Physical and Comparative Maps

2013 ◽  
pp. 49-71 ◽  
Author(s):  
Terje Raudsepp ◽  
Bhanu P. Chowdhary
Keyword(s):  
Comparative Maps

scholarly journals A Chromosome-Based Model for Estimating the Number of Conserved Segments Between Pairs of Species From Comparative Genetic Maps

Genetics ◽  
2000 ◽  
Vol 154 (1) ◽  
pp. 323-332
Author(s):  
David Waddington ◽  
Anthea J Springbett ◽  
David W Burt
Keyword(s):  
Maximum Likelihood ◽  
Dna Sequences ◽  
Common Ancestor ◽  
Length Distribution ◽  
Genetic Maps ◽  
Segment Length ◽  
Syntenic Block ◽  
Comparative Maps

Abstract Comparative genetic maps of two species allow insights into the rearrangements of their genomes since divergence from a common ancestor. When the map details the positions of genes (or any set of orthologous DNA sequences) on chromosomes, syntenic blocks of one or more genes may be identified and used, with appropriate models, to estimate the number of chromosomal segments with conserved content conserved between species. We propose a model for the distribution of the lengths of unobserved segments on each chromosome that allows for widely differing chromosome lengths. The model uses as data either the counts of genes in a syntenic block or the distance between extreme members of a block, or both. The parameters of the proposed segment length distribution, estimated by maximum likelihood, give predictions of the number of conserved segments per chromosome. The model is applied to data from two comparative maps for the chicken, one with human and one with mouse.

Counting on comparative maps

1998 ◽  
Vol 14 (12) ◽  
pp. 495-501 ◽  
Author(s):  
Joseph H. Nadeau ◽  
David Sankoff
Keyword(s):  
Comparative Maps

New evidence for the synteny of rice chromosome 1 and barley chromosome 3H from rice expressed sequence tags

Genome ◽  
2001 ◽  
Vol 44 (3) ◽  
pp. 361-367 ◽  
Author(s):  
W Diederik Smilde ◽  
Jana Haluškova ◽  
Takuji Sasaki ◽  
Andreas Graner
Keyword(s):  
Expressed Sequence Tags ◽  
Comparative Mapping ◽  
Rice Chromosome ◽  
Single Copy ◽  
Chromosome 1 ◽  
Barley Chromosome ◽  
Barley Cultivars ◽  
Comparative Maps ◽  
Fitting In ◽  
Expressed Sequence

To provide improved access to the wealth of resources and genomic information that is presently being developed for rice a set of 88 rice expressed sequence tags (ESTs) previously mapped on rice chromosome 1 in the cross 'Nipponbare' × 'Kasalath' was used for comparative mapping in a cross of the barley cultivars 'Igri' and 'Franka'. As expected, most (89%) of the clones gave distinct banding patterns in barley of which about one-third was polymorphic between 'Igri' and 'Franka'. These polymorphisms were mapped, and most of these (56%) confirmed that rice chromosome 1 and barley chromosome 3H are syntenous. All single-copy markers identified conserved collinear positions, while markers with multiple copies did so in a few cases only. The markers that were not fitting in the collinear order were distributed randomly across the barley genome. The comparative maps of barley chromosome 3H and rice chromosome 1 comprise in total 26 common markers covering more than 95% of the genetic length of both chromosomes. A 30-fold reduction of recombination is seen around the barley centromere, and synteny may be interrupted in this region. However, the good overall synteny on a mesoscale (1–10 cM) justifies the use of rice as a platform for map-based cloning in barley.Key words: Oryza sativa, Hordeum vulgare, RFLP, synteny, comparative mapping.

Genome conservation among three legume genera detected with DNA markers

Genome ◽  
1995 ◽  
Vol 38 (5) ◽  
pp. 928-937 ◽  
Author(s):  
S. R. Boutin ◽  
N. D. Young ◽  
T. C. Olson ◽  
Z.-H. Yu ◽  
C. E. Vallejos ◽  
...  
Keyword(s):  
Glycine Max ◽  
Common Bean ◽  
Dna Markers ◽  
Marker Density ◽  
Linkage Maps ◽  
Linkage Groups ◽  
Comparative Maps ◽  
Genomic Regions ◽  
High Degree ◽  
Linkage Conservation

A set of 219 DNA clones derived from mungbean (Vigna radiata), cowpea (V. unguiculata), common bean (Phaseolus vulgaris), and soybean (Glycine max) were used to generate comparative linkage maps among mungbean, common bean, and soybean. The maps allowed an assessment of linkage conservation and collinearity among the three genomes. Mungbean and common bean, both of the subtribe Phaseolinae, exhibited a high degree of linkage conservation and preservation of marker order. Most linkage groups of mungbean consisted of only one or two linkage blocks from common bean (and vice versa). The situation was significantly different with soybean, a member of the subtribe Glycininae. Mungbean and common bean linkage groups were generally mosaics of short soybean linkage blocks, each only a few centimorgans in length. These results suggest that it would be fruitful to join maps of mungbean and common bean, while knowledge of conserved genomic blocks would be useful in increasing marker density in specific genomic regions for all three genera. These comparative maps may also contribute to enhanced understanding of legume evolution.Key words: RFLP, gene mapping, Phaseolus, Glycine, Vigna.

Building Comparative Maps Using 1.5x Sequence Coverage: Human Chromosome 1p and the Canine Genome

2003 ◽  
Vol 68 (0) ◽  
pp. 171-178 ◽  
Author(s):  
R. GUYON ◽  
E.F. KIRKNESS ◽  
T.D. LORENTZEN ◽  
C. HITTE ◽  
K.E. COMSTOCK ◽  
...  
Keyword(s):  
Human Chromosome ◽  
Canine Genome ◽  
Sequence Coverage ◽  
Chromosome 1P ◽  
Comparative Maps

Generation of a 5.5-Mb BAC/PAC contig of pig chromosome 6q1.2 and its integration with existing RH, genetic and comparative maps

2003 ◽  
Vol 102 (1-4) ◽  
pp. 116-120 ◽  
Author(s):  
F. Martins-Wess ◽  
G. Rohrer ◽  
R. Voß-Nemitz ◽  
C. Drögemüller ◽  
B. Brenig ◽  
...  
Keyword(s):  
Comparative Maps

On recovering syntenic blocks from comparative maps

2009 ◽  
Vol 18 (3) ◽  
pp. 307-318 ◽  
Author(s):  
Zhixiang Chen ◽  
Bin Fu ◽  
Minghui Jiang ◽  
Binhai Zhu
Keyword(s):  
Comparative Maps
Sign in / Sign up

Export Citation Format

Share Document