Mapping and identification of a potential candidate gene for a novel maturity locus, E10, in soybean.
E10 is a new maturity locus in soybean and FT4 is the predicted/potential functional gene underlying the locus. Flowering and maturity time traits play crucial roles in economic soybean production. Early maturity is critical for north and west expansion of soybean in Canada. To date, 11 genes/loci have been identified which control time to flowering and maturity; however, the molecular bases of almost half of them are not yet clear. We have identified a new maturity locus called "E10" located at the end of chromosome Gm08. The gene symbol E10e10 has been approved by the Soybean Genetics Committee. The e10e10 genotype results in 5-10 days earlier maturity than E10E10. A set of presumed E10E10 and e10e10 genotypes was used to identify contrasting SSR and SNP haplotypes. These haplotypes, and their association with maturity, were maintained through five backcross generations. A functional genomics approach using a predicted protein-protein interaction (PPI) approach (Protein-protein Interaction Prediction Engine, PIPE) was used to investigate approximately 75 genes located in the genomic region that SSR and SNP analyses identified as the location of the E10 locus. The PPI analysis identified FT4 as the most likely candidate gene underlying the E10 locus. Sequence analysis of the two FT4 alleles identified three SNPs, in the 5'UTR, 3'UTR and fourth exon in the coding region, which result in differential mRNA structures. Allele-specific markers were developed for this locus and are available for soybean breeders to efficiently develop earlier maturing cultivars using molecular marker assisted breeding.
Agriculture and Agri-Food Canada, Ottawa Research and Development Centre, Ottawa, ON, K1A 0C6, Canada.
Bahram
B
Samanfar
Agriculture and Agri-Food Canada, Ottawa Research and Development Centre, Ottawa, ON, K1A 0C6, Canada.
Stephen J
SJ
Molnar
Agriculture and Agri-Food Canada, Ottawa Research and Development Centre, Ottawa, ON, K1A 0C6, Canada.
Martin
M
Charette
School of Computer Science, Carleton University, Ottawa, ON, K1S 5B6, Canada.
Andrew
A
Schoenrock
School of Computer Science, Carleton University, Ottawa, ON, K1S 5B6, Canada.
Frank
F
Dehne
Department of Biology and Ottawa Institute of Systems Biology, Carleton University, Ottawa, ON, K1S 5B6, Canada.
Ashkan
A
Golshani
Département de Phytologie and Institut de Biologie Intégrative et des Systèmes, Université Laval, Quebec City, QC, G1V 0A6, Canada.
François
F
Belzile
Agriculture and Agri-Food Canada, Ottawa Research and Development Centre, Ottawa, ON, K1A 0C6, Canada. elroy.cober@agr.gc.ca.
Elroy R
http://orcid.org/0000-0002-4673-1808
ER
Cober
D002874:Chromosome Mapping; D019295:Computational Biology; D018744:DNA, Plant / Q000235:genetics; D056426:Genetic Loci; D005819:Genetic Markers; D005838:Genotype; D006239:Haplotypes; D018895:Microsatellite Repeats; D009690:Nucleic Acid Conformation; D000069600:Plant Breeding; D020641:Polymorphism, Single Nucleotide; D012333:RNA, Messenger / Q000737:chemistry; D013025:Glycine max / Q000235:genetics* / Q000502:physiology
D018744:DNA, Plant; D005819:Genetic Markers; D012333:RNA, Messenger