Literature DB >> 16463187

Phylogenetic networks from multi-labelled trees.

K T Huber1, V Moulton.   

Abstract

It is now quite well accepted that the evolutionary past of certain species is better represented by phylogenetic networks as opposed to trees. For example, polyploids are typically thought to have resulted through hybridization and duplication, processes that are probably not best represented as bifurcating speciation events. Based on the knowledge of a multi-labelled tree relating collection of polyploids, we present a canonical construction of a phylogenetic network that exhibits the tree. In addition, we prove that the resulting network is in some well-defined sense a minimal network having this property.

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Year:  2006        PMID: 16463187     DOI: 10.1007/s00285-005-0365-z

Source DB:  PubMed          Journal:  J Math Biol        ISSN: 0303-6812            Impact factor:   2.164


  4 in total

1.  Towards the development of computational tools for evaluating phylogenetic network reconstruction methods.

Authors:  Luay Nakhleh; Jerry Sun; Tandy Warnow; C Randal Linder; Bernard M E Moret; Anna Tholse
Journal:  Pac Symp Biocomput       Date:  2003

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

Authors:  Mihaela Baroni; Stefan Grünewald; Vincent Moulton; Charles Semple
Journal:  J Math Biol       Date:  2005-05-02       Impact factor: 2.259

3.  Phylogenetic networks: modeling, reconstructibility, and accuracy.

Authors:  Bernard M E Moret; Luay Nakhleh; Tandy Warnow; C Randal Linder; Anna Tholse; Anneke Padolina; Jerry Sun; Ruth Timme
Journal:  IEEE/ACM Trans Comput Biol Bioinform       Date:  2004 Jan-Mar       Impact factor: 3.710

4.  Ancient allopolyploid speciation in Geinae (Rosaceae): evidence from nuclear granule-bound starch synthase (GBSSI) gene sequences.

Authors:  Jenny E E Smedmark; Torsten Eriksson; Rodger C Evans; Christopher S Campbell
Journal:  Syst Biol       Date:  2003-06       Impact factor: 15.683

  4 in total
  13 in total

1.  Pattern pluralism and the Tree of Life hypothesis.

Authors:  W Ford Doolittle; Eric Bapteste
Journal:  Proc Natl Acad Sci U S A       Date:  2007-01-29       Impact factor: 11.205

2.  On encodings of phylogenetic networks of bounded level.

Authors:  Philippe Gambette; Katharina T Huber
Journal:  J Math Biol       Date:  2011-07-14       Impact factor: 2.259

3.  Reconciling event-labeled gene trees with MUL-trees and species networks.

Authors:  Marc Hellmuth; Katharina T Huber; Vincent Moulton
Journal:  J Math Biol       Date:  2019-08-13       Impact factor: 2.259

4.  Embedding gene trees into phylogenetic networks by conflict resolution algorithms.

Authors:  Marcin Wawerka; Dawid Dąbkowski; Natalia Rutecka; Agnieszka Mykowiecka; Paweł Górecki
Journal:  Algorithms Mol Biol       Date:  2022-05-19       Impact factor: 1.721

5.  Maximum Parsimony Inference of Phylogenetic Networks in the Presence of Polyploid Complexes.

Authors:  Zhi Yan; Zhen Cao; Yushu Liu; Huw A Ogilvie; Luay Nakhleh
Journal:  Syst Biol       Date:  2022-04-19       Impact factor: 9.160

6.  Generating Functions for Multi-labeled Trees.

Authors:  E Czabarka; P L Erdős; V Johnson; V Moulton
Journal:  Discrete Appl Math       Date:  2012-09-04       Impact factor: 1.139

7.  Non-parametric correction of estimated gene trees using TRACTION.

Authors:  Sarah Christensen; Erin K Molloy; Pranjal Vachaspati; Ananya Yammanuru; Tandy Warnow
Journal:  Algorithms Mol Biol       Date:  2020-01-04       Impact factor: 1.405

8.  STBase: one million species trees for comparative biology.

Authors:  Michelle M McMahon; Akshay Deepak; David Fernández-Baca; Darren Boss; Michael J Sanderson
Journal:  PLoS One       Date:  2015-02-13       Impact factor: 3.240

9.  Extracting conflict-free information from multi-labeled trees.

Authors:  Akshay Deepak; David Fernández-Baca; Michelle M McMahon
Journal:  Algorithms Mol Biol       Date:  2013-07-09       Impact factor: 1.405

10.  Inferring polyploid phylogenies from multiply-labeled gene trees.

Authors:  Martin Lott; Andreas Spillner; Katharina T Huber; Anna Petri; Bengt Oxelman; Vincent Moulton
Journal:  BMC Evol Biol       Date:  2009-08-28       Impact factor: 3.260

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