Abdel-Shafy H, Bortfeldt RH, Tetens J, Brockmann G (2014) Single nucleotide polymorphism and haplotype effects associated with somatic cell score in German Holstein cattle. Genet Sel Evol 46:35
Agronomix Software, Inc (1999) Agrobase 99 user’s guide and reference manual. Agronomix Software, Inc., Winnipeg, MB. 428 pp
Balk J, Pilon M (2011) Ancient and essential: the assembly of iron-sulfur clusters in plants. Trend Plant Sci 16:218-226
Brar GS, Carter TE (1993) Soybean Glycine max (L.) Merrill. In G. Kalloo and B.O. Bergh (ed.) Genetic improvement of vegetable crops. Pergamon Press, New York. Pp. 427-463
Browning SR, Browning BL (2007) Rapid and accurate haplotype phasing and missing-data inference for whole-genome association studies by use of localized haplotype clustering. Am J Hum Genet 81:1084-1097
Bruce RW, Torkamaneh D, Grainger C, Belzile F, Eskandari M, Rajcan I (2019a) Genome-wide genetic diversity is maintained through decades of soybean breeding in Canada. Theor Appl Genet 132:3089-3100.
Bruce, R, Torkamaneh, D, Grainger, C, Belzile, F, Eskandari, M, Rajcan I. 2019. Genome-wide genetic diversity is maintained through decades of soybean breeding. Theor. Appl. Gen. 132:3089–3100
Bruce, RW, Torkamaneh, D, Grainger, CM, Belzile, F, Eskandari, M and Rajcan I. 2020. Haplotype diversity underlying quantitative traits in Canadian soybean breeding Germplasm. Theor. Appl. Genetics 133:1967–1976
Bruce RW, Torkamaneh D, Grainger C, Belzile F, Eskandari M, Rajcan I (2020) Haplotype diversity underlying quantitative traits in Canadian soybean breeding germplasm. Theor Appl Genet 133:1967-1976
Contreras-Soto RI, Mora F, Rott de Oliveira MA, Higashi W, Scapim CA, Schuster I (2017) A genome-wide association study for agronomic traits in soybean using SNP markers and SNP-based haplotype analysis. PLoS ONE 12:e0171105
Dutta S, Kumawat K, Singh BP, Gupta DK, Singh S, Dogra V, Gaikwad K, Sharma TR, Raje RS, Bandhopadhya TK, Datta S, Singh MN, Bashasab F, Kulwal P, Wanjari KB, Varshney RK, Cook DR, Singh NK (2011) Development of genic-SSR markers by deep transcriptome sequencing in pigeonpea Cajanus cajan L. Millspaugh. BMC Plant Biol 11:17
Elshire RJ, Glaubitz JC, Sun Q, Poland JA, Kawamoto K, Buckler ES, Mitchell SE (2011) A robust, simple genotyping-by-sequencing (GBS) approach for high diversity species. PLoS ONE 6:e19379
Fang C, Ma Y, Wu S, Zhi L, Zheng W, Yang R, Hu G, Zhou Z, Yu H, Zhang M, Pan Y, Zhou G, Ren G, Du W, Yan H, Wang Y, Han D, Shen Y, Liu S, Liu T, Zhang J, Qin H, Yuan J, Yuan X, Kong F, Liu B, Li J, Zhang Z, Wang G, Zhu B, Tian Z (2017) Genome-wide association studies dissect the genetic networks underlying agronomical traits in soybean. Genome Biol 18:161
Farrar J, Pollock C, Gallagher J (2000) Sucrose and the integration of metabolism in vascular plants. Plant Sci 154:1-11
Hartman GL, West ED, Herman TK (2011) Crops that feed the world 2. Soybean worldwide production, use, and constraints caused by pathogens and pests. Food Security 3:5-17
Heffner EL, Sorrells ME, Jannink JL (2009) Genomic selection for crop improvement. Crop Sci 49:1-12
Kang HM, Zaitlen NA, Wade CM, Kirby A, Heckerman D, Daly MJ, Eskin E (2008) Efficient control of population structure in model organism association mapping. Genetics 178:1709-1723
Kavroulakis N, Flemetakis E, Aivalakis G, Katinakis P (1999) Carbon metabolism in developing soybean root nodules: The role of carbonic anhydrase. Mol Plant Microbe Interact 13:14-22
Kim HK, Kang ST, Cho JH, Choung MG, Suhd Y (2005) Quantitative trait loci associated with oligosaccharide and sucrose contents in soybean (Glycine max L.). J Plant Biol 48:106-112
Korte A, Farlow A (2013) The advantages and limitations of trait analysis with GWAS: a review. Plant Methods 9:29
Lippert C, Listgarten J, Liu Y, Kadie CM, Davidson RI, Heckerman D (2011) FaST linear mixed models for genome-wide association studies. Nat Methods 8:833-835
Liu XL, Huang M, Fan B, Buckler ES, Zhang ZW (2016) Iterative usage of fixed and random effect models for powerful and efficient genome-wide association studies. PLoS Genet 12:e1005767
Lynch H, Johnston C, Wharton C (2018) Plant-based diets: Considerations for environmental impact, protein quality and exercise performance. Nutrients 10:1841
Maughan PJ, Maroof MAS, Buss GR (2000) Identification of quantitative trait loci controlling sucrose content in soybean (Glycine max). Mol Breed 6:105-111
Miflin BJ, Wallsgrove RM, Lea PJ (1981) Glutmaine metabolism in higher plants. Curr Top Cell Reg 20:1-43
OSACC (2020) Ontario soybean and canola committee. Available online: http://www.gosoy.ca. Accessed 20 October 2020
Panthee D, Pantalone V, Sams C, Saxton A, West D, Orf J, Killam A (2006) Quantitative trait loci controlling sulfur containing amino acids, methionine and cysteine, in soybean seeds. Theor Appl Genet 112:546:553
Price AL, Patterson NJ, Plenge RM, Weinblatt ME, Shadick NA, Reich D (2006) Principal components analysis corrects for stratification in genome-wide association studies. Nat Genet 38:904-909
Qiu LJ, Zing LL, Guo Y, Wang J, Jackson SA, Chang RZ (2013) A platform for soybean molecular breeding: the utilization of core collections for food security. Plant Mol Bio 83:41-50
Rao MSS, Mullinix BG, Rangappa M, Cebert E, Bhagsari AS, Sapra VT, Joshi JM, Dadson RB (2002) Genotype x environment interactions and yield stability of food-grade soybean genotypes Agron J 94:72-80
SAS Institute 2013. SAS® 9.4. SAS Institute. Cary, NC
Severin AJ, Woody JL, Bolon YT, Jospeh B, Diers BW, Farmer AD, Muehlbauer GJ, Nelson RT, Grant D, Specht JE, Graham MA, Cannon SB, May GD, Vance CP, Shoemaker RC (2010) RNA
Seq atlas of Glycine max: A guide to the soybean transcriptome. BMC Plant Biol 10:160
Skoneczka JA, Saghai Maroof MA, Shang C, Buss GR (2009) Identification of candidate gene mutation associated with low stachyose phenotype in soybean line PI200508. Crop Sci 49:24-255
Sonah H, Bastien M, Iquira E, Tardivel A, Legare G, Boyle B, Normandeau E, Laroche J, Larose S, Jean M, Belzile F (2013) An improved genotyping by sequencing (GBS) approach offering increased versatility and efficiency of SNP discovery and genotyping. PLoS ONE 8:e54603
Stein O, Granot D (2019) An overview of sucrose synthases in plants. Front Plant Sci 10:1-14
Torkamaneh D, Belzile F (2015) Scanning and filling: ultra-dense SNP genotyping combining genotyping-by-sequencing, SNP array and whole-genome resequencing data. PLoS ONE 10:e0131533
Torkamaneh D, Laroche J, Tardivel A, O’Donoughue L, Cober E, Rajcan I, Belzile F (2017)
Comprehensive description of genomewide nucleotide and structural variation in short season soya bean. Plant Biotechnol J 16:749:759
Torkamaneh D, Boyle B, Belzile F (2018) Efficient genome-wide genotyping strategies and data integration in crop plants. Theor. Appl. Genet., 131:499-511
Wang M, Yan J, Zhao J, Song W, Zhang X, Xiao Y, Zheng Y (2012) Genome-wide association study (GWAS) of resistance to head smut in maize. Plant Sci 196:125-131
Xu X, Yang Y, Liu C, Sun Y, Zhang T, Hou M, Huang S, Yuan H (2019) The evolutionary history of the sucrose synthase gene family in higher plants. BMC Plant Biol 19:566
Yin L, Zhang H, Tang Z, Xu J, Yin D, Zhang Z, Yuan X, Zhu M, Zhao S, Li X, Xiaolei L (2020) rMVP: A memory-efficient, visualization-enhanced, and parallel-accelerated tool for genome
wide association study. bioRxiv doi:10.1101/2020.08.20.258491
Young VR (1991) Soy protein in relation to human protein and amino acid nutrition. J Am Diet Assoc 91:828-835
Yu J, Pressoir G, Briggs WH, Vroh BI, Yamasaki M, Doebley JF, McMullen MD, Gaut BS, Nielsen DM, Holland JB, Kresovich S, Buckler ES (2006) A unified mixed-model method for association mapping that accounts for multiple levels of relatedness. Nat Genet 38:203-208