including three clustered nucleotide-binding site leucine-rich repeat (NBS–LRR) genes and an amine oxidase encoding gene. Rag3c was refined to a 150-kb interval on chromosome 16 with 11 candidate genes, two of which are a LRR gene and a lipase gene. Moreover, by sequencing the whole-genome exome-capture of the resistant source (E12901), structural variants were identified in the exons of the candidate genes of Rag6 and Rag3c. The closely linked SNP markers and the candidate gene information presented in this study will be significant resources for integrating Rag6 and Rag3c into elite cultivars and for future functional genetics studies.


Resources in this dataset:

Resource Title: Supplementary material 5 (XLSX 42 kb). File Name: 122_2017_2979_MOESM5_ESM.xlsxResource Description: Original file can be downloaded at https://static-content.springer.com/esm/art:10.1007/s00122-017-2979-0/MediaObjects/122_2017_2979_MOESM5_ESM.xlsx Title: Supplementary material 4 (XLSX 51 kb). File Name: 122_2017_2979_MOESM4_ESM.xlsxResource Description: Original file can be downloaded at https://static-content.springer.com/esm/art:10.1007/s00122-017-2979-0/MediaObjects/122_2017_2979_MOESM4_ESM.xlsx Title: Supplementary material 3 (XLSX 40 kb). File Name: 122_2017_2979_MOESM3_ESM.xlsxResource Description: Original file can be downloaded at https://static-content.springer.com/esm/art:10.1007/s00122-017-2979-0/MediaObjects/122_2017_2979_MOESM3_ESM.xlsx Title: Supplementary material 2 (XLSX 37 kb). File Name: 122_2017_2979_MOESM2_ESM (2).xlsxResource Description: Original file can be downloaded at https://static-content.springer.com/esm/art:10.1007/s00122-017-2979-0/MediaObjects/122_2017_2979_MOESM2_ESM.xlsx Title: Supplementary material 1 (DOCX 45 kb). File Name: 122_2017_2979_MOESM1_ESM.docxResource Description: Original file can be downloaded at https://static-content.springer.com/esm/art:10.1007/s00122-017-2979-0/MediaObjects/122_2017_2979_MOESM1_ESM.docx

Resource Title: Supplementary material 5 (XLSX 42 kb).

File Name: 122_2017_2979_MOESM5_ESM.xlsx

Resource Description: Original file can be downloaded at https://static-content.springer.com/esm/art:10.1007/s00122-017-2979-0/MediaObjects/122_2017_2979_MOESM5_ESM.xlsx Title: Supplementary material 4 (XLSX 51 kb).

File Name: 122_2017_2979_MOESM4_ESM.xlsx

Resource Description: Original file can be downloaded at https://static-content.springer.com/esm/art:10.1007/s00122-017-2979-0/MediaObjects/122_2017_2979_MOESM4_ESM.xlsx Title: Supplementary material 3 (XLSX 40 kb).

File Name: 122_2017_2979_MOESM3_ESM.xlsx

Resource Description: Original file can be downloaded at https://static-content.springer.com/esm/art:10.1007/s00122-017-2979-0/MediaObjects/122_2017_2979_MOESM3_ESM.xlsx Title: Supplementary material 2 (XLSX 37 kb).

File Name: 122_2017_2979_MOESM2_ESM (2).xlsx

Resource Description: Original file can be downloaded at https://static-content.springer.com/esm/art:10.1007/s00122-017-2979-0/MediaObjects/122_2017_2979_MOESM2_ESM.xlsx Title: Supplementary material 1 (DOCX 45 kb).

File Name: 122_2017_2979_MOESM1_ESM.docx

Resource Description: Original file can be downloaded at https://static-content.springer.com/esm/art:10.1007/s00122-017-2979-0/MediaObjects/122_2017_2979_MOESM1_ESM.docx

Original Distribution URL:  View help for Original Distribution URL https://agdatacommons.nal.usda.gov/articles/dataset/Data_from_Fine_mapping_of_the_soybean_aphid-resistance_genes_Rag6_and_Rag3c_from_Glycine_soja_85-32/24662865

Subject Terms:  View help for Subject Terms soybeans; genes; Glycine soja; exons; Aphis glycines; invasive species; crop production; North America; host plants; Aphidoidea; loci; genomics; marker-assisted selection; single nucleotide polymorphism; carboxylic ester hydrolases; cultivars

Collection Notes:  View help for Collection Notes DOI: 10.15482/USDA.ADC/1529210 Citation: Zhang, Shichen; Zhang, Zhongnan; Wen, Zixiang; Gu, Cuihua; An, Yong-Qiang Charles; Bales, Carmille; DiFonzo, Christina; Song, Qijian; Wang, Dechun (2018). Data from: Fine mapping of the soybean aphid-resistance genes Rag6 and Rag3c from Glycine soja 85-32. Springer. https://doi.org/10.15482/USDA.ADC/1529210 (Downloaded 2026-06-26)