Literature DB >> 8902355

A program for calculating and displaying compatibility matrices as an aid in determining reticulate evolution in molecular sequences.

I B Jakobsen1, S Easteal.   

Abstract

Reticulate evolution in molecular sequences is caused by recombination or gene conversion, and may interfere with the reconstruction of evolutionary history. This paper presents a program which calculates compatibility matrices for detecting reticulate evolution. In addition to visual inspection of matrices, they can be analysed statistically for clustering. The method is demonstrated using human and chimpanzee gamma-globin sequences.

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Year:  1996        PMID： 8902355     DOI： 10.1093/bioinformatics/12.4.291

Source DB:  PubMed          Journal:  Comput Appl Biosci        ISSN： 0266-7061


  93 in total

1.  The detection and measurement of recombination from sequence data.

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2.  Evaluation of methods for detecting recombination from DNA sequences: computer simulations.

Authors:  D Posada; K A Crandall
Journal:  Proc Natl Acad Sci U S A       Date:  2001-11-20       Impact factor: 11.205

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4.  Polymorphism, recombination and alternative unscrambling in the DNA polymerase alpha gene of the ciliate Stylonychia lemnae (Alveolata; class Spirotrichea).

Authors:  David H Ardell; Catherine A Lozupone; Laura F Landweber
Journal:  Genetics       Date:  2003-12       Impact factor: 4.562

5.  A population genetics-based and phylogenetic approach to understanding the evolution of virulence in the genus Listeria.

Authors:  Henk C den Bakker; Brittany N Bundrant; Esther D Fortes; Renato H Orsi; Martin Wiedmann
Journal:  Appl Environ Microbiol       Date:  2010-07-23       Impact factor: 4.792

6.  Population structure and evolution of pathogenicity of Yersinia pseudotuberculosis.

Authors:  Shear Lane Ch'ng; Sophie Octavia; Qiuyu Xia; An Duong; Mark M Tanaka; Hiroshi Fukushima; Ruiting Lan
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7.  Intron sequences of arginine kinase in an intertidal snail suggest an ecotype-specific selective sweep and a gene duplication.

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8.  Codon-usage bias versus gene conversion in the evolution of yeast duplicate genes.

Authors:  Yeong-Shin Lin; Jake K Byrnes; Jenn-Kang Hwang; Wen-Hsiung Li
Journal:  Proc Natl Acad Sci U S A       Date:  2006-09-13       Impact factor: 11.205

9.  Identification of genes subject to positive selection in uropathogenic strains of Escherichia coli: a comparative genomics approach.

Authors:  Swaine L Chen; Chia-Seui Hung; Jian Xu; Christopher S Reigstad; Vincent Magrini; Aniko Sabo; Darin Blasiar; Tamberlyn Bieri; Rekha R Meyer; Philip Ozersky; Jon R Armstrong; Robert S Fulton; J Phillip Latreille; John Spieth; Thomas M Hooton; Elaine R Mardis; Scott J Hultgren; Jeffrey I Gordon
Journal:  Proc Natl Acad Sci U S A       Date:  2006-04-03       Impact factor: 11.205

10.  Evolution and molecular phylogeny of Listeria monocytogenes isolated from human and animal listeriosis cases and foods.

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Journal:  J Bacteriol       Date:  2005-08       Impact factor: 3.490
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