A long-range physical map of human Chromosome 21q22.1 band from the YAC continuum

Abstract

The human Chromosome (Chr) 21q22.1 region contains several genes for cytokines and neurotransmitters and the gene for superoxide dismutase (mutant forms of which can cause familial amyotrophic lateral sclerosis). A region of approximately 5.8 Mb encompassing D21S82 and the glycinamide ribonucleotide transformylase (GART) loci was covered by overlapping YAC clones, which were contiguously ordered by clone walking with sequence-tagged site (STSs). A total of 76 markers, including 29 YAC end-specific STSs, were unambiguously ordered in this 5.8-Mb region, and the average interval between markers was 76 kb. Restriction maps of the YAC clones with rare-cutting enzymes were simultaneously prepared, and the restriction sites were aligned to obtain a consensus restriction map of the proximal region of the 21q22.1 band. The restriction map made from 44 overlapping YACs contains 54 physically assigned STSs. By integrating the consensus map of the adjacent 1.8-Mb region, we obtained a fine physical map spanning 6.5 Mb of human Chr 21q22.1. This map contains 24 precisely positioned end-specific STSs and 12 NotI-linking markers. More than 39 potential CpG islands were identified in this region and were found to be unevenly distributed. This physical map and the YACs should be useful as a reference map and as a resource for further structural analysis of the Giemsa-negative band (R-band) of Chr 21q22.1.

10 Years ofGenomics,Chromosome 21, and Down Syndrome

“…A cosmid contig of a 4-Mb region in the so-called DS critical region (see below) has been constructed (Osoegawa et al, 1996). Additional bacterial clone contigs for different regions of 21q have been constructed (e.g., Soeda et al, 1995;Lafrenière et al, 1995, Patil et al, 1995, Eki et al, 1996, Ohira et al, 1996Hubert et al, 1997). All of these maps of overlapping clones are necessary for the identification and characterization of HC21 genes that are involved in various disease phenotypes including those of DS.…”