Phylogenetic Relationships of the Korean Trigonotis Steven (Boraginaceae) Based on Chloroplast DNA (cpDNA) and Nuclear Ribosomal Markers (nrDNA) Region
2
조회
0
다운로드
0
인용
0
참고문헌
키워드
초록
We performed phylogenetic analyses of a total of 21 acessions covering 5 species in the Korean Trigonotis and one outgroup species using nuclear ribosomal ITS and chloroplast rbcL, matK, ndhF sequences. Outgroup were chosen from the closely related genus Lithospermum zollingeri. Both parsimony and Bayesian Inference methods were used to reconstruct the evolutionary history of the group. The evidence collected indicated that phylogenetic relationships among Korean Trigonotis species are unresolved based on nuclear marker (ITS), as the same as based on separated chloroplast sequences. While the phylogenetic relationships of Korean Trigonotis species almost clearly were resolved in combined chloroplast sequences. Thus, the members of Trigonotis coreana can be distinguished to the members of Trigonotis peduncularis in combined cpDNA sequences and Trigonotis nakaii was treated as a synonymed to Trigonotis radicans var. sericea. In addition, the MP and BI analysis showed Trigonotis icumae as sister of the remained Korean Trigonotis species based on combined molecular markers (BI: PP = 1).
Abstract
We performed phylogenetic analyses of a total of 21 acessions covering 5 species in the Korean Trigonotis and one outgroup species using nuclear ribosomal ITS and chloroplast rbcL, matK, ndhF sequences. Outgroup were chosen from the closely related genus Lithospermum zollingeri. Both parsimony and Bayesian Inference methods were used to reconstruct the evolutionary history of the group. The evidence collected indicated that phylogenetic relationships among Korean Trigonotis species are unresolved based on nuclear marker (ITS), as the same as based on separated chloroplast sequences. While the phylogenetic relationships of Korean Trigonotis species almost clearly were resolved in combined chloroplast sequences. Thus, the members of Trigonotis coreana can be distinguished to the members of Trigonotis peduncularis in combined cpDNA sequences and Trigonotis nakaii was treated as a synonymed to Trigonotis radicans var. sericea. In addition, the MP and BI analysis showed Trigonotis icumae as sister of the remained Korean Trigonotis species based on combined molecular markers (BI: PP = 1).
참고문헌 (43)
- Azuma, T., "Phylogenetic relationships of Salix (Salicaceae) based on rbcL sequence data", Amer. J. Bot, 87, pp.67~75 (2000)
- Baldwin, B.G., "Phylogenetic utility of the internal transcribed spacers of nuclear ribosomal DNA in plants: an example from the Composite", Mol. Phylogenet. Evol, 1, pp.3~16 (1992)
- Bailey, C. D., "Characterization of angiosperm nrDNA polymorphism, paralogy, and psedogenes", Mol. Phylogenet. Evol, 29, pp.435~455 (2003)
- Chase, M.W, "A proposal for a standardized protocol to barcode all land plants", Taxon, 56, pp.295~299 (2007)
- Cunningham, C. W., "Can three incongruence tests predict when data should be combined?", Mol. Biol. Evol, 14(7), pp.733~740 (1997)
- De Candolle, A. P., "Trigonotis, In Prodromus systematis naturalis regni vegetabilis X" (1846)
- Doyle, J., "A rapid DNA isolation procedure for small quantities of fresh leaf tissue", Phytochem. Bull, 19, pp.11~15 (1987)
- Feline, G.N., "tter the devil you know? Guidelines for insightful utilization of nrDNA ITS in species- level evolutionary studies in plants", Mol. Phylogenet. Evol, 44, pp.911~919 (2007)
- Hilu, K.W, "Angiosperm phylogeny based on matK sequence information", Amer. J. Bot, 90, pp.1758~1776 (2003)
- Hipp, A. L., "Congruence versus phylogenetic accuracy: revisiting the incingruence length difference test", Syst. Biol, 53(1), pp.81~89 (2004)
- Huelsenbeck, J.P., "Parametric bootstrapping in molecular phylogenies: application and performance, In Molecular zoology: advances, strategies, and protocols", pp.19~45 (1996), Wiley
- Jovanovic, V., "Implications of rbcL phylogeny for historical biogeography of genus Mercurialis L.: Estimating age and center of origin", Arch. Biol. Sci, 62, pp.603~609 (2010)
- Johnston, I. M., "Studies in the Boraginaceae, XII", J. Arnold Arboretum, 18, pp.10~25 (1937)
- Kress, W..J., "A two-locus global DNA barcode for land plants: the coding rbcL gene complements the non-coding trnH-psbA spacer region", PLoS One, pp.e508~ (2007)
- Lahaye, R., "DNA barcoding the floras of biodiversity hotspots", PNAS, 105, pp.2923~2928 (2008)
- Les, D.H., "Molecular systematics and taxonomy of lake cress (Neobeckia aquatica; Brassicaceae), an imperiled aquatic mustard", Aquatic Botany, 49, pp.149~165 (1994)
- Lee, W. T., "Standard illustrations of Korean Plants", pp.929~930 (1996), Academy Press
- Maddison, D.R., "MacClade 4: Analysis of Phylogeny and Character Evolution. Version 4.08", Sinauer Associates, ~ (2005)
- Mason-Gamer, R.J, "Testing for phylogenetic conflict among molecular data sets in the tribe Triticeae (Gramineae)", Syst. Biol, 45(4), pp.524~545 (1996)
- Maximowicz, C. J., "Courtes diagnoses des nouvelles plantes du Japon et de la Mandijourie", Bulletin de I’Academic Imperiale des Sciences St. Petersbourg, 17, pp.417~456 (1872)
- Mayol, M., "Why nuclear ribosomal DNA spacer (ITS) tell different stories in Quercus", Mol. Phylogenet. Evol, 19, pp.167~176 (2001)
- Muller, K.F, "Phylogenetic utility of rapidly evolving DNA at high taxonomical levels: contrasting matK, trnT-F, and rbcL in basal angiosperms", Mol. Phylogenet. Evol, 41, pp.99~117 (2006)
- Nakai, T., "Trigonotis Japono-Coreanae", Botanical Magazine Tokyo, 31, pp.215~218 (1917)
- Newmaster, S. G., "DNA barcoding in the land plants: evaluation of rbcL in a multigene tired approach", Can. J. Bot, 84, pp.335~341 (2006)
- Ohwi, J., "Flora of Japan" (1953), Smithsonian Inst.
- Olmstead, R.G., "Combining data in phylogenetic systematic: an empirical approach using three molecular data sets in the Solanaceae", Syst. Biol, 43, pp.467~481 (1994)
- Olmstead, R.G., "Patterns of sequence evolution and implications for parsimony analysis of chloroplast DNA", pp.164~187 (1998), Kluwer
- Popov, M. G., "Boraginaceae, In Flora of the U.S.S.R.", pp.97~691 (1953)
- Ronquist, F., "MrBayes3: Bayesian phylogenetic inference under mixed models", Bioinformatics, 19, pp.1572~1574 (2003)
- Rokas, A., "Genome-scale approaches to resolving incongruence in molecular phylogenies", Nature, 425, pp.798~840 (2003)
- Sang, T., "Chloroplast DNA phylogeny, reticulate evolution and biogeography of Paeonia (Paeoniaceae)", Amer. J. Bot, 84, pp.1120~1136 (1997)
- Savolainen, V., "Phylogenetics of flowering plants based upon a combined analysis of plastid atpB and rbcL gene sequences", Syst. Biol, 49, pp.306~362 (2000)
- Simmons, M.P., "Gaps as characters in sequence based analyses", Syst. Biol, 49, pp.369~381 (2000)
- Small, R.L., "Use of the nuclear genes for phylogeny reconstruction in plants", Aust. Syst. Bot, 17, pp.145~170 (2004)
- Soltis, D. E., "ITS and ETS sequence data and phylogeny reconstruction in allopolyploids and hybrid", Syst. Biol, 33, pp.7~20 (2008)
- Swofford, D. L, "PAUP*. Phylogenetic Analysis Using Parsimony (and Other Methods), Version 4.0b10", Sinauer Associates, ~ (2002)
- Swofford, D. L., "PAUP*: Phylogenetic analysis using parsimony Version 4.0b10 for 32-bit Microsoft Windows", Sinauer, ~ (2003)
- Sweeney, P.W., "Polyphyly of the genus Dentaria (Brassicaceae): evidence from trnL intron and ndhF sequence data", Syst. Bot, 25(3), pp.468~478 (2000)
- Xiang, Q. Y., "Phylogenetic relationships of Cornus L. sensu lato and putative relatives inferred from rbcL sequence data", Ann. Mo. Bot. Gard, 80, pp.723~734 (1993)
- Wang, C. J., "Taxanomic and phytogeographic studies on Chinese species Trigonotis Steven", Acta. Bot. Yunnanica, 4, pp.31~45 (1982)
- White, T. J., "Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics, In A guide to methods and applications, UK edition", pp.315~322 (1990), Academic Press
- Wolfe, K. H., "Protein-coding genes in chloroplast DNA: compilation of nucleotide sequences, data base entries, and rates of molecular evolution, In Cell Culture and Somatic Cell Genetics of Plants", pp.467~482 (1991), Academic Press
- Zhu, G. L., "Trigonotis, In Flora of China", pp.361~373 (1995), Science Press