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A locus-wide approach to assessing variation in the avian MHC: the B-locus of the wild turkey.
- Source :
-
Heredity . Jul2011, Vol. 107 Issue 1, p40-49. 10p. 4 Diagrams, 2 Charts, 2 Graphs. - Publication Year :
- 2011
-
Abstract
- Studies of major histocompatibility complex (MHC) diversity in non-model vertebrates typically focus on structure and sequence variation in the antigen-presenting loci: the highly variable and polymorphic class I and class IIB genes. Although these studies provide estimates of the number of genes and alleles/locus, they often overlook variation in functionally related and co-inherited genes important in the immune response. This study utilizes the sequence of the MHC B-locus derived from a commercial turkey to investigate MHC variation in wild birds. Sequences were obtained for nine interspersed MHC amplicons (non-class I/II) from each of 40 birds representing 3 subspecies of wild turkey (Meleagris gallopavo). Analysis of aligned sequences identified 238 single-nucleotide variants approximately one-third of which had minor allele frequencies >0.2 in the sampled birds. PHASE analysis identified 70 prospective MHC haplotypes in the wild turkeys, whereas a combined analysis with commercial birds identified almost 100 haplotypes in the species. Denaturing gradient gel electrophoresis (DGGE) of the class IIB loci was used to test the efficacy of single-nucleotide polymorphism (SNP) haplotyping to capture locus-wide variation. Diversity in SNP haplotypes and haplotype sharing among individuals was directly reflected in the DGGE patterns. Utilization of a reference haplotype to sequence interspersed regions of the MHC has significant advantages over other methods of surveying diversity while identifying high-frequency SNPs for genotyping. SNP haplotyping provides a means to identify both divergent haplotypes and homozygous individuals for assessment of immunological variation in wild and domestic populations. [ABSTRACT FROM AUTHOR]
- Subjects :
- *WILD turkey
*MAJOR histocompatibility complex
*ANTIGENS
*GENES
*LOCUS (Genetics)
Subjects
Details
- Language :
- English
- ISSN :
- 0018067X
- Volume :
- 107
- Issue :
- 1
- Database :
- Academic Search Index
- Journal :
- Heredity
- Publication Type :
- Academic Journal
- Accession number :
- 61249078
- Full Text :
- https://doi.org/10.1038/hdy.2010.153