Genotype and Phenotype of 96 Recombinant Inbred Lines

The data files contain the genotypic and phenotypic information of a recombinant inbred (RI) population. This population was obtained by crossing the cultivated Glycine max (C08) with the wild type Glycine soja (W05) was adopted from a previous study (Qi et al., 2014). In our previous research (Qi et al., 2014), a core panel of 96 RI lines was re-sequenced at ~1 X depth to generate high-quality single nucleotide polymorphism (SNP) information. An array of high-quality SNPs were grouped into 2,757 bin markers distributed on the 20 chromosomes. A bin map of 2,992.0 cM in the Kosambi mapping function was generated using the bin markers. Biological nitrogen fixation related phenotypes of the RILs were collected in controlled environment as mentioned in materials and methods

Additional file 7: Figure S5. of Molecular phylogeny and dynamic evolution of disease resistance genes in the legume family

Chromosomal distributions of R-genes in the legume family. The different colors represent different species, and the Y-axis denotes the number of R-genes on each chromosome. Note that the legumes have different chromosomes and some genome assembly was not anchored to chromosomes. (PDF 591 kb

Additional file 9: Figure S7. of Molecular phylogeny and dynamic evolution of disease resistance genes in the legume family

Percentage of R-genes (a) in clusters and (b) with singleton domains including NBS, LRR, TIR and CC. (PDF 436 kb

进出液方式对全钒液流电池性能影响模拟研究

The phylogenetic tree of R-genes with typical domains showing the different divergence rates among legumes. The numbers above the lines indicate the divergence rates of different R-genes with (A) NBS-LRR, (B) TIR-NBS, (C) CC-NBS-LRR, and (D) CC-NBS domains. (PDF 480 kb

Additional file 2: Figure S1. of Molecular phylogeny and dynamic evolution of disease resistance genes in the legume family

The orthologous gene families within the legumes with grape as the out-group. (A) Category of gene orthologs in legumes; (B) A Venn diagram showing the number of genes common among wild soybean (G. soja), cultivated soybean (G. max), barrel clover (M. truncatula) and chickpea (C. arietinum). (PDF 428 kb

Additional file 4: Dataset S1. of Molecular phylogeny and dynamic evolution of disease resistance genes in the legume family

Details and sequences of R-gene identified in each species. Grape (Vv): Vitis vinifera; Cultivated soybean (Gm): Glycine max; Wild soybean (Gs): Glycine soja; Barrel clover (Mt): Medicago truncatula; Bird’s-foot trefoil (Lj): Lotus japonicas; Pigeonpea (Cc): Cajanus cajan; Chickpea (Ca): Cicer arietinum; Common bean (Pv): Phaseolus vulgaris. (XLSX 1716 kb

Additional file 1: Table S1. of Molecular phylogeny and dynamic evolution of disease resistance genes in the legume family

Overview information of the seven published genomes in the legume family. Table S2. The genome assembly and number of identified R-genes in the seven legume species and grape. Table S3. The number of R-genes in each R-gene family in seven species of legumes and grape. Each row represents one R-gene family. Table S4. Global statistics of R-genes in families or clusters in seven species of legumes and grape. Table S5. Statistics on the expansions and contractions of R-genes during the evolution of legumes. Table S6. The gene pairs with outlier Ka/Ks values between wild and cultivated soybeans. The threshold for an outlier Ka/Ks value was set at 0.8. (XLSX 29 kb

Additional file 6: Figure S4. of Molecular phylogeny and dynamic evolution of disease resistance genes in the legume family

Boxplot showing the lengths of R proteins identified in legumes. The length of an R protein was expressed in number of amino acid residues (aa). (PDF 141 kb

Additional file 5: Figure S3. of Molecular phylogeny and dynamic evolution of disease resistance genes in the legume family

The number of annotated and newly predicted R-genes in each legume species. Annotated: the R-genes annotated from original gene models; Predicted: the R-genes predicted based on the R proteins from our self-curated database. (PDF 249 kb