Genetic diversity of rhg1 and Rhg4 loci in wild soybeans resistant to soybean cyst nematode race 3.
Over-utilization of germplasms that are resistant to the soybean cyst nematode (SCN) in soybean breeding programs can lead to genetic vulnerability in resistant cultivars. Resistant wild soybean (Glycine soja) is considered an invaluable gene source for increasing the genetic diversity of SCN resistance. In this study, we genotyped 23 G. soja accessions that are resistant to SCN race 3 for polymorphisms in the resistance genes, rhg1, Rhg4, and SHMT, and investigated their genetic relationship with eight Glycine max resistant cultivars. We identified 89 single nucleotide polymorphisms (SNPs) and 11 DNA insertion-deletions (InDels), of which 70 SNPs and 8 InDels were found in rhg1, 9 SNPs were found in Rhg4, and 10 SNPs and 3 InDels were found in SHMT. Nucleotide diversity was π = 0.00238 and θ = 0.00235, and haplotype diversity was 1.000. A phylogenetic tree comprising four clusters was constructed using sequence variations of the 23 G. soja and 8 G. max resistant accessions. Five G. soja accessions in subcluster A2, and four G. soja accessions in cluster B were genetically distant from G. max genotypes. Eight resistance-associated SNPs in the three resistance genes formed nine haplotypes in total. G. soja resistant accessions had different haplotypes (H2, H4, H5, H6, H7, and H8) compared with those of G. max (H1, H3, and H9). These results provide vital information on the use of wild soybeans for broadening the genetic base of SCN resistance.
Soybean Research Institute, Jilin Academy of Agricultural Sciences, Changchun, Jilin, China.
C P
CP
Yuan
Institute of Agricultural Resources and Environment, Jilin Academy of Agricultural Sciences, Changchun, Jilin, China.
Y J
YJ
Wang
Crop Germplasm Institute, Jilin Academy of Agricultural Sciences, Changchun, Jilin, China.
H K
HK
Zhao
Agro-Biotechnology Research Institute, Jilin Academy of Agricultural Sciences, Changchun, Jilin, China.
L
L
Zhang
Soybean Research Institute, Jilin Academy of Agricultural Sciences, Changchun, Jilin, China.
Y M
YM
Wang
Soybean Research Institute, Jilin Academy of Agricultural Sciences, Changchun, Jilin, China.
X D
XD
Liu
Agro-Biotechnology Research Institute, Jilin Academy of Agricultural Sciences, Changchun, Jilin, China.
X F
XF
Zhong
Agro-Biotechnology Research Institute, Jilin Academy of Agricultural Sciences, Changchun, Jilin, China.
Y S
YS
Dong
D000483:Alleles; D000818:Animals; D002352:Carrier Proteins / Q000235:genetics; D060467:Disease Resistance / Q000235:genetics*; D014644:Genetic Variation; D005838:Genotype; D012696:Glycine Hydroxymethyltransferase / Q000235:genetics*; D006239:Haplotypes; D054643:INDEL Mutation / Q000235:genetics; D007113:Immunity, Innate / Q000235:genetics; D009348:Nematoda / Q000472:pathogenicity; D010802:Phylogeny; D010935:Plant Diseases / Q000235:genetics* / Q000469:parasitology; D040641:Quantitative Trait Loci / Q000235:genetics; D030262:Soybean Proteins / Q000235:genetics*; D013025:Glycine max / Q000235:genetics* / Q000469:parasitology
D002352:Carrier Proteins; D030262:Soybean Proteins; D012696:Glycine Hydroxymethyltransferase