請用此 Handle URI 來引用此文件：
http://tdr.lib.ntu.edu.tw/jspui/handle/123456789/64618完整後設資料紀錄
| DC 欄位 | 值 | 語言 |
|---|---|---|
| dc.contributor.advisor | 戴昌鳳(Chang-Feng Dai) | |
| dc.contributor.author | Feng-Ting Chang | en |
| dc.contributor.author | 張鳳婷 | zh_TW |
| dc.date.accessioned | 2021-06-16T17:58:27Z | - |
| dc.date.available | 2017-08-20 | |
| dc.date.copyright | 2012-08-20 | |
| dc.date.issued | 2012 | |
| dc.date.submitted | 2012-08-10 | |
| dc.identifier.citation | Allen GR (1991) Damselfishes of the World. Mergus Verlag, Melle, Germany: 1-271.
Allen GR (2008) Conservation hotspots of biodiversity and endemism for Indo-Pacific coral reef fishes. Aquat Conserv 18: 541-556. Allentoft ME, O’Brien J (2010) Global amphibian declines, loss of genetic diversity and fitness: A review. Diversity 2: 47-71. Arnaud-haond S, Teixeira S, Massa SI, Billot C, Saenger P, Coupland G, Duarte CM, Serrao EA (2006) Genetic structure at range edge: low diversity and high inbreeding in Southeast Asian mangrove (Avicennia marina) populations. Mol Biol 15: 3515-3525. Avise JC (1998) The history and purview of phylogeography: a personal reflection. Mol Ecol 7: 371-379. Avise JC (2000) Phylogeography: the history and formation of species. Harvard University Press, Cambridge, MA: Harvard University Press. Ayre DJ, Hughes TP (2004) Climate change, genotypic diversity and gene flow in reef-building corals. Ecol Let 7: 273-278. Bay LK, Choat JH, van Herwerden L, Robertson DR (2004) High genetic diversities and complex genetic structure in an Indo-Pacific tropical reef fish (Chlorurus sordidus): evidence of an unstable evolutionary past? Mol Biol 144: 757-767. Beatty GE, McEvoy PM, Sweeney O, Provan J (2008) Range-edge effects promote clonal growth in peripheral populations of the one-sided wintergreen Orthilla secunda. Divers Distrib 14: 546-555. Boender CGE, Rinnooy Kan AHG (1987) Bayesian stopping rules for multistart global optimization methods. Math Program 37: 59-80. Bohonak AJ (2002) IBD (isolation by distance): a program for analyses of isolation by distance. J Hered 93: 153-154. Bonjean F, Lagerloef GSE (2002) Diagnostic model and analysis of the surface currents in the Tropical Pacific Ocean. J Phys Oceanogr 32: 2938-2954. Booy G, Hendrick RJJ, Smulders MJM, Van Groenendael JM, Vosman B (2000) Genetic diversity and the survival of populations. Plant Biol 2: 379-395. Bridle JR, Vines TH (2007) Limits to evolution at range margins: when and why does adaptation fail? Trends Ecol Evol 22: 140-147. Briggs JC (1974) Marine zoogeography. McGraw-Hill, New York. Bruford MW, Wayne RK (1993) Microsatellites and their application to population genetic studies. Curr Opin Genet Dev 3: 939-943. Buston PM, Fauvelot C, Wong MYL, Planes S (2009) Genetic relatedness in groups of the humbug damselfish Dascyllus aruanus: Small, similar-sized individuals may be close kin. Mol Ecol 18: 4707-4715. Chen CA, Ablan MCA, McManus JW, Bell JD, Tuan VS, Cabanban AS, Shao KT (2004) Population structure and genetic variability of six bar wrasse (Thallasoma hardwicki) in northern South China Sea revealed by mitochondrial control region sequences. Mar Biotech 6: 312-326. Cooper WJ, Smith LL, Westneat MW (2009) Exploring the radiation of a diverse reef fish family: Phylogenetics of the damselfishes (Pomacentridae), with new classifications based on molecular analyses of all genera. Mol Phylogen Evol 52: 1-16. Craig MT, Eble JA, Bowen BW, Robertson DR (2007) High genetic connectivity across the Indian and Pacific Oceans in the reef fish Myripristis berndti (Holocentridae). Mar Ecol Prog Ser 334: 245-254. Crandall ED, Jones ME, Munoz MM, Akinronbi B, Erdmann MV, Barber PH (2008) Comparative phylogeography of two seastars and their ectosymbionts within the Coral Triangle. Mol Ecol 17: 5276-5290. Eble JA, Rocha LA, Craig MT, Bowen BW (2010) Not all larvae stay close to home: insights into marine population connectivity with a focus on the brown surgeonfish (Acanthurus nigrofuscus). J Mar Biol: 1-12. Edgar RC (2004) MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 32: 1792-1797. Evanno G, Regnaut S, Goudet J (2005) Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study. Mol Ecol 14: 2611-2620. Fauvelot C, Smith-Keune C, Jerry DR, Buston PM, Planes S (2009) Isolation and characterization of 16 microsatellite loci in the humbug damselfish, Dascyllus aruanus (family Pomacentridae). Mol Ecol Res 9: 651-653. Fleminger A (1986) The Pleistocene equatorial barrier between the Indian and Pacific Oceans and a likely cause for Wallace’s line. UNESCO Technical Papers in Marine Science 49: 84-97. Fratini S, Vannini M (2002) Genetic differentiation in the mud crab Scylla serrata (Decapoda: Portunidae) within the Indian Ocean. J Exp Mar Biol Ecol 272: 103-116. Froukh T, Kochzius M (2008) Species boundaries and evolutionary lineages in the blue green damselfishes Chromis viridis and C. atripectoralis (Pomacentridae). J Fish Biol 72: 451-457. Gaither MR, Toonen RJ, Robertson DR, Planes S, Bowen BW (2010) Genetic evaluation of marine biogeographical barriers: perspectives from two widespread Indo-Pacific snappers (Lutjanus kasmira and Lutjanus fulvus). J Biogeogr 37: 133-147. Gaither MR, Bowen BW, Bordenave T R, Rocha LA, Newman SJ, Gomez JA, van Herwerden L, Craig MT (2011) Phylogeography of the reef fish Cephalopholis argus (Epinephelidae) indicates Pleistocene isolation across the Indo-Pacific Barrier with contemporary overlap in the Coral Triangle. BMC Evol Biol 11: 189. Gaston KJ (2003) The structure and dynamics of geographic ranges. Oxford, UK: Oxford University Press. Godwin J (1995) Phylogenetic and habitat influences on mating system structure in the humbug damselfishes (Dascyllus Pomacentridae). Bull Mar Sci 57: 637-652. Goren M, Dor M (1994) An updated checklist of the fishes of the Red Sea-CLOFRES Ⅱ. Israel Academy of Sciences and Humanities, Jerusalem. Goudet J (2001) FSTAT, a program to estimate and test gene diversities and fixation indices (v 2.9.3.2). Available: www2.unil.ch/popgen/softwares/fstat.htm. Grant WS, Bowen BW (1998) Shallow population histories in deep evolutionary lineages of marine fishes: insights from sardines and anchovies and lessons for conservation. J Hered 89: 415-426. Hauser LA, Crovello TJ (1982) Numerical analysis of genetic relationships in the Thelypodieae (Brassicaceae). Syst Botany 7: 249-268. Hedrick PW (2005) Genetic of populations. Jones and Bartlett Publishers: Sudbury, MA, USA 3: 1-737. Hewitt G (2000) The genetic legacy of the Quaternary ice ages. Nature 405: 907-913. Hoffman EA, Blouin MS (2004) Histroiacl data refute recent range contraction as cause of low genetic diversity in isolated frog populations. Mol Ecol 13: 271-276. Holbrook SJ, Forrester GE, Schmitt RJ (2000) Spatial patterns in abundance of damselfish reflects availability of suitable habitat. Oecologia 122: 109-120. Holt RD, Keitt TH, Lewis MA, Maurer BA, Taper ML (2005) Theoretical models of species’ borders: single species approaches. Oikos 108: 18-27. Horne JB, van Herwerden L, Choat JH, Robertson DR (2008) High population connectivity across the Indo-Pacific: congruent lack of phylogeographic structure in three reef fish congeners. Mol Phylogenet Evol 49: 629-638. Huelsenbeck JP, Ronquist F (2001) MRBAYES: Bayesian inference of phylogeny. Bioinformatics 17: 754-755. Johannesson K, Andre C (2006) Life on the margin: genetic isolation and diversity loss in a peripheral marine ecosystem, the Baltic Sea. Mol Ecol 15: 2013-2029. Kirkpatrick M, Ravigne V (2002) Speciation by natural and sexual selection: models and experiments. Am J Bot 86: 1239-1247. Kojima S, Kamimura S, Iijima A, Kimura T, Mori K, Hayashi I, Furota T (2005) Phylogeography of the endangered tideland snail Batillaria zonalis in the Japanese and Ryukyu Islands. Ecol Res 20: 686–694. Lecomte F, Grant WS, Dodson JJ, Rodriguez-Sanchez R, Bowen BW (2004) Living with uncertainty: Genetic imprints of climate shifts in East Pacific anchovy (Engraulis mordax) and sardine (Sardinops sagax). Mol Ecol 13: 2169-2182. Legendre P, Legendre L (1998) Numerical ecology. Elsevier, Amsterdam, Holland. Le Ray M, Beldade R, Holbrook SJ, Schmitt RJ, Planes S (2010) Allopatric divergence and speciation in coral reef fish: the three spot damselfish, Dascyllus trimaculatus, species complex. Evolution 64: 1218-1230. Lessios HA, Robertson DR (2006) Crossing the impassable: genetic connections in 20 reef fishes across the eastern Pacific barrier. Proc R Soc B 273: 2201-2208. Lind CE, Evans BS, Taylor JJ, Jerry DR (2007) Population genetics of a marine bivalve, Pinctada maxima, throughout the Indo-Australian Archipelago shows differentiation and decreased diversity at range limits. Mar Ecol 16: 5193-203. Liu SYV, Kokita T, Dai CF (2008) Population genetic structure of the neon damselfish (Pomacentrus coelestis) in the northwestern Pacific Ocean. Mar Biol 154: 745-753. Lourie SA, Green DM, Vincent AC (2005) Dispersal, habitat differences, and comparative phylogeography of Southeast Asian seahorses (Syngnathidae: Hippocampus). Mol Ecol 14: 1073-1094. Lu CP, Chen CA, Hui CF, Tzeng TD, Yeh SY (2006) Population genetic structure of the swordfish, Xiphias gladius (Linnaeus, 1758), in the Indian Ocean and West Pacifc inferred from the complete DNA sequence of the mitochondrial control region. Zool Stud 45: 269-279. Marie AD, van Herwerden L, Choat JH, Hobbs JP (2007) Hybridization of reef fishes at the Indo-Pacific biogeographic barrier: a case study. Coral Reefs 26: 841-850. McCauley RA, Ballard HE (2002) Inferring nativity and biogeographic affinities of central and marginal populations of Froelichia floridana (Amaranthaceae) from Inter-Simple Sequence Repeat (ISSR) markers. J Torrey Bot Soc 129: 311-325. Morcos SA (1970) Physical and chemical oceanography of the Red Sea. Oceanogr Mar Biol Ann Rev 8: 73-202. Naish T, Powell R, Levy R et al (2009) Obliquity-paced Pliocene West Atlantic ice sheet oscillations. Nature 458: 322–328. Nei M, Tajima F, Tateno Y (1983) Accuracy of estimated phylogenetic trees from molecular data. J Mol Evol 19: 153-170. Nei M (1987) Molecular evolutionary genetics. Columbia University Press, New York, NY. Nunes F, Norris RD, Knowlton N (2009) Implications of isolation and low genetic diversity in peripheral populations of an amphi-Atlantic coral. Mol Ecol 18: 4283-4297. Ota T (1993) DISPAN: genetic distance and phylogenetic analysis. Available: http: //homes.bio.psu.edu/people/Faculty/Nei/Lab/Programs.html (accessed December 2007). Page RDM (1997) TreeView v1.4. Available: http:// taxonomy. zoology.gla.ac.uk /rod/rod.html. Palumbi SR (1996) Nucleic acids II: the polymerase chain reaction. In: Hillis DM, Moritz C, Mable BK (Eds.), Molecular Systematics, Sinauer, Sunderland. Mass. Sinauer Associates, Inc., 205-247. Peakall R, Smouse PE (2006) Genalex 6: genetic analysis in Excel. Population genetic software for teaching and research. Mol Ecol Notes 6: 288-295. Planes S, Fauvelot C (2002) Isolation by distance and vicariance drive genetic structure of a coral reef fish in the Pacific Ocean. Evolution 56: 378-399. Pritchard JK, Stephens M, Donnelly P (2000) Inference of population structure using multilocus genotype data. Genetics 155: 945-959. Pulliam RH (2000) On the relationship between niche and distribution. Ecol Lett 3: 349-361. Rambaut A ( 2010) FigTree 1.3.1. Available: http://tree.bio.ed.ac.uk/software/figtree/. Randall JE (1998) Zoogeography of shore fishes of the Indo-Pacific region. Zool Stud 37: 227-268. Reed DH, Frankham R (2003) Correlation between fitness and genetic diversity. Conserv Biol 17: 230-237. Ridgway T, Riginos C, Davis J, Hoegh-Guldberg O (2008) Genetic connectivity patterns of Pocillopora verrucosa in southern African Marine Protected Areas. Mar Ecol Prog Ser 354: 161-168. Roberts CM, McClean CJ, Veron JEN, Hawkins JP, Allen GR, McAllister DE, Mittermeier CG, Schueler FW, Spalding M, Wells F, Vynne C, Werner TB (2002) Marine biodiversity hotspots and conservation priorities for tropical reefs. Science 295: 1280-1284. Robertson DR, Grove JS, McCosker JE (2004) Tropical transpacific shorefishes. Pac Sci 58: 507-565. Rocha LA, Bass AL, Robertson DR, Bowen BW (2002) Adult habitat preferences, larval dispersal, and the comparative phylogeography of three Atlantic surgeonfishes (Teleostei: Acanthuridae). Mol Ecol 11: 243-252. Rogers AR, Harpending H (1992) Population growth makes waves in the distribution of pairwise genetic differences. Mol Biol Evol 9: 552-569. Rousset F (1997) Genetic differentiation and estimation of gene flow from F-statistics under isolation by distance. Genetics 145: 1219-1228. Schneider S, Roessli D, Excoffier L (2000) Arlequin, Version 2.0, A Software for Population Genetics Data Analysis (Genetics and Biometry Laboratory, University of Geneva, Geneva, Switzerland). Smith JLB (1960) Coral fishes of the family Pomacentridae from the western Indian Ocean and the Red Sea. Ichthyol Bull 19: 317-349. Stamatakis A (2006b) RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22: 2688-2690. Swearer SE, Shima JS, Hellberg ME, Thorrold SR, Jones GP, Robertson DR, Morgan SG, Selkoe KA, Ruiz GM, Warner RR (2002) Evidence of self-recruitment in demersal marine populations. Bull Mar Sci 70: 251-271. Van Oosterhout C, Hutchinson W, Wills D, Shipley P (2004) MICRO-CHECKER: software for identifying and correcting genotyping errors in microsatellite data. Mol Ecol Notes 4: 535-38. Voris HK (2000) Maps of Pleistocene sea levels in Southeast Asia: shorelines, river systems and time durations. J Biogeogr 27: 1153-1167. Vucetich JA, Waite TA (2003) Spatial patterns of demography and genetic processes across the species’ range: null hypotheses for landscape conservation genetics. Conserv Genet 4: 639-645. Weber JL, Wong C (1993) Mutation of human short tandem repeats. Hum Molec Genet 2: 1123-1128. Weir BS, Cockerham CC (1984) Estimating F-statistics for the analysis of population structure. Evolution 38: 1358-1370. Wellington MG, Victor BC (1989) Planktonic larval duration of one hundred species of Pacific and Atlantic damselfishes (Pomacentridae). Mar Biol 101: 557-567. White C, Selkoe KA, Watson J, Siegel DA, Zacherl DC, Toonen RJ (2010) Ocean currents help explain population genetic structure. Proc R Soc B 227: 1685-1694. Winters KL, van Herwerden L, Choat HJ, Robertson DR (2010) Phylogeography of the Indo-Pacific parrotfish Scarus psittacus: isolation generates distinctive peripheral populations in two oceans. Mar Biol 157: 1679-1691. Worheide G, Epp LS, Macis L (2008) Deep genetic divergences among Indo-Pacific populations of the coral reef sponge Leucetta chagosensis (Leucettidae): founder effects, vicariance, or both? BMC Evol Biol 8: 24. Xia X, Xie Z (2001) DAMBE: data analysis in molecular biology and evolution. J Hered 92: 371-373. | |
| dc.identifier.uri | http://tdr.lib.ntu.edu.tw/jspui/handle/123456789/64618 | - |
| dc.description.abstract | 三帶圓雀鯛（Dascyllus aruanus）為廣泛分佈於印度、太平洋的珊瑚礁魚類，其範圍北起日本、南至澳大利亞、西自紅海和東非、東至法屬玻里尼西亞（French Polynesia）。本研究樣本採集自十三個地點，包括印度洋區的紅海與馬達加斯加島周圍四個地點，以及太平洋區的臺灣、印尼、日本、西沙、東沙、菲律賓、新卡里多尼亞（New Caledonia）與法屬玻里尼西亞，共260隻個體。以粒線體cytochrome b（1040-bp）基因及7個微衛星DNA基因座為分子標誌，分析族群之間的遺傳多樣性及親緣地理，並檢驗印度、太平洋族群分化及邊緣族群遺傳變異較低的假說。根據粒線體cytochrome b基因所得到的分子親緣樹，印度洋區的五個族群自成一單系群，太平洋區族群則混雜在一起，雖然親緣樹上的分群並無高支持度，但從單型的最小擴張枝樹（minimium spanning tree）可知，印度洋與太平洋的三帶圓雀鯛族群間並無共有的單型，顯示印度洋和太平洋族群之間有明顯的親緣地理結構。在法屬玻里尼西亞的25隻個體中，有23隻個體自成兩個單系群，另有2隻個體與其他太平洋族群混雜在一起，這些少數個體可能為逢機事件所造成。遺傳多樣性的分析結果顯示，法屬玻里尼西亞與紅海的族群具有較低單型歧異度與低核苷酸歧異度等特徵，符合邊緣族群的遺傳特性；其餘族群則具有較高的遺傳多樣性，顯示這些族群間可能有頻繁的基因交流。 | zh_TW |
| dc.description.abstract | Dascyllus aruanus is distributed throughout the Indo-Pacific Ocean, from Red Sea and East Africa to French Polynesia, and from southern Japan to southeast Australia in West Pacific. The aims of this study were to reveal the phylogeographic relationship and population genetic diversity of D. aruanus in Indo-Pacific by using mtDNA cytochrome b (1040-bp) and 7 microsatellite loci. Totally, 260 individuals were collected from southern Taiwan, Raja Ampat (Indonesia), Okinawa (Japan), Paracel Island (China) and Dongsha Atoll in the South China Sea, New Caledonia, Gaohagan Island (Philippines), French Polynesia, Eilat in Red Sea and four locations around Madagascar. The phylogenetic tree of mtDNA showed that populations in Indian Ocean (Madagascar and Red Sea populations) formed a monophyletic group and the rest Pacific populations were mixed together. A strong genetic break between Indian and Pacific populations suggests that the Indo-Pacific barrier may play an important role in shaping their genetic structure. Among the 25 individuals collected from French Polynesia, 23 individuals formed a group with high bootstrap value, while the rest 2 individuals were mixed with other Pacific populations which might be due to rare dispersal events. The lower genetic diversity found in French Polynesia and Red Sea populations fit with the prediction of genetic diversity in peripheral populations. However, the other Pacific populations and four populations around Madagascar were characterized with higher genetic diversity which indicating that high and frequent gene flows may exist among local and regional populations. | en |
| dc.description.provenance | Made available in DSpace on 2021-06-16T17:58:27Z (GMT). No. of bitstreams: 1 ntu-101-R99241213-1.pdf: 1214048 bytes, checksum: 24d47b947b6685a76989e0fde874aea6 (MD5) Previous issue date: 2012 | en |
| dc.description.tableofcontents | 中文摘要 I
Abstract II Table of contents IV Content of tables V Content of figures VI Content of appendix VII Introduction 1 Materials and Methods 6 Sample collection and DNA extraction 6 Mitochondrial DNA marker 7 Microsatellite markers 7 Data analyses 8 Results 13 Genetic variability 13 Phylogenetic analyses 14 Population structure 15 Isolation by distance and population expansion 17 Discussion 19 Genetic diversity and population connectivity 19 Population structure 22 Effects of the Indo-Pacific Barrier 23 Conclusion 25 References 26 | |
| dc.language.iso | zh-TW | |
| dc.subject | 三帶圓雀鯛 | zh_TW |
| dc.subject | 親緣地理 | zh_TW |
| dc.subject | 遺傳多樣性 | zh_TW |
| dc.subject | 族群結構 | zh_TW |
| dc.subject | 印度太平洋屏障 | zh_TW |
| dc.subject | Dascyllus aruanus | en |
| dc.subject | phylogeography | en |
| dc.subject | genetic diversity | en |
| dc.subject | population structure | en |
| dc.subject | Indo-Pacific Barrier | en |
| dc.title | 印度西太平洋三帶圓雀鯛的親緣地理關係及遺傳結構 | zh_TW |
| dc.title | Phylogeography and genetic structure of Dascyllus aruanus in Indo-West Pacific Ocean | en |
| dc.type | Thesis | |
| dc.date.schoolyear | 100-2 | |
| dc.description.degree | 碩士 | |
| dc.contributor.coadvisor | 陳韋仁(Wei-Jen Chen) | |
| dc.contributor.oralexamcommittee | 于宏燦,詹榮桂 | |
| dc.subject.keyword | 三帶圓雀鯛,親緣地理,遺傳多樣性,族群結構,印度太平洋屏障, | zh_TW |
| dc.subject.keyword | Dascyllus aruanus,phylogeography,genetic diversity,population structure,Indo-Pacific Barrier, | en |
| dc.relation.page | 62 | |
| dc.rights.note | 有償授權 | |
| dc.date.accepted | 2012-08-10 | |
| dc.contributor.author-college | 理學院 | zh_TW |
| dc.contributor.author-dept | 海洋研究所 | zh_TW |
| 顯示於系所單位： | 海洋研究所 | |
文件中的檔案：
| 檔案 | 大小 | 格式 | |
|---|---|---|---|
| ntu-101-1.pdf 未授權公開取用 | 1.19 MB | Adobe PDF |
系統中的文件，除了特別指名其著作權條款之外，均受到著作權保護，並且保留所有的權利。