[논문]Population Structure and Genetic Bottleneck Analysis of Ankleshwar Poultry Breed by Microsatellite Markers

Pandey, A.K.; Kumar, Dinesh; Sharma, Rekha; Sharma, Uma; Vijh, R.K.; Ahlawat, S.P.S.

doi:10.5713/ajas.2005.915

Population Structure and Genetic Bottleneck Analysis of Ankleshwar Poultry Breed by Microsatellite Markers 원문보기

Asian-Australasian journal of animal sciences, v.18 no.7, 2005년, pp.915 - 921

Pandey, A.K. (National Bureau of Animal Genetic Resources) , Kumar, Dinesh (National Bureau of Animal Genetic Resources) , Sharma, Rekha (National Bureau of Animal Genetic Resources) , Sharma, Uma (National Bureau of Animal Genetic Resources) , Vijh, R.K. (National Bureau of Animal Genetic Resources) , Ahlawat, S.P.S. (National Bureau of Animal Genetic Resources)

Abstract ▼ AI-Helper

Genetic variation at 25 microsatellite loci, population structure, and genetic bottleneck hypothesis were examined for Ankleshwar poultry population found in Gujrat, India. The estimates of genetic variability such as effective number of alleles and gene diversities revealed substantial genetic variation frequently displayed by microsatellite markers. The average polymorphism across the studied loci and the expected gene diversity in the population were 6.44 and 0.670${\pm}$0.144, respectively. The population was observed to be significantly differentiated into different groups, and showed fairly high level of inbreeding (f = 0.240${\pm}$0.052) and global heterozygote deficit. The bottleneck analysis indicated the absence of genetic bottleneck in the past. The study revealed that the Ankleshwar poultry breed needs appropriate genetic management for its conservation and improvement. The information generated in this study may further be utilized for studying differentiation and relationships among different Indian poultry breeds.

주제어

AI 본문요약
AI-Helper

* AI 자동 식별 결과로 적합하지 않은 문장이 있을 수 있으니, 이용에 유의하시기 바랍니다.

문제 정의

, 2004) and parentage verification (Cho and Chol, 2004). The objectives of this study were to study the estimates of genetic variability in the Ankleshwar breed of poultry, its population structure, and to evaluate the genetic bottleneck hypothesis in this breed. The estimated population of this poultry breed is approximately 5,000 (GAU Report, 2003).
However, these adaptation and unique characteristics might have been diluted due to intermixing, sub- structuring and/or consequent genetic drift in the population over time. Therefore, an investigation for genetic variation within the breed, and its structure may help to evaluate how likely these factors are operating, and present genetic information to be used in the conservation and improvement of this unique poultry breed.

제안 방법

, 2001) and dried between sheets of cellophane paper. The genotypes were scored manually. The size of the alleles was calculated online using ‘INCHWORM’ programme which estimates the length of the molecule, based on the electrophoretic mobility (http://www.

대상 데이터

(2002). A battery of 25 microsatellite markers (Table 1) was selected based on the guidelines of ISAG & FAO’s DADIS programme to generate data in a panel of 40 birds. Polymerase Chain Reaction (PCR) was carried out on about 50-100 ng genomic DNA in a 25 jil reaction volume.
(2002). A battery of 25 microsatellite markers (Table 1) was selected based on the guidelines of ISAG & FAO’s DADIS programme to generate data in a panel of 40 birds. Polymerase Chain Reaction (PCR) was carried out on about 50-100 ng genomic DNA in a 25 jil reaction volume.
Polymerase Chain Reaction (PCR) was carried out on about 50-100 ng genomic DNA in a 25 jil reaction volume. The reaction mixture consisted of 200 卩M each of dATP, dCTP, dGTP and dTTP, 50 mM KCl, 10 mM Tris-HCl (pH 9.0), 0.1% Triton X-100, 1.5 mM MgCb, 0.75 unit Taq DNA polymerase and 4 ng/^l of each primer (Sigma Genosys) using PTC-200 PCR machine (M J Research). At the end of the reaction, 5.

이론/모형

The bottleneck compares heterozygosity expected (He) at Hardy-Weinberg equilibrium to the heterozygosity expected (Heq) at mutation drift equilibrium in same sample, that has the same size and the same number of alleles. All the three models of mutation were used to calculate Heq： the strict one stepwise mutation model (Ohta and Kimura, 1973), the infinite allele model (Kimura and Crow, 1964) and two-phase model (Di Rienzo et al., 1994).
The bottleneck compares heterozygosity expected (He) at Hardy-Weinberg equilibrium to the heterozygosity expected (Heq) at mutation drift equilibrium in same sample, that has the same size and the same number of alleles. All the three models of mutation were used to calculate Heq： the strict one stepwise mutation model (Ohta and Kimura, 1973), the infinite allele model (Kimura and Crow, 1964) and two-phase model (Di Rienzo et al., 1994).
The genotypes were scored manually. The size of the alleles was calculated online using ‘INCHWORM’ programme which estimates the length of the molecule, based on the electrophoretic mobility (http://www.molecularworkshop.com/programs/in chworm.html).
The genotypes were scored manually. The size of the alleles was calculated online using ‘INCHWORM’ programme which estimates the length of the molecule, based on the electrophoretic mobility (http://www.molecularworkshop.com/programs/in chworm.html).
The tests for deviation from Hardy-Weinberg equilibrium were derived using the exact tests of POPGENE. Heterogeneity of deviations from HardyWeinberg equilibrium among the microsatellite loci was examined by treating the deviations as correlation coefficient and tested accordingly (Barker et al.

성능/효과

Bottleneck analysis as depicted in Table 4 indicates that the observed heterozygosity excess (He) is less than the expected excess heterozygosity (Hee) in 1,000 simulations based on allele frequency and heterozygosity. Here all the 3 models (IAM, TPM and SMM) in both the methods have less He than Hee except one case of IAM in heterozygosity method (He = 16 and Hee = 14.76). The lower magnitude of He with their respective Hee in all the cases (except one) reflects absence of genetic bottleneck in the past population dynamics ofAnkleshwar poultry.

참고문헌 (33)

Barker, J. S. F., S. G. Tan, S. S. Moore, T. K. Mukherjee, J. L. Matheson and O. S. Selvaraj. 2001. Genetic variation within and relationships among populations of Asian goats (Capra hircus). J. Anim. Breed. Genet. 118:213-233.
Bassam, B. J., G. Coetano-Anolles and P. M. Gresshoff. 1991. Fast and sensitive silver staining of DNA in polyacrylamide gels. Anal. Biochem. 196:80-83.
Boyce, W. M., P. W. Hedrick, N. E. Muggli-Cockett, S. Kalinowski, M. C. Penedo and R. R. Ramey. 1996. Genetic variation of major histocompatibilty complex and microsatellite loci: a comparison in Bighorn sheep. Genet. 145:421-433.
Cheng, H. H. and I. Levin. 1995. Developing of a genetic map of the chicken with markers of high utility. Poult. Sci. 74:1855-1874.
Chenyambuga, S. W., O. Hanotte, J. Hirbo, P. C. Watts, S. J. Kemp, G. C. Kifaro, P. S. Gwakisa, P. H. Petersen and J. E. O. Rege. 2004. Genetic characterization of indigenous goats of Sub-Saharan Africa using microsatellite DNA markers. Asian-Aust. J. Anim. Sci. 17:445-452.
Cho, G. J. and B. W. Cho1. 2004. Microsatellite DNA typing using 16 markers for parentage verification of the Korean native horse. Asian-Aust. J. Anim. Sci. 17:750-754.
Christiansen, F. B., O. Frydenberg, A. O. Gyldenholm and V. Simonsen. 1974. Genetics of Zoarces populations VI. Further evidence, based on age group samples, of a heterozygote deficit EST III polymorphism. Heriditas. 77:225-236.
Cornuet, J. M. and G. Luikart. 1996. Description and power analysis of two tests for detecting recent population bottlenecks from allele frequency data. Genet. 144:2001-2014.
Crooijmans, R. P. M. A. and A. J. A. Van Kampen. 1994. New microsatellite markers on the linkage map of the chicken genome. J. Hered. 85:410-413.

상세보기
Crooijmans, R. P. M. A., J. J. Van der Poel and M. A. M. Groenen. 1995. Functional genes mapped on the chicken genome. Anim. Genet. 26:73-78.
Di Rienzo, A., A. C. Peterson, J. C. Garza, A. M. Valdes, M. Slatkin, and N. B. Freimer. 1994. Mutational process of simple-sequence repeat loci in human populations. Proc. Natl. Acad. Sci. USA. 91:3166-3170.
FAO. 1995. Global project for the maintenance of domestic animal genetic diversity (MoDAD)-Draft project formulation report, FAO, Rome, Italy.
GAU Report. 2003. Annual Progress Report-2003-04, Network Project on Survey of Poultry Genetic Resources: Ankleshwar poultry, by College of Veterinary Science and Animal Husbandry, Gujarat Agriculture University, Anand-388 110, INDIA.
Goldstein, D. B. and D. D. Pollock. 1997. Launching microsatellites: a review of mutation processes and methods of phylogenetic inference. J. Hered. 88:335-342.
Goudet, J. 1995. FSTAT (version1.2): A computer programme to calculate F-statistics. J. Hered. 86:485-486.
Kimura, M. and J. W. Crow. 1964. The number of alleles that can be maintained in a finite population. Genet. 49:725-738.
Levene, H. 1949. On a matching problem arising in genetics. Ann. Math. Stat. 20:91-94.
Lewontin, R. C. 1972. The apportionment of human diversity. Evol. Biol. 6:381-98.
Li, C. C. 1976. First course in Population Genetics, Boxwood Press, Pacific grove, California.
Li, Changchun, Z. Wang, B. Liu, S. Yang, Z. Zhu, B. Fan, M. Y. Shuhong Zhao and K. Li. 2004. Evaluation of the genetic relationship among ten Chinese indigenous pig breeds with twenty-six microsatellite markers. Asian-Aust. J. Anim. Sci. 17: 441-444.
Luikart, G. and J. M. Cornuet. 1998. Empirical evaluation of a test for identifying recently bottlenecked population form alleles frequency data. Conservation Biology 12:228-237.
Nei, M. 1973. Analysis of gene diversity in subdivided populations. Proc. Natl. Acad. Sci. USA 70:3321-3323.
Ohta, T. and M. Kimura. 1973. A model of mutation appropriate to estimate the number of electrophoretically detectable alleles in a finite population. Genet. Res. Camb. 22:201-204.
Pamilo, P. 1985. Effect of inbreeding on genetic relatedness. Hereditas. 103:195-200.
Pandey, A. K., M. S. Tantia, D. Kumar, B. Mishra, P. Chaudhary and R. K. Vijh. 2002 Microsatellite analysis of three poultry breeds of India, Asian -Aust. J. Anim. Sci. 15:1536-1542.
Queller, D. C. and K. F. Goodnight. 1989. Estimating relatedness using genetic markers. Evolution 43:258-275.
Sambrook, J., E. F. Fritsch and T. Maniatis. 1989. Molecular Cloning: A Laboratory Manual 2nd ed, Cold spring Harbour, Cold Spring Laboratory Press, NY.
Sun, W., H. Chang, Z. J. Ren, Z. P. Yang, R. Q. Geng, S. X. Lu, L. Du and K. Tsunoda. 2004. Genetic differentiation between sheep and goats based on microsatellite DNA. Asian-Aust. J. Anim. Sci. 17:583-587.
Weir, B. S. and C. C. Cockerham. 1984. Estimating F-statistics for the analysis of population structure. Evolution 38:1358-1370.
Wimmer, K., S. Ponsuksili, T. Hardge, A. Valle-Zarate, P. K. Mathur and P. Horst. 2000. Genetic distinctness of African, Asian and South American local chickens. Animal Genetics 31:159-165.
Wang, X., H. H. Cao, S. M. Geng and H. B. Li. 2004. Genetic diversity of 10 indigenous pig breeds in China by using microsatellite markers. Asian-Aust. J. Anim. Sci. 17:1219-1222.
Wright, S. 1978. Evolution and the genetics of populations, Vol. 4. Variability within and among Natural Populations. University of Chicago Press, Chicago.
Yeh, Francis C., R-C. Yang, Timothy B.J. Boyle, Z-H. Ye and Judy X. Mao. 1999. POPGENE version 1.32, the user-friendly shareware for population genetic analysis. Molecular Biology and Biotechnology Centre, University of Alberta, Canada. (http://www.ualberta.ca/-fyeh/fyeh.).

표제어: PCR

동의어: Packet Collision Rate

용어 설명 출처 목록 (6)

용어 설명: PCR은 세균 특이성이 있는 primer를 이용하여 적은 수의 세균이 있을지라도 쉽게 검출할 수 있는 유용한 방법이며, 이를 이용하여 구강 내 치면세균막이나 타액에서 직접 세균을 검출할 수 있게 되었다[8].

내보내기 구분	파일저장 인쇄 메일전송
구성항목	기본정보 상세정보 관리번호, 논문명, 저널/프로시딩명, 저자 , 발행년, 권, 호, 시작페이지, 끝페이지, 발행기관 관리번호, 논문명, 대등논문명, 저자 , 저널/프로시딩명, 발행기관, 발행년, 발행언어, 권, 호, 시작페이지, 끝페이지, ISBN, ISSN, 주제분야, 키워드, 초록(한글), 초록(영문), 저자(소속기관)
저장형식	Text(ASCII format) Excel format RefWorks Direct Export RIS format (for Reference Manager, ProCite, EndNote), Scholar's Aids, Mendeley
메일정보	받는사람 (필수) @ 보내는사람 (선택) @ 제목 내용 KISTI 검색결과 이메일 서비스
안내	총 건의 자료가 검색되었습니다. 다운받으실 자료의 인덱스를 입력하세요. (1-10,000) 검색결과의 순서대로 최대 10,000건 까지 다운로드가 가능합니다. 데이타가 많을 경우 속도가 느려질 수 있습니다.(최대 2~3분 소요) 다운로드 파일은 UTF-8 형태로 저장됩니다. 파일의 내용이 제대로 보이지 않을실 때는 웹브라우저 상단의 보기 -> 인코딩 -> 자동선택 여부를 확인하십시오. ~ Text(ASCII format) Excel format

연합인증