Literature DB >> 31940355

The treeness of the tree of historical trees of life.

Marie Fisler1, Cédric Crémière2, Pierre Darlu3, Guillaume Lecointre1.   

Abstract

This paper compares and categorizes historical ideas about trees showing relationships among biological entities. The hierarchical structure of a tree is used to test the global consistency of similarities among these ideas; in other words we assess the "treeness" of the tree of historical trees. The collected data are figures and ideas about trees showing relationships among biological entities published or drawn by naturalists from 1555 to 2012. They are coded into a matrix of 235 historical trees and 141 descriptive attributes. From the most parsimonious "tree" of historical trees, treeness is measured by consistency index, retention index and homoplasy excess ratio. This tree is used to create sets or categories of trees, or to study the circulation of ideas. From an unrooted network of historical trees, treeness is measured by the delta-score. This unrooted network is used to measure and visualize treeness. The two approaches show a rather good treeness of the data, with respectively a retention idex of 0.83 and homoplasy excess ratio of 0.74, on one hand, and a delta-score of 0.26 on the other hand. It is interpreted as due to vertical transmission, i.e. an inheritance of shared ideas about biological trees among authors. This tree of trees is then used to test categories previously made. For instance, cladists and gradists are « paraphyletic ». The branches of this tree of trees suggest new categories of tree-thinkers that could have been overlooked by historians or systematists.

Entities:  

Year:  2020        PMID: 31940355      PMCID: PMC6961905          DOI: 10.1371/journal.pone.0226567

Source DB:  PubMed          Journal:  PLoS One        ISSN: 1932-6203            Impact factor:   3.240


  12 in total

1.  Language-tree divergence times support the Anatolian theory of Indo-European origin.

Authors:  Russell D Gray; Quentin D Atkinson
Journal:  Nature       Date:  2003-11-27       Impact factor: 49.962

2.  Delta plots: a tool for analyzing phylogenetic distance data.

Authors:  B R Holland; K T Huber; A Dress; V Moulton
Journal:  Mol Biol Evol       Date:  2002-12       Impact factor: 16.240

3.  Splits or waves? Trees or webs? How divergence measures and network analysis can unravel language histories.

Authors:  Paul Heggarty; Warren Maguire; April McMahon
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2010-12-12       Impact factor: 6.237

4.  Simulating trait evolution for cross-cultural comparison.

Authors:  Charles L Nunn; Christian Arnold; Luke Matthews; Monique Borgerhoff Mulder
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2010-12-12       Impact factor: 6.237

5.  Is horizontal transmission really a problem for phylogenetic comparative methods? A simulation study using continuous cultural traits.

Authors:  Thomas E Currie; Simon J Greenhill; Ruth Mace
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2010-12-12       Impact factor: 6.237

6.  On the shape and fabric of human history.

Authors:  Russell D Gray; David Bryant; Simon J Greenhill
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2010-12-12       Impact factor: 6.237

7.  Application of phylogenetic networks in evolutionary studies.

Authors:  Daniel H Huson; David Bryant
Journal:  Mol Biol Evol       Date:  2005-10-12       Impact factor: 16.240

8.  Categorizing ideas about trees: a tree of trees.

Authors:  Marie Fisler; Guillaume Lecointre
Journal:  PLoS One       Date:  2013-08-07       Impact factor: 3.240

9.  Correlations in the population structure of music, genes and language.

Authors:  Steven Brown; Patrick E Savage; Albert Min-Shan Ko; Mark Stoneking; Ying-Chin Ko; Jun-Hun Loo; Jean A Trejaut
Journal:  Proc Biol Sci       Date:  2013-11-13       Impact factor: 5.349

10.  The Evolution of Musical Diversity: The Key Role of Vertical Transmission.

Authors:  Sylvie Le Bomin; Guillaume Lecointre; Evelyne Heyer
Journal:  PLoS One       Date:  2016-03-30       Impact factor: 3.240

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