Biomedical subjects
Publications and source records attributed to M A Groenen.
Mini-Mu containing variable DNA sequences at the left end, were tested for their ability to be packaged by a helper Mu phage. It was shown that a packaging site of Mu is situated between nucleotides 35 and 58 of the left end.
We have determined the minimal DNA sequences at the ends of the genome of bacteriophage Mu that are required for its transposition. A mini-Mu was constructed on a multicopy plasmid that enabled the manipulation of the DNA sequences at its ends without affecting the genes essential for transposition. The genes A and B, which were cloned outside the ends of the mini-Mu on the same plasmid, were both needed for optimal transposition. In our experimental system the predominant end products of the transposition are cointegrates both in the presence and in the absence of B. Two regions ending approximately 25 and 160 bp from the left end and one ending approximately 50 bp from the right end appear to be essential for optimal transposition. Overlapping with these regions, a 22-base-pair sequence was recognized with the consensus Y-G-T-T-C-A-Y-T-N-N-A-A-R-Y-R-C-G-A-A-A-A, where Y and R represent any pyrimidine and purine, respectively. At the left end these sequences occur as direct repeats; at the right end this sequence is inverted with respect to those at the left end.
The azo reduction and acetylation in vitro and the mutagenic activation in vivo of three azo dyes were studied. In the presence of rat-liver 9000 g supernatant benzidine was released from direct black 38 and direct brown 95, whereas hardly any benzidine was produced during incubation of direct blue 6. Incubation of benzidine with isolated rat hepatocytes resulted in the appearance of diacetylbenzidine. No diacetylbenzidine was formed during incubation of benzidine with rat-liver 9000 g supernatant, unless the cofactor for the acetylation reaction, acetyl coenzyme A, was added to the incubation medium. Isolated rat hepatocytes were capable to produce diacetylbenzidine from direct black 38, direct blue 6 or direct brown 95 without supplementation with acetyl coenzyme A. Administration of benzidine, direct black 38 or direct brown 95 to rats resulted in the appearance of mutagenicity in urine. For direct black 38 significantly higher mutagenicity values were found in urine after oral administration than after intraperitoneal treatment. Such differences were not observed for benzidine and direct brown 95. The results demonstrate that rat liver has a considerable capacity to reduce azo compounds. Nevertheless, for some compounds, like direct black 38, extrahepatic enzymes, most likely present in the intestinal flora, may also play a substantial role in the azo cleavage.
Recombinant plasmids were made containing cDNAs synthesized on hamster mRNAs coding for cytoskeletal (beta- or gamma-) actins and for vimentin. Hybridization of the actin probe on restriction digests of one avian and five mammalian DNAs yielded multiple bands; the vimentin probe revealed only one band (accompanied by 2-3 faint bands in some DNAs). The results obtained with the vimentin probe indicate that the corresponding coding sequences: (a) are highly conserved in warm-blooded vertebrates like the actin sequences; (b) have strongly diverged from those coding for other intermediate filament proteins, since hybridization of the vimentin probe does not lead to a diagnostic multiband pattern; and (c) most likely contribute to single gene, in contrast to the sequences coding for other cytoskeletal proteins. Hybridization of the probes on mRNAs from the different sources used showed that the non-coding sequences of both vimentin and actin genes are conserved in length.
In order to map the autosomal dwarf (adw) locus in the chicken, 11 segregating families were created. Initially five of these families were used for a linkage experiment in which the genome was scanned with microsatellites using a technique called bulked segregant analysis. Subsequently animals from 11 families were typed individually for microsatellites that appeared to be linked. We were able to detect genetic linkage of the adw locus to five different microsatellite markers on chromosome 1, the closest showing a recombination fraction of only 0.03 (LOD score 32.12). In mice the phenotype pygmy shows a striking similarity to the autosomal dwarf phenotype in chickens, both having a disproportionately large head. The pygmy locus has been mapped on mouse chromosome 10 and found to represent a mutation in the gene coding for high-mobility group protein I-C (HMGI-C). Considering the synteny between regions of chicken chromosome 1, mouse chromosome 10 and human chromosome 12, and taking into account both the phenotypic characteristics and the mode of inheritance of the chicken adw and the mouse pygmy loci, the HMGI-C gene is a major candidate gene for the adw locus in the chicken. Fluorescence in situ hybridization of metaphase chromosomes with the chicken HMGI-C gene as a probe, showed that the chicken HMGI-C gene is indeed closely linked to marker LEI146 on chromosome 1.
Ten polymorphic microsatellite markers mainly of the poly (TG) type were examined on the two international reference families, the East Lansing reference family and the Compton reference family. Three of the markers were polymorphic on the East Lansing family (linkage groups E), three on the Compton family (linkage groups C), and four were polymorphic on both families. The microsatellite markers were well dispersed among the various linkage groups, and there was no evidence for clustering of the markers within the map. Common microsatellite markers were able to associate linkage groups from the two genetic maps. Association of linkage groups E2 with C4, E10 with C13, and E1 with C15 are found. Linkage group E1 is located on chromosome 1, and because of the association between E1 and C15, C15 is therefore assigned to chromosome 1. A newly defined linkage group (E20) was found in case of microsatellite marker MCW14. The relative distances between markers and the gene order of the markers can change upon addition of more markers to the linkage maps.
The bulked segregant analysis methodology has been used to map, with microsatellite markers, two morphological mutations in the chicken: polydactyly (PO) and naked neck (NA). These autosomal mutations show partial dominance for NA, and dominance with incomplete penetrance for PO. They were mapped previously to different linkage groups of the classical map, PO to the linkage group IV and NA being linked to the erythrocyte antigen CPPP. An informative family of 70 offspring was produced by mating a sire, heterozygous for each of the mutations, to 7 dams homozygous recessive for each locus. Three DNA pools were prepared, pool PO included 20 chicks exhibiting at least one extra-toe, pool NA included 20 non-polydactyly chicks showing the typical phenotype associated with heterozygosity for the naked neck mutation, and pool NP included 20 chicks exhibiting neither of the mutant phenotypes. Typings were done on an ABI-373 automatic sequencer with 147 microsatellite markers covering most of the genome. An unbalanced distribution of sire marker alleles were detected between pool PO, and pools NA and NP, for two markers of chromosome 2p, MCW0082 and MCW0247. A linkage analysis taking into account the incomplete penetrance of polydactyly (80% ) was performed with additional markers of this region and showed that the closest marker to the PO locus was MCW0071 (5 cM, lod score = 9). MCW0071 lies within the engrailed gene EN2 in the chicken. In the mouse, the homologous gene maps on chromosome 5, close to the hemimelic extra-toes mutation Hx. In the case of the NA locus, markers of chromosome 3 were selected because CPPP was mapped on this chromosome. Analysis of individual typings showed a linkage of 5.7 cM (lod score = 13) between the NA locus and ADL0237 in the distal region of chromosome 3q. These results contribute to connecting the former classical map to the molecular genetic map of the chicken, and open the way to the identification of the molecular nature of two developmental mutations of the chicken that are known to occur in many breeds of chickens.
A set of eleven pig breeds originating from six European countries, and including a small sample of wild pigs, was chosen for this study of genetic diversity. Diversity was evaluated on the basis of 18 microsatellite markers typed over a total of 483 DNA samples collected. Average breed heterozygosity varied from 0.35 to 0.60. Genotypic frequencies generally agreed with Hardy-Weinberg expectations, apart from the German Landrace and Schwäbisch-Hällisches breeds, which showed significantly reduced heterozygosity. Breed differentiation was significant as shown by the high among-breed fixation index (overall F(ST)= 0.27), and confirmed by the clustering based on the genetic distances between individuals, which grouped essentially all individuals in 11 clusters corresponding to the 11 breeds. The genetic distances between breeds were first used to construct phylogenetic trees. The trees indicated that a genetic drift model might explain the divergence of the two German breeds, but no reliable phylogeny could be inferred among the remaining breeds. The same distances were also used to measure the global diversity of the set of breeds considered, and to evaluate the marginal loss of diversity attached to each breed. In that respect, the French Basque breed appeared to be the most "unique" in the set considered. This study, which remains to be extended to a larger set of European breeds, indicates that using genetic distances between breeds of farm animals in a classical taxonomic approach may not give clear resolution, but points to their usefulness in a prospective evaluation of diversity.