Additional file 2: Figure S21. of Frequent intra- and inter-species introgression shapes the landscape of genetic variation in bread wheat
Creators: name: Cheng, Hong
name: Liu, Jing
name: Wen, Jia
name: Nie, Xiaojun
name: Xu, Luohao
name: Chen, Ningbo
name: Li, Zhongxing
name: Wang, Qilin
name: Zheng, Zhuqing
name: Li, Ming
name: Cui, Licao
name: Liu, Zihua
name: Bian, Jianxin
name: Wang, Zhonghua
name: Xu, Shengbao
name: Yang, Qin
name: Appels, Rudi
name: Han, Dejun
name: Song, Weining
name: Sun, Qixin
name: Jiang, Yu
Publisher: name: figshare
Year: 2019
Subjects: subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Evolutionary Biology
subject: Environmental Sciences not elsewhere classified
subject: Ecology
subject: Biological Sciences not elsewhere classified
subject: Infectious Diseases
subject: FOS: Health sciences

description: The maximum likelihood trees of the 1B/1R translocation region on chromosome 1B from 1 to 240 Mb. Figure S22. Absolute sequence divergence dxy value (the number of pairwise differences per site) between each pairwise accession. Figure S23. The pattern of haplotypes sharing in diverse populations on chromosome 1B. Figure S24. The mapping statistics of the resequencing data in introgressed regions visualized by Integrative Genomics Viewer (IGV). Figure S25. The length of the introgressions of each bread wheat accession. Figure S26. The length of the introgressions of A, B, and D subgenomes. Figure S27. The introgressied segments with accurate breakpoints identified in Chinese Spring. Figure S28. Single nucleotide polymorphism (SNP) density across chromosome 2D of the Chinese Spring. Figure S29. The maximum likelihood tree of a 33 Mb introgression fragment on chromosome 5B from ~ 497 Mb to 529 Mb (853000 SNP). Figure S30. The maximum likelihood tree of an introgression fragment from Ae.tauschii. Figure S31. The maximum likelihood tree of a introgression segment on chromosome 5D form 555, 981, 000 bp to 556, 438, 500 bp (70000 SNP). Figure S32. Absolute sequence divergence dxy value (the number of pairwise differences per site) between each pairwise accessions on chromosome 4D from 500, 862, 001 bp to 501, 999, 000 bp. Figure S33. Absolute sequence divergence dxy value (the number of pairwise differences per site) between each pairwise accessions on chromosome 5D form 555, 981, 000 bp to 556, 438, 500 bp. Figure S34. Comparison of mapping statistics and gene expression of TraesCS2B01G113800 in intro (introgression) and non-intro (non-introgression) accessions. Figure S35. Comparison of mapping statistics and gene expression of TraesCS2B01G534200 in intro (introgression) and non-intro (non-introgression) accessions. Figure S36. The frequency of haplotype-c. Figure S37. Relative frequency difference (RFD) of CNVs between landraces and varieties. Table S1. Detailed information of the 93 accessions used in this study. Table S2. Statistics of the whole-genome SNPs and indels. Table S3. The accuracy of the SNPs calling determined by wheat 660K array. Table S10. Detailed information of the exon capture data of wheat used in this study. Table S11. Two groups of the landraces, Landrace-west and Landrace-east. Table S14. The list of differentially expressed genes (DEGs) between intro and non-intro accessions. Table S18. Summary of the KEGG enrichment analysis of genes located in selective regions during domestication process. Table S19. Summary of the KEGG enrichment analysis of genes located in selective regions during the improvement process. (DOCX 3387 kb)