Literature DB >> 15868201

Bounding the number of hybridisation events for a consistent evolutionary history.

Mihaela Baroni1, Stefan Grünewald, Vincent Moulton, Charles Semple.   

Abstract

Evolutionary processes such as hybridisation, lateral gene transfer, and recombination are all key factors in shaping the structure of genes and genomes. However, since such processes are not always best represented by trees, there is now considerable interest in using more general networks instead. For example, in recent studies it has been shown that networks can be used to provide lower bounds on the number of recombination events and also for the number of lateral gene transfers that took place in the evolutionary history of a set of molecular sequences. In this paper we describe the theoretical performance of some related bounds that result when merging pairs of trees into networks.

Mesh:

Year:  2005        PMID: 15868201     DOI: 10.1007/s00285-005-0315-9

Source DB:  PubMed          Journal:  J Math Biol        ISSN: 0303-6812            Impact factor:   2.259


  6 in total

1.  Intraspecific gene genealogies: trees grafting into networks.

Authors: 
Journal:  Trends Ecol Evol       Date:  2001-01-01       Impact factor: 17.712

2.  Bounds on the minimum number of recombination events in a sample history.

Authors:  Simon R Myers; Robert C Griffiths
Journal:  Genetics       Date:  2003-01       Impact factor: 4.562

3.  Neighbor-net: an agglomerative method for the construction of phylogenetic networks.

Authors:  David Bryant; Vincent Moulton
Journal:  Mol Biol Evol       Date:  2003-12-05       Impact factor: 16.240

4.  On the minimum number of recombination events in the evolutionary history of DNA sequences.

Authors:  Yun S Song; Jotun Hein
Journal:  J Math Biol       Date:  2003-08-20       Impact factor: 2.259

5.  Optimal, efficient reconstruction of phylogenetic networks with constrained recombination.

Authors:  Dan Gusfield; Satish Eddhu; Charles Langley
Journal:  J Bioinform Comput Biol       Date:  2004-03       Impact factor: 1.122

6.  Reconstructing evolution of sequences subject to recombination using parsimony.

Authors:  J Hein
Journal:  Math Biosci       Date:  1990-03       Impact factor: 2.144

  6 in total
  16 in total

1.  Analyzing and reconstructing reticulation networks under timing constraints.

Authors:  Simone Linz; Charles Semple; Tanja Stadler
Journal:  J Math Biol       Date:  2010-11       Impact factor: 2.259

2.  SPRIT: Identifying horizontal gene transfer in rooted phylogenetic trees.

Authors:  Tobias Hill; Karl J V Nordström; Mikael Thollesson; Tommy M Säfström; Andreas K E Vernersson; Robert Fredriksson; Helgi B Schiöth
Journal:  BMC Evol Biol       Date:  2010-02-13       Impact factor: 3.260

3.  Spaces of phylogenetic networks from generalized nearest-neighbor interchange operations.

Authors:  Katharina T Huber; Simone Linz; Vincent Moulton; Taoyang Wu
Journal:  J Math Biol       Date:  2015-06-03       Impact factor: 2.259

4.  On the fixed parameter tractability of agreement-based phylogenetic distances.

Authors:  Magnus Bordewich; Celine Scornavacca; Nihan Tokac; Mathias Weller
Journal:  J Math Biol       Date:  2016-05-25       Impact factor: 2.259

5.  A reduction algorithm for computing the hybridization number of two trees.

Authors:  Magnus Bordewich; Simone Linz; Katherine St John; Charles Semple
Journal:  Evol Bioinform Online       Date:  2007-05-30       Impact factor: 1.625

6.  Close lower and upper bounds for the minimum reticulate network of multiple phylogenetic trees.

Authors:  Yufeng Wu
Journal:  Bioinformatics       Date:  2010-06-15       Impact factor: 6.937

7.  A fast tool for minimum hybridization networks.

Authors:  Zhi-Zhong Chen; Lusheng Wang; Satoshi Yamanaka
Journal:  BMC Bioinformatics       Date:  2012-07-02       Impact factor: 3.169

8.  Phylogenetic networks from multi-labelled trees.

Authors:  K T Huber; V Moulton
Journal:  J Math Biol       Date:  2006-02-07       Impact factor: 2.164

9.  Inferring horizontal gene transfer.

Authors:  Matt Ravenhall; Nives Škunca; Florent Lassalle; Christophe Dessimoz
Journal:  PLoS Comput Biol       Date:  2015-05-28       Impact factor: 4.475

10.  Computing all hybridization networks for multiple binary phylogenetic input trees.

Authors:  Benjamin Albrecht
Journal:  BMC Bioinformatics       Date:  2015-07-30       Impact factor: 3.169

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