透過粒線體基因體探討盤古蟾蜍與中華蟾蜍在蟾蜍科之內的親緣關係

以作者查詢圖書館館藏

、以作者查詢臺灣博碩士

、以作者查詢全國書目

、勘誤回報

、線上人數：58

、訪客IP：3.129.63.150

姓名

黃渝雯(Yu-Wen Huang) 查詢紙本館藏

畢業系所

生命科學系

論文名稱

透過粒線體基因體探討盤古蟾蜍與中華蟾蜍在蟾蜍科之內的親緣關係
(Exploring the genetic relationship between Bufo bankorensis and Bufo gargarizans within the family Bufonidae through the mitochondrial genome)

相關論文

★ 探討resveratrol和osajin對鼻咽癌之抗腫瘤作用及機制	★ 臺灣及鄰近地區澤蛙的地理親源演化關係
★ 白藜蘆醇對鼻咽癌中基因的異常甲基化及細胞移動的影響	★ 調控酵母菌MIG1基因表達的轉錄因子
★ 單一核甘酸差異來研究MIG1調控表現的機制	★ 利用粒腺體全基因體DNA 序列瞭解台灣小雨蛙與近親種的演化及親源關係
★ Influences of habitat adaptation and geological events on Asian Common Toad (Duttaphrynus melanostictus) distribution pattern	★ 東亞及東南亞地區貢德氏赤蛙之親緣地理關係研究
★ 利用粒腺體基因(16S rRNA & ND4) 和細胞核基因(7IβFIB & 3ITBP) 研究亞洲蝮蛇在印尼地區的地理親緣演化	★ Microhyla fissipes及其近親種在東亞及東南亞的地理親緣關係
★ 面天樹蛙全粒線體基因組序列與其親緣關係	★ 爪哇特有種Microhyla achatina粒線基因體完整序列及其親緣遣傳演化
★ 台灣東部澤蛙(Fejervarya limnocharis)完整粒線體基因組序列及其親緣演化之探討

檔案

[Endnote RIS 格式]

[Bibtex 格式]

[相關文章]

[文章引用]

[完整記錄]

[館藏目錄]

至系統瀏覽論文 (2028-7-21以後開放)

摘要(中)

在全世界的蟾蜍科裡共有五十三屬，六百四十二種的蟾蜍。在台灣僅見兩種原生種蟾蜍，分別為盤古蟾蜍（Bufo bankorensis）與黑眶蟾蜍（Duttaphrynus melanostictus）。先前研究透過大量形態特徵的分析、cytb限制酶切割實驗及粒線體基因ND2與D-loop序列親緣關係樹分析，認為盤古蟾蜍為台灣特有種，與中華蟾蜍為不同物種，但有部分學者透過粒線體DNA基因(12S、16S)分析，認為盤古蟾蜍與中國的中華蟾蜍(Bufo gargarizans)為同種異名，因此盤古蟾蜍與中華蟾蜍的分類地位，目前尚有爭議。
本研究使用從台灣陽明山採集的盤古蟾蜍，進行粒線體基因體DNA定序，同時收集了已發表的十六種蟾蜍(十九條)擁有粒線體基因體的序列，以及中華蟾蜍物種複合群與姊妹種的五個基因序列(12S、16S、COI、cytb及ND2)，透過分子系統、演化生物學分析及遺傳距離的比較，認為中華蟾蜍物種複合群內已發表的物種皆為有效物種，是具有分類上的意義；而盤古蟾蜍在台灣分為東、西兩群，西台灣的盤古蟾蜍與安徽的中華蟾蜍為同一演化支，關於盤古蟾蜍是否為台灣特有種，仍需要增加東台灣的資料進被夜市討。

摘要(英)

There are 642 species of toads in 53 genera around the whole world. 16 species of toads have been published their complete mitochondrial genomes. The only two native species of toads found in Taiwan were the Bufo bankorensis and Duttaphrynus melanostictus. Some previous studies believed that the Bufo bankorensis was a distinct endemic species in Taiwan by analyses of numerous morphometric characters, cytb restriction enzyme cutting experiments and phylogeny tree analysis of mitochondrial genes ND2 and D-loop sequences.. However, some scholars have suggested that the Bufo gargarizans and the Bufo bankorensis were the same species through several mitochondrial DNA gene (12S, 16S) analyses.
This study used Bufo bankorensis collected from Yangmingshan, Taiwan, to sequence the complete mitochondrial genes. At the same time, the published sequences of sixteen toad species (nineteen sequences) possessing complete mitochondrial genes were collected, as well as the five gene sequences (12S, 16S, COI, cytb and ND2) of the Bufo gargarizans species complex and other toad sister species, through molecular systems, evolutionary biology analyses and p-distances, genetic distances. Our data showed that all published species in the Bufo gargarizans species complex were effective species with classification significance. Bufo bankorensis were divided into eastern and western groups in Taiwan. Bufo bankorensis of western Taiwan and Bufo gargarizans from Anhui belong to the same clade. As for whether Bufo bankorensis endemic to Taiwan, it was still required more data from the eastern Taiwan group.

關鍵字(中)

★ 盤古蟾蜍
★ 粒線體基因體
★ 中華蟾蜍
★ 中華蟾蜍物種複合群
★ 貝葉氏推斷法
★ 最大概率演算法

關鍵字(英)

論文目次

目錄
摘要 i
Abstract ii
致謝 iii
目錄 iv
圖目錄 v
表目錄 viii
縮寫檢索表 ix
一、緒論 1
1.1物種的定義…………………………………………………………...1
1.2兩棲類 2
1.3盤古蟾蜍 3
1.4粒線體和粒線體DNA(mitochondrial DNA，mtDNA) 5
1.5中華蟾蜍物種複合群(Bufo gargarizans species complex) 5
1.6粒線體基因體在物種分類上的應用 6
二、材料與方法 8
2.1實驗樣品 8
2.2 DNA粗萃取 8
2.3引子設計 9
2.4聚合酶連鎖反應(PCR，polymerase chain reaction) 10
2.5 PCR 產物電泳 11
2.6 DNA 純化 11
2.7 DNA 定序(sequencing) 12
2.8整理序列 12
2.9 DNA 序列及演化分析 12
2.10中華蟾蜍物種複合群(Bufo gargarizans species complex) 14
2.11姊妹種(sister species) 15
三、結果 16
3.1盤古蟾蜍粒線體基因體 16
3.2親緣關係分子分析結果 20
四、討論與結論 26
4.1 D-loop重複序列 26
4.2中華蟾蜍物種複合群的假說是否成立 26
4.3目前粒線體基因體資料所呈中華蟾蜍物種複合群的親緣關係 27
4.4盤古蟾蜍是否為台灣特有種 28
五、參考文獻 29
附錄一 34
附錄二 40
附錄三 43

參考文獻

Barbour T. (1908). Some New Peptiles and Amphibians. Bulletin of the Museum of Comparative Zoology at Harvard Collega, 51, 315-325.
Bick RJ, Poindexter BJ, Sweney RR, Dasgupta A. (2002). Effects of Chan Su, a traditional Chinese medicine, on the calcium transients of isolated cardiomyocytes: Cardiotoxicity due to more than Na, K-ATPase blocking. Life Sciences, 72(6), 699-709.
Branham M. (2008). Species Concepts. Encyclopedia of Entomology. Springer, Dordrecht, pp 3480–3483.
Campbell N, Reece, J. (2002). Biology. Benjamin Cummings, pp. 468.
Cantor T. (1842). General features of Chusan, with remarks on the flora and fauna of that island. Annals and Magazine of Natural History, Series 1(9), 481–493.
Castresana J. (2001). Cytochrome b phylogeny and the taxonomy of great apes and mammals. Molecular Biology and Evolution, 18(4), 465-471.
Chen CC, Li KW, Yu TL, Chen LH, Sheu PY, Tong YW, Huang KJ, Weng CF. (2013). Genetic structure of Bufo bankorensis distinguished by amplified restriction fragment length polymorphism of cytochrome b. Zoological Studies, 52, 48.
Chinnery PF, Schon EA. (2003). Mitochondria. Journal of Neurology, Neurosurgery & Psychiatry, 74(9), 1188-1199.
Cole LW. (2016). The Evolution of Per-cell Organelle Number. Frontiers in Cell and Developmental Biology, 18(4), 85.
Cronquist A. (1978). Once again, what is a species? Biosystematics in Agriculture. Allenheld Osmin; Montclair, New Jersey, U.S.A. pp. 3–20.
Elyasigorji Z, Izadpanah M, Hadi F et al. (2023). Mitochondrial genes as strong molecular markers for species identification. Nucleus, 66, 81–93.
Felsenstein J. (1981). Evolutionary trees from DNA sequences: a maximum likelihood approach. Journal of Molecular Evolution, 17(6), 368-376.
Fu J, Weadick CJ, Zeng X, Wang Y, Liu Z, Zheng Y, Li C, Hu Y. (2005). Phylogeographic analysis of the Bufo gargarizans species complex: a revisit. Molecular Phylogenetics and Evolution, 37(1), 202-213.
Gallant AL, Klaver RW, Casper GS, Lannoo MJ. (2007). Global Rates of Habitat Loss and Implications for Amphibian Conservation. Copeia, 2007(4), 967–979.
Guo M, Yuan C, Tao L et al. (2022). Life barcoded by DNA barcodes. Conservation Genet Resour, 14, 351–365.
Hajibabaei M, Singer GA, Hebert PD, Hickey DA. (2007). DNA barcoding: how it complements taxonomy, molecular phylogenetics and population genetics. Trends Genet, 23(4), 167-172.
Hebert PD, Ratnasingham S, deWaard JR. (2003). Barcoding animal life: cytochrome c oxidase subunit 1 divergences among closely related species. Proceedings: Biological Sciences, 7, 270.
Heying H. (2003)“Bufonidae”Animal Diversity Web.
Kumar S, Stecher G, Li M, Knyaz C, Tamura K. (2018). MEGA X: Molecular biology and evolution, 35(6), 1547.
Lane DJ, Pace B, Olsen GJ, Stahl DA, Sogin ML, Pace NR. (1985). Rapid determination of 16S ribosomal RNA sequences for phylogenetic analyses. Proceedings of the National Academy of Sciences of the United States of America, 82(20), 6955-6959.
Lee C, Fong JJ, Jiang JP, Li PP, Waldman B, Chong JR, Lee H, Min MS. (2021). Phylogeographic study of the Bufo gargarizans species complex, with emphasis on Northeast Asia. Animal Cells and Systems, 25(6), 434-444.
Liu W, Lathrop A, Fu J, Yang D, Murphy RW. (2000). Phylogeny of east asian bufonids inferred from mitochondrial DNA sequencs (Anura: amphibia). Molecular Phylogenetics and Evolution, 14(3), 423-435.
Macey JR, Schulte JA 2nd, Larson A, Fang Z, Wang Y, Tuniyev BS, Papenfuss TJ. (1998). Phylogenetic relationships of toads in the Bufo bufo species group from the eastern escarpment of the Tibetan Plateau: a case of vicariance and dispersal. Molecular Phylogenetics and Evolution, 9(1), 80-87.
Matsui M. (1986). Geographic variation in toads of the Bufo bufo complex from the far east, with a decsription of a new subspecies. Copeia, 1986, 561-579.
Mayr E. (1942). Columbia University Press; New York. Systematic and the Origin of Species.
Moritz C, Cicero C. (2004). DNA barcoding: promise and pitfalls. PLOS Biology, 2(10), 354.
Nascimento FF, Reis MD, Yang Z. (2017). A biologist’s guide to Bayesian phylogenetic analysis. Nature Ecology & Evolution, 1, 1446–1454.
Nguyen LT, Schmidt HA, von Haeseler A, Minh BQ. (2015). IQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies. Molecular Biology and Evolution, 32(1), 268-274.
Pereira SL. (2000). Mitochondrial genome organization and vertebrate phylogenetics. Genetics and Molecular Biology, 23, 745-752.
Ronquist F, Teslenko M, van der Mark P, Ayres DL, Darling A, Höhna S, Larget B, Liu L, Suchard MA, Huelsenbeck JP. (2012). MrBayes 3.2: efficient Bayesian phylogenetic inference and model choice across a large model space. Systematic Biology, 61(3), 539-542.
Schmidt KP. (1925). New Chinese amphibians and reptiles. American Museum Novitates, 175, 1–3.
Sharma S, Kumar S. (2021). Fast and accurate bootstrap confidence limits on genome-scale phylogenies using little bootstraps. Nature Computational Science, 1(9), 573-577.
Stejneger L. (1926). A new toad from China. Journal of the Washington Academy of Sciences, 16, 445–446.
Swofford DL. (1998). Phylogenetic analysis using parsimony.
Taiwan Biodiversity Network (台灣生物多樣性網路, 2024) https://www.tbn.org.tw/data/query?ft=taxonbioidplus%3A1471044
Tong H, Wo Y. (2017). Phylogenetic, Demographic and dating analyses of Bufo gargarizans populations from the Zhoushan Archipelago and Mainland China. Asian Herpetological Research, 8, 165–173.
Van Valen L. (1976). Ecological Species. Multispecies, and Oaks. Taxon, 25, 233–239.
Vences M, Thomas M, Bonett RM, Vieites DR. (2005). Deciphering amphibian diversity through DNA barcoding: chances and challenges. Philosophical Transactions of the Royal Society B: Biological Sciences, 360(1462), 1859-1868.
Yang L, Tan Z, Wang D, Xue L, Guan MX, Huang T, Li R. (2014). Species identification through mitochondrial rRNA genetic analysis. Scientific Reports, 13(4), 4089.
Yang Z. (2007). PAML 4: phylogenetic analysis by maximum likelihood. Molecular Biology and Evolution, 24(8), 1586-1591.
Yu TL, Lin HD, Weng CF. (2014). A new phylogeographic pattern of endemic Bufo bankorensis in Taiwan Island is attributed to the genetic variation of populations. PLOS One, 22(9), 98029.
Yuan ZY, Zhou WW, Chen X, Poyarkov Jr NA, Chen HM, Jang-Liaw NH, Chou WH, Matzke NJ, Iizuka K, Min MS, Kuzmin SL, Zhang YP, Cannatella DC, Hillis DM, Che J. (2016). Spatiotemporal diversification of the true frogs (genus Rana): a historical frame- work for a widely studied group of model organisms. Systematic Biology, 65, 824–842.
Zarevskii SF. (1926). Notes on some Batracians from the Palaearctic region. Annuaire du Musée Zoologique de l′Académie des Sciences de Leningrad, 26, 74–78.

指導教授

劉阜果(Fu-Guo Robert Liu)

審核日期

2024-7-26

推文