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Identification of a new GmSACPD-C allele in high stearic acid mutant Hfa180 derived from gamma-ray irradiation

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Abstract

Stearic acid is the most important saturated fatty acid compound in soybean oil. A typical soybean cultivar has 2–3% stearic acid content of total oil. Recently, a new high stearic acid mutant Hfa180 was developed from gamma-ray irradiation with “Ilmikong.” The objectives of this study were to identify the mutant gene associated with high stearic acid content in Hfa180 and to develop a Kompetitive Allele-Specific PCR (KASP) assay for selection of soybeans with elevated levels of stearic acid in seeds. Target sequencing of the whole GmSACPD-C gene encoding D9-stearoyl-ACP-desaturase revealed that Hfa180 contained a three-base-pair deletion (GAG) at genomic positions 190 to 192 of the 1st exon of GmSACPD-C. The three-base deletion caused a variant with a single amino acid (glutamine) deletion at position 64 in the predicted GmSACPD-C amino acid in Hfa180, as well as an average 60% reduction in GmSACPD-C gene expression in Hfa180 compared to that of the wild type. Genetic linkage analysis using the F2 population derived from a crossing between Hfa180 and the wild-type “Deapung” confirmed that the mutation allele of GmSACPD-C was perfectly correlated with elevation of seed stearic acid content. In addition, a KASP marker was developed to identify the mutation allele on the GmSACPD-C gene, which was successfully applied to select high stearic acid soybean lines. The identification of the mutant gene of the high stearic acid mutant Hfa180 and development of the KASP marker could be useful for improving stearic acid content in soybean oil.

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References

  • Akond M, Kantartzi SK, Meksem K, Song Q, Wang D, Wen Z, Lightfoot DA, Kassem MA (2013) A SNP-based genetic linkage map of soybean using the SoySNP6K Illumina Infinium Beadchip genotyping array. J Plant Genome Sci 1:80–89

    Google Scholar 

  • Boersma JG, Gillman JD, Bilyeu KD, Ablett GR, Grainger C, Rajcan I (2012) New mutations in a delta-9-stearoyl-acyl carrier protein desaturase gene associated with enhanced stearic acid levels in soybean seed. Crop Sci 52:1736–1742

    Article  CAS  Google Scholar 

  • Byfield GE, Xue H, Upchurch RG (2006) Two genes from soybean encoding soluble Δ9 stearoyl-ACP desaturases. Crop Sci 46:840–846

    Article  CAS  Google Scholar 

  • Carrero-Colón M, Abshire N, Sweeney D, Gaskin E, Hudson K (2014) Mutations in SACPD-C result in a range of elevated stearic acid concentration in soybean seed. PLoS One 9:e97891

    Article  Google Scholar 

  • Clemente TE, Cahoon EB (2009) Soybean oil: genetic approaches for modification of functionality and total content. Plant Physiol 151:1030–1040

    Article  CAS  Google Scholar 

  • Damude HG, Kinney AJ (2008) Enhancing plant seed oils for human nutrition. Plant Physiol 147:962–968

    Article  CAS  Google Scholar 

  • Devi A, Khatkar BS (2016) Physicochemical, rheological and functional properties of fats and oils in relation to cookie quality: a review. J Food Sci Technol 53:3633–3641

    Article  CAS  Google Scholar 

  • DiRienzo MA, Lemke SL, Petersen BJ, Smith KM (2008) Effect of substitution of high stearic low linolenic acid soybean oil for hydrogenated soybean oil on fatty acid intake. Lipids 43:451–456

    Article  CAS  Google Scholar 

  • Fattore E, Fanelli R (2013) Palm oil and palmitic acid: a review on cardiovascular effects and carcinogenicity. Int J Food Sci Nutr 64:648–659

    Article  CAS  Google Scholar 

  • Fehr WR (2007) Breeding for modified fatty acid composition in soybean. Crop Sci 47:S-72–S-87

    Article  Google Scholar 

  • Gillman JD, Stacey MG, Cui Y, Berg HR, Stacey G (2014) Deletions of the SACPD-C locus elevate seed stearic acid levels but also result in fatty acid and morphological alterations in nitrogen fixing nodules. BMC Plant Biol 14:1–19

    Article  Google Scholar 

  • Hall TA (1999) BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 41:95–98

    CAS  Google Scholar 

  • Hammond EG, Fehr WR (1983) Registration of A6 germplasm line of soybean. Crop Sci 23:192–193

    Google Scholar 

  • Heim CB, Gillman JD (2017) Genotyping-by-sequencing-based investigation of the genetic architecture responsible for a ∼sevenfold increase in soybean seed stearic acid. G3: genes|genomes|. Genetics 7:299–308

    CAS  Google Scholar 

  • Hunter JE, Zhang J, Kris-Etherton PM (2010) Cardiovascular disease risk of dietary stearic acid compared with trans, other saturated, and unsaturated fatty acids: a systematic review. Am J Clin Nutr 91:46–63

    Article  CAS  Google Scholar 

  • Jeong J-E, Kulkarni KP, Chang JH, Ha B-K, Kang ST, Bilyeu K, Jo H, Song JT, Lee J-D (2018) A novel allele of GmSACPD-C associated with high seed stearic acid concentration in an EMS-induced mutant PE980 in soybean. Crop Sci 58:192–203

    Article  Google Scholar 

  • Lee KJ, Kim DS, Kim J-B, Jo S-H, Kang S-Y, Choi H-I, Ha B-K (2016) Identification of candidate genes for an early-maturing soybean mutant by genome resequencing analysis. Mol Gen Genomics 291:1561–1571

    Article  CAS  Google Scholar 

  • Li Z, Jiang L, Ma Y, Wei Z, Hong H, Liu Z, Lei J, Liu Y, Guan R, Guo Y, Jin L, Zhang L, Li Y, Ren Y, He W, Liu M, Htwe NMPS, Liu L, Guo B, Song J, Tan B, Liu G, Li M, Zhang X, Liu B, Shi X, Han S, Hua S, Zhou F, Yu L, Li Y, Wang S, Wang J, Chang R, Qiu L (2017) Development and utilization of a new chemically-induced soybean library with a high mutation density. J Integr Plant Biol 59:60–74

    Article  CAS  Google Scholar 

  • Libault M, Thibivilliers S, Bilgin DD, Radwan O, Benitez M, Clough SJ, Stacey G (2008) Identification of four soybean reference genes for gene expression normalization. Plant Genome 1:44–54

    Article  CAS  Google Scholar 

  • Lightner J, Wu J, Browse J (1994) A mutant of Arabidopsis with increased levels of stearic acid. Plant Physiol 106:1443–1451

    Article  CAS  Google Scholar 

  • Michael JT (2014) High-throughput SNP genotyping to accelerate crop improvement. Plant Breed Biotechnol 2:195–212

    Article  Google Scholar 

  • Moche M, Shanklin J, Ghoshal A, Lindqvist Y (2003) Azide and acetate complexes plus two iron-depleted crystal structures of the di-iron enzyme Δ9 stearoyl-acyl carrier protein desaturase: implications for oxygen activation and catalytic intermediates. J Biol Chem 278:25072–25080

    Article  CAS  Google Scholar 

  • Pantalone VR, Wilson RF, Novitzky WP, Burton JW (2002) Genetic regulation of elevated stearic acid concentration in soybean oil. J Am Oil Chem Soc 79:549–553

    Article  CAS  Google Scholar 

  • Park KY, Moon JK, Yun HT, Lee YH, Kim SL, Ryu YH, Kim YH, Ku JH, Roh JH, Lee ES, Ha KS, Kim IJ, Chang-Ki S, Kim S-K, Kim S-D, Moon H-P (2005) A new soybean cultivar for fermented soyfood and tofu with high yield, “Daepung”. Kor J Breed Sci 37:111–112

    Google Scholar 

  • Patil A, Taware SP, Oak MD, Tamhankar SA, Rao VS (2007) Improvement of oil quality in soybean [Glycine max (L.) Merrill] by mutation breeding. J Am Oil Chem Soc 84:1117–1124

    Article  CAS  Google Scholar 

  • Patil G, Chaudhary J, Vuong TD, Jenkins B, Qiu D, Kadam S, Shannon GJ, Nguyen HT (2017) Development of SNP genotyping assays for seed composition traits in soybean. Int J Plant Genomics 2017:1–12

    Article  Google Scholar 

  • Rahman MS, Takagi Y, Kinoshita T (1997) Genetic control of high stearic acid content in seed oil of two soybean mutants. Theor Appl Genet 95:772–776

    Article  CAS  Google Scholar 

  • Rasheed A, Wen W, Gao F, Zhai S, Jin H, Liu J, Guo Q, Zhang Y, Dreisigacker S, Xia X, He Z (2016) Development and validation of KASP assays for genes underpinning key economic traits in bread wheat. Theor Appl Genet 129:1843–1860

    Article  CAS  Google Scholar 

  • Ruddle P II, Whetten R, Cardinal A, Upchurch R, Miranda L (2013) Effect of a novel mutation in a Δ9-stearoyl-ACP-desaturase on soybean seed oil composition. Theor Appl Genet 126:241–249

    Article  CAS  Google Scholar 

  • Ruddle P II, Whetten R, Cardinal A, Upchurch R, Miranda L (2014) Effect of Δ9-stearoyl-ACP-desaturase-C mutants in a high oleic background on soybean seed oil composition. Theor Appl Genet 127:349–358

    Article  CAS  Google Scholar 

  • Semagn K, Babu R, Hearne S, Olsen M (2014) Single nucleotide polymorphism genotyping using Kompetitive Allele Specific PCR (KASP): overview of the technology and its application in crop improvement. Mol Breed 33:1–14

    Article  CAS  Google Scholar 

  • Shi Z, Bachleda N, Pham AT, Bilyeu K, Shannon G, Nguyen H, Li Z (2015) High-throughput and functional SNP detection assays for oleic and linolenic acids in soybean. Mol Breed 35:176

    Article  Google Scholar 

  • Shin DC, Baek IY, Kang ST, Song SB, Hur SO, Kwack YH, Lim MS (1998) A new diseases and lodging resistance, high yielding soybean variety “Ilmiking”. Kor J Breed Sci 30:397–397

    Google Scholar 

  • Spencer M, Pantalone V, Meyer E, Landau-Ellis D, Hyten D (2003) Mapping the Fas locus controlling stearic acid content in soybean. Theor Appl Genet 106:615–619

    Article  CAS  Google Scholar 

  • Steele KA, Quinton-Tulloch MJ, Amgai RB, Dhakal R, Khatiwada SP, Vyas D, Heine M, Witcombe JR (2018) Accelerating public sector rice breeding with high-density KASP markers derived from whole genome sequencing of indica rice. Mol Breed 38:38

    Article  Google Scholar 

  • Sun Y, Neelakantan N, Wu Y, Lote-Oke R, Pan A, van Dam RM (2015) Palm oil consumption increases LDL cholesterol compared with vegetable oils low in saturated fat in a meta-analysis of clinical trials. J Nutr 145:1549–1558

    Article  CAS  Google Scholar 

  • Valenzuela A, Delplanque B, Tavella M (2011) Stearic acid: a possible substitute for trans fatty acids from industrial origin. Grasas Aceites 62:131–138

    Article  CAS  Google Scholar 

  • Van Ooijen JW (2011) Multipoint maximum likelihood mapping in a full-sib family of an outbreeding species. Genet Res 93:343–349

    Article  Google Scholar 

  • Voorrips RE (2002) MapChart: software for the graphical presentation of linkage maps and QTLs. J Hered 93:77–78

    Article  CAS  Google Scholar 

  • Yuan J, Wen Z, Gu C, Wang D (2014) Introduction of high throughput and cost effective SNP genotyping platforms in soybean. Plant Genet Genomics Biotechnol 2:90–94

    Article  Google Scholar 

  • Zhang P, Burton JW, Upchurch RG, Whittle E, Shanklin J, Dewey RE (2008) Mutations in a Δ9–stearoyl-ACP-desaturase gene are associated with enhanced stearic acid levels in soybean seeds. Crop Sci 48:2305–2313

    Article  CAS  Google Scholar 

  • Zhao S, Li A, Li C, Xia H, Zhao C, Zhang Y, Hou L, Wang X (2017) Development and application of KASP marker for high throughput detection of AhFAD2 mutation in peanut. Electron J Biotechnol 25:9–12

    Article  CAS  Google Scholar 

Download references

Funding

This work was carried out with the support of the “Cooperative Research Program for Agriculture Science and Technology Development (Project No. PJ012214)” Rural Development Administration and the National Research Foundation of Korea (NRF) (NRF-2018M2A2A6A05057264), Republic of Korea.

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  1. Sang Hun Kim and Jaihyunk Ryu contributed equally to this work.

Authors and Affiliations

  1. Division of Plant Biotechnology, Chonnam National University, Gwangju, 61186, Republic of Korea

    Sang Hun Kim, Woon Ji Kim, Ryulyi Kang, Eunju Seo, Gyutae Kim & Bo-Keun Ha

  2. Advanced Radiation Technology Institute, Korea Atomic Energy Research Institute, Jeongeup, 56212, Republic of Korea

    Jaihyunk Ryu & Si-Yong Kang

  3. School of Applied Biosciences, Kyungpook National University, Daegu, 41566, Republic of Korea

    Jeong-Dong Lee

Authors
  1. Sang Hun Kim
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Contributions

Sang Hun Kim and Jaihyunk Ryu conducted experiments and data analysis, and wrote the manuscript. Woon Ji Kim contributed to the development of the F2 mapping population. Ryulyi Kang and Eunju Seo contributed to the KASP genotyping assay. Gyutae Kim contributed to the RT-PCR assay. Si-Yong Kang contributed to the gamma-ray irradiated population. Jeong-Dong Lee contributed to the fatty-acid determination. Bo-Keun Ha designed the study and reviewed and edited the manuscript. All authors read and approved the final manuscript.

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Correspondence to Bo-Keun Ha.

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Kim, S.H., Ryu, J., Kim, W.J. et al. Identification of a new GmSACPD-C allele in high stearic acid mutant Hfa180 derived from gamma-ray irradiation. Mol Breeding 39, 17 (2019). https://doi.org/10.1007/s11032-019-0928-0

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