Construction of a long-range YAC physical map spanning the 10-cM region between the markers D18Mit109 and D18Mit68 on mouse proximal chromosome 18

Genome ◽  
2000 ◽  
Vol 43 (3) ◽  
pp. 427-433
Author(s):  
Ssucheng J Hsu ◽  
Robert P Erickson
Keyword(s):  
Yeast Artificial Chromosome ◽  
Physical Map ◽  
Artificial Chromosome ◽  
Physical Distance ◽  
Chromosome 18 ◽  
Sequence Tagged Sites ◽  
Npc1 Gene ◽  
Niemann Pick ◽  
Yac Contigs ◽  
Physical Order

Four yeast artificial chromosome (YAC) contigs, physically~8 Mb, have been constructed spanning a 10-cM region on mouse proximal chromosome 18 and include the sites of 21 known genes, including those near the twirler (Tw) locus and the recently isolated Niemann-Pick type C1 (npc1) gene, formerly designated as the spm locus. This physical map consists of 49 YAC clones that cover roughly 15% of the chromosome. The physical order of 38 microsatellite sequence-tagged sites (STSs) could be assembled and confirmed based on their presence or absence in individual YACs, from proximal D18Mit109 through distal D18Mit68. These YACs provide an important resource for the further characterization and identification of known and unknown genes. The physical map has been integrated with our previously published genetic linkage map and showed an average genetic to physical distance of cM/Mb > 1.1.Key words: Mus musculus, chromosome 18, YAC contigs, physical mapping, Niemann-Pick type C1.

A 2.8 megabase YAC contig spanning D8S339, which is tightly linked to the Werner syndrome locus

Genome ◽  
1997 ◽  
Vol 40 (1) ◽  
pp. 77-83
Author(s):  
R. Bruskiewich ◽  
M. Schertzer ◽  
S. Wood
Keyword(s):  
Human Chromosome ◽  
Genetic Marker ◽  
Yeast Artificial Chromosome ◽  
Werner Syndrome ◽  
Physical Map ◽  
Artificial Chromosome ◽  
Sequence Tagged Sites ◽  
Yeast Artificial Chromosome Contig ◽  
Yac Contig ◽  
Chromosome 8P

A number of gene loci, including the locus for Werner syndrome (WRN), map to proximal human chromosome 8p near the genetic marker D8S339. In this report, we present a long range physical map of an approximately 2.8 megabase yeast artificial chromosome contig centred on D8S339. In this map, we localize the WRN-linked polymorphic sequence-tagged sites (STS) D8S339 and D8S1055, as well as a novel polymorphic STS, D8S2297. We also refine the positions of three known gene loci, GTF2E2, GSR, and PPP2CB, relative to the location of WRN within the map.Key words: WRN, GTF2E2, GSR, PPP2CB, physical map, human chromosome 8p.

A physical map with yeast artificial chromosome (YAC) clones covering 63% of the 12 rice chromosomes

Genome ◽  
2001 ◽  
Vol 44 (1) ◽  
pp. 32-37 ◽  
Author(s):  
Shoko Saji ◽  
Yosuke Umehara ◽  
Baltazar A Antonio ◽  
Hiroko Yamane ◽  
Hiroshi Tanoue ◽  
...  
Keyword(s):  
Genetic Map ◽  
Dna Markers ◽  
Yeast Artificial Chromosome ◽  
Physical Map ◽  
Genome Structure ◽  
Rice Genome ◽  
Artificial Chromosome ◽  
Physical Length ◽  
Rice Chromosomes ◽  
Yac Contig

A new YAC (yeast artificial chromosome) physical map of the 12 rice chromosomes was constructed utilizing the latest molecular linkage map. The 1439 DNA markers on the rice genetic map selected a total of 1892 YACs from a YAC library. A total of 675 distinct YACs were assigned to specific chromosomal locations. In all chromosomes, 297 YAC contigs and 142 YAC islands were formed. The total physical length of these contigs and islands was estimated to 270 Mb which corresponds to approximately 63% of the entire rice genome (430 Mb). Because the physical length of each YAC contig has been measured, we could then estimate the physical distance between genetic markers more precisely than previously. In the course of constructing the new physical map, the DNA markers mapped at 0.0-cM intervals were ordered accurately and the presence of potentially duplicated regions among the chromosomes was detected. The physical map combined with the genetic map will form the basis for elucidation of the rice genome structure, map-based cloning of agronomically important genes, and genome sequencing.Key words: physical mapping, YAC contig, rice genome, rice chromosomes.

scholarly journals The CMT2D Locus: Refined Genetic Position and Construction of a Bacterial Clone-Based Physical Map

1999 ◽  
Vol 9 (6) ◽  
pp. 568-574 ◽  
Author(s):  
Rachel E. Ellsworth ◽  
Victor Ionasescu ◽  
Charles Searby ◽  
Val C. Sheffield ◽  
Valerie V. Braden ◽  
...  
Keyword(s):  
Linkage Analysis ◽  
Yeast Artificial Chromosome ◽  
Sequence Data ◽  
Physical Map ◽  
Muscular Atrophy ◽  
Large Family ◽  
Artificial Chromosome ◽  
Single Chromosome ◽  
Mixed Features ◽  
Bacterial Clone

Charcot-Marie-Tooth (CMT) disease is a progressive neuropathy of the peripheral nervous system, typically characterized by muscle weakness of the distal limbs. CMT is noted for its genetic heterogeneity, with four distinct loci already identified for the axonal form of the disease (CMT2). In 1996, linkage analysis of a single large family revealed the presence of a CMT2 locus on chromosome 7p14 (designatedCMT2D). Additional families have been linked subsequently to the same genomic region, including one with distal spinal muscular atrophy (dSMA) and one with mixed features of dSMA and CMT2; symptoms in both of these latter families closely resemble those seen in the original CMT2D family. There is thus a distinct possibility that CMT2 and dSMA encountered in these families reflect allelic heterogeneity at a single chromosome 7 locus. In the study reported here, we have performed more detailed linkage analysis of the original CMT2D family based on new knowledge of the physical locations of various genetic markers. The region containing the CMT2D gene, as defined by the original family, overlaps with those defined by at least two other families with CMT2 and/or dSMA symptoms. Both yeast artificial chromosome (YAC) and bacterial clone-based [bacterial artificial chromosome (BAC) and P1-derived artificial chromosome (PAC)] contig maps spanning ∼3.4 Mb have been assembled across the combinedCMT2D critical region, with the latter providing suitable clones for systematic sequencing of the interval. Preliminary analyses have already revealed at least 28 candidate genes and expressed-sequence tags (ESTs). The mapping information reported here in conjunction with the evolving sequence data should expedite the identification of the CMT2D/dSMA gene or genes.

Construction of a Yeast Artificial Chromosome Contig Spanning the Pseudoautosomal Region and Isolation of 25 New Sequence-Tagged Sites

Genomics ◽  
1993 ◽  
Vol 16 (3) ◽  
pp. 691-697 ◽  
Author(s):  
Rima Slim ◽  
Denis Le Paslier ◽  
Sylvie Compain ◽  
Jacqueline Levilliers ◽  
Pierre Ougen ◽  
...  
Keyword(s):  
Yeast Artificial Chromosome ◽  
Artificial Chromosome ◽  
Pseudoautosomal Region ◽  
Sequence Tagged Sites ◽  
Yeast Artificial Chromosome Contig

Genetic and contig map of a 2200-kb region encompassing 5.5 cM on chromosome 1 of Arabidopsis thaliana

Genome ◽  
1996 ◽  
Vol 39 (6) ◽  
pp. 1086-1092 ◽  
Author(s):  
Christian S. Hardtke ◽  
Thomas Berleth
Keyword(s):  
Arabidopsis Thaliana ◽  
Positional Cloning ◽  
Yeast Artificial Chromosome ◽  
Physical Map ◽  
Primary Root ◽  
Artificial Chromosome ◽  
Chromosome 1 ◽  
Rflp Markers ◽  
Caps Markers ◽  
Yac Contig

In the course of the isolation of the MONOPTEROS (MP) gene, required for primary root formation in Arabidopsis thaliana, a yeast artificial chromosome (YAC) contig encompassing approximately 2200 kilobases corresponding to 5.5 cM on the top arm of chromosome 1 was established. Forty-six YAC clones were characterized and 12 new restriction fragment length polymorphism (RFLP) markers are presented. Three new codominant amplified polymorphic sequence (CAPS) markers were generated that enabled high resolution genetic mapping and correlation of physical and genetic distances along the contig. The map contributes to the completion of a physical map of the Arabidopsis genome and should facilitate positional cloning of other genes in the region as well as studies on genome organization. We also present another set of 11 physically linked probes, as well as mapping data for additional RFLP markers within a broader interval of 10.4 cM. Key words : Arabidopsis, CAPS markers, MONOPTEROS gene, physical map, RFLP markers, YAC contig.

A 6-Mb Yeast Artificial Chromosome Contig and Long-Range Physical Map Encompassing the Region on Chromosome 12q15 Frequently Rearranged in a Variety of Benign Solid Tumors

Genomics ◽  
1995 ◽  
Vol 29 (3) ◽  
pp. 665-678 ◽  
Author(s):  
ERIC F.P.M. SCHOENMAKERS ◽  
JAN M.W. GEURTS ◽  
PATRICK F.J. KOOLS ◽  
RAF MOLS ◽  
CHRISTEL HUYSMANS ◽  
...  
Keyword(s):  
Solid Tumors ◽  
Long Range ◽  
Yeast Artificial Chromosome ◽  
Physical Map ◽  
Artificial Chromosome ◽  
Yeast Artificial Chromosome Contig

scholarly journals Detailed Comparative Mapping of Cereal Chromosome Regions Corresponding to the Ph1 Locus in Wheat

Genetics ◽  
1997 ◽  
Vol 147 (2) ◽  
pp. 801-807 ◽  
Author(s):  
Tracie Foote ◽  
Michael Roberts ◽  
Nori Kurata ◽  
Takuji Sasaki ◽  
Graham Moore
Keyword(s):  
Physical Mapping ◽  
Yeast Artificial Chromosome ◽  
Rice Genome ◽  
Rice Chromosome ◽  
Wheat Chromosome ◽  
Artificial Chromosome ◽  
Gene Isolation ◽  
Chromosome 9 ◽  
Ph1 Locus ◽  
Yac Contigs

Detailed physical mapping of markers from rice chromosome 9, and from syntenous (at the genetic level) regions of other cereal genomes, has resulted in rice yeast artificial chromosome (YAC) contigs spanning parts of rice 9. This physical mapping, together with comparative genetic mapping, has demonstrated that synteny has been largely maintained between the genomes of several cereals at the level of contiged YACs. Markers located in one region of rice chromosome 9 encompassed by the YAC contigs have exhibited restriction fragment length polymorphism (RFLP) using deletion lines for the Ph1 locus. This has allowed demarcation of the region of rice chromosome 9 syntenous with the ph1b and ph1c deletions in wheat chromosome 5B. A group of probes located in wheat homoeologous group 5 and barley chromosome 5H, however, have synteny with rice chromosomes other than 9. This suggests that the usefulness of comparative trait analysis and of the rice genome as a tool to facilitate gene isolation will differ from one region to the next, and implies that the rice genome is more ancestral in structure than those of the Triticeae.

scholarly journals A Bacterial Artificial Chromosome Contig Spanning the Major Domestication Locus Q in Wheat and Identification of a Candidate Gene

Genetics ◽  
2003 ◽  
Vol 164 (1) ◽  
pp. 311-321 ◽  
Author(s):  
Justin D Faris ◽  
John P Fellers ◽  
Steven A Brooks ◽  
Bikram S Gill
Keyword(s):  
Physical Map ◽  
Bac Library ◽  
Wheat Chromosome ◽  
Artificial Chromosome ◽  
Physical Distance ◽  
Bac Contig ◽  
Complete Sequencing ◽  
Bacterial Artificial Chromosome Contig ◽  
Q Gene ◽  
Similarity Searches

Abstract The Q locus played a major role in the domestication of wheat because it confers the free-threshing character and influences many other agronomically important traits. We constructed a physical contig spanning the Q locus using a Triticum monococcum BAC library. Three chromosome walking steps were performed by complete sequencing of BACs and identification of low-copy markers through similarity searches of database sequences. The BAC contig spans a physical distance of ∼300 kb corresponding to a genetic distance of 0.9 cM. The physical map of T. monococcum had perfect colinearity with the genetic map of wheat chromosome arm 5AL. Recombination data in conjunction with analysis of fast neutron deletions confirmed that the contig spanned the Q locus. The Q gene was narrowed to a 100-kb segment, which contains an APETALA2 (AP2)-like gene that cosegregates with Q. AP2 is known to play a major role in controlling floral homeotic gene expression and thus is an excellent candidate for Q.

Sign in / Sign up

Export Citation Format

Share Document