STR和SNP对3个小鼠1号染色体替换系筛选结果的比较

doi:10.3969/j.issn.1674-5817.2012.05.005

实验动物与比较医学 ›› 2012, Vol. 32 ›› Issue (5): 396-400.DOI: 10.3969/j.issn.1674-5817.2012.05.005

• 华东地区第12 届实验动物科学学术交流会优秀论文选刊 • 上一篇下一篇

STR和SNP对3个小鼠1号染色体替换系筛选结果的比较

赵丽亚^1,2, 赵莹^1,2, 晁天柱³, 刘磊^1,2, 邢正弘^1,2, 陈国强^1,2, 肖君华³

1.上海西普尔-必凯实验动物有限公司, 上海 201203;
2.上海实验动物研究中心, 上海 201203;
3.东华大学, 上海, 201620

收稿日期:2012-01-31 出版日期:2012-10-25 发布日期:2012-10-25
作者简介:赵丽亚(1981-),女,硕士,研究方向:分子遗传学,E-mail:zhaoliya3002@163.com
基金资助:
上海市科学技术委员会科研计划项目(08140900901,10140900101)

Comparison of SNP and STR Genotypes in Chromosome 1 Substitution Strains

ZHAO Li-ya^1,2, ZHAO Ying^1,2, CHAO Tian-zhu³, LIU Lei^1,2, XING Zheng-hong^1,2, CHEN Guo-qiang^1,2, XIAO Jun-hua³

1. Sino-British SIPPR / BK Laboratory. Animal LTD., CO, Shanghai 201203, China;
2. Shanghai Laboratory Animal Research Center, Shanghai 201203, China;
3. Institute of Biological Sciences and Biotechnology, Donghua University, Shanghai 201620, China

Received:2012-01-31 Online:2012-10-25 Published:2012-10-25

摘要/Abstract

摘要： 目的比较STR和SNP对3个1号染色体替换系的分型结果,并为每个替换系选择合适的基因分型方法。方法采用20个SNP和10个STR位点分别对3个1号染色体替换系N2代各40个样本进行分型。结果采用20个SNP位点,从C3H/He替换系中筛选到6个样本,从FVB/N替换系中筛选到9个样本,从AKR替换系中筛选到4个样本。采用10个STR位点,从C3H/He替换系中筛选到6个样本,从FVB/N替换系中筛选到10个样本,从AKR替换系中筛选到6个样本。结论根据每个品系基因组背景不同,可选择三组多重STR方案作为C3H/He替换系的基因分型方法,三组多重SNP方案作为FVB/N和AKR替换系的基因分型方法。

关键词: 1号染色体替换系, STR, SNP, 分型, 比较

Abstract: Objective To compare the genotyping results of STR and SNP and choose typing methods for three chromosome 1 substitution strains. Methods The three chromosome 1 substitution strains included 40 samples were typed respectively by 20 SNP and 10 STR. Results A total of 6 samples, 9 samples, 4 samples were identified respectively with SNP among 40 samples of C3H/He, FVB/N and AKR chromosome substitution strains. A total of 6 samples, 10 samples, 6 samples were identified respectively with STR among the 40 samples of C3H/He, FVB/N and AKR chromosome substitution strains. Conclusion For each strain with different gene background,. 3 groups of STR on chromosome 1 were chosen as genotyping methods of C3H/He chromosome 1 substitution strain. 3 groups of SNP were chosen as genotyping methods of FVB/N and AKR chromosome 1 substitution strains.

Key words: Chromosome 1 substitution strains, STR, SNP, Typing, Comparison

中图分类号:

Q95-33

赵丽亚, 赵莹, 晁天柱, 刘磊, 邢正弘, 陈国强, 肖君华. STR和SNP对3个小鼠1号染色体替换系筛选结果的比较[J]. 实验动物与比较医学, 2012, 32(5): 396-400.

ZHAO Li-ya, ZHAO Ying, CHAO Tian-zhu, LIU Lei, XING Zheng-hong, CHEN Guo-qiang, XIAO Jun-hua. Comparison of SNP and STR Genotypes in Chromosome 1 Substitution Strains[J]. Laboratory Animal and Comparative Medicine, 2012, 32(5): 396-400.

参考文献

[1] Xiao J, Liang Y, Li K, et al.A novel strategy for genetic dissection of complex traits: the population of specific chromosome substitution strains from laboratory and wild mice[J]. Mamm Genome, 2010, 21(7-8):370-376.
[2] Singer JB, Hill AE, Nadeau JH, et al.Mapping quantitative trait loci for anxiety in chromosome substitution strains of mice[J]. Genet, 2005, 169(2):855-862.
[3] Litt M, Luty JA.A hypervariable microsatellite revealed by in vitro amplification of a dinucleotide repeat with in the cardiac muscle actin gene[J]. Am J Hum Genet, 1989, 44(3):397-401.
[4] Lander ES.The new genomics: global views of biology[J]. Science, 1996, 274(5287):536-539.
[5] Sherry ST, Ward MH, Kholodov M, et al.dbSNP: the NCBI database of genetic variation[J]. Nuc Aci Res, 2001, 29(1):308-311.
[6] Wiltshire T, Pletcher MT, Batalow S, et al.Genome-wide single-nucleotide polymorphism analysis defines haplotype patterns in mouse[J]. Genet, 2003, 100(6):3380-3385.
[7] Spencer PBS, Hampton JO.Illegal translocation and genetic structure of feral pigs in Western Australia[J]. J Wildlife Manag, 2005, 69(1):377-384.
[8] Frantz AC, Pourtois JT, Heuertz M, et al.Genetic structure and assignment tests demonstrate illegal translocation of red deer (Cervus elaphus) into a continuous population[J]. Mol Ecol, 2006, 15(11):3191-3203.
[9] Kotze A, Ehlers K, Cilliers DC, et al.The power of resolution of microsatellite markers and assignment tests to determine the geographic origin of cheetah (Acinonyx jubatus) in Southern Africa[J]. Mamm Biol, 2008, 73(6):457-462.
[10] Primmer CR, Koskinen MT, Piironen J.The one that did not get away: individual assignment using microsatellite data detects a case of fishing competition fraud[J]. Proc R Soc Lond B, 2000, 267(1453):1699-1704.
[11] Glover KA, Skilbrei OT, Skaala O.Genetic assignment identifies farm of origin for Atlantic salmon Salmo salar escapees in a Norwegian fjord[J]. ICES J Marine Sci, 2008, 65(6):912-920.
[12] 晁天柱, 陈国强, 赵莹, 等. 用于“野生小家鼠来源一号染色体替换系”构建的 PCR- LDR 分型系统[J]. 中国实验动物学报, 2011, 19(5):372-376.
[13] DeWoody AJ, Schupp J, Kenefic L, et al. Universal method for producing ROX-labeled size standards suitable for automated genotyping[J]. BioTechniques, 2004, 37(3):348-352.
[14] Paigen K, Szatkiewicz JP, Sawyer K, et al.The recombinational anatomy of a mouse chromosome[J]. PloS Genet, 2008, 4(7):1-15.
[15] Angers B, Estoup A, Jarne P.Microsatellite size homoplasy, SSCP, and population structure: A case study in the freshwater snail Bulinus truncatus[J]. Mol Biol Evol, 2000, 17(12):1926-1932.
[16] Kruglyak S, Durrett RT, Schug MD, et al.Equilibrium distributions of microsatellite repeat length resulting from a balance between slippage events and point mutations[J]. Proc Natl Acad Sci USA, 1998, 95: 10774-10778.
[17] Martinez-Arias R, Calafell F, Mateu E, et al.Sequence variability of a human pseudogene[J]. Genome Res, 2001, 11: 1071-1085.
[18] Hoffman JI, Amos W.Microsatellite genotyping errors: detection approaches, common sources and consequences for paternal exclusion[J]. Mol Ecol, 2005, 14(2):599-612.
[19] Lao O, van Duijn K, Kersbergen P, et al. Proportioning whole-genome single-nucleotide-polymorphism diversity for the identification of geographic population structure and genetic ancestry[J]. Am J Hum Genet, 2006, 78(4):680-690.

STR和SNP对3个小鼠1号染色体替换系筛选结果的比较

Comparison of SNP and STR Genotypes in Chromosome 1 Substitution Strains

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