Genome-wide association analysis of 1-octen-3-ol content related to soymilk off-flavor in soybean seed
Ning Xia A B , Mingming Yang B , Junhan Zhao B , Yupeng Shao B , Yanguo Shi A C , Wenbing Yan B , Xiaoqi Wang B , Yingpeng Han![https://orcid.org/0000-0002-9829-6588](/media/client/orcid_16x16.png)
A School of Food Engineering, Harbin University of Commerce, 150030. Harbin, China.
B Key Laboratory of Soybean Biology in Chinese Ministry of Education (Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry), Northeast Agricultural University, 150030, Harbin, China.
C Corresponding authors. Email: hyp234286@aliyun.com; zhikunwang1998@aliyun.com; hrbshiyanguo@126.com
Crop and Pasture Science 70(2) 133-139 https://doi.org/10.1071/CP18423
Submitted: 14 September 2018 Accepted: 7 January 2019 Published: 26 February 2019
Abstract
Chemical compounds in soybean (Glycine max (L.) Merr.) seed have great effects on the flavour and taste of soymilk. The 1-octen-3-ol content in soybean seed could produce sensory off-flavours (mushrooms, lavender, rose and hay flavour) during the processing of soymilk. The most effective way to reduce off-flavours of soymilk is the screening and utilisation of soybean cultivars with reduced 1-octen-3-ol content. However, genomic study of 1-octen-3-ol in soybean has not previously been reported. In the present work, a natural population of 90 diverse soybean accessions was used to dissect the genetic basis of 1-octen-3-ol content in soybean seed through genome-wide association analysis by using 26 822 single nucleotide polymorphisms (SNPs). Twenty-one novel quantitative trait nucleotides (QTNs) were thus identified to be associated with 1-octen-3-ol content in soybean seed. Among them, 13 QTNs overlapped with, or were located in, the linked regions of known QTNs for protein, oil and/or fatty acid content in soybean seed. The functional genes located in the 200-kb genomic region of each peak SNP were considered possible candidates related to 1-octen-3-ol, such as genes involved in amino acid metabolism, protein content, and hormone metabolism. The identified loci with beneficial alleles and the candidate genes may be valuable for improving the off-flavours of soymilk.
Additional keywords: candidate genes, genome-wide association mapping.
References
Achouri A, Boye J, Zamani Y (2006) Identification of volatile compounds in soymilk using solid-phase microextraction–gas chromatography. Food Chemistry 99, 759–766.| Identification of volatile compounds in soymilk using solid-phase microextraction–gas chromatography.Crossref | GoogleScholarGoogle Scholar |
Allen FL (1994) Usefulness of plant genome mapping to plant breeding. In ‘Plant genome analysis’. (Ed. P Gresshoff) pp. 11-18. (CRC Press: Boca Raton, FL, USA)
Badenhop AF, Wilkens WF (1969) The formation of 1-octen-3-ol in soybeans during soaking. Journal of the American Oil Chemists’ Society 46, 179–182.
| The formation of 1-octen-3-ol in soybeans during soaking.Crossref | GoogleScholarGoogle Scholar |
Bradbury PJ, Zhang Z, Kroon DE, Casstevens TM, Ramdoss Y, Buckler ES (2007) TASSEL: software for association mapping of complex traits in diverse samples. Bioinformatics 23, 2633–2635.
| TASSEL: software for association mapping of complex traits in diverse samples.Crossref | GoogleScholarGoogle Scholar | 17586829PubMed |
Brummer EC, Graef GL, Orf J (1997) Mapping QTL for seed protein and oil content in eight soybean populations. Crop Science 37, 370–378.
| Mapping QTL for seed protein and oil content in eight soybean populations.Crossref | GoogleScholarGoogle Scholar |
Cheng P, Gedling CR, Patil G, Vuong TD, Shannon JG, Dorrance AE, Nguyen HT (2017) Genetic mapping and haplotype analysis of a locus for quantitative resistance to Fusarium graminearum in soybean accession PI 567516C. Theoretical and Applied Genetics 130, 999–1010.
| Genetic mapping and haplotype analysis of a locus for quantitative resistance to Fusarium graminearum in soybean accession PI 567516C.Crossref | GoogleScholarGoogle Scholar | 28275816PubMed |
Guo B, Sleper DA, Nguyen HT, Arelli PR, Shannon JG (2006) Quantitative trait loci underlying resistance to three soybean cyst nematode populations in soybean PI 404198A. Crop Science 46, 224–233.
| Quantitative trait loci underlying resistance to three soybean cyst nematode populations in soybean PI 404198A.Crossref | GoogleScholarGoogle Scholar |
Han Y, Zhao X, Cao G, Wang Y, Li Y, Liu D, Teng W, Zhang Z, Li D, Qiu L (2015) Genetic characteristics of soybean resistance to HG type 0 and HG type 1.2.3.5.7 of the cyst nematode analyzed by genome-wide association mapping. BMC Genomics 16, 598
| Genetic characteristics of soybean resistance to HG type 0 and HG type 1.2.3.5.7 of the cyst nematode analyzed by genome-wide association mapping.Crossref | GoogleScholarGoogle Scholar | 26268218PubMed |
Hwang EY, Song Q, Jia G, Specht JE, Hyuten DL, Costa J, Cregan PB (2014) A genome-wide association study of seed protein and oil content in soybean. BMC Genomics 15, 1
| A genome-wide association study of seed protein and oil content in soybean.Crossref | GoogleScholarGoogle Scholar | 24382143PubMed |
Hyten DL, Pantalone VR, Saxton AM (2004) Molecular mapping and identification of soybean fatty acid modifier quantitative trait loci. Journal of the American Oil Chemists’ Society 81, 1115
| Molecular mapping and identification of soybean fatty acid modifier quantitative trait loci.Crossref | GoogleScholarGoogle Scholar |
Josephs EB, Stinchcombe JR, Wright SI (2017) What can genome-wide association studies tell us about the evolutionary forces maintaining genetic variation for quantitative traits. New Phytologist 214, 21–33.
| What can genome-wide association studies tell us about the evolutionary forces maintaining genetic variation for quantitative traits.Crossref | GoogleScholarGoogle Scholar | 28211582PubMed |
Keast R, Lau J (2006) Culture-specific variation in the flavor profile of soymilks. Journal of Food Science 71, S567–S572.
| Culture-specific variation in the flavor profile of soymilks.Crossref | GoogleScholarGoogle Scholar |
Kim Y, Kim C (1999) Effects of extraction methods and heating times on physicochemical properties of soymilk. Korean Soybean Dig 16, 40–55.
Kobayashi A, Tsuda Y, Hirata N, Kubota K, Kitamura K (1995) Aroma constituents of soybean [Glycine max (L.) Merril] milk lacking lipoxygenase isoenzymes. Journal of Agricultural and Food Chemistry 43, 2449–2452.
| Aroma constituents of soybean [Glycine max (L.) Merril] milk lacking lipoxygenase isoenzymes.Crossref | GoogleScholarGoogle Scholar |
Lam H, Xu X, Liu X, Chen W, Yang G, Wong F, Li M, He W, Qin N, Li J, Jian M, Wang J, Shao G, Wang J, Sun S, Zhang G (2010) Resequencing of 31 wild and cultivated soybean genomes identifies patterns of genetic diversity and selection. Nature Genetics 42, 1053–1059.
| Resequencing of 31 wild and cultivated soybean genomes identifies patterns of genetic diversity and selection.Crossref | GoogleScholarGoogle Scholar | 21076406PubMed |
Li RQ, Yu C, Li YR, Lam TW, Yiu SM, Kristiansen K, Wang J (2009) SOAP2: an improved ultrafast tool for short read alignment. Bioinformatics 25, 1966–1967.
| SOAP2: an improved ultrafast tool for short read alignment.Crossref | GoogleScholarGoogle Scholar |
Li H, Zhao T, Wang Y, Yu D, Chen S, Zhou R, Gai J (2011) Genetic structure composed of additive QTL, epistatic QTL pairs and collective unmapped minor QTL conferring oil content and fatty acid components of soybeans. Euphytica 182, 117–132.
| Genetic structure composed of additive QTL, epistatic QTL pairs and collective unmapped minor QTL conferring oil content and fatty acid components of soybeans.Crossref | GoogleScholarGoogle Scholar |
Li Y, Reif J, Ma Y, Hong H, Liu Z, Chang R, Qiu L (2015) Targeted association mapping demonstrating the complex molecular genetics of fatty acid formation in soybean. BMC Genomics 16, 841
| Targeted association mapping demonstrating the complex molecular genetics of fatty acid formation in soybean.Crossref | GoogleScholarGoogle Scholar | 26494482PubMed |
Lipka AE, Tian F, Wang Q, Peiffer J, Li M, Bradbury PJ, Gore MA, Buckler ES, Zhang Z (2012) GAPIT: genome association and prediction integrated tool. Bioinformatics 28, 2397–2399.
| GAPIT: genome association and prediction integrated tool.Crossref | GoogleScholarGoogle Scholar | 22796960PubMed |
Pandurangan S, Pajak A, Molnar SJ, Cober ER, Dhaubhadel S, Hernandez-Sebastia C (2012) Relationship between asparagine metabolism and protein concentration in soybean seed. Journal of Experimental Botany 63, 3173–3184.
| Relationship between asparagine metabolism and protein concentration in soybean seed.Crossref | GoogleScholarGoogle Scholar | 22357599PubMed |
Reinprecht Y, Poysa VW, Yu K, Rajcan I, Ablett GR, Pauls KP (2006) Seed and agronomic QTL in low linolenic acid, lipoxygenase-free soybean (Glycine max (L.) Merrill) germplasm. Genome 49, 1510–1527.
| Seed and agronomic QTL in low linolenic acid, lipoxygenase-free soybean (Glycine max (L.) Merrill) germplasm.Crossref | GoogleScholarGoogle Scholar | 17426766PubMed |
Sun X, Liu D, Zhang X, Li W, Liu H, Hong W, Jiang C, Guan N, Ma C, Zheng H (2013) SLAF-seq: an efficient method of large-scale de novo SNP discovery and genotyping using high-throughput sequencing. PLoS One 8, e58700
| SLAF-seq: an efficient method of large-scale de novo SNP discovery and genotyping using high-throughput sequencing.Crossref | GoogleScholarGoogle Scholar | 24391853PubMed |
Vara-Ubol S, Chambers E, Chambers DH (2004) Sensory characteristics of chemical compounds potentially associated with beany aroma. Journal of Sensory Studies 19, 15–26.
| Sensory characteristics of chemical compounds potentially associated with beany aroma.Crossref | GoogleScholarGoogle Scholar |
Wang B, Xiong YL, Wang C (2001) Physicochemical and sensory characteristics of flavored soymilk during refrigeration storage. Journal of Food Quality 24, 513–526.
| Physicochemical and sensory characteristics of flavored soymilk during refrigeration storage.Crossref | GoogleScholarGoogle Scholar |
Wilkens W, Lin F (1970) Gas chromatographic and mass spectral analyses of soybean milk volatiles. Journal of Agricultural and Food Chemistry 18, 333–336.
| Gas chromatographic and mass spectral analyses of soybean milk volatiles.Crossref | GoogleScholarGoogle Scholar |
Xie D, Han Y, Zeng Y, Chang W, Teng W, Li W (2012) SSR- and SNP-related QTL underlying linolenic acid and other fatty acid contents in soybean seeds across multiple environments. Molecular Breeding 30, 169–179.
| SSR- and SNP-related QTL underlying linolenic acid and other fatty acid contents in soybean seeds across multiple environments.Crossref | GoogleScholarGoogle Scholar |
Yan L, Hofmann N, Li SX, Ferreira ME, Song BH, Jiang GL, Ren SX, Quigley C, Fickus E, Cregan P, Song QJ (2017) Identification of QTL with large effect on seed weight in a selective population of soybean with genome-wide association and fixation index analyses. BMC Genomics 18, 529
| Identification of QTL with large effect on seed weight in a selective population of soybean with genome-wide association and fixation index analyses.Crossref | GoogleScholarGoogle Scholar | 28701220PubMed |
Yuan S, Chang K (2007) Selected odor compounds in soymilk as affected by chemical composition and lipoxygenases in five soybean materials. Journal of Agricultural and Food Chemistry 55, 426–431.
| Selected odor compounds in soymilk as affected by chemical composition and lipoxygenases in five soybean materials.Crossref | GoogleScholarGoogle Scholar | 17227075PubMed |
Zhao X, Teng W, Li Y, Liu D, Gao G, Li D, Qiu L, Zheng H, Han Y, Li W (2017) Loci and candidate genes conferring resistance to soybean cyst nematode HG type 2.5.7. BMC Genomics 18, 462
| Loci and candidate genes conferring resistance to soybean cyst nematode HG type 2.5.7.Crossref | GoogleScholarGoogle Scholar | 28615053PubMed |