Literature DB >> 17267434

COPYCAT: cophylogenetic analysis tool.

Jan P Meier-Kolthoff1, Alexander F Auch, Daniel H Huson, Markus Göker.   

Abstract

UNLABELLED: We have developed the software CopyCat which provides an easy and fast access to cophylogenetic analyses. It incorporates a wrapper for the program ParaFit, which conducts a statistical test for the presence of congruence between host and parasite phylogenies. CopyCat offers various features, such as the creation of customized host-parasite association data and the computation of phylogenetic host/parasite trees based on the NCBI taxonomy. AVAILABILITY: CopyCat and its manual are freely available at http://www-ab.informatik.uni-tuebingen.de/software/copycat. SUPPLEMENTARY INFORMATION: Results of the real-world example can be found at http://www-ab.informatik.uni-tuebingen.de/software/copycat or Bioinformatics online.

Mesh：

Year:  2007        PMID： 17267434     DOI： 10.1093/bioinformatics/btm027

Source DB:  PubMed          Journal:  Bioinformatics        ISSN： 1367-4803            Impact factor:   6.937


  35 in total

1.  Spatial but not temporal co-divergence of a virus and its mammalian host.

Authors:  Fernando Torres-Pérez; R Eduardo Palma; Brian Hjelle; Edward C Holmes; Joseph A Cook
Journal:  Mol Ecol       Date:  2011-08-31       Impact factor: 6.185

2.  An original mode of symbiosis in open ocean plankton.

Authors:  Johan Decelle; Ian Probert; Lucie Bittner; Yves Desdevises; Sébastien Colin; Colomban de Vargas; Martí Galí; Rafel Simó; Fabrice Not
Journal:  Proc Natl Acad Sci U S A       Date:  2012-10-15       Impact factor: 11.205

3.  Diversification of endosymbiosis: replacements, co-speciation and promiscuity of bacteriocyte symbionts in weevils.

Authors:  Hirokazu Toju; Akifumi S Tanabe; Yutaka Notsu; Teiji Sota; Takema Fukatsu
Journal:  ISME J       Date:  2013-02-28       Impact factor: 10.302

4.  Assessing circovirus gene flow in multiple spill-over events.

Authors:  Shubhagata Das; Kate Smith; Subir Sarker; Andrew Peters; Katherine Adriaanse; Paul Eden; Seyed A Ghorashi; Jade K Forwood; Shane R Raidal
Journal:  Virus Genes       Date:  2019-08-28       Impact factor: 2.332

5.  Metapopulation dominance and genomic-island acquisition of Bradyrhizobium with superior catabolic capabilities.

Authors:  Amanda C Hollowell; John U Regus; David Turissini; Kelsey A Gano-Cohen; Roxanne Bantay; Andrew Bernardo; Devora Moore; Jonathan Pham; Joel L Sachs
Journal:  Proc Biol Sci       Date:  2016-04-27       Impact factor: 5.349

6.  Two ancient bacterial endosymbionts have coevolved with the planthoppers (Insecta: Hemiptera: Fulgoroidea).

Authors:  Julie M Urban; Jason R Cryan
Journal:  BMC Evol Biol       Date:  2012-06-14       Impact factor: 3.260

7.  Complete genome sequence of the facultatively chemolithoautotrophic and methylotrophic alpha Proteobacterium Starkeya novella type strain (ATCC 8093(T)).

Authors:  Ulrike Kappler; Karen Davenport; Scott Beatson; Susan Lucas; Alla Lapidus; Alex Copeland; Kerrie W Berry; Tijana Glavina Del Rio; Nancy Hammon; Eileen Dalin; Hope Tice; Sam Pitluck; Paul Richardson; David Bruce; Lynne A Goodwin; Cliff Han; Roxanne Tapia; John C Detter; Yun-Juan Chang; Cynthia D Jeffries; Miriam Land; Loren Hauser; Nikos C Kyrpides; Markus Göker; Natalia Ivanova; Hans-Peter Klenk; Tanja Woyke
Journal:  Stand Genomic Sci       Date:  2012-09-26

8.  PACo: a novel procrustes application to cophylogenetic analysis.

Authors:  Juan Antonio Balbuena; Raúl Míguez-Lozano; Isabel Blasco-Costa
Journal:  PLoS One       Date:  2013-04-08       Impact factor: 3.240

9.  An extreme case of plant-insect codiversification: figs and fig-pollinating wasps.

Authors:  Astrid Cruaud; Nina Rønsted; Bhanumas Chantarasuwan; Lien Siang Chou; Wendy L Clement; Arnaud Couloux; Benjamin Cousins; Gwenaëlle Genson; Rhett D Harrison; Paul E Hanson; Martine Hossaert-McKey; Roula Jabbour-Zahab; Emmanuelle Jousselin; Carole Kerdelhué; Finn Kjellberg; Carlos Lopez-Vaamonde; John Peebles; Yan-Qiong Peng; Rodrigo Augusto Santinelo Pereira; Tselil Schramm; Rosichon Ubaidillah; Simon van Noort; George D Weiblen; Da-Rong Yang; Anak Yodpinyanee; Ran Libeskind-Hadas; James M Cook; Jean-Yves Rasplus; Vincent Savolainen
Journal:  Syst Biol       Date:  2012-07-30       Impact factor: 15.683

10.  Endosymbiont diversity among sibling weevil species competing for the same resource.

Authors:  Adrien Merville; Samuel Venner; Hélène Henri; Agnès Vallier; Frédéric Menu; Fabrice Vavre; Abdelaziz Heddi; Marie-Claude Bel-Venner
Journal:  BMC Evol Biol       Date:  2013-02-04       Impact factor: 3.260
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