MUTASI STRUCTURAL INTRON trnL (UAA) PADA SUKU MERANTI-MERANTIAN (DIPTEROCARPACEAE)

Kusumadewi Sri Yulita
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Abstract

tRNA " UAA (trnL) intron have been widely utilised for phylogenetic reconstruction in angiosperm families. Two main helical elements of secondary structure of trnL intron (stem loop regions P6 and P8) contained the most variable sequences across taxa.Detailed examination on the insertion-deletion events in trnL intron sequences of 110 species of Dipterocarpaceae has identified 4 stem loop structures within both loops.The first stemJoqp was found in P6 loop and three other were discovered in P8 loop.These structures featuring characteristic for genericJinfra-generic level depended upon which taxonomic classifications are foJJowed.One of these structures formed a large loop of 72 nucleotides and was a unique major stem loop in Dipterocarps family whose loop was the major structural mutation of trnL intron in this family.

Keywords

Mutasi struktural, meranti-merantian, Dipterocarpaceae, intron trnL, indel, filogeni.

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References

AokiK, T Suzuki and N Murakami. 2003. Intraspecific sequence variation of chloroplast DNA among the component species of evergreen broad-leaved forests in Japan. Journal of Plant Research 116(4), 337-44.

Ashton PS. 1982. Dipterocarpaceae. Flora Malesiana Series I-Spermatophyta Flowering Plants 9(2), 237-552.

Bayer, RJB, CF Puttock and SA Kelchner. 2000. Phylogeny of South African Gnaphalieae (Asteraceae) based on two-coding sequences. American Journal of Botany 87,259-272.

Borsch T, KW Hilu, D Quandt, V Wilde, C Neinhuis and W Barthlott. 2003. Noncoding plastid trnltrnV sequences reveal a well resolved phylogeny of basal angiosperms. Journal of Evolutionary Biology 16(4), 558-576.

Cech TR, SH Damberger and RR Gutell. 1994. Representation of the secondary structure and tertiary structure of group I intron. Nat. Struc. Biol. I, 273-280.

Davis CC, CD Bell, PW Fritsch and S Mathews S. 2002. Phylogeny of Acridocarpus brachylophon (Malpighiaceae): Implications for tertiary tropical floras and Afroasian biogeography. Evolution 56(12), 2395-2405.

Gamage DT, MP Silva, N Inomata.T Yamazaki and AE Szmidt.2006. Comprehensive molecular phylogeny of the sub-family dipterocarpoideae (dipterocarpaceae) based on chloroplast DNA sequences. Genes Genet. Syst. 81(1), 1-12.

Hamilton MB, JM Braverman and DF Soria-Hernanz. 2003. Patterns and Relative Rates of Nucleotide and Insertion/Deletion Evolution at Six Chloroplast Intergenic Regions in New World Species of the Lecythidaceae. Molecular Biology & Evolution. 20(10), 1710-1721.

Kelchner SA. 2002. Group II introns as phylogenetic tool: structure, function and evolutionary constraints. American Journal of Botany 89(10), 1651-1669.

Kim AK, DJ Ellis, HA Sandier, P Hart, JE Darga, D Keeney and TA Bewick. 2004. Genetic diversity of Dodder (Cuscuta spp.) collected from commercial cranberries production as reveal in the trnL (UAA) intron. Plant Molecular Biology Reporter 22, 217-223.

Kuhsel MG, R Strickland, and JD Palmer. 1990. An ancient group I intron shared by eubacteria and chloroplasts. Science 250,1570-1573.

Maury-Lechon G 1979. Consequences taxonomiques de l'etude des caracteres des fruits/germination, embryons et plantules des Dipterocarpacees. In: Maury-Lechon G (Ed), Dipterocarpacees: Taxonomie-Phylogenie-Ecologie, Memoires du Museum National d'Histoire Naturelle: First International Round Table on Dipterocarpaceae, 81 -106. Serie B, Botanique 26, Edition du Museum, Paris.

Maury-Lechon G and L Curtet. 1998. Biogeography and evolutionary systematics of Dipterocarpaceae. In: A Review of Dipterocarps taxonomy, ecology and silviculture. S Appanah and JM Turnbull (Eds.), 5- 44. CIFOR, Bogor.

Meijer W and GHS Wood. 1964. Dipterocarps of Sabah (North Borneo). In: Forest Department Sandakan (Ed.) Sabah Forest Record No. 5, 1 -344.

Meijer Wand GHS Wood. 1976. Keys to Dipterocarps of Sabah. BIOTROP, Bogor.

Koch MA, C Dobes, M Matschinger, W Bleeker, J Vogel, M Kiefer, and T Mitchell-Olds. 2005. Evolution of the trriP (GAA) Gene in Arabidopsis Relatives and the Brassicaceae Family: Monophyletic Origin and Subsequent Diversification of a Plastidic Pseudogene. Molecular Biology & Evolution 22(4), 1032-1043.

Kostermans AJGH. 1978. Pakaramaea dipterocarpacea Maguire and Ashton belongs to Tiliaceae and not to Dipterocarpaceae. Taxon 27, 357-359.

Kostermans AJGH. 1985. Family status for the Monotoideae and the Pakaramoideae, Dipterocarpaceae. Taxon 34, 426-435.

Kostermans AJGH. 1989. Monotaceae, a new family allied to Tiliaceae. Taxon38,123-124.

Kostermans AJGH. 1992. A handbook of the Dipterocarpaceae of Sri Lanka. Wildlife Heritage Trust of Sri Lanka. 244p.

Oksanen I, Lohtander K, Sivanen K and Rikkinen J. 2004. Repeat-type distribution in trnL intron does not correspond with species phylogeny: comparison of the generic markers 16S rRNA and trnL intron in heterocystous cyanobacteria. International Journal of Systematic and Evolutionary Microbiology 54,765- 772.

Symington CF. 1943. Foresters'Manual of the Dipterocarps. Forest Department, Kuala Lumpur. Tarbelet P, L Gielly, G Patou and J Bouvet. 1991. Universal primers for amplification three non coding regions of chloroplast DNA. Plant Molecular Biology 17,1105-1109.

Tarbelet P, E Coissac, F Pompanon, L Gielly, C Miquel, A Valentini, T Vermat, G Corthier, C Brochman and E Willerslev. 2007. Power and limitation of the chloroplast trnL (UAA) Intron for plant DNA barcoding. Nucleic Acid Research 35(3), 1-8.

Thompson JD, DG Higgins and TJ Gibson. 1994. CLUSTAL W: improving the sensitivity of pregressive multiple sequence alignment through sequence weighting, positions-specific gap penalties and weight matrix choice. Nucleic Acid Research 22, 4673-4680.

Tsumura Y, T Kawahara, R Wickneswari and Y Yoshimura. 1996. Molecular Phylogeny of Dipterocarpaceae in South East Asia using RFLP PCR-amplified chloroplast genes. Theoritical and Applied Genetics 93 (1-2), 22-29.

Yulita KS, RJ Bayer and JG West. 2005. Molecular phylogenetic study of Hopea and Shorea (Dipterocarpaceae): Evidence from the trnL-V and internal transcribes spacers region. Plant Species Biology 20,167-182.

Zimmer EA, EH Roalson, LE Skog, JK Boggan and A Idnurm.2002. Phyiogenetic relationships in the Gesnerioideae (Gesneriaceae) based on nrDNA ITS and cpDNA trriL-Y and trnE-T spacer region sequences. American Journal of Botany 89(2), 296-311.


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