Premium
Primary analysis of DNA polymorphisms in the TRIM region ( MHC subregion) of the J apanese quail, C oturnix japonica
Author(s) -
SUZUKI Shingo,
HOSOMICHI Kazuyoshi,
YOKOYAMA Kana,
TSUDA Kaoru,
HARA Hiromi,
YOSHIDA Yutaka,
FUJIWARA Akira,
MIZUTANI Makoto,
SHIINA Takashi,
KONO Tomohiro,
HANZAWA Kei
Publication year - 2013
Publication title -
animal science journal
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.606
H-Index - 38
eISSN - 1740-0929
pISSN - 1344-3941
DOI - 10.1111/j.1740-0929.2012.01062.x
Subject(s) - quail , biology , genetics , haplotype , cosmid , major histocompatibility complex , minisatellite , allele , locus (genetics) , gene , microsatellite , endocrinology
Based on sequences of two cosmid clones from Japanese quail ( C oturnix japonica, C oja ), we confirmed that the syntenic cluster, GNB2L1∼BTN1∼BTN2 , is located in the quail TRIM subregion of the quail major histocompatibility complex ( MHC C oja ) region. These cosmids also included four CjBG loci and one CjLEC locus; therefore, the quail TRIM subregion was thought to be adjacent to the BG / LEC subregion. We then identified three polymorphic markers – CjHEP 21 , CjTRIM 39.2 and CjBTN 2 – in the TRIM subregion that may be useful for the functional analysis of the MHC ‐ C oja region. We examined MHC ‐ C oja sequences from 321 individual quails sampled from 11 inbred strains, and we found eight alleles for each of the three genes – CjHEP 21 , CjTRIM 39.2 and CjBTN 2 . These polymorphisms represent the first avian DNA markers in the TRIM subregion. Additionally, we discovered a quail‐specific VNTR (variable number of long tandem repeats, 133–137 bp) in intron 7 of CjBTN 2 . We identified 25 haplotypes in the sample of 321 quail; these haplotypes comprised combinations of all 24 alleles of the three polymorphic genes. We suggest that there are two recombination hotspots, one between each pair of adjacent loci. All strains, except AMRP , contained multiple haplotypes; the AMRP strain contained a single, apparently fixed haplotype.