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Internet based DNA database for genetic studies on tropical species from South Eastern Asia

Research Project

Project/Area Number 13575002
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section海外学術
Research Field 遺伝
Research InstitutionKyushu University

Principal Investigator

SZMIDT Alfred Edward  Kyushu University, Grad.School of Sciences, Associate Prof., 大学院・理学研究院, 助教授 (70325497)

Co-Investigator(Kenkyū-buntansha) SATTA Yoko  The grad.Univ.for Advanced Studies, School of Advanced Sciences, Associate Prof., 先導科学研究科, 助教授 (20222010)
INOMATA Nobuyuki  Kyushu University, Grad.School of Sciences, Assistant Prof., 大学院・理学研究院, 助手 (20301335)
YAMAZAKI Tsuneyuki  Kyushu University, Grad.School of Sciences, Prof., 大学院・理学研究院, 名誉教授 (10108649)
Project Period (FY) 2001 – 2003
Project Status Completed (Fiscal Year 2003)
Budget Amount *help
¥11,500,000 (Direct Cost: ¥11,500,000)
Fiscal Year 2003: ¥2,700,000 (Direct Cost: ¥2,700,000)
Fiscal Year 2002: ¥3,300,000 (Direct Cost: ¥3,300,000)
Fiscal Year 2001: ¥5,500,000 (Direct Cost: ¥5,500,000)
KeywordsDNA database / tropical forest / Dipterocarps / mangrove / genetic variation
Research Abstract

The purpose of this project was to create an internet-based public database of DNA samples from natural populations of ecologically and economically important forest tree species from Asia. The constructed database contains all information pertinent to taxonomy, geographic origin and type of material etc. It features search and order engine similar to that used by e-commerce companies. The DNA samples stored in the database are distributed at no cost to any non-profit scientist with established credentials willing to pay postage delivery fee. The database is stored on the website maintained by our laboratory : http://genetics.biology.kyushu-u.ac.ip.
The number of extant tree species in Asia is vast. Thus, studies of all tree components are neither possible nor they are necessary. We therefore focused on species with greatest ecological and economical significance, which serve as a source of timber, fuel wood, cane or fruit. By now, species fulfilling this condition have been identified in individual countries in Asia. In particular, our effort was focused on the following genera : Bambusa, Calamus, Rhizophora, Dipterocarpus, Shores, and Tectona. Samples were collected in the following countries : Japan, Malaysia, Thailand, China, India, Sri Lanka, Vietnam, Seychelles and Madagascar. For the time being, the constructed database contains more than 2000 samples from more than 200 species of tropical trees from Asia and Madagascar. Recently, through collaboration with Swedish and Russian scientists we obtained a unique collection of samples representing all species of the genus Larix occurring in Asia. The samples are now being entered into our database and will be made available for public access later this year.
In the course of the project, three MSc and two BSc programs were completed.

Report

(4 results)
  • 2003 Annual Research Report   Final Research Report Summary
  • 2002 Annual Research Report
  • 2001 Annual Research Report
  • Research Products

    (49 results)

All Other

All Publications (49 results)

  • [Publications] Ribeiro, M.M.: "Variation in chloroplast single-sequence repeats in Portuguese maritime pine (Pinus pinaster Ait.)"Theoretical and Applied Genetics. 102. 97-103 (2001)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Szmidt, A.E.: "Effects of RNA editing on the coxI evolution and phylogeny"Euphytica. 118. 9-18 (2001)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Parducci L.: "Genetic variation at chloroplast microsatellites (cpSSR) in Abies nebrodensis (Lojac.)"Theoretical and Applied Genetics. 102. 733-740 (2001)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Wang, X-R.: "Molecular markers in population genetics of forest trees."Scandinavian Journal of Forest Research. 16. 199-200 (2001)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Parani, M.: "Species identification in seven small millet species using PCR-RFLP of tmS-psbC gene region."Genome. 44(3). 495-499 (2001)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Parducci L.: "Genetic variation at chloroplast microsatellites (cpSSR) in Abies nebrodensis (Lojac.)"Forest Genetics. 8(2). 119-127 (2001)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Lerceteau, E.: "Detection of quantitative trait loci in Pinus sylvestris L across years."Euphytica. 121. 117-122 (2001)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Wang, X-R.: "Genetic composition and diploid hybrid speciation of a high mountain pine, Pinus densata, native to the Tibetan plateau."Genetics. 159. 337-346 (2001)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Ribeiro, M.: "Comparison of genetic diversity estimates within and among populations of maritime pine using cpSSR and AFLP data."Molecular Ecology. 11. 869-877 (2002)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Szmidt A.E.: "Clonal diversity and genetic structure of Empetrum hermaphroditum Hagerup populations from northern Sweden."Journal of Vegetation Science. 13. 627-634 (2002)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Wang, X-R.: "Island population structure of Norway spruce (Picea abies) in northern Sweden"International Journal of Plant Sciences. 164. 711-717 (2003)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Kormutak, A.: "Intraspecific variation in chloroplast DNA psbAI gene region of silver fir (Abies alba Mill.)"Forest Genetics. 10. 19-22 (2003)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Ishiyama, H.: "Nucleotide variation in the GapC region of four species of Shorea and its putative hybrids."Tropics. 13(2). 89-99 (2003)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Dayananda, T.G.: "Molecular phylogeny of Sri Lankan Dipterocarpaceae in relation to other Asian Dipterocarpaceae based on plastid DNA sequence data."Tropics. 13(2). 79-81 (2003)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Sirikantaramas, S.: "Diversity of ectornycorrhizal fungi associated with Dipterocarpaceae in Malaysia."Tropics. 13(2). 69-77 (2003)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Goto, H: "Nucleotide variation of seven genes in Drosophila kikkawai."Genes and Genetic Systems. 79. 19-26 (2004)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Ribeiro, M.M.: "Variation in chloroplast single-sequence repeats in Portuguese maritime pine(Pinus pinaster Ait.)."Theoretical and Applied Genetics. 102. 97-103 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Szmidt, A.E., Lu, M-Z., Wang, X-R.: "Effects of RNA editing on the coxl evolution and phylogeny reconstruction."Euphytica. 118. 9-18 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Parducci L., Szmidt A.E., Madaghiele A., Anzidei M., Vendramin G.G.: "Genetic variation at chloroplast microsatellites(cpSSR) in Abies nebrodensis(Lojac.) Mattei and in three neighboring Abies species."Theoretical and Applied Genetics. 102. 733-740 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Wang, X-R., Szmidt, A.E.: "Molecular markers in population genetics of forest trees."Scandinavian Journal of Forest Research. 16. 199-220 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Parani, M., Rajesh, K., Lakshmi, M., Parducci, L., Szmidt, A.E., Parida, A.: "Species identification in seven small millet species using PCR-RFLP of trnS-psbC gene region."Genome. 44(3). 495-499 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Parducci, L., Szmidt, A.E., Ribeiro, M.M., Drouzas, A.D.: "Taxonomic position and origin of the endemic Sicilian fit Abies nebrodensis(Lojac.) Mattei based on allozyme analysis."Forest Genetics. 8(2). 119-127 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Lerceteau, E., Szmidt, A.E., Andersson, B.: "Detection of quantitative trait loci in Pinus sylvestris L across years."Euphytica. 121. 117-122 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Wang, X-R., Szmidt, A.E., Savolainen, O.: "Genetic composition and diploid hybrid speciation of a high mountain pine, Pinus densata, native to the Tibetan plateau."Genetics. 159. 337-346 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Ribeiro, M.M., Mariette, S., Vendramin, G.G., Szmidt, A.E., Plomion, C., Kremer, A.: "Comparison of genetic diversity estimates within and among populations of maritime pine using CPSSR and AFLP data."Molecular Ecology. 11. 869-877 (2002)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Szmidt A.E., Nilsson, M-C., Briceno, Zackrisson, O., E., Wang, X-R.: "Clonal diversity and genetic structure of Empetrum hermaphroditum Hagerup populations from northern Sweden."Journal of Vegetation Science. 13. 627-634 (2002)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Wang, X-R., Chhatre, V.E., Nilsson, -M-C., Song, W., Zackrisson, O., Szmidt, A.E.: "Island population structure of Norway spruce(Picea abies) in northern Sweden"International Journal of Plant Sciences. 164. 711-717 (2003)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Kormutak, A., Vookova, B., Gomory, D., Wang, X-R., Szmidt, A.E.: "Intraspecific variation in chloroplast DNA psbAl gene region of silver fir(Abies alba Mill.)."Forest Genetics. 10(1). 19-22 (2003)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Ishiyama, H., Kado, T., Iwasaki, M., Ab Shukor, N., Szmidt, A.E., Yamazaki, T.: "Nucleotide variation in the GapC region of four species of Shorea and its putative hybrids."Tropics. 13(2). 89-99 (2003)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Dayananda, T.G., Szmidt, A.E., Yamazaki, T., de Silva, M.: "Molecular phylogeny of Sri Lankan Dipterocarpaceae in relation to other Asian Dipterocarpaceae based on plastid DNA sequence data."Tropics. 13(2). 79-81 (2003)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Sirikantaramas, S., Sugioka, N., Lee, S-S., Ibrahim, F.H., Lee, H-S., Szmidt, A.E., Yamazaki, T.: "Diversity of ectomycorrhizal fungi associated with Dipterocarpaceae in Malaysia."Tropics. 13(2). 69-77 (2003)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Goto, H, Inomata, N., Szmidt, A.E., Yamazaki, T.: "Nucleotide variation of seven genes in Drosophila kikkawai."Genes and Genetic Systems. 79. 19-26 (2004)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Wang, X-R.: "Norway spruce (Picea abies (L.) Karst.) layering and boreal island population structure in northern Sweden."International Journal of Plant Sciences. 164. 711-717 (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] Kormutak, A.: "Intraspecific variation in chloroplast DMA psbAI gene region of silver fir (Abies alba Mill.)."Forest Genetics. 10(1). 19-22 (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] Ishiyama, H.: "Nucleotide variation in the GapC region of four species of Shorea and its putative hybrids."Tropics. 32(in press). (2004)

    • Related Report
      2003 Annual Research Report
  • [Publications] Dayananda, T.G.: "Molecular phylogeny of Sri Lankan Dipterocarpaceae in relation to other Asian Dipterocarpaceae based on plastid DNA sequence data."Tropics. 32(in press). (2004)

    • Related Report
      2003 Annual Research Report
  • [Publications] Sirikantaramas, S.: "Diversity of ectomycorrhizal fungi associated with Dipterocarpaceae in Malaysia."Tropics. 32(in press). (2004)

    • Related Report
      2003 Annual Research Report
  • [Publications] Goto, H.: "Nucleotide variation of seven genes in Drosophila kikkawai."Genes and Genetic Systems. 79(in press). (2004)

    • Related Report
      2003 Annual Research Report
  • [Publications] Ribeiro. M.: "Chloroplast single-sequence repeats variation in Portuguese maritime pine (Pinus pinaster Ait.)"Theoretical and Applied Genetics. 102. 97-103 (2001)

    • Related Report
      2002 Annual Research Report
  • [Publications] Ribeiro. M.: "Comparison of genetic diversity estimates within and among populations of maritime pine using cpSSR and AFLP data"Molecular Ecology. 11. 869-877 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] Szmidt A. E.: "Clonal diversity and genetic structure of Empetrum hermaphroditum Hagerup populations from northern Sweden"Journal of Vegetation Science. 13. 627-634 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] Szmidt, A.E. et al.: "Effects of RNA editing on the coxI evolution and phylogeny reconstruction"Euphytica. 118. 9-18 (2001)

    • Related Report
      2001 Annual Research Report
  • [Publications] parducci L. et al.: "Genetic variation at chloroplast microsatellites (cpSSR) in Abies nebrodensis (Lojac.) Mattei and in three neighboring Abies species"Theoretical and Applied Genetics. 102. 733-740 (2001)

    • Related Report
      2001 Annual Research Report
  • [Publications] Wang, X-R. et al.: "Molecular markers in population genetics of forest trees"Scandinavian Journal of Forest Research. 16. 199-220 (2001)

    • Related Report
      2001 Annual Research Report
  • [Publications] Parani, M. et al.: "Species identification in seven small millet species using PCR-RFLP of trnS-psbC gene region"Genome. 44(3). 495-499 (2001)

    • Related Report
      2001 Annual Research Report
  • [Publications] Parducci, L. et al.: "Taxonomic position and origin of the endemic Sicilian fir Abies nebrodensis (Lojac.) Mattei based on allozyme analysis"Forest Genetics. 8(2). 119-127 (2001)

    • Related Report
      2001 Annual Research Report
  • [Publications] Lerceteau, E. et al.: "Detection of quantitative trait loci in Pinus sylvestris L across years"Euphytica. 121. 117-122 (2001)

    • Related Report
      2001 Annual Research Report
  • [Publications] Wang, X-R. et al.: "Genetic composition and diploid hybrid speciation of a high mountain pine, Pinus densata, native to the Tibetan plateau"Genetics. 159. 337-346 (2001)

    • Related Report
      2001 Annual Research Report
  • [Publications] Ribeiro, M. et al.: "Comparison of genetic diversity estimates within and among populations of maritime pine using cpSSR and AFLP data"Molecular Ecology. (in press). (2002)

    • Related Report
      2001 Annual Research Report

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Published: 2001-04-01   Modified: 2021-04-07  

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