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DNA allelic variations at the loci putatively implicated in seed oil formation among Brassica oilseed cultivars

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Abstract

Knowledge about the genes implicated in lipid biosynthesis acquired from the model plant Arabidopsis is useful in understanding the formation of seed oil in Brassica oilseeds. In this paper, we report the screening of polymorphic markers at the loci putative for the seed oil formation between two geographically different genotypes: the Chinese cultivar Ningyou-7 and the European cultivar Tapidor. These primer pairs (150) were designed based on 75 Brassica genes that were Arabidopsis orthologues implicated in the oil formation. A total of 52 out of the 150 primer pairs associated with 47 of the 75 genes showed polymorphisms between the two genotypes. The type of polymorphisms that could be detected on capillary electrophoresis images and their respective visual futures are described. Further, we selected 34 polymorphic markers to scan allelic variations and found rich DNA polymorphisms among the 54 Brassica oilseed cultivars. On the average, each primer pair resulted in 5.6 alleles at the region that was covered. The correlation between the alleles and seed quality traits revealed that the alleles of BnFAD7 were related to the variation of linolenic acid (C18:3) contents among the cultivars. The allele FAD7-ics11170 (3/4)-b that was significantly correlated with high linolenic acid content can be used as an efficient marker for the selection of breeding materials with high linolenic acid content.

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Abbreviations

FAD:

Fatty acid desaturase

DR:

Dominant and recessive

FSP:

Fragment size polymorphism

C type:

Combined type

References

  • Baud S, Cui L, Wall PK, Leebens-Mack JH, Lindsay BG, Soltis DE, Doyle JJ, Soltis PS, Carlson JE, Arumuganathan K, Barakat A, Albert VA, Ma H, dePamphilis CW (2006) Widespread genome duplications throughout the history of flowering plants. Genome Res 16:738–749

    Article  CAS  Google Scholar 

  • Beisson F, Koo AJK, Ruuska S, Schwender J, Pollard M, Thelen JJ, Paddock T, Salas JJ, Savage L, Milcamps A, Mhaske VB, Cho Y, Ohlrogge JB (2003) Arabidopsis genes involved in acyl lipid metabolism. A 2003 census of the candidates, a study of the distribution of expressed sequence tags in organs, and a web-based database. Plant Physiol 132:681–697

    Article  CAS  PubMed  Google Scholar 

  • Bevan M, Walsh S (2005) The Arabidopsis genome: a foundation for plant research. Genome Res 15:1632–1642

    Article  CAS  PubMed  Google Scholar 

  • Bierne N, Lehnert SA, Be’dier E, Bonhomme F, Moore SS (2000) Screening for intron-length polymorphisms in penaeid shrimps using exon-primed intron-crossing (EPIC)-PCR. Mol Ecol 9:233–235

    Article  CAS  PubMed  Google Scholar 

  • Blanc G, Wolfe KH (2004) Functional divergence of duplicated genes formed by polyploidy during Arabidopsis evolution. Plant Cell 16:1679–1691

    Article  CAS  PubMed  Google Scholar 

  • Botstein D, White RL, Skolnick M, Davies RW (1980) Construction of a genetic map in man using restriction fragment length polymorphisms. Am J Hum Genet 32:314–331

    CAS  PubMed  Google Scholar 

  • Corte-Real HBSM, Dixon DR, Holland PWH (1994) Intron-targeted PCR: a new approach to survey neutral DNA polymorphism in bivalve populations. Mar Biol 120:407–413

    Article  CAS  Google Scholar 

  • Cui L, Wall PK, Leebens-Mack JH, Lindasy BG, Soltis DE, Doyle JJ, Soltis PS, Carlson JE, Arumuganathan K, Barakat A, Albert VA, Ma H, dePamphilis CW (2006) Widespread genome duplications throughout the history of flowering plants. Genome Res 16:739–749

    Article  CAS  Google Scholar 

  • Deutsch M, Long M (1999) Intron-exon structures of eukaryotic model organisms. Nucleic Acids Res 27:3219–3228

    Article  CAS  PubMed  Google Scholar 

  • Dichow NR, Kelemen Z, d’Andréa S, To A, Berger N, Canonge M, Kronenberger J, Viterbo D, Dubreucq B, Lepiniec L, Chardot T, Miquel M (2009) Regulation of HSD1 in seeds of Arabidopsis thaliana. Plant Cell Physiol doi:10.1093/pcp/pcp092

  • Downey RK, Rakow G (1987) Principles of cultivar development—crop species. In: Fehr WR (ed) vol 2. Macmillan Publications. Comp. New York, pp 437–486

  • Fukuoka S, Inoue T, Miyao A, Monna L, Zhong HS, Sasaki T, Minobe Y (1994) Mapping of sequence-tagged sites in rice by single strand conformation polymorphism. DNA Res 1:271–277

    Article  CAS  PubMed  Google Scholar 

  • Haberer G, Mader MT, Kosarev P, Spannagl M, Yang L, Mayer KFX (2006) Large-scale cis-element detection by analysis of correlated expression and sequence conservation between Arabidopsis and Brassica oleracea. Plant Physiol 142:1589–1602

    Article  CAS  PubMed  Google Scholar 

  • Hawkins JD (1988) A survey on intron and exon lengths. Nucleic Acids Res 16:9893–9908

    Article  CAS  PubMed  Google Scholar 

  • Herne CM, Ghosh S, Todd JA (1992) Microsatellite for linkage analysis of genetic traits. Trends Genet 8:288–294

    Google Scholar 

  • Hua S, Shamsi IH, Guo Y, Pak HS, Chen M, Meng HB, Shi CG, Lixi Jiang (2009) Sequence and expression divergence among the homologous genes in Brassica napus that are orthologous to the Arabidopsis ALCATRAZ. Planta. doi:10.1007/s 00425-009-0961-z

  • James DW, Lim JE, Keller J, Plooy I, Ralston E, Dooner HK (1995) Directed tagging of the Arabidopsis FATTY ACID ELONGATION1 (FAE1) gene with the maize transposon activator. Plant Cell 7:309–319

    Article  CAS  PubMed  Google Scholar 

  • Long Y, Shi J, Qiu D, Li R, Zhang C, Wang J, Hou J, Zhao J, Shi L, Park BS, Choi SR, Lim YP, Meng J (2007) Flowering time quantitative trait loci analysis of oilseed Brassica in multiple environments and genomewide alignment with Arabidopsis. Genetics 177:2433–2444

    CAS  PubMed  Google Scholar 

  • Lukens L, Zou F, Lydiate D, Parkin I, Osborn T (2003) Comparison of a Brassica oleracea genetic map with the genome of Arabidopsis thaliana. Genetics 164:359–372

    CAS  PubMed  Google Scholar 

  • Matsuda O, Sakamoto H, Hashimoto T, Iba K (2005) A temperature-sensitive mechanism that regulates post-translational stability of a plastidial omega-3 fatty acid desaturase (FAD8) in Arabidopsis leaf tissues. J Biol Chem 280:3597–3604

    Article  CAS  PubMed  Google Scholar 

  • Morris MC, Evans DA, Bienias JL, Tangney CC, Bennett DA, Wilson RS, Aggarwal N, Schneider J (2006) Consumption of fish and ω-3 fatty acids and risk of incident alzheimer disease. Arch Neurol 60:940–946

    Article  Google Scholar 

  • Osborn TC, Kole C, Parkin IA, Sharpe AG, Kuiper M, Lydiate DJ, Trick M (1997) Comparison of flowering time genes in Brassica rapa, B. napus and Arabidopsis thaliana. Genetics 146:1123–1129

    CAS  PubMed  Google Scholar 

  • Parker G, Gibson NA, Brotchie H, Heruc G, Rees AM, Hadzi-Pavlovic D (2006) Omega-3 fatty acids and mood disorders. Am J Psychiatry 163:969–978

    Article  PubMed  Google Scholar 

  • Parkin IAP, Sharpe AG, Lydiate DJ (2003) Patterns of genome duplication within the Brassica napus genome. Genome 46:291–303

    Article  CAS  PubMed  Google Scholar 

  • Pinkel D, Strume T, Gray GW (1986) Cytogenetic analysis using quantitative, high-sensitively fluorescence hybridization. Proc Natl Acad Sci 83:2934

    Article  CAS  PubMed  Google Scholar 

  • Qiu D, Morgan C, Shi J, Long Y, Liu J (2006) A comparative linkage map of oilseed rape and its use for QTL analysis of seed oil and erucic acid content. Theor Appl Genet 114:67–80

    Article  CAS  PubMed  Google Scholar 

  • Röbbelen G (1997) The evolution of rapeseed quality. GCIRC Bull 14:102–113

    Google Scholar 

  • Schmid M, Davison TS, Henz SR, Pape UJ, Demar M, Vingron M, Scholkopf B, Weige D, Lohmann JU (2005) A gene expression map of Arabidopsis thaliana development. Nat Genet 37:501–506

    Article  CAS  PubMed  Google Scholar 

  • Shenk JS, Westerhaus MO (1996) Calibration the ISI way. In: Davies AMC, Williams PC (eds) Near infrared spectroscopy: the future waves. NIR Publications, Chichester, UK

    Google Scholar 

  • Snowdon RJ, Friedt W (2004) Molecular markers in Brassica oilseed breeding: current status and future possibilities. Plant Breed 123:1–8

    Article  CAS  Google Scholar 

  • Snowdon R, Link K, Badani AG, Friedt W (2005) Plant breeding: recent advances in molecular breeding of oilseed rape (Brassica napus L.). Prog Bot 66:144–163

    Article  CAS  Google Scholar 

  • Tang QY, Feng MG (2001) Data processing system. http://www.chinadps.net

  • Town CD, Cheung F, Maiti R, Crabtree J, Haas BJ, Wortman JR, Hine EE, Althoff R, Arbogast TS, Tallon LJ, Vigouroux M, Trick M, Bancroftb L (2006) Comparative genomics of Brassica oleracea and Arabidopsis thaliana reveal gene loss, fragmentation, and dispersal after polyploidy. Plant Cell 18:1348–1359

    Article  CAS  PubMed  Google Scholar 

  • UN (1935) Genome-analysis in Bassica with special reference to the experimental formation of B. napus and its peculiar mode of fertilization. Jpn J Bot 7:389–452

    Google Scholar 

  • Udall JA, Wendel JF (2006) Polyploidy and crop improvement. Crop Sci 46:3–13

    Article  CAS  Google Scholar 

  • Uzunova M, Ecke W, WeiBleder K, Röbbelen G (1995) Mapping the genome of rapeseed (Brassica napus L.). I. Construction of an RFLP linkage map and localization of QTLs for seed glucosinolate content. Theor Appl Genet 90:194–204

    Article  CAS  Google Scholar 

  • Vos P, Hogers R, Bleeker M, Reijians M, Lee V, Hornes M (1995) AFLP: a new technique for DNA fingerprinting. Nucl Acids Res 23:4407–4414

    Article  CAS  PubMed  Google Scholar 

  • Wang X, Zhao X, Zhu J, Wu WR (2005) Genome-wide investigation of intron length polymorphisms and their potential as molecular markers in rice (Oryza sativa L.). DNA Res 12:417–427

    Article  CAS  PubMed  Google Scholar 

  • Wang C, Harris WS, Chung M, Lichtenstein AH, Balk EM, Kupelnick B, Jordan HS, Lau J (2006) ω-3 fatty acids from fish or fish-oil supplements, but not alpha-linolenic acid, benefit cardiovascular disease outcomes in primary- and secondary-prevention studies: a systematic review. Am J Clin Nutr 84:5–17

    CAS  PubMed  Google Scholar 

  • Williams J, Kubelik A, Livak K, Rafalski J, Tingey S (1990) DNA polymorphism amplified by arbitrary primers are useful as genetic markers. Nucleic Acids Res 18:6531–6535

    Article  CAS  PubMed  Google Scholar 

  • Zhao Y, Yang K, Cheema AA, Weng YJ (2002) Evaluation of Germplasm using SSR markers of functional genes in rice. Agric Sci China 1:52–54

    Google Scholar 

  • Zou J, Wei Y, Jako C, Kumar A, Selvaraj G, Taylor DC (1999) The Arabidopsis thaliana TAG1 mutant has a mutation in a diacylglycerol acyltransferase gene. Plant J 19:645–653

    Article  CAS  PubMed  Google Scholar 

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Acknowledgments

The work of our lab was supported by National Basic Research Program of China (abbreviated as 973 projects, program code: 2006CB101602), Natural Science Foundation of China (abbreviated as NSFC; the program code: 30671339) and National High-Tech R & D Program (abbreviated as 863 program; the program code: 2006AA10A113). We are thankful to Prof. Xiaoming Wu, the Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences for providing the Brassica oilseed landraces, to Prof. Chunhai Shi and Dr. Jianguo Wu and the Institute of Agrobiology and Environmental Sciences (985-IAES) of Zhejiang University for providing the convenience to use equipments.

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Authors and Affiliations

  1. Institute of Crop Science, Zhejiang University, 268 Kaixuan Road, 310029, Hangzhou, People’s Republic of China

    Congguang Shi, Yana Zhu, Yuanlong Li, Wanli Guo, Kunming Chen, Imran Haider Shamsi, Shuijin Hua, Zhaofei Zhong, Weijun Zhou & Lixi Jiang

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  1. Congguang Shi
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  2. Yana Zhu
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  3. Yuanlong Li
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  4. Wanli Guo
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  7. Shuijin Hua
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  8. Zhaofei Zhong
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  9. Weijun Zhou
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  10. Lixi Jiang
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Correspondence to Weijun Zhou or Lixi Jiang.

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Congguang Shi and Yana Zhu contributed equally to this paper.

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Shi, C., Zhu, Y., Li, Y. et al. DNA allelic variations at the loci putatively implicated in seed oil formation among Brassica oilseed cultivars. Mol Breeding 26, 51–64 (2010). https://doi.org/10.1007/s11032-009-9376-6

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