scholarly journals The Buneman index via polyhedral split decomposition

2014 ◽  
Vol 60 ◽  
pp. 1-24 ◽  
Author(s):  
Shungo Koichi
Keyword(s):  
Split Decomposition

scholarly journals Molecular analysis of the dengue virus type 1 and 2 in Brazil based on sequences of the genomic envelope-nonstructural protein 1 junction region

2004 ◽  
Vol 46 (3) ◽  
pp. 145-152 ◽  
Author(s):  
Cecília Luiza S. Santos ◽  
Maria Anice M. Sallum ◽  
Peter G. Foster ◽  
Iray Maria Rocco
Keyword(s):  
Sequence Data ◽  
Nonstructural Protein ◽  
Phylogenetic Analyses ◽  
Decomposition Analysis ◽  
Structural Protein ◽  
Network Graph ◽  
Junction Region ◽  
Split Decomposition ◽  
Genotype Iii ◽  
Nonstructural Protein 1

The genomic sequences of the Envelope-Non-Structural protein 1 junction region (E/NS1) of 84 DEN-1 and 22 DEN-2 isolates from Brazil were determined. Most of these strains were isolated in the period from 1995 to 2001 in endemic and regions of recent dengue transmission in São Paulo State. Sequence data for DEN-1 and DEN-2 utilized in phylogenetic and split decomposition analyses also include sequences deposited in GenBank from different regions of Brazil and of the world. Phylogenetic analyses were done using both maximum likelihood and Bayesian approaches. Results for both DEN-1 and DEN-2 data are ambiguous, and support for most tree bipartitions are generally poor, suggesting that E/NS1 region does not contain enough information for recovering phylogenetic relationships among DEN-1 and DEN-2 sequences used in this study. The network graph generated in the split decomposition analysis of DEN-1 does not show evidence of grouping sequences according to country, region and clades. While the network for DEN-2 also shows ambiguities among DEN-2 sequences, it suggests that Brazilian sequences may belong to distinct subtypes of genotype III.

scholarly journals Allelic Diversity and Recombination inCampylobacter jejuni

2001 ◽  
Vol 183 (8) ◽  
pp. 2553-2559 ◽  
Author(s):  
Sebastian Suerbaum ◽  
Marc Lohrengel ◽  
Agnes Sonnevend ◽  
Florian Ruberg ◽  
Manfred Kist
Keyword(s):  
Genomic Sequence ◽  
Allelic Diversity ◽  
Housekeeping Genes ◽  
The United States ◽  
Nucleotide Sequence Analysis ◽  
Split Decomposition ◽  
Strain Nctc ◽  
Multiple Strains ◽  
Sequence Types ◽  
Complete Genomic

ABSTRACT The allelic diversity and population structure ofCampylobacter jejuni were studied by multilocus nucleotide sequence analysis. Sequences from seven housekeeping genes were obtained from 32 C. jejuni isolates isolated from enteritis patients in Germany, Hungary, Thailand, and the United States. Also included was strain NCTC 11168, the complete genomic sequence of which has recently been published. For all loci analyzed, multiple strains carried identical alleles. The frequency of synonymous and nonsynonymous sequence polymorphisms was low. The number of unique alleles per locus ranged from 9 to 15. These alleles occurred in 31 different combinations (sequence types), so that all but two pairs of strains could be distinguished from each other. Sequences were analyzed for evidence of recombination by the homoplasy test and split decomposition. These analyses showed that intraspecific recombination is frequent in C. jejuni and has generated extensive diversity of allelic profiles from a small number of polymorphic nucleotides.

scholarly journals The split decomposition of a k-dissimilarity map

2012 ◽  
Vol 49 (1) ◽  
pp. 39-56
Author(s):  
Sven Herrmann ◽  
Vincent Moulton
Keyword(s):  
Split Decomposition

scholarly journals Linear Time Split Decomposition Revisited

2012 ◽  
Vol 26 (2) ◽  
pp. 499-514 ◽  
Author(s):  
Pierre Charbit ◽  
Fabien de Montgolfier ◽  
Mathieu Raffinot
Keyword(s):  
Linear Time ◽  
Split Decomposition
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