博碩士論文 104821001 詳細資訊




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:10 、訪客IP:3.210.184.142
姓名 林佳賢(Jia-Sian Lin)  查詢紙本館藏   畢業系所 生命科學系
論文名稱 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
(Evolution and phylogeny of Microhyla fissipes and its relavent taxa infering from mitogenome)
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★ 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★ 爪哇特有種Microhyla achatina粒線基因體完整序列及其親緣遣傳演化
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]   [檢視]  [下載]
  1. 本電子論文使用權限為同意立即開放。
  2. 已達開放權限電子全文僅授權使用者為學術研究之目的,進行個人非營利性質之檢索、閱讀、列印。
  3. 請遵守中華民國著作權法之相關規定,切勿任意重製、散佈、改作、轉貼、播送,以免觸法。

摘要(中) 小雨蛙 (Microhyla fissipes)在台灣台南(模式地點) 首次被發表命名,但並沒有被廣泛接受。 本研究,作者使用從宜蘭收集的樣本代表台灣樣本,並完成完整的線粒體基因組序列(登錄號:MF673131),用以研究Microhyla fissipes 與其近親的親緣關係,特別是希望瞭解與中國樣本(NC_009422)的差異。儘管我們的樣本(16,729個鹼基對)的基因與及基因順序其他兩棲動物幾乎相同,但台灣和中國的樣本之間序列上已有了一些差異。 有趣的是,我們發現ND5 和ND6 基因與其他基因演化非常不同。另外,對基因中所使用的密碼子,進行三個位元的統計分析發現,第二個位元使用胸腺嘧啶的比例較高,在第三個位元使用使用鳥嘌呤的比例明顯較低。
摘要(英) Microhyla fissipes was first recognized in Tainan, Taiwan (type locality), however it is not highly accepted. Herein, author used the sample from Yi-Lan, Taiwan as a representative of Taiwan samples and obtained the complete mitochondrial genome sequence (accession
number: MF673131) in order to study the phylogeny of Microhyla fissipes and its relevants, especially in the comparison with the China sample (NC_009422). Although the genome of our sample (16,729 base pairs) contains genes and gene order almost identical to other amphibians’, some variations have been accumulated between Taiwan and China samples. Interestingly, we noticed that ND5 and ND6 genes evolved very differently from other genes. Also there were strongly codon usage bias with high thymine frequency at the second codon and very low guanine frequency at the third codon.
關鍵字(中) ★ 小雨蛙
★ 親緣性
★ 粒腺體基因組序列
關鍵字(英) ★ Microhyla fissipes
論文目次 中文摘要 .................................................................................................................................. ii
Abstract ........................................................................................................................................... iii
誌謝 ........................................................................................................................................... iv
目錄 .......................................................................................................................................... v
表目錄.................................................................................................................................................. vii
圖目錄.............................................................................................................................................. .. viii
縮寫檢索表.........................................................................................................................................ix
1. 緒論 .............................................................................................................................................1
1.1 小雨蛙 .....................................................................................................................................1
1.2 粒腺體.......................................................................................................................................1
1.3 關於粒腺基因體遺傳疾病.....................................................................................................3
1.4 分子生物技術的應用...............................................................................................................3
1.5 過去利用粒腺基因體對姬蛙屬(Microhyla)與狹口蛙屬(Kaloula)的研究.............................4
1.6 研究內容..................................................................................................................................5
2. 材料與方法 ...................................................................................................................................6
2.1 樣品 .........................................................................................................................................6
2.2 粗萃 .........................................................................................................................................6
2.3 引子 (primer) 設計................................................................................................................6
2.4 聚合酶連鎖反應(PCR)...........................................................................................................6
2.5 純化 .........................................................................................................................................7
2.6 定序 ...........................................................................................................................................7
2.7 整合序列資料...........................................................................................................................7
2.8 分析基因序列...........................................................................................................................7
3. 結果 ...............................................................................................................................................9
3.1 粒腺體基因...............................................................................................................................9
3.2 姬蛙屬 (Microhyla) 與狹口蛙屬(Kaloula) 基因差異.........................................................9
3.3 演化樹分析.............................................................................................................................10
3.4 密碼子現象.............................................................................................................................10
3.5 D-LOOP 與L 鏈複製起點...................................................................................................11
4. 討論 .............................................................................................................................................12
4.1 ND5 與 ND6 演化速率較特殊..........................................................................................12
4.2 台灣與中國M. fissipes 為相同物種......................................................................................12
5. 參考文獻 .....................................................................................................................................14
參考文獻 Atsushi K., et al. (2005). "Molecular Phylogeny of the Ranid Frogs from Southwest
India Based on the Mitochondrial Ribosomal RNA Gene Sequences. " Zoological
Science. 22(5):525-534
Anderson, S., et al., Sequence and organization of the human mitochondrial genome.
Nature, 1981. 290(5806): p. 457-65.
Alberts B, J.A., Lewis J, et al., Electron-Transport Chains and Their Proton Pumps.
Molecular Biology of the Cell, New York: Garland Science; 2002. 4th edition.
Alston, C.L., et al., The genetics and pathology of mitochondrial disease. J Pathol,
2017. 241(2): p. 236-250.
Boulenger, G. A. (1884). "Descriptions of new species of reptiles and batrachians in
the British Museum. "—Part. II. Ann. Mag. Nat. Hist., Series 5(13): 396–398.
Baertling, F., et al., A guide to diagnosis and treatment of Leigh syndrome. J Neurol
Neurosurg Psychiatry, 2014. 85(3): p. 257-65.
Balint, B. and K.P. Bhatia, Dystonia: an update on phenomenology, classification,
pathogenesis and treatment. Curr Opin Neurol, 2014. 27(4): p. 468-76.
Beale, G., The discovery of mustard gas mutagenesis by Auerbach and Robson in
1941. Genetics, 1993. 134(2): p. 393-9.
Chang, D.D. and D.A. Clayton, Priming of human mitochondrial DNA replication
occurs at the light-strand promoter. Proc Natl Acad Sci U S A, 1985. 82(2): p. 351-5.
Carelli, V., et al., Biochemical features of mtDNA 14484 (ND6/M64V) point mutation
associated with Leber′s hereditary optic neuropathy. Ann Neurol, 1999. 45(3): p. 320-8.
Darriba D., T. G. L., Doallo R., Posada D. (2012). "jModelTest 2: more models, new
heuristics and parallel computing." Nature Methods.
Davidzon, S. D. G. (2005). "Mitochondrial DNA and disease"." Department of
Neurology, Columbia University Medical Center.
Duméril, A. H. a. G. B. (1841). "Erpetologie generale ou Histoire Naturelle complete
des reptiles." Paris 8.
Doda, J.N., C.T. Wright, and D.A. Clayton, Elongation of displacement-loop strands
in human and mouse mitochondrial DNA is arrested near specific template sequences.
Proc Natl Acad Sci U S A, 1981. 78(10): p. 6116-20.
Esposito, D., L.A. Garvey, and C.S. Chakiath, Gateway cloning for protein
expression. Methods Mol Biol, 2009. 498: p. 31-54.
Fish, J., N. Raule, and G. Attardi, Discovery of a major D-loop replication origin
reveals two modes of human mtDNA synthesis. Science, 2004. 306(5704): p. 2098-101.
Giege, R, et al. (1998) Universal rules and idiosyncratic features in tRNA identity.
Nucleic Acids Res 26: 5017-5035
Guindon S., D. J. F., Lefort V., Anisimova M., Hordijk W., Gascuel O. (2003). " A
simple, fast, and accurate algorithm to estimate large phylogenies by maximum
likelihood." Syst. Biol 59: 307–321.
Grada, A. and K. Weinbrecht, Next-generation sequencing: methodology and
application. J Invest Dermatol, 2013. 133(8): p. e11.
Hasan, M., et al. (2012). "Cryptic Anuran Biodiversity in Bangladesh Revealed by
Mitochondrial 16S rRNA Gene Sequences." Zootaxa 29: 162–172.
Hendrix ; Gawor, A. V., Miguel ; Ziegler, Thomas (2008). "The tadpole of the
Narrow-mouthed Frog Microhyla fissipes from Vietnam." ZOOTAXA.(1675): 67-68.
Hoi-SenYong, S.-L. S., Wayan Suanac, Praphathip Eamsobhanad, Phaik-Eem Lim
(December 2016). "Complete mitochondrial genome of Orthetrum dragonflies and
molecular phylogeny of Odonata." Biochemical Systematics and Ecology 69: 124-131.
Huelsenbeck J.P., R. F. R. (2001). "MrBayes: Bayesian Inference of Phylogenetic
Trees." Bioinformatics 17: 754-755. Holt, I.J., H.E. Lorimer, and H.T. Jacobs, Coupled
leading- and lagging-strand synthesis of mammalian mitochondrial DNA. Cell, 2000.
100(5): p. 515-24.
Igawa, T., et al. (2008). "Complete mitochondrial genomes of three neobatrachian
anurans: a case study of divergence time estimation using different data and calibration
settings." Gene 407(1-2): 116-129.
Jaryal, A.K., Nobel Prize in Physiology or Medicine for the year 2007. Indian J
Physiol Pharmacol, 2007. 51(4): p. 423-4.
Kuramoto, M. S. H. J. (2006). "Morphological and acoustic comparisons of
Microhyla ornata, M. fissipes, and M. okinavensis (Anura: Microhylidae). ." Current
Herpetology 25: 15-27.
Kervinen, M., et al., The MELAS mutations 3946 and 3949 perturb the critical
structure in a conserved loop of the ND1 subunit of mitochondrial complex I. Hum Mol
Genet, 2006. 15(17): p. 2543-52.
L., S. D. (1998). "PAUP*: Phylogenetic analysis using parsimony (and other
methods), version 4.0."
Lin, L. Y., et al. (1991). "Maternal transmission of mitochondrial DNA in ducks."
Biochem Biophys Res Commun 168(1): 188-193.
Larizza, A., et al., Lineage specificity of the evolutionary dynamics of the mtDNA
D-loop region in rodents. J Mol Evol, 2002. 54(2): p. 145-55.
Matsui M, I. H.,et al. (2005). "Taxonomic relationships within the pan-oriental
narrow-mouth toad Microhyla ornata as revealed by mtDNA analysis (Amphibia, Anura,
Microhylidae)." Zoolog Sci. 22(6): 711.
Marzuki, S., et al., Normal variants of human mitochondrial DNA and translation
products: the building of a reference data base. Hum Genet, 1991. 88(2): p. 139-45.
Mindell, D.P., M.D. Sorenson, and D.E. Dimcheff, An extra nucleotide is not
translated in mitochondrial ND3 of some birds and turtles. Molecular Biology and
Evolution, 1998. 15(11): p. 1568-1571.
Mitchell, A.L., et al., Sequence variation in mitochondrial complex I genes: mutation
or polymorphism? J Med Genet, 2006. 43(2): p. 175-9.
Michel, B. and H.R. Bosshard, Spectroscopic analysis of the interaction between
cytochrome c and cytochrome c oxidase. J Biol Chem, 1984. 259(16): p. 10085-91.
Ojala, D., J. Montoya, and G. Attardi, tRNA punctuation model of RNA processing in
human mitochondria. Nature, 1981. 290(5806): p. 470-4.
Papetti, C., et al. (2007). "Antarctic fish mitochondrial genomes lack ND6 gene." J
Mol Evol 65(5): 519-528.
Patterson, J., Chamberlain, B., Thayer, D. 2006. Finch TV Version 1.4.0. Retrieved
from http://www.geospiza.com/Products/finchtv.shtml
Plescia, O.J., et al., Production of antibodies to soluble RNA (sRNA). Proc Natl Acad Sci
U S A, 1965. 54(4): p. 1281-5
Pecina, P., et al., Genetic defects of cytochrome c oxidase assembly. Physiol Res, 2004.
53 Suppl 1: p. S213-23.
Raeymaekers, L., General principles of quantitative PCR. Methods Mol Med, 1999.
26: p. 31-41.
Schimmel P (1987) Aminoacyl tRNA synthetases: general scheme of
structure-function relationships in the polypeptides and recognition of transfer RNAs.
Annu Rev Biochem 56: 125-158
Stejneger (1901). "Diagnoses of Eight New Batrachians and Reptiles from the Riu
Kiu Archipelago, Japan." Proceedings of the Biological Society of Washington 14:
189-191.
Siebert, P.D., Quantitative rt-PCR. Methods Mol Med, 1999. 26: p. 61-85.
Tsukihara, T., et al., The whole structure of the 13-subunit oxidized cytochrome c
oxidase at 2.8 A. Science, 1996. 272(5265): p. 1136-44.
Xuan, J., et al., Next-generation sequencing in the clinic: promises and challenges.
Cancer Lett, 2013. 340(2): p. 284-95.
Yang, Y. J., et al. (1994). "Variation in mitochondrial DNA and population structure
of the Taipei treefrog Rhacophorus taipeianus in Taiwan." Mol Ecol 3(3): 219-228.
Zhang, P., et al. (2005). "The complete mitochondrial genome of a tree frog,
Polypedates megacephalus (Amphibia: Anura: Rhacophoridae), and a novel gene
organization in living amphibians." Gene 346: 133-143.
呂光洋 (1980). "台灣產兩棲類隻棲息環境簡介." 科學教育雙月刊 3(8): 47-50.
呂光洋、陳世煌 (1986). "台灣的兩棲類動物." 台灣省政府教育廳.
陳嘉芬 (2002)―現代遺傳學Ⅱ",藝軒。
楊懿如 (1998)"賞蛙圖鑑-台灣蛙類野外觀察指南",中華名國自然與生態攝影學會
出版,143.
指導教授 劉阜果(Fu-Guo Robert Liu) 審核日期 2018-2-21
推文 facebook   plurk   twitter   funp   google   live   udn   HD   myshare   reddit   netvibes   friend   youpush   delicious   baidu   
網路書籤 Google bookmarks   del.icio.us   hemidemi   myshare   

若有論文相關問題,請聯絡國立中央大學圖書館推廣服務組 TEL:(03)422-7151轉57407,或E-mail聯絡  - 隱私權政策聲明