Literature DB >> 9501499

Phylogenetic profiles: a graphical method for detecting genetic recombinations in homologous sequences.

G F Weiller1.   

Abstract

Phylogenetic profiles constitute a novel way of graphically displaying the coherence of the sequence relationships over the entire length of a set of aligned homologous sequences. Using a sliding-window technique, this method determines the pairwise distances of all sequences in the windows and evaluates, for each sequence, the degree to which the patterns of distances in these regions agree. This method is suited for exploring data consistency as well as detecting recombinant sequences. A computer program implementing the algorithm has been developed, and examples with simulated and natural sequences are given to demonstrate the sensitivity and accuracy of the method for identifying recombinant sequences and their recombination junctions as well as detecting hot spots of recombinational activity.

Mesh：

Substances：

Year:  1998        PMID： 9501499     DOI： 10.1093/oxfordjournals.molbev.a025929

Source DB:  PubMed          Journal:  Mol Biol Evol        ISSN： 0737-4038            Impact factor:   16.240


  69 in total

1.  Evidence that a plant virus switched hosts to infect a vertebrate and then recombined with a vertebrate-infecting virus.

Authors:  M J Gibbs; G F Weiller
Journal:  Proc Natl Acad Sci U S A       Date:  1999-07-06       Impact factor: 11.205

2.  Diversity of Holocene life forms in fossil glacier ice.

Authors:  E Willerslev; A J Hansen; B Christensen; J P Steffensen; P Arctander
Journal:  Proc Natl Acad Sci U S A       Date:  1999-07-06       Impact factor: 11.205

3.  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

4.  Lateral transfer at the gene and subgenic levels in the evolution of eukaryotic enolase.

Authors:  P J Keeling; J D Palmer
Journal:  Proc Natl Acad Sci U S A       Date:  2001-08-28       Impact factor: 11.205

5.  Long-term reinfection of the human genome by endogenous retroviruses.

Authors:  Robert Belshaw; Vini Pereira; Aris Katzourakis; Gillian Talbot; Jan Paces; Austin Burt; Michael Tristem
Journal:  Proc Natl Acad Sci U S A       Date:  2004-03-25       Impact factor: 11.205

6.  Evidence for widespread reticulate evolution within human duplicons.

Authors:  Michael S Jackson; Karen Oliver; Jane Loveland; Sean Humphray; Ian Dunham; Mariano Rocchi; Luigi Viggiano; Jonathan P Park; Matthew E Hurles; Mauro Santibanez-Koref
Journal:  Am J Hum Genet       Date:  2005-09-30       Impact factor: 11.025

7.  Beringian paleoecology inferred from permafrost-preserved fungal DNA.

Authors:  Magnus C Lydolph; Jonas Jacobsen; Peter Arctander; M Thomas P Gilbert; David A Gilichinsky; Anders J Hansen; Eske Willerslev; Lene Lange
Journal:  Appl Environ Microbiol       Date:  2005-02       Impact factor: 4.792

8.  Longitudinal population analysis of dual infection with recombination in two strains of HIV type 1 subtype B in an individual from a Phase 3 HIV vaccine efficacy trial.

Authors:  David V Jobes; Melissa Daoust; Vivian T Nguyen; Allan Padua; Faruk Sinangil; Marcos Pérez-Losada; Keith A Crandall; Theodore Oliphant; David Posada; Andrew Rambaut; Jonathan Fuchs; Phillip W Berman
Journal:  AIDS Res Hum Retroviruses       Date:  2006-10       Impact factor: 2.205

9.  A simple and robust statistical test for detecting the presence of recombination.

Authors:  Trevor C Bruen; Hervé Philippe; David Bryant
Journal:  Genetics       Date:  2006-02-19       Impact factor: 4.562

10.  Complete genomic sequence analyses of Turnip mosaic virus basal-BR isolates from China.

Authors:  Hong-Yan Wang; Jin-Liang Liu; Rui Gao; Jia Chen; Yun-Hua Shao; Xiang-Dong Li
Journal:  Virus Genes       Date:  2009-02-24       Impact factor: 2.332
View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.