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Long-range correlations in prokaryotic chromosomes

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Title Long-range correlations in prokaryotic chromosomes
 
Creator Swati, D
 
Subject Mutual information
Gene strand bias
Replication
Long-range order
Repeats
GC content
Prokaryotic chromosomes
 
Description 406-415
One of the fascinating properties of the DNA sequences of prokaryotic and
eukaryotic chromosomes is that they possess long-range order. Computational
methods like spectral analysis, mutual information and DNA random walks have
been used to probe long-range order via-long range correlations. This work
attempts to show the advantage of using the Information Theoretic measure of
mutual information for this purpose. A number Mu is found which indicates the existence of long-range order. Mu is the ratio between the value of
mutual information function between two nucleotides of a DNA sequence separated
by a large distance of 100 kilobases to the value expected from a randomized
sequence of the same DNA. It is found that in spite of the constant shuffling
of nucleotides due to insertion, deletion, inversion and recombination that occur
during evolution, the chromosomal structure of prokaryotes is not always
mosaic. While all archaeal chromosomes show mosaic structure and lack long-range
order, a sizable fraction of the bacterial chromosomes do possess long-range
order. A statistical multivariate analysis has been done to find which of the
physical variables like genome size or GC% affects the organization of the
chromosome or correlates with the long-range order. The existence of long-range order in bacterial chromosomes could be directly
correlated to the degree of gene strand bias shown by it. Firmicutes which have
low GC content also have pronounced strand bias and show long-range
correlations. It is observed that the
occurrence of long-range order in bacteria is independent of genome size,
but depends on its GC content and gene strand bias.
 
Date 2011-12-23T10:33:54Z
2011-12-23T10:33:54Z
2011-12
 
Type Article
 
Identifier 0975-0959 (Online); 0301-1208 (Print)
http://hdl.handle.net/123456789/13258
 
Language en_US
 
Rights CC Attribution-Noncommercial-No Derivative Works 2.5 India
 
Publisher NISCAIR-CSIR, India
 
Source IJBB Vol.48(6) [December 2011]