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DNA条形码揭示日本纺织娘(Mecopodaniponensis)个体内和个体间的序列变异

, PP. 129-136

Keywords: 纺织娘,线粒体DNA,DNA条形码,线粒体假基因,异质性

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Abstract:

采用DNA条形码通用引物对分布于我国的两种纺织娘14个个体进行了扩增与测定。结果显示,6个纺织娘Mecopodaelongata个体均可由PCR产物直接测序法获得良好测序结果,序列长度均为658bp,且不存在碱基插入/缺失。而8个日本纺织娘M.niponensis个体PCR法直接测序结果峰图杂乱,软件无法识别,后经克隆法测定的85条克隆序列长度为580-662bp,其中,20条为明显的线粒体假基因(Nuclearsequencesofmitochondrialorigin,numts),包括4条存在终止密码子,15条存在碱基插入/缺失,1条存在读码框摆动;38条为疑似numts(含≥2个非同义替换位点)。利用Kimura2-parameter(K2P)模型计算遗传距离发现,两种纺织娘之间的遗传距离为0.077,纺织娘及日本纺织娘个体间的遗传距离分别为0-0.008及0.030-0.051,而日本纺织娘个体内克隆间的遗传距离则分别为0-0.143(含numts)及0-0.083(不含numts)。邻接法系统发育树聚类结果显示,纺织娘形成一个单系分支,自举值为99,而日本纺织娘的COI和numts序列则聚类形成多个分支,提示这些numts序列可能是线粒体COI多次向核内转移的结果。

References

[1]  Hebert PDN, Cywinska A, Ball SL, et al. Biological identifications through DNA barcodes[J]. P Roy Soc B-Biol Sci, 2003, 270(1512):313-321.
[2]  程磊, 常玉梅, 鲁翠云, 等.鲫属鱼类DNA 条码及种与亚种划分[J]. 动物学研究, 2012, 33(5):463-472.
[3]  Hebert PDN, Penton EH, Burns JM, et al. Ten species in one:DNA barcoding reveals cryptic species in the neotropical skipper butterfly Astraptes fulgerator[J]. PNAS, 2004, 101(41):14812-14817.
[4]  Kerr KCR, Stoeckle MY, Dove CJ, et al. Comprehensive DNA barcode coverage of North American birds[J]. Mol Ecol Notes, 2007, 7(4):535-543.
[5]  马英, 李海龙, 亮鲁, 等. DNA条形码技术在青海海东地区小型兽类鉴定中的应用[J]. 生物多样性, 2012, 20(2):193-198.
[6]  杨聪慧, 韩辉林, 迟美妍, 等. DNA条形码技术在北京百花山地区夜蛾科物种鉴定中的应用[J]. 昆虫学报, 2012, 55(9):1082-1092.
[7]  Meyer A, Kocher TD, Basasibwaki P, et al. Monophyletic origin of Lake Victoria cichlid fishes suggested by mitochondrial DNA sequences[J]. Nature, 1990, 347(6293):550-553.
[8]  Meyer CP, Paulay G. DNA barcoding:error rates based on comprehensive sampling[J]. PloS Biol, 2005, 3(12):e422.
[9]  Lopez JV, Yuhki N, Masuda R, et al. Numt, a recent transfer and tandem amplification of mitochondrial DNA to the nuclear genome of the domestic cat[J]. J Mol Evol, 1994, 39(2):174-190.
[10]  Lu XM, Fu YX, Zhang YP. Evolution of mitochondrial cytochrome B pseudogene in genus Nycticebus[J]. Mol Biol Evol, 2002, 19(12):2337-2341.
[11]  Pamilo P, Viljakainen L, Vihavainen A. Exceptionally high density of NUMTs in the honeybee genome[J]. Mol Biol Evol, 2007, 24(6):1340-1346.
[12]  Thalmann O, Hebler J, Poinar HN, et al. Unreliable mtDNA data due to nuclear insertions:a cautionary tale from analysis of humans and other great apes[J]. Mol Ecol, 2004, 13(2):321-335.
[13]  Moulton MJ, Song H, Whiting MF. Assessing the effects of primer specificity on eliminating numt coamplification in DNA barcoding:a case study from Orthoptera(Arthropoda:Insecta)[J]. Mol Ecol Resour, 2010, 10(4):615-627.
[14]  周志军, 杨明茹, 常岩林, 等.两种纺织娘线粒体基因组的比较分析[J]. 昆虫学报, 2013, 56(4):408-418.
[15]  Burland TG. DNASTAR’s Lasergene sequence analysis software[J]. Methods Mol Biol, 2000, 132:71-91.
[16]  Tamura K, Peterson D, Peterson N, et al. MEGA5:molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods[J]. Mol Biol Evol, 2011, 28(10):2731-2739.
[17]  Collura RV, Auerbach MR, Stewart CB. A quick direct method that can differentiate expressed mitochondrial genes from their nuclear pseudogenes[J]. Curr Biol, 1996, 6:1337-1339.
[18]  王继文.动物线粒体假基因的识别及其在进化生物学中的应用[J]. 动物学杂志, 2004, 39(3):103-108.
[19]  Zhang DX, Godfrey MH. Nuclear integrations:challenges for mitochondrial DNA markers[J]. TREE, 1996, 11(6):247-251.
[20]  常虹, 郝德君, 肖荣堂, 等. 基于线粒体COI基因的齿小蠹属昆虫DNA条形码研究[J]. 昆虫学报, 2012, 55(9):1075-1081.
[21]  Greenstone MH, Rowley DL, Heimbach U, et al. Barcoding generalist predators by polymerase chain reaction:carabids and spiders[J]. Mol Ecol, 2005, 14(10):3247-3266.
[22]  Hebert PDN, Stoeckle MY, Zemlak TS, et al. Identification of Birds through DNA Barcodes[J]. PloS Bio, 2004, 2(10):e312.
[23]  Kumar NP, Rajavel AR, Natarajan R, et al. DNA barcodes can distinguish species of Indian mosquitoes(Diptera:Culicidae)[J]. J Med Entomol, 2007, 44(1):1-7.
[24]  Smith MA, Wood DM, Janzen DH, et al. DNA barcodes affirm that 16 species of apparently generalist tropical parasitoid flies(Diptera, Tachinidae)are not all generalists[J]. PNAS, 2007, 104(12):4967-4972.
[25]  Moritz C, Cicero C. DNA barcoding:promise and pitfalls[J]. PloS Biol, 2004, 2(10):e354.
[26]  Elias M, Hill RI, Willmott KR, et al. Limited performance of DNA barcoding in a diverse community of tropical butterflies[J]. P Roy Soc B-Biol Sci, 2007, 274(1627):2881-2889.
[27]  Bensasson D, Zhang DX, Hewitt GM. Frequent assimilation of mitochondrial DNA by grasshopper nuclear genomes[J]. Mol Biol Evol, 2000, 17(3):406-415.
[28]  Kolokotronis SO, Macphee RD, Greenwood AD. Detection of mitochondrial insertions in the nucleus(NuMts)of Pleistocene and modern muskoxen[J]. BMC Evol Biol, 2007, 7:67.
[29]  Black IV, WC, Bernhardt SA. Abundant nuclear copies of mitochondrial origin(NUMTs)in the Aedes aegypti genome[J]. Insect Mol Biol, 2009, 18(6):705-713.
[30]  Song H, Buhay JE, Whiting MF, et al. Many species in one:DNA barcoding overestimates the number of species when nuclear mitochondrial pseudogenes are coamplified[J]. PNAS, 2008, 105(36):13486-13491.
[31]  Jin XB, Xia KL. An index catalogue of Chinese Tettigonioidea(Orthoptera:Grylloptera)[J]. Journal of Orthoptera Research, 1994, 3:15-41.
[32]  Folmer O, Black M, Hoeh W, et al. DNA primers for amplification of mitochondrial cytochrome c oxidase subunit I from diverse metazoan invertebrates[J]. Mol Mar Biol Biotechnol, 1994, 3(5):294-299.
[33]  Thompson JD, Gibson TJ, Plewniak F, et al. The CLUSTAL_X windows interface:flexible strategies for multiple sequence alignment aided by quality analysis tools[J]. Nucleic Acids Res, 1997, 25(24):4876-4882.
[34]  Cheng S, Higuchi R, Stoneking M. Complete mitochondrial genome amplification[J]. Nat Genet, 1994, 7(3):350-351.
[35]  Sorenson MD, Quinn TW. Numts:a challenge for avian systematics and population biology[J]. The Auk, 1998, 115(1):214-221.
[36]  Chung WK, Steiper ME. Mitochondrial COII introgression into the nuclear genome of Gorilla gorilla[J]. Int J Primatol, 2008, 29(5):1341-1353.

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