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Assessment of cytochrome P450 sequences offers a useful tool for determining genetic diversity in higher plant species

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Abstract

To investigate and develop new genetic tools for assessing genome-wide diversity in higher plant-species, polymorphisms of gene analogues of mammalian cytochrome P450 mono-oxygenases were studied. Data mining on Arabidopsis thaliana indicated that a small number of primer-sets derived from P450 genes could provide universal tools for the assessment of genome-wide genetic diversity in diverse plant species that do not have relevant genetic markers, or for which, there is no prior inheritance knowledge of inheritance traits. Results from PCR amplification of 51 plant species from 28 taxonomic families using P450 gene-primer sets suggested that there were at least several mammalian P450 gene mammalian-analogues in plants. Intra- and inter- specific variations were demonstrated following PCR amplifications of P450 analogue fragments, and this suggested that these would be effective genetic markers for the assessment of genetic diversity in plants. In addition, BLAST search analysis revealed that these amplified fragments possessed homologies to other genes and proteins in different plant varieties. We conclude that the sequence diversity of P450 gene-analogues in different plant species reflects the diversity of functional regions in the plant genome and is therefore an effective tool in functional genomic studies of plants.

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References

  • Bousquet J, Simon L, Lalonde M (1990) DNA amplification from vegetative and sexual tissues of the tree using the polymerase chain reaction. Can J For Res 20:254–257

    CAS  Google Scholar 

  • Brown SM, Kresovich S (1996) Molecular characterization for plant genetic resources conservation. In: Paterson AH (ed) Genome mapping in plants. Landes, Texas, pp 85–93

  • Deininger PL (1989) SINEs: short interspersed repeated DNA elements in higher eucaryotes. In: Berg DE, Howe MM (eds) Mobile DNA. Am Soc Microbiol, Washington D.C., pp 619–636

  • Donaldson RP, Luster DG (1991) Multiple forms of plant cytochromes P-450. Plant Physiol 96:669–674

    CAS  Google Scholar 

  • Inui H, Komada T, Ohkawa Y, Ohkawa H (2000) Herbicide metabolism and cross-tolerance in transgenic potato plants co-expressing human CYP1A1, CYP2B6 and CYP2C19. Pestic Biochem Physiol 66:116–129

    Article  CAS  Google Scholar 

  • Jarvis D, Hodgkin T (1999) Wild relatives and crop cultivars detecting natural introgression and farmer selection of new genetic combination in agroecosystems. Mol Ecol 8:S159–S173

    Article  Google Scholar 

  • Karp A (2002) The new genetic era: will it help us in managing genetic diversity? In: Engels JMM, Rao VR, Brown AHD, Jackson MT (eds) Managing plant genetic diversity. Wallingford, CAB Publishing, pp 43–56

  • Karp A, Kresovich S, Bhat KV, Ayad WG, Hodgkin T (1997) Molecular tools in plant genetic resources conservation: a guide to the technologies. International Plant Genetic Resources Institute, Rome

    Google Scholar 

  • Kessmann H, Choudhary, AD, Dixon, A (1990) Stress responses in alfalfa (Medicago sativa L.). III. Induction of medicarpin and cytochrome P450 enzyme activities in elicitor-treated cell suspension cultures and protoplasts. Plant Cell Rep 9:38–41

    CAS  Google Scholar 

  • Kiyokawa S, Ohbayashi M, Shimada Y, Kikuchi Y (1997) PCR-amplification of sequences encoding the heme-binding region of plant cytochrome P450. Plant Biotech 14:175–178

    CAS  Google Scholar 

  • Monna L, Miyao A, Inoue T, Fukuoka S, Yamazaki M, Zhong HS, Sasaki T, Minobe Y (1994) Determination of RAPD markers in rice and their conversion into Sequence Tagged Sites (STSs) and STS-specific primers. DNA Res 1:139–148

    CAS  PubMed  Google Scholar 

  • Nasu S, Suzuki J, Ohta R, Hasegawa K, Yui R, Kitazawa N, Monna L, Minobe Y (2002) Search for and analysis of single nucleotide polymorphisms (SNPs) in rice (Oryza sativa, Oryza rufipogon) and establishment of SNP markers. DNA Res 9:163–171

    CAS  PubMed  Google Scholar 

  • Ohkawa H, Imaishi H, Shiota N, Yamada T, Inui H, Ohkawa Y (1998) Molecular mechanisms of herbicide resistance with special emphasis on cytochrome P450 mono-oxigenases. Plant Biotech 15:173–176

    CAS  Google Scholar 

  • Powell W, Morgante M, Andre C, Hanafey M, Vogel J, Tingey S, Rafalski A (1996) The comparison of RFLP, RAPD, AFLP and SSR (microsatellite) markers for germplasm analysis. Mol Breed 2:225–238

    CAS  Google Scholar 

  • Riechmann JL, Heard J, Martin G, Reuber L, Jiang C-Z, Keddie J, Adam L, Pineda O, Ratcliffe OJ, Samaha RR, Creelman R, Pilgrim M, Broun P, Zhang JZ, Ghandehari D, Sherman BK, Yu G-L (2001) Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Science 290:2105–2110

    Article  Google Scholar 

  • Shalk M, Nedelkina S, Schoch G, Batard Y, Werck-Reichhart D (1999) Role of unusual amino-acid residues in the proximal and distal heme regions of a plant P450, CYP73A1. Biochemistry 38:6093–6103

    Article  PubMed  Google Scholar 

  • Somerville C, Somerville S (1999) Plant functional genomics. Science 285:380–383

    Google Scholar 

  • Song WC, Funk CD, Brash AR (1993) Molecular cloning of an allene oxide synthase: a cytochrome P450 specialized for the metabolism of fatty acid hydroperoxides. Proc Natl Acad Sci USA 90:8519–8523

    CAS  PubMed  Google Scholar 

  • Suzuki E, Watanabe JA, Watanabe KN (2001) Possibility of genetic diversity study in plants using sequence information of mammalian xenobiotics metabolizing cytchrome P450 genes (In Japanese). Breed Res 3 Suppl (1):187

    Google Scholar 

  • Tanaka M, Watanabe JA, Watanabe KN (2001) Presence of genetic variation in the endangered semi-cultivated species, Suita Kuwai (Sagittaria triforia L. var suitensis). Breed Res 3 (Suppl 1): 162

    Google Scholar 

  • Tanksley SD, McCouch SR (1997) Seed banks and molecular maps: unlocking genetic potential from the wild. Science 277:1063–1066

    CAS  PubMed  Google Scholar 

  • Teutsch HG, Hasenfratz MP, Lesot A, Stoltz C, Garnier JM, Jeltsch JM, Durst F, Werck-Reichhart D (1993) Isolation and sequence of a cDNA encoding the Jerusalem artichoke cinnamate 4-hydroxylase, a major plant cytochrome P450 involved in the general phenylpropanoid pathway. Proc Natl Acad Sci USA 90:4102–4106

    CAS  PubMed  Google Scholar 

  • Wagner DB, Furnier GR, Saghai-Maroof MA (1987) Chloroplast DNA polymorphism in lodgepole and jack pines and their hybrids. Proc Natl Acad Sci USA 84:2097–2100

    CAS  PubMed  Google Scholar 

  • Watanabe KN, Iwanaga M (1999) Plant genetic resources and its global contribution. Plant Biotech 16:7–13

    Google Scholar 

  • Watanabe KN, Takeda Y, Inui H, Kasai K, Ohkawa H (2000) Survey of xenobiotic-metabolizing cytochrome P450 homologues in higher plant species. Memo Inst BOST, Kinki Univ 5:9–18

    Google Scholar 

  • Williams JGK, Kubelik AR, Livak KJ, Rafalski JA, Tingey SV (1990) DNA polymorphisms amplified by arbitrary primers are useful as genetic markers. Nucleic Acids Res 18:6531–6535

    PubMed  Google Scholar 

  • Yamanaka S, Nakamura I, Sato Y-I, Watanabe KN (2003) Evaluation on genetic resources based on the diversity of functional regions. 1. Genetic diversity of wild rice estimated by variations on xenobiotics-metabolizing cytochrome P450 gene-analogues. Breeding Res 5 (Suppl 1):249

    Google Scholar 

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Acknowledgements

This work was supported by grants from MEXT, Japan: RFTF-96-L603 and RFTF 00L01602 (K.N.W. and S.Y.). K.N.W. thanks the Sumitomo Foundation also for its financial support. The authors thank Prof. T. Fujimura, University of Tsukuba, for his critical review of our draft manuscript.

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Authors and Affiliations

  1. Gene Research Center, Institute of Biological Sciences, University of Tsukuba, 1-1-1 Tennodai, 305-8572, Tsukuba, Japan

    S. Yamanaka, J. A. Watanabe & K. N. Watanabe

  2. Faculty of Biology-Oriented Science and Technology, Kinki University, Uchita, 649-6493, Wakayama, Japan

    E. Suzuki, M. Tanaka, Y. Takeda, J. A. Watanabe & K. N. Watanabe

  3. Kihara Institute for Biological Research, Yokohama City University, Totsuka, 244-0813, Yokohama, Japan

    E. Suzuki

  4. Nara Institute of Science and Technology, 630-0101, Ikoma, Japan

    M. Tanaka

  5. Tokyo Rika Co. Ltd., Tokyo, Japan

    Y. Takeda

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  1. S. Yamanaka
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  2. E. Suzuki
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  3. M. Tanaka
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  4. Y. Takeda
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  5. J. A. Watanabe
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  6. K. N. Watanabe
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Correspondence to K. N. Watanabe.

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Communicated by C. Möllers

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Yamanaka, S., Suzuki, E., Tanaka, M. et al. Assessment of cytochrome P450 sequences offers a useful tool for determining genetic diversity in higher plant species. Theor Appl Genet 108, 1–9 (2003). https://doi.org/10.1007/s00122-003-1403-0

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  • DOI: https://doi.org/10.1007/s00122-003-1403-0

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