Figure 1.
Figure 1.

Genetic and sequence (physical) maps in the vicinity of the Soybean mosaic virus resistance gene, Rsv3, on the soybean chromosome 14 (molecular linkage group B2). Markers were mapped in the BC3F2 population ‘L29’ (Rsv3) × ‘Sowon’ (rsv3) (LS), the F2 population L29 (Rsv3)’ × ‘Lee68’ (rsv3) (LL), and the F2 population ‘Tousan 140’ (Rsv3) × Lee68 (rsv3) (TL). The resultant genetic maps were aligned with each other and then were aligned with a map constructed from the positions of the markers on the sequence of soybean chromosome 14. Values on the left side of the genetic maps are map distances in cM. Values on the left side of the sequence (physical) map are physical distance from Satt063 in kbp. The bar on the left side of the sequence map indicates the Rsv3 locus predicted on the basis of comparison of the current genetic maps. Satt063, A519-derived markers, Rsv3, M3Satt, and S156h are connected by dotted lines to show the Rsv3-containing chromosomal region.

 


Figure 2.
Figure 2.

Sequence map of the soybean chromosome 14 in the vicinity of the soybean Rsv3 gene presumed to be located between molecular markers A519F/R and M3Satt. (A) Sequence map and gene annotations of chromosome 14 between 45,750 and 49,000 kbp positions. Locations of markers are indicated above the chromosome line and locations of nucleotide-binding leucine-rich repeat (NB-LRR) (filled triangle) and leucine-rich repeat receptor-like kinase (LRR-RLK) (open triangle) genes are indicated below the line. Genes other than the NB-LRR and LRR-RLK genes are not presented. (B) Sequence map and gene annotations of the chromosome 14 between A519F/R and M3Satt. The predicted NB-LRR genes are indicated by filled rectangular arrows with orientations (from 5′ to 3′), the predicted LRR-RLK genes by open rectangular arrows, and the other genes by hatched rectangular arrows. Newly developed markers between A519F/R and M3Satt are indicated below the chromosome line. Numbers below the chromosome line are the annotated genes numbered consecutively from A519F/R to M3Satt. The five NB-LRR genes: 2, Glyma14 g38500.1; 3, Glyma14 g38510.1; 4, Glyma14 g38540.1; 5: Glyma14 g38560.1; 8, Glyma14 g38590.1 (pseudogene; highlighted by *). The other six genes: 1, Glyma14 g38490.1; 6, Glyma14 g38570.1; 7, Glyma14 g38580.1; 9, Glyma14 g38600.1; 10, Glyma14 g38610.1; 11, Glyma14 g38620.1.

 


Figure 3.
Figure 3.

Neighbor-joining phylogenetic tree of nucleotide-binding leucine-rich repeat (NB-LRR) genes. The tree was constructed using only the nucleotide-binding (NB) sequences. The NB sequence of NB-LRR proteins near or cosegregating with the Rsv3 locus, the hit sequences and their close relatives retrieved from BLASTP searches against the 1600 NB sequences collected by McHale et al. (2006) with the NB-LRR proteins in the vicinity of the Rsv3 locus, and the full-length-cloned soybean coiled-coil nucleotide-binding leucine-rich repeat (CC-NB-LRR) proteins (3 gG2, 5 gG3, 6 gG9, Rpg1-b, Rps1-k-1, and Rps1-k-2) were used to construct a gene tree. The designations of sequences except the soybean sequences are as used by McHale et al. (2006). The soybean sequences are in bold. The tree was rooted using human APAF1 protein. The scale bar represents five amino acid differences. The boxed regions represent two soybean CC-NB-LRR subclades GmCC-NB I and GmCC-NB II. Medic sati, Medicago sativa L.; Theob caca, Theobroma cacao L.; Citru sine, Citrus sinensis (L.) Osbeck; Gossy barb, Gossypium barbadense L.; Pisum sati, Pisum sativum L.; Ponci trif, Citrus trifoliata L.; Solan phur, Solanum phureja × Solanum stenotomum; Glyci max, Glycine max (L.) Merr.; Homo sapi, Homo sapiens.