MOTMOT: models of trait macroevolution on trees

被引:103
作者
Thomas, Gavin H. [1 ]
Freckleton, Robert P. [2 ]
机构
[1] Univ Bristol, Sch Biol Sci, Bristol BS8 1UG, Avon, England
[2] Univ Sheffield, Dept Anim & Plant Sci, Sheffield S10 2TN, S Yorkshire, England
来源
METHODS IN ECOLOGY AND EVOLUTION | 2012年 / 3卷 / 01期
基金
英国自然环境研究理事会;
关键词
comparative analysis; evolutionary biology; macroevolution; BODY-SIZE; EVOLUTION; DIVERSIFICATION; PHYLOGENIES; HYPOTHESES; PATTERNS; RATES;
D O I
10.1111/j.2041-210X.2011.00132.x
中图分类号
Q14 [生态学(生物生态学)];
学科分类号
071012 ; 0713 ;
摘要
1. Models of trait macroevolution on trees (MOTMOT) is a new software package that tests for variation in the tempo and mode of continuous character evolution on phylogenetic trees. MOTMOT provides tools to fit a range of models of trait evolution with emphasis on variation in the rate of evolution between clades and character states. 2. We introduce a new method, trait MEDUSA, to identify the location of major changes in the rate of evolution of continuous traits on phylogenetic trees. We demonstrate trait MEDUSA and the other main functions of MOTMOT, using body size of Anolis lizards. 3. MOTMOT is open source software written in the R language and is freely available from CRAN (http://cran.r-project.org/web/packages/).
引用
收藏
页码:145 / 151
页数:7
相关论文
共 36 条
[1]  
Akaike H., 1998, Selected papers of Hirotugu Akaike, P199, DOI DOI 10.1007/978-1-4612-1694-0_15
[2]   Nine exceptional radiations plus high turnover explain species diversity in jawed vertebrates [J].
Alfaro, Michael E. ;
Santini, Francesco ;
Brock, Chad ;
Alamillo, Hugo ;
Dornburg, Alex ;
Rabosky, Daniel L. ;
Carnevale, Giorgio ;
Harmon, Luke J. .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2009, 106 (32) :13410-13414
[3]   Testing for phylogenetic signal in comparative data: Behavioral traits are more labile [J].
Blomberg, SP ;
Garland, T ;
Ives, AR .
EVOLUTION, 2003, 57 (04) :717-745
[4]  
Burnham K P., 2002, Model Selection and Mulitmodal Inference: A practical information-theoretic approach
[5]   A LIMITED MEMORY ALGORITHM FOR BOUND CONSTRAINED OPTIMIZATION [J].
BYRD, RH ;
LU, PH ;
NOCEDAL, J ;
ZHU, CY .
SIAM JOURNAL ON SCIENTIFIC COMPUTING, 1995, 16 (05) :1190-1208
[6]  
FELSENSTEIN J, 1973, AM J HUM GENET, V25, P471
[7]  
Felsenstein J., 1985, AM NAT, V125, P16
[8]  
Freckleton R.P., 2002, AM NAT, V125, P1
[9]   Space versus phylogeny: disentangling phylogenetic and spatial signals in comparative data [J].
Freckleton, Robert P. ;
Jetz, Walter .
PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES, 2009, 276 (1654) :21-30
[10]   Using the past to predict the present: Confidence intervals for regression equations in phylogenetic comparative methods [J].
Garland, T ;
Ives, AR .
AMERICAN NATURALIST, 2000, 155 (03) :346-364