Polymorphism of Exon 3 of MHC Class II B Gene in Chinese Alligator (Alligator sinensis)

Journal of Genetics and Genomics

Volumn 34, Issue 10, 2007, Pages 918-929

  Liu, Hui ^a,c   Wu, Xiaobing ^a,b   Yan, Peng ^a   Jiang, Zhigang ^b  

^a ANHUI NORMAL UNIVERSITY   (China)

^b INSTITUTE OF ZOOLOGY   (China)

^c BENGBU MEDICAL COLLEGE   (China)

Author keywords

Chinese alligator (Alligator sinensis); haplotype; major histocompatibility complex (MHC); polymorphism

Indexed keywords

MAJOR HISTOCOMPATIBILITY ANTIGEN CLASS 2;

ALLIGATOR; ARTICLE; CHINA; CYPRINIFORMES; EXON; GENE SEQUENCE; GENETIC DRIFT; GENETIC POLYMORPHISM; GENETIC VARIABILITY; HAPLOTYPE; IMMUNOGENETICS; MAJOR HISTOCOMPATIBILITY COMPLEX; MAMMAL; NONHUMAN; NUCLEOTIDE SEQUENCE; SPECIES DIFFERENCE;

ALLELES; ALLIGATORS AND CROCODILES; ANIMALS; CHINA; EXONS; GENE FREQUENCY; GENES, MHC CLASS II; GENETIC VARIATION; HAPLOTYPES; HETEROZYGOTE; PHYLOGENY; POLYMORPHISM, GENETIC; SEQUENCE ANALYSIS, DNA;

ALLIGATOR SINENSIS; CAIMAN CROCODILUS; CYPRINIDAE; MAMMALIA;

EID: 35248893027     PISSN: 16738527     EISSN: None     Source Type: Journal    
DOI: 10.1016/S1673-8527(07)60103-9     Document Type: Article

References (33)

1. Thorbjarnarson J., Wang X., Shao M., He L., Ding Y., Wu Y., and McMurry S. Wild populations of the Chinese alligator approach extinction. Biological Conservation 103 (2002) 93-102
2. Wu X., Wang Y., Zhou K., Zhu W., Nie J., Wang C., and Xie W. Genetic variation in captive population of Chinese alligator, Alligator sinensis, revealed by random amplified polymorphic DNA (RAPD). Biological Conservation 106 (2002) 435-441
3. Klein J. Natural history of the major histocompatibility complex (1986), John Wiley, NY
4. Klein J., Satta Y., and O'huigin C. The molecular descent of the major histocompatibility complex. Annu Rev Immunol 11 (1993) 269-295
5. Ono H., O'Huigin C., and Tichy H. Major histocompatibility complex variation in two species of cichlid fish from Lake Malawi. Mol Biol Evol 10 (1993) 1060-1072
6. Ono H., O'Huigin C., Vincek V., and Klein J. Exon-intron organization of fish major histocompatibility complex class IIB genes. Immunogenetics 38 (1993) 223-234
7. Gutierrez-Espeleta G., Hedrick P., Kalinowski S., Garrigan D., and Boyce W. Is the decline of desert bighorn sheep from infectious disease the result of low MHC variation?. Heredity 86 (2001) 439-450
8. Hedrick P., Parker K., Miller E., and Miller P. Major Histocompatibility complex variation in the endangered Przewalski's horse. Genetics Society of America 152 (1999) 1701-1710
9. Smulders M., Snoek L., Booy G., and Vosman B. Complete loss of MHC genetic diversity in the Common Hamster (Cricetus cricetus) population in the Netherlands. Consequences for conservation strategies. Conservation Genetics 4 (2003) 441-451
10. Schaschl H., Goodman S., and Suchentrunk F. Sequence analysis of the MHC class II DRB alleles in Alpine chamois (Rupicapra r. rupicapra). Developmental and Comparative Immunology 28 (2004) 265-277
11. Edwards S., Gasper J., and March M. Genomics and polymorphism of Agph-DAB1, an MHC class II B gene in red-winged blackbirds (Agelaius phoeniceus). Mol Bio Evol 15 (1998) 236-250
12. Edwards S., Gasper J., Garrigan D., Martindale D., and Koop B. A 39-kb sequence around a blackbird MHC class II gene: ghost of selection past and songbird genome architecture. Mol Bio Evol 17 (2000) 1384-1395
13. Garrigan D., and Edwards S. Polymorphism across an exon-intron boundary in an avian MHC class II B gene. Mol Biol Evol 16 (1999) 1599-1606
14. Liu Y., Kasahara M., Rumfelt L., and Flajnik M. Xenopus class II A genes: studies of genetics, polymorphism, and expression. Developmental and Comparative Immunology 26 (2002) 735-750
15. Ottova E., Simkova A., Martin J., Bellocq J., Gelnar M., Allienne J., and Morand S. Evolution and trans-species polymorphism of MHC class IIβ genes in cyprinid fish. Fish & Shellfish Immunol 18 (2005) 199-222
16. Shi Y., Wu X., Yan P., and Chen B. Cloning and sequences analysis of the second exon of MHC class II B genes in Chinese alligator, Alligator sinensis. Zoological Research 25 5 (2004) 415-421 (in Chinese with an English abstract).
17. Hughes A., and Nei M. Evolutionary relationships of class II major-Hhistocompatibility-complex gene in mammals. Mol Biol Evol 7 (1990) 491-514
18. Thompson J., Gibson T., Plewniak F., Jeanmougin F., and Higgins D. The ClustalX windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 24 (1997) 4876-4882
19. Sambrook J., and Russell D. Molecular Cloning: A Laboratory Manual. 3rd ed. (2001), Cold Spring Harbor Laboratory, Cold Spring Harbor, NY
20. Jukes T., and Cantor C. Evolution of protein molecules. In: Munroe H. (Ed). Mammalian Protein Metabolism Vol. 3 (1969), Academic, NY
21. Kumar S., Tamura K., Jakobsen I., and Nei M. MAGE2: Molecular evolutionary genetics analysis software. Bioinformatics 17 (2001), Oxford University Press, England 1244-1245
22. Nei M., and Gojobori T. Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions. Mol Biol Evol 3 (1986) 418-426
23. Nei M. Molecular Evolutionary Genetics (1987), Columbia University Press, NY
24. Tajima F. Evolutionary relationship of DNA sequences in a finite population. Genetics 105 (1983) 437-460
25. Rozas J., and Rozas R. DnaSP version 2.0: a novel software package for extensive molecular population genetic analysis. Comput Appl Biosci 13 (1997) 307-311
26. Watterson G. On the number of segregating sites in genetical models without recombination. Theor Popul Biol 7 (1975) 256-271
27. Hudson R., and Kaplan N. The coalescent process in models with selection and recombination. Genetics 120 (1988) 831-840
28. Hedrick P., Whittam T., and Parham P. Heterozygosity at individual amino acid sites: Extremely high levels for HLA-A and -B genes. Proc Natl Acad Sci 88 (1991) 5897-5901
29. Tajima F. Determination of window size for analyzing DNA sequences. J Mol Evol 33 (1991) 470-473
30. Tajima F. Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics 123 (1989) 585-595
31. Cao K., Hollenbach J., Shi X., Shi W., Chopek M., and Fernandez-Vina M. Analysis of the frequencies of HLA-A, B, and C alleles and haplotypes in the five major ethnic groups of the United States reveals high levels of diversity in these loci and contrasting distribution patterns in these populations. Hum Immunol 62 (2001) 1009-1030
32. Langefors A., Lohm J., Grahn M., Andersen O., and Schantz T. Association between major histocompatibility complex class II B alleles and resistance to Aeromonas salmonicida in Atlantic salmon. Proc R Soc Lond B 268 (2000) 479-485
33. Wu X., and Chen B. The number and value of Chinese alligator and current situation of its utilization. Journal of Natural Resources 14 (1999) 183-186 (in Chinese with an English abstract).