An integrated linkage-radiation hybrid map of the canine genome.

Purebred dogs are a unique resource for dissecting the molecular basis of simple and complex genetic diseases and traits. As a result of strong selection for physical and behavioral characteristics among the 300 established breeds, modern dogs are characterized by high levels of interbreed variation, complemented by significant intrabreed homogeneity. A high-resolution map of the canine genome is necessary to exploit the mapping power of this unusual resource. We describe here the integration of an expanded canine radiation hybrid map, comprised of 600 markers, with the latest linkage map of 341 markers, to generate a map of 724 markers-the densest map of the canine genome described to date. Through the inclusion of 217 markers on both the linkage and RH maps, the 77 RH groups are reduced to 44 syntenic groups, thus providing comprehensive coverage of most of the canine genome.

Anchoring of canine linkage groups with chromosome-specific markers.

A high-resolution genetic map with polymorphic markers spaced frequently throughout the genome is a key resource for identifying genes that control specific traits or diseases. The lack of rigorous selection against genetic disorders has resulted in many breeds of dog suffering from a very high frequency of genetic diseases, which tend to be breed-specific and usually inherited as autosomal recessive or apparently complex genetic traits. Many of these closely resemble human genetic disorders in their clinical and pathologic features and are likely to be caused by mutations in homologous genes. To identify loci important in canine disease genes, as well as traits associated with morphological and behavioral variation, we are developing a genetic map of the canine genome. Here we report on an updated version of the canine linkage map, which includes 341 mapped markers distributed over the X and 37 autosomal linkage groups. The average distance between markers on the map is 9.0 cM, and the linkage groups provide estimated coverage of over 95% of the genome. Fourteen linkage groups contain either gene-associated or anonymous markers localized to cosmids that have been assigned to specific canine chromosomes by FISH. These 14 linkage groups contain 150 microsatellite markers and allow us to assign 40% of the linkage groups to specific canine chromosomes. This new version of the map is of sufficient density and characterization to initiate mapping of traits of interest.

Polymorphism analysis of four canine MHC class I genes.

We have studied the variability of four structurally complete dog leukocyte antigen (DLA) class I genes, termed DLA-12, -88, -79 and -64, in a population of mixed breed, unrelated dogs. The human HLA and canine DLA loci share a high degree of similarity in terms of gene structure. This analysis focused on the first three exons of each of four complete canine genes. Exons two and three are the major source of polymorphism in the corresponding human genes. In this analysis, DLA-88 was found to be significantly more polymorphic than the other three genes, with 44 distinct alleles observed among 63 mixed breed, unrelated dogs. The remaining genes had between one and four alleles when examined in 25 dogs. This work was carried out as part of an effort to develop an MHC typing system for the dog, which is critical to the further development of preclinical studies of hematopoietic stem cell and solid organ transplantation in the canine model.

Molecular analysis of six dog leukocyte antigen class I sequences including three complete genes, two truncated genes and one full-length processed gene.

We have isolated six distinct dog leukocyte antigen (DLA) class I sequences. An additional functional nonclassical class I gene, DLA-79, was characterized previously. This brings the number of isolated canine class I sequences to seven. These seven loci account for nearly all class I sequences detected in genomic DNA by Southern blotting. With approximately seven members, the class I gene family in dog is considerably less complex than in either human or mouse. Three of the six sequences described in this article contain complete class I genes. These genes have the typical arrangement of exons and introns, and their predicted protein sequences have the features expected of expressed class I molecules. Two sequences contain truncated genes. These genes, having only partial class I homology and disruptive mutations, are clearly nonfunctional. The remaining locus contains a full-length processed gene which is unique among characterized class I loci. Sequence comparisons were performed to examine evolutionary relationships among the family members. Two sequences, DLA-64 (complete) and -53 (truncated), appear to be chimeras presumably formed by interlocus recombination. Using the reverse transcription-polymerase chain reaction, mRNA originating from each of the three complete genes was identified in canine peripheral blood leukocytes. DLA-79 specific transcripts were identified previously. Thus, each of the four complete canine class I genes is transcribed in vivo.

Histocompatibility testing of dog families with highly polymorphic microsatellite markers.

The dog has served traditionally as a model for marrow and organ transplantation. A key component of any study of transplantation is histocompatibility typing of donors and recipients. Towards the development of a less expensive, more simplified typing system within canine families, a new highly polymorphic microsatellite marker for the canine Major Histocompatibility Complex class II region was isolated and characterized. In addition, we report on the application of class I and class II microsatellite-based markers for following the inheritance of the alleles within the canine analog of the human HLA loci, DLA, through multi-generation pedigree.

Molecular analysis and polymorphism of the DLA-DQA gene.

A full-length cDNA clone and two overlapping genomic clones corresponding to the canine DQA class II gene were isolated and sequenced. Restriction mapping and sequence data allow identification and orientation of the five exons corresponding to the alpha (alpha) chain. Sequence analysis of exon 2 amplified from 17 unrelated dogs of various breeds identified seven alleles. The structure of the canine DQA gene is similar to HLA-DQA1 and other mammalian DQA genes. This study will serve as a reference for developing a typing system for the DLA-DQA gene for donor and recipient matching in the canine model for organ and bone marrow transplantation.

The canine major histocompatibility complex. Population study of DLA-D alleles using a panel of homozygous typing cells.

The frequencies of 12 DLA-D alleles in a random canine population were determined in one-way mixed lymphocyte cultures using a panel of homozygous typing cells established in this laboratory. The homozygous typing cells served as stimulators for responder lymphocytes obtained from 160 random dogs. The results of these studies were compared to those with lymphocytes from 75 dogs in our research laboratory. DLA-D allelic frequencies were estimated by maximum likelihood techniques. The use of a relative response (RR) less than or equal to 5% as a definition of a typing response resulted in the recognition of a total allele frequency of 59% in dogs from the research laboratory. Three of the 12 DLA-D alleles were not detected. Typing responses of cells from random dogs to the 12 DLA-D alleles were determined using RRs less than or equal to 5%, less than or equal to 10%, less than or equal to 15%, and less than or equal to 20%. With RRs of less than or equal to 5%, less than or equal to 10%, and less than or equal to 15%, the total allele frequencies recognized were 39%, 47%, and 55%, respectively. Within each of these % RR ranges all but one of the DLA-D alleles were detected. With an RR less than or equal to 20% the total allele frequency recognized was 58% and all 12 alleles were detected. Our results indicate that an RR of less than or equal to 10% could be used to define a phenotypic DLA-D typing response in the dog. The level of allelic frequencies detected in both the research and random canine populations indicates the need to identify additional DLA-D alleles through expanded family studies using mixed lymphocyte culture and homozygous cell typing.

Marrow grafts between phenotypically DLA-identical and haploidentical unrelated dogs: additional antigens controlling engraftment are not detected by cell-mediated lympholysis.

Bone marrow transplants with low marrow cell doses (less than or equal to 4 x 10(8) cells/kg) from unrelated donors were carried out in 16 dogs conditioned with 9 Gy (900 rad) of total body irradiation. No immunosuppression was given after grafting. Eleven donor-recipient pairs were phenotypically identical (group 1) for the known antigens of the canine major histocompatibility complex (DLA) and in five the donor was homozygous and the recipient heterozygous for DLA (group 2), as determined by serological histocompatibility typing and mixed leukocyte cultures including homozygous cell typing. In addition, lymphocytes from donors and recipients in group 1 were mutually nonreactive in cell-mediated lympholysis; lymphocytes from recipients in group 2 were not cytotoxic against donor cells. Eight dogs rejected their grafts and eight showed sustained engraftment; of these, four died from graft-versus-host disease. The incidence of rejection was higher than in DLA-identical littermates but lower than in DLA-nonidentical unrelated or littermate dogs. These results indicate that antigens different from the recognized alleles at DLA are involved in the control of engraftment. These antigens most likely represent the expression of unrecognized differences within DLA or are coded for by a locus different from but linked to DLA-A, B, C or D; they are not recognized in the cell-mediated lympholysis assay.

Unusual distribution of Ia-like antigens on canine lymphocytes.

The murine monoclonal antibody 7.2, specific for a framework determinant of human Ia antigens, cross-reacts with canine cell membranes recognizing a bimolecular complex (29,000 and 34,000 daltons) similar to that described in man. We investigated the distribution of these Ia-like antigens on mononuclear cells in peripheral blood, thoracic-duct lymph, marrow, alveolar lavage fluids, lymph nodes, and thymuses from normal dogs. By complement-mediated cytotoxicity and indirect immunofluorescence, virtually all lymphocytes expressing surface immunoglobulin (B lymphocytes), monocytes/macrophages, dendritic cells, and many thymus-epithelial cells were Ia-positive. Furthermore, most non-B-lymphocytes in peripheral blood, thoracic-duct lymph, and lymph nodes expressed Ia antigens. Alveolar (T) lymphocytes and most thymocytes were Ia-negative. Generally, fluorescence intensity was higher on monocytes/macrophages and B lymphocytes than on non-B-lymphocytes. In mixed leukocyte cultures and concanavalin A-induced blastogenesis assays, treatment of responder cells with antibody 7.2 and complement abolished proliferation. Proliferative responses could not be restored by adding untreated accessory cells, indicating that cytolytic treatment had eliminated responder T-lymphocytes. However, addition of antibody alone to cultures had no significant effect. These studies indicate that most mature canine T-lymphocytes express Ia-like antigens. Whether this is an intrinsic property of canine cells or possibly related to continuous in vivo stimulation remains to be determined.