研究生: |
余惠如 Hui-Ju Yu |
---|---|
論文名稱: |
喜岩菫菜複合群之親緣關係與分類研究 Phylogenetic and taxonomic studies of Viola adenothrix complex( Violaceae) |
指導教授: |
王震哲
Wang, Jenn-Che |
學位類別: |
碩士 Master |
系所名稱: |
生命科學系 Department of Life Science |
論文出版年: | 2008 |
畢業學年度: | 96 |
語文別: | 中文 |
論文頁數: | 74 |
中文關鍵詞: | 喜岩菫菜 、形質分析 、種複合群 、族群擴張 |
英文關鍵詞: | Viola adenothrix, morphometric analysis, species complex, population expansion |
論文種類: | 學術論文 |
相關次數: | 點閱:196 下載:8 |
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喜岩菫菜複合群 (Viola adenothrix complex) 包含兩個在形態上非常相似的類型,即喜岩堇菜 (Viola adenothrix var. adenothrix) 與雪山菫菜 (V. adenothrix var. tsugitakaensis ),兩者皆為台灣特有類群,前者主要分布於中海拔 (1000~2500 m),而後者主要分布於高海拔(2500~3900 m)。本研究利用形質分析與分子標記探討此複合群的親緣關係與分類問題。
利用87個樣本進行形質分析,共測量19個形態特徵。根據變異數分析(ANOVA)結果顯示在兩類群間有6個特徵 (基瓣寬、萼片寬、花軸長、側瓣鬚毛數、葉厚、葉長/葉寬) 具顯著差異;綜合區別分析(discriminate analysis) 與歸群分析 (cluster analysis) 的結果顯示兩類群在形態上已有區分為二的趨勢,但仍存有不少中間型個體。
分子分析共使用226個樣本,合併葉綠體trnV-trnM與trnG-trnS兩片段進行分析,共獲得21個變異位點,可組成21個單套型。根據AMOVA的結果顯示在喜岩菫菜與雪山菫菜間僅有2.58%的變異(P=0.17),且兩類群共有單套型佔全部樣本比例達73.45%,顯示兩者分化程度低。推測造成形態與分子資料呈現如此趨勢,可能是此二者為近代分化,現仍處於譜系分化不完全(incomplete lineage sorting)的階段。
Tajima’s D test與mismatch distribution的結果及基因樹呈現星狀結構,推測喜岩菫菜複合群近期經歷了族群擴張。
綜合形質與分子資料分析的結果,本研究支持台灣植物誌第二版(Wang and Huang, 1993)將雪山菫菜視為喜岩菫菜的一個變種之分類處理。
Viola adenothrix complex contains two morphologically similar forms which were usually treated as two varieties, namely V. adenothrix var. adenothrix and V. adenothrix var. tsugitakaensis. Both of them are endemic in Taiwan and are distributed in medium (1000~2500m, V. adenothrix var. adenothrix ) and high elevation (2500-3900 m, V. adenothrix var. tsugitakaensis. ) respectively. The present study investigates the phylogenetic and taxonomic relationship of them by using morphological and molecular data.
In morphometric analysis, a total of 87 samples and 19 characters were measured. The results of ANOVA show that six (width of basal petal, width of sepal, length of floral axis, number of beard in the lateral sepal, thickness of leaves, and ratio of length to width of the leaves) out of 19 measured characters are significantly different between the two taxa. Discriminate analysis and cluster analysis also show that they trend to separate into two groups in spite of some morphologically intermediate individuals.
Two chloroplast DNA regions (trnV-trnM and trnG-trnS) were used in molecular analysis. 21 variable sites and 21 haplotypes were obtained from a total of 226 samples. Based on the AMOVA result, only 2.58% variation (P=0.17) between V. adenothrix var. adenothrix and V. adenothrix var. tsugitakaensis. Based on minimum spaning network, the samples shared the haplotypes of two taxa are up to 73.45% of all. Both the patterns from morphological and molecular data suggest that the two taxa might differentiated recently and are in the stage of incomplete lineage sorting.
Beside, the result of minimum spanning network show that the haplotype of V. adenothrix var. tsugitakaensis was derivated from V. adenothrix. Based on Tajima’s D test, dismatch distribution and the star-like phylogeny result, the species complex might undergo population expansion recently.
In conclusion, the present study support to Wang’s treatment (1988) in which V. adenothrix var. tsugitakaensis was treated as a variety of V. adenothrix.
陸、參考文獻
王震哲。1988。台灣菫菜屬之分類研究。國立臺灣大學植物學研究所博
士論文。
王慶瑞。1991。中國植物志第五十一卷。科學出版社。
沈明來。2007。實用多變數分析。九州圖書文物有限公司。
林雅芳。2006。以形態及分子證據探討玉山蠅子草種複合群的分類
問題。國立臺灣師範大學生命科學系碩士論文。
陳順宇。2005。多變量分析。華泰書局。
劉和義 楊遠波 呂勝由 施炳霖。2000。臺灣維管束植物簡誌第三卷。中華民國行政院農業委員會。
黎昌漢。2005。中國堇菜屬植物分類學研究。中國科學院研究生院碩
士學位論文。
Abbott R. J., H. M. Chapman, R. M. M. Crawford, and D. G..
Forbes. 1995. Molecular diversity and derivations of
populations of Silene acaulis and Saxifraga
oppositifolia from the high Arctic and more southerly
latitudes. Molecular Ecology 4: 199-207.
Avise, J. C. , J. E. Neigel, and J. Arnold. 1984.
Demographic influences on mitochondrial DNA lineage
survivorship in animal populations. Journal of Molecular
Evolution 20 :99-105.
Avise, J. C. 1994. Molecular markers, natural history and
evolution. Chapman and Hall, New York.
Beattie, A. J. 1978. Plant-animal interactions affecting
gene flow in Viola. In A. J. Richards (ed.), The
pollination of flowers by insects. pp.151-164.
Beattie, A. J. and N. Lyons. 1975. Seed dispersal in Viola
(Violaceae): Adaptation and strategies. American Journal
of Botany 62: 714-722.
Academic Press, the Linnean Society of London.
Bermingham, E. and J. C. Avise. 1986. Molecular
zoogeography of freshwater fishes in the southeastern
United States. Genetics 113: 939-965.
Burton, R. S. 1986. Evolutionary consequences of restricted
gene flow among natural populations of the copepod
Tigriopus californicus. Bulletin of Marine Science 39:
526-535.
Chen, S. Y., Y. H. Su, S. F. Wu, T. Sha, and Y. P. Zhang.
2005. Mitochondrial diversity and phylogeographic
structure of Chinese domestic goats. Molecular Phylogenetics and Evolution 37: 804-814.
Clark, A. G., K. M. Weiss, D. Nickerson, S. Taylor, A.
Buchanan, J. Stengård, V. Salomaa, E. Vartiainen, M.
Perola, and E. Boerwinkle. 1998 . Haplotype structure
and population genetic Inferences from nucleotide-
sequence variation in human lipoprotein lipase.The
American Journal of Human Genetics 63(2): 595-612.
Clausen, J., R. B. Channell, and U. Nur. 1964. Viola
rafinesquii, the only melanium violet native to north
America. Rhodora 66: 33.
Culver D. C. and A. J. Beattie. 1980. The fate of Viola
seeds dispersed by ants. American Journal of Botany 67:
710-714.
Davis, P. H. and V. H. Heywood. 1963. Principles of
Angiosperm Taxonomy. Princeton NJ, Van Nostrand.
Downie, S. R. and D. Palmer. 1992. Restriction site mapping
of the chloroplast DNA inverted repeat: a molecular
phylogeny of the Asteridae. Annals of the Missouri
Botanical Garden 79: 266-283.
Ebihara, A., H . Ishikawa, H. Matsumoto, S. J. Lin, K.
Iwatsuki, M. Takamiya, Y. Watano, and M. Ito. 2005.
Nuclear DNA, chloroplast DNA, and ploidy analysis
clarified biological complexity of the Vandenboschia
radicans complex (Hymenphyllaceae) in Japan and
adjacent areas. American Journal of Botany 92: 1535-
1547.
Edwards, A.W. and L.L. Cavalli-Sforza . 1963. The
reconstruction of evolution. Annals of Human Genetics
27: 105-106.
Excoffier, L. and S. Schneider. 1999. Why hunter-gatherer
populations do not show signs of Pleistocene
demographic expansions . Proceedings of National
Academy of Sciences USA 96: 10597-10602.
Excoffier, L., G.. Laval, and S. Schneider. 2005. Arlequin
ver. 3.0: An integrated software package for population
genetics data analysis. Evolutionary Bioinformatics
Online 1: 47-50.
Felsenstein, J. 1985. Confidence limits on phylogenies: an
approach using the bootstrap. Evolution 39: 783-791.
Forcioli, D., P. Saumitou-Laprade, M. Valero, P.
Vernet, and J. Cuguen. 1998. Distribution of
chloroplast DNA diversity within and among populations
in gynodioecious Beta vulgaris ssp. maritima
(Chenopodiaceae). Molecular Ecology 7: 1183-1204.
Fosberg, F. R. 1942. Subspecies and Variety. Rhodora: 153-
157.
Fu, Y. X. and W. H. Li. 1993. Maximum likelihood estimation
of population parameters. Genetics 134: 1261-1270.
Grant, V. 1981. Plant Speciation, 2nd ed. Columbia
University Press., New York, USA.
Grant, W. S. and B.W. Bowen. 1998. Shallow population
histories in deep evolutionary lineages of marine
fishes: insights from the sardines and anchovies and
lessons for conservation. The American Genetic
Association 89: 415-426.
Guo,Y. P.,J. Saukel and F. Ehrendorfer. 2008.AFLP trees
versus scatterplots: evolution and phylogeography of
the polyploid complex Achillea millefolium agg.
(Asteraceae). TAXON 57 (1): 153-169.
Hamilton, M. B. 1999. Four primer pairs for the
amplification of chloroplast intergenic regions with
intraspecific variation. Molecular Ecology 8: 521-523.
Harding, R. M., S. M. Fullerton, R. C. Griffiths, J. Bond,
M. J. Cox, J. A. Schneider, D. S. Moulin, and J. B.
Clegg. 1997. Archaic African and Asian lineages in the
genetic ancestry of modern humans. The American Journal
of Human Genetics 60: 772-789.
Hedrick, P. W. 2000. Genetics of Populations. 2nd ed. pp.
374. Jones and Bartlett Publishers, Inc. Sudbury
Massachusetts.
Hey, J. 1997. Mitochondrial and nuclear genes present
conflicting portraits of human origins. Molecular
Biology and Evolution 14: 166-172.
Hong, Y. P. , V. D. Hipkins, and S.H. Strauss. 1993.
Chloroplast DNA diversity among trees, populations and
species in the California closed-cone pines (Pinus
radiata, Pinu smuricata, and Pinus attenuate). Genetics
135:1187-1196.
Hudson, R. R., M. Slatkin, and W. P. Maddison. 1992.
Estimation of levels of gene flow from DNA sequence
data. Genetics 132: 583-589.
Jensen, J. L., A. J. Bohonak, and S. T. Kelley. 2005.
Isolation by distance, web service. BMC Genetics 6: 13.
Jorgensen, J. L., I. Stehlik, C. Brochmann, and E. Conti.
2003. Implications of ITS sequences and RAPD markers
for the taxonomy and biogeography of the Oxytropis
campestris and O. arctica (Fabaceae) complexes in
Alaska. American journal of Botany 90: 1470-1480.
Kimura, M. 1983. Rare variant alleles in the light of
neutral theory. Molecular Biology and Evolution 1: 84-
93.
King R. A. and C. Ferris. 1998. Chloroplast DNA
phylogeography of Alnus glutinosa (L.) Gaertn.
Molecular Ecology 7:1151-1161.
Le Corre, V., S. Dumolin-Lapegue, and A. Kremer. 1997.
Genetic variation at allozyme and RAPD loci in sessile
oak Quercus petraea (Matt.) Liebl.: the role of
history and geography. Molecular Ecology 6: 519-529.
Lovis, J. D. 1977. Evolutionary patterns and processes in
ferns. Advances in Botanical Research 4: 229-415.
Marcussen, T. 2003. Evolution, phylogeography, and
taxonomy within the Viola alba complex (Violaceae).
Plant Systematics and Evolution 237: 51-74.
Marhold, K., J. Lihová, M. Perný, R. Grupe, and B. Neuffer.
2002. Natural hybridization in Cardamine
(Brassicaceae) in the Pyrenees: evidence from
morphological and molecular data. Biological journal
of the Linnean Society 139: 275-294.
Maruyama , T. and M. Nei. 1981. Genetic variability
maintained by mutation and overdominant selection in
finite population. Genetics 98: 441- 459.
McCauley, D. E. 1994. Constrasting the distribution of
chloroplast DNA and allozyme polymorphisms among local
populations of Silene alba: implications for studies
of gene flow in plants. Proceedings of National
Academy of Sciences USA 91: 8127-8131.
McCauley, D. E. 1995. The use of chloroplast DNA
polymorphism in studies of gene flow in plants. Trends
in Ecology and Evolution 10(5): 198-202.
Merriwether, D. A., A. G. Clark, S. W. Ballinger, T. G.
Schurr, H. Soodyall, T. Jenkins, S. T. Sherry, and D.
C. Wallace. 1991. The structure of human mitochondrial
DNA variation. Journal of Molecular Evolution 33(6):
543-555.
Moltschaniwskyj, N.A. 1995. Changes in shape associated
with growth in the oliginid squid Photololigo sp: a
morphometric approach. Canadian Journal of Zoology 73:
1335-1343.
Nei, M. 1987. Molecular evolutionary genetics. Columbia
Univ. Press, New York.
Northington, D.K. 1976. Evidence bearing on the origin of
infraspecific disjunction in Sophora gypsophila
(Fabaceae). Plant systematics and evolution 125: 233-
244.
Otieno, D., K. Balkwill, and A. Paton. 2006. A multivariate
analysis of morphological variation in the Hemizygia
bracteosa complex (Lamiaceae, Ocimeae). Plant
Systematics and Evolution 261: 19-38.
Page, R. D. M. and E.C. Holmes. 1998. Molecular evolution - A phylogenetic approach. p. 127. Blackwell Science
Ltd, Oxford, the United Kingdom.
Planes, S. and P. J. Doherty. 1997. Genetic and color
interactions at a contact zone of Acanthochromis
polyacanthus: a marine fish lacking pelagic larvae.
Evolution 51: 1232- 1243.
Rogers, A.R. and H. Harpending. 1992. Population growth
makes waves in the distribution of pairwise genetic
differences. Molecular Biology and Evolution 9: 552-
569.
Rohlf, F. J., 1973. Algorithm 76. Hierarchical clustering
using the minimum spanning tree. The Computer Journal
16: 93-95.
Rozas, J., J. C. Sanchez-DelBarrio, X. Messeguer, and R.
Rozas. 2003. DnaSP, DNA polymorphism analyses by the
coalescent and other methods. Bioinformatics 19: 2496-
2497.
Saitou, N. and M. Nei. 1987. The neighbor-joining method: a
new method for reconstructing phylogenetic trees.
Molecular Biology and Evolution 4: 406-425.
Sanger, F., S. Nicklen, and A. R. Coulson . 1977. DNA
sequencing with chain-terminating inhobitors.
Proceedings of National Academia Sciences USA 74: 5463-
5467.
Sharma, I.K., D.L. Jones, P.I. Forster. 2004. Genetic
differentiation and phenetic relatedness among seven
species of the Macrozamia plurinervia complex
(Zamiaceae).Biochemical Systematics and Ecology 32 :
313-327
Slatkin, M. 1987. Gene flow and the geographic structure of
natural populations. Science 236: 787-792.
Stebbins, G. L. 1974. Flowering plants evolution above the
species level. Belknap Press, Cambridge, Massachusetts,
USA.Swofford, D. L. 2002. PAUP*. Phylogenetic Analysis
Using Parsimony (and Other Methods). Version 4. Sinauer
Associates, Sunderland, Massachusetts.
Sylvester-Bradley, C. 1952. The Classification and
Coordination of Infra-Specific Categories. p. 19.
Systematics Association, Mimeograph, London.
Tajima, F. 1989. Statistical method for testing the
neutral mutation hypothesis by DNA polymorphism.
Genetics 123: 585-595.
Thompson, J. D., T. J. Gibson, F. Plewniak, F. Jeanmougin,
and D.G.. Higgins. 1997. The ClustalX windows interface:
flexible strategies for multiple sequence alignment
aided by quality analysis tools. Nucleic Acids Research
25: 4876-4882.
Tsukada, M. 1966. Late Pleistocene vegetation and climate
in Taiwan (Formosa). Proceedings of National Academy of
Sciences USA 55: 543-548.
Valentine, D. H. 1962. Variation and evolution in the genus
Viola. Preslia 34: 190.
Wakasugi T., J. Tsudzuki, S. Ito, K. Nakashima, T.
Tsudzuki, and M. Sugira. 1994. Loss of ndh genes as
determined by sequencing the entire chloroplast genome
of the black pine Pinus thunbergii. Proceedings of
National Academy of Sciences USA 91: 9794-9798.
Wang, J. C. and T. C. Huang. 1991. The reproductive
strategies of Viola L. (Violaceae). Chinese Bioscience
34(2): 11-18. (in Chinese)
Wang, J. C. and T. C. Huang. 1993. Violaceae. In Huang, T.
C. et al. (eds.),Flora of Taiwan, 2nd ed. vol. 3. pp.
805-834. Editorial Committee of the Flora of Taiwan,
Taipei.
Whang S. S., K. Choi, R. S. Hill, and J. H. Pak. 2002. A
Morphometric analysis of infraspecfic taxa within the
Ixeris chinensis complex (Asteraceae, Lactuceae).
Botanical Bulletin of Academia Sinica 43: 131-138.
Wolf, P., R. A. Murray, and S. D. Sipes. 1997. Species-
independent, geographical structuring of chloroplast
DNA haplotypes in a montane herb Ipomopsis (Polemoniaceae). Molecular Ecology 6: 283-291.
Wright, S. 1965. The interpretation of population structure
by F-statistics with special regard to systems of
mating. Evolution 19: 395-420.
Zietkiweicz, E., V. Yotova, M. Jarnik, M. Korab-Laskowska,
K.K. Kidd, D. Modiano, R. Scozzari, M. Stoneking, S.
Tishkoff, M. Batzer, and D. Labuda. 1998. Genetic
structure of the ancestral population of modern huma