Bushes in the tree of life

Cited by (315)

Items 201–300 of 315

1. GWideCodeML: A Python Package for Testing Evolutionary Hypotheses at the Genome-Wide Level
   Laura G. Macías, Eladio Barrio, Christina Toft · 2020 · G3 Genes Genomes Genetics
2. Analyzing the relationship between sequence divergence and nodal support using Bayesian phylogenetic analyses
   Robert Makowsky, Christian L. Cox, Corey E. Roelke, Paul T. Chippindale · 2010 · Molecular Phylogenetics and Evolution
3. Calonectria in the age of genes and genomes: Towards understanding an important but relatively unknown group of pathogens
   Jieqiong Li, Michael J. Wingfield, Irene Barnes, ShuaiFei Chen · 2022 · Molecular Plant Pathology
4. Satellite-DNA diversification and the evolution of major lineages in Cardueae (Carduoideae Asteraceae)
   María Ester Quesada del Bosque, Inmaculada López‐Flores, Víctor N. Suárez‐Santiago, Manuel A. Garrido-Ramos · 2014 · Journal of Plant Research
5. Can we ever identify the Urmetazoan?
   B. Schierwater, Rob DeSalle · 2007 · Integrative and Comparative Biology
6. Gene flow and an anomaly zone complicate phylogenomic inference in a rapidly radiated avian family (Prunellidae)
   Zhiyong Jiang, Wenqing Zang, Per G. P. Ericson, Gang Song, Shaoyuan Wu, Shaohong Feng, Sergei V. Drovetski, Gang Liu, Dezhi Zhang, Takema Saitoh et al. · 2024 · BMC Biology
7. Explosive radiation and spatial expansion across the cold environments of the Old World in an avian family
   Baoyan Liu, Per Alström, Urban Olsson, Jon Fjeldså, Qing Quan, Kees Roselaar, Takema Saitoh, Cheng‐Te Yao, Yan Hao, Wenjuan Wang et al. · 2017 · Ecology and Evolution
8. Molecular Biogeography: The Intersection between Geographic and Molecular Variation
   Stacy J. Mantooth, Brett R. Riddle · 2011 · Geography Compass
9. Swimming through the sands of the Sahara and Arabian deserts: Phylogeny of sandfish skinks (Scincidae, Scincus) reveals a recent and rapid diversification
   Jiřı́ Šmı́d, Marek Uvizl, Mohammed Shobrak, Al Faqih Ali Salim, Raed Hamoud M. AlGethami, Abdulaziz Raqi AlGethami, Abdulkarim Saleh K. Alanazi, Saad Dasman Alsubaie, Salem Busais, Salvador Carranza · 2020 · Molecular Phylogenetics and Evolution
10. Correction: Pervasive Cryptic Epistasis in Molecular Evolution
    Mark Lunzer, G. Brian Golding, Antony M. Dean · 2010 · PLoS Genetics
11. Phylogeography of the micro-endemicPedicia staryigroup (Insecta: Diptera): evidence of relict biodiversity in the Carpathians
    Avar‐Lehel Dénes, Levente‐Péter Kolcsár, Edina Török, Lujza Keresztes · 2015 · Biological Journal of the Linnean Society
12. An Evolutionary Point of View of Animal Ethics
    F. Criscuolo, C. Sueur · 2020 · Frontiers in Psychology
13. Supermatrix analyses and molecular clock rooting of Fabales: Exploring the effects of outgroup choice and long branch attraction on topology
    Deniz Aygören Uluer, Félix Forest, Julie A. Hawkins · 2020 · Botany
14. Improvement of molecular phylogenetic inference and the phylogeny of Bilateria
    Nicolas Lartillot, Hervé Philippe · 2009 · Oxford University Press eBooks
15. The genetic code can cause systematic bias in simple phylogenetic models
    Simon Whelan · 2008 · Philosophical Transactions of the Royal Society B Biological Sciences
16. Paganuccia icatuensis (Rubiaceae), a new genus and species from Bahia, Brazil, with a key to all the genera of the tribe Spermacoceae in the Americas
    Mariela Nuñez Florentín, Roberto M. Salas, João Afonso Martins do Carmo, Elsa Leonor Cabral, Steven Dessein, Steven B. Janssens · 2021 · Taxon
17. Phylogenomic analysis of yellowjackets and hornets (Hymenoptera: Vespidae, Vespinae)
    Federico López‐Osorio, Kurt M. Pickett, James Michael Carpenter, Bryan A. Ballif, Ingi Agnarsson · 2016 · Molecular Phylogenetics and Evolution
18. Investigating species boundaries in the Giliopsis group of Ipomopsis (Polemoniaceae): Strong discordance among molecular and morphological markers
    Troy E. Wood, Takuya Nakazato · 2009 · American Journal of Botany
19. The mega-matrix tree of life: using genome-scale horizontal gene transfer and sequence evolution data as information about the vertical history of life
    E. Kurt Lienau, Rob DeSalle, Marc W. Allard, Eric W. Brown, David L. Swofford, Jeffrey Rosenfeld, Indra Neil Sarkar, Paul Joseph Planet · 2010 · Cladistics
20. Gene Selection and Evolutionary Modeling Affect Phylogenomic Inference of Neuropterida Based on Transcriptome Data
    Yuyu Wang, Xiaofan Zhou, Liming Wang, Xingyue Liu, Ding Yang, Antonis Rokas · 2019 · International Journal of Molecular Sciences
21. Evolution of endogenous retroviruses in the Suidae: evidence for different viral subpopulations in African and Eurasian host species
    Fabrícia Ferreira do Nascimento, Jaime Gongora, Michael Charleston, Michael Tristem, Stewart Lowden, Chris Moran · 2011 · BMC Evolutionary Biology
22. Molecular evolution of the pDo500 satellite DNA family in Dolichopoda cave crickets (Rhaphidophoridae)
    Lene Martinsen, Federica Venanzetti, Arild Johnsen, Valerio Sbordoni, Lutz Bachmann · 2009 · BMC Evolutionary Biology
23. What is an archaeon and are the Archaea really unique?
    Ajith Harish · 2018 · PeerJ
24. Characterisation, evolution and expression analysis of heat shock protein 20 genes from Japanese flounder (Paralichthys olivaceus) in response to Edwardsiella tarda infection
    Weijie Yan, Yingjie Qiao, Jiayi He, Qian Wang, Ziqi Chen, Feifei Ni, Yuxiang Liu, Xiumei Liu, Quanqi Zhang, Xubo Wang · 2020 · Aquaculture
25. Evaluating the Evolutionary Origins of Unexpected Character Distributions within the Bacterial Planctomycetes-Verrucomicrobia-Chlamydiae Superphylum
    Aidan Budd, Damien Paul Devos · 2012 · Frontiers in Microbiology
26. Molecular‐based phylogenetic placement and revision of Micrasepalum ( Spermacoceae‐Rubiaceae )
    Mariela Nuñez Florentín, Roberto M. Salas, Steven B. Janssens, Steven Dessein, Domingos Cardoso · 2021 · Taxon
27. Identification of putative orthologous genes for the phylogenetic reconstruction of temperate woody bamboos ( P oaceae: B ambusoideae)
    Li‐Na Zhang, Xianzhi Zhang, Yu‐Xiao Zhang, Chun‐Xia Zeng, Pengfei Ma, Lei Zhao, Zhenhua Guo, De-Zhu Li · 2014 · Molecular Ecology Resources
28. Deciphering deuterostome phylogeny: molecular, morphological, and palaeontological perspectives
    Andrew Benjamin Smith, Billie J. Swalla · 2009 · Oxford University Press eBooks
29. The evolution of nervous system centralization
    Detlev Arendt, Alexandru Stefan Denes, Gáspár Jékely, Kristin Tessmar‐Raible · 2009 · Oxford University Press eBooks
30. Finding an upper limit for gap costs in direct optimization parsimony
    Joseph C. Spagna, Fernando Álvarez‐Padilla · 2008 · Cladistics
31. Ultraconserved elements-based phylogenomic systematics of the snake superfamily Elapoidea, with the description of a new Afro-Asian family
    S. N. Das, Eli Greenbaum, Shai Meiri, Aaron M. Bauer, Frank T. Burbrink, Christopher J. Raxworthy, Jeffrey L. Weinell, Rafe M. Brown, Jonathan Brecko, Olivier S. G. Pauwels et al. · 2023 · Molecular Phylogenetics and Evolution
32. Putting Pleiotropy and Selection Into Context Defines a New Paradigm for Interpreting Genetic Data
    Irene Marta Predazzi, Antonis Rokas, Amos Deinard, Nathalie C. Schnetz‐Boutaud, Nicholas D. Williams, William S. Bush, Alessandra Tacconelli, Klaus Friedrich, Sergio Fazio, Giuseppe Novelli et al. · 2013 · Circulation Cardiovascular Genetics
33. Phylotranscriptomic Analysis Based on Coalescence was Less Influenced by the Evolving Rates and the Number of Genes: A Case Study in Ericales
    Lu Zhang, Wei Wu, Hai‐Fei Yan, Xue‐Jun Ge · 2015 · Evolutionary Bioinformatics
34. Early-branching euteleost relationships: areas of congruence between concatenation and coalescent model inferences
    Matthew A. Campbell, Michael E. Alfaro, Max Belasco, Juan Andres Lopez · 2017 · PeerJ
35. The Ediacaran emergence of bilaterians: congruence between the genetic and the geological fossil records
    Kevin J. Peterson, James Anthony Cotton, James G. Gehlîng, Davide Pisani · 2009 · Oxford University Press eBooks
36. Evolutionary patterns of the human skull. A quantitative genetic analysis of craniofacial phenotypic variation
    Neus Martínez Abadías · 2007
37. Summary of phylogeny in subfamily Colobinae (Primate: Cercopithecidae)
    XiaoPing Wang, Ya‐Ping Zhang, Li Yu · 2013 · Chinese Science Bulletin
38. Multilocus phylogeny and systematics of Iberian endemic Squalius (Actinopterygii, Leuciscidae)
    Silvia Perea‍, Carla Sousa Santos, Joana Isabel Robalo, Ignacio Doadrio · 2020 · Zoologica Scripta
39. Substitution Rate Variation in a Robust Procellariiform Seabird Phylogeny is not Solely Explained by Body Mass, Flight Efficiency, Population Size or Life History Traits
    Andrea Estandía, R. Terry Chesser, Helen F. James, M Levy, Joan Ferrer, Vincent Bretagnolle, Jacob González‐Solís, Andreanna J. Welch · 2021 · bioRxiv (Cold Spring Harbor Laboratory)
40. Morphological ghosts of introgression in Darwin’s finch populations
    Peter Raymond Grant, B. Rosemary Grant · 2021 · Proceedings of the National Academy of Sciences
41. Three highly variable genome regions of the four dengue virus serotypes can accurately recapitulate the CDS phylogeny
    Eduardo Daniel Rodríguez-Aguilar, Jesús Martínez-Barnetche, Mario Henry Rodriguez · 2022 · MethodsX
42. Save the tree of life or get lost in the woods
    Ruben E. Valas, Philip E. Bourne · 2010 · Biology Direct
43. Endless forms most frustrating: disentangling species boundaries in the Ramalina decipiens group ( Lecanoromycetes, Ascomycota ), with the description of six new species and a key to the group
    M. Blázquez, Israel Pérez-Vargas, Isaac Garrido‐Benavent, Mar Villar‐dePablo, Yolanda Turégano, Cristina Frías-López, Alejandro Sánchez‐Gracia, Asunción de los Rı́os, Francisco Gasulla, Sergio A. Pérez-Ortega · 2024 · Persoonia - Molecular Phylogeny and Evolution of Fungi
44. Skeletal and dental development in a sub‐adult western lowland gorilla (gorilla gorilla gorilla)
    Jessica L. Joganic · 2015 · American Journal of Physical Anthropology
45. Gondwanan relic or recent arrival? The biogeographic origins and systematics of Australian tarantulas
    Ethan Briggs, Saoirse Foley, Lyn G. Cook · 2024 · Molecular Phylogenetics and Evolution
46. Animal Evolution
    2009
47. Universal Artifacts Affect the Branching of Phylogenetic Trees, Not Universal Scaling Laws
    Cristian R. Altaba · 2009 · PLoS ONE
48. Disentangling biological and analytical factors that give rise to outlier genes in phylogenomic matrices
    Joseph F. Walker, Xing‐Xing Shen, Antonis Rokas, Stephen A. Smith, Edwige Moyroud · 2020 · bioRxiv (Cold Spring Harbor Laboratory)
49. A genome-scale Opisthokonta tree of life: toward phylogenomic resolution of ancient divergences
    Hongyue Liu, Jacob Lucas Steenwyk, Xiaofan Zhou, Darrin T. Schultz, Kevin M. Kocot, Xing‐Xing Shen, Antonis Rokas, Yuanning Li · 2023 · bioRxiv (Cold Spring Harbor Laboratory)
50. Sequence exploration reveals information bias among molecular markers used in phylogenetic reconstruction for Colletotrichum species
    Sephra Nalini Rampersad, Fazeeda N. Hosein, Christine V. F. Carrington · 2014 · SpringerPlus
51. Gene Transfer and the Reconstruction of Life’s Early History from Genomic Data
    Johann Peter Gogarten, Gregory P. Fournier, Olga Zhaxybayeva · 2008 · Space sciences series of ISSI
52. The Emergence of the First Cells
    A. Danchin · 2014 · Wiley-VCH eBooks
53. Using mitochondrial genomes to infer phylogenetic relationships among the oldest extant winged insects (Palaeoptera)
    Sereina Rutschmann, Ping Chen, Chang-Fa Zhou, Michael T. Monaghan · 2017 · bioRxiv (Cold Spring Harbor Laboratory)
54. Robust termite phylogenies built using transposable element composition and insertion events.
    Cong Liu, S. Hellemans, Yi-Ming Weng, Alina A. Mikhailova, Cédric Aumont, A. Buček, J. Šobotník, M. Harrison, D. McMahon, T. Bourguignon · 2025 · Current Biology
55. Accelerating Maximum Likelihood Phylogenetic Inference via Early Stopping to Evade (Over-)optimization
    Anastasis Togkousidis, Alexandros Stamatakis, Olivier Gascuel · 2025 · Systematic Biology
56. A genome-scale approach to phylogeny of ray -finned fish (Actinopterygii) and molecular systematics of Clupeiformes
    Chenhong Li · 2007 · Lincoln (University of Nebraska)
57. Bayesian Phylogenomic Dating
    Sandra Álvarez-Carretero, Mario dos Reis · 2020 · Springer eBooks
58. The evolution of developmental gene networks: lessons from comparative studies on holometabolous insects
    Andrew Peel · 2009 · Oxford University Press eBooks
59. A Guide to Phylogenomic Inference
    José Salvatore Leister Patané, Joaquim Martins, João Carlos Setúbal · 2024 · Methods in molecular biology
60. Genetic Status of Hemidactylus turcicus (Linnaeus, 1758) from Çanakkale (Türkiye)
    Tuğba Ergül Kalaycı, Didem KURTUL, Çiğdem Gül, Murat Tosunoğlu · 2023 · Biology Bulletin
61. The origins and evolution of the Ecdysozoa
    Maximilian J. Telford, Sarah J. Bourlat, Andrew D. Economou, Daniel Papillon, Omar Rota‐Stabelli · 2009 · Oxford University Press eBooks
62. Origins of metazoan body plans: the larval revolution
    Rudolf A. Raff · 2009 · Oxford University Press eBooks
63. Origin of Metazoan Patterning Systems and the Role of ANTP ‐Class Homeobox Genes
    Morgane Thomas‐Chollier, Pedro Martı́nez · 2016 · Encyclopedia of Life Sciences
64. Using Comparative Genomics to Resolve the Origin and Early Evolution of Snakes
    Sara Ruane, Jeffrey W. Streicher · 2022 · Cambridge University Press eBooks
65. A densely sampled molecular phylogeny of Tachigali (Leguminosae), an evolutionarily successful lineage of neotropical ant-housing canopy trees
    Isau Huamantupa‐Chuquimaco, Vítor Hugo Maia, Haroldo Cavalcante de Lima, Maristerra Rodrigues Lemes, Cristiane Snak, Bernarda de Souza Gregório, Sérgio Ricardo S. Cardoso, Luciano Paganucci de Queiroz, Charles E. Zartman, Gwilym Peter Lewis et al. · 2024 · Revista Brasileira de Botânica
66. Phylogenetic relationships and divergence time of Hydrangea sect. Macrophyllae (Hydrangeaceae) revealed by genome-wide SNPs
    Shoki Murakami, Takuro Ito, Tatsuya Uemachi, Shinji Fujii, Ayumi Matsuo, Yoshihisa Suyama, Masayuki Maki · 2024 · Plant Systematics and Evolution
67. Reassembling animal evolution: a four-dimensional puzzle
    Maximilian J. Telford, Dallen J. Timothy, D. Timothy J. Littlewood · 2009 · Oxford University Press eBooks
68. Investigating the utility of traditional and genomic multi-locus datasets to resolve relationships in Lipaugus and Tijuca (Cotingidae)
    Amie E. Settlecowski, Andrés M. Cuervo, José G. Tello, Michael G. Harvey, Robb Thomas Brumfield, Elizabeth P. Derryberry · 2020 · Molecular Phylogenetics and Evolution
69. An Optimization-Based Sampling Scheme for Phylogenetic Trees
    Navodit Misra, Guy E. Blelloch, R. Ravi, Russell S. Schwartz · 2011 · Lecture notes in computer science
70. Mitochondrial Genome: Clues about the Evolution of Extant Equids and Genomic Diversity of Horse Breeds
    Cynthia Steiner, Kateryna D. Makova, Oliver A. Ryder · 2013
71. Book review: Who Was Adam? A Creation Model Approach to the Origin of Humanity
    Todd Charles Wood · 2016
72. Are interphylum spiralian relationships resolvable?
    Ana Serra Silva, Maximilian J. Telford · 2026 · eLife
73. Improved gene tree inference from removing alignment errors both from focal genes and when training substitution models
    Andrew L. Wheeler, Chiragdeep Chatur, Patricia Goodman, R. C. Edgar, Gavin A. Huttley, Joanna Masel A · 2026 · Molecular Biology and Evolution
74. Are interphylum spiralian relationships resolvable?
    Ana Serra Silva, Maximilian J. Telford · 2026 · eLife
75. Tracing ancient life through the genomic record
    Morgan S. Sobol, Carolina A. Martínez-Gutiérrez · 2026 · Journal of Applied Microbiology
76. Complete Chloroplast Genome of Indonesian Sugarcane ( Saccharum ‘Bululawang’): Comparative, Structural, and Evolutionary Analysis of Photosystem I‐Encoding Genes
    Widhi Dyah Sawitri, Dwi Kusuma Wahyuni, Triono Bagus Saputro, Denianto Agung Wicaksono, Muhammad Rafi Fairuza, Tiara Putria Judith, Ganies Riza Aristya · 2026 · Journal of Sustainable Agriculture and Environment
77. An Optimization-Based Sampling Scheme for Phylogenetic Trees
    Navodit Misra, Guy E. Blelloch, R. Ravi, Russell S. Schwartz · 2011 · Journal of Computational Biology
78. Perceptions of Human-Animal Relationships and their Impacts on Animal Ethics, Law and Research
    Cédric Sueur, Marie Pelé, Tetsuro Matsuzawa, Jean‐Yves Georges · 2021 · Frontiers research topics
79. Data-Mining with Three Genome-Scale Approaches Supports that Lungfish is the Closest Living Relative of Land Vertebrate, but not Coelacanth
    Yunfeng Shan, Li Guo, Xiu‐Qing Li, Robin Gras, Youjun Zhou · 2022 · International Conference on Computational Science and Computational Intelligence (CSCI)
80. Birch pollen allergy: molecular characterization and hypoallergenic products
    Martijn Schenk · 2008
81. The hypothesis that coelacanth is the closest living relative of tetrapods 3 was rejected based on three genome-scale approaches
    Yunfeng Shan, Xiu‐Qing Li, Robin Gras · 2009 · arXiv (Cornell University)
82. The animal in the genome: comparative genomics and evolution
    Richard R. Copley · 2009 · Oxford University Press eBooks
83. Exploring the boundaries of shallow phylogeny in the YESS group and the dynamics of gene cluster and operon formation in bacterial genomes
    Fergal J. Martin · 2009 · Maynooth University ePrints and eTheses Archive (Maynooth University)
84. Phylogenomics of the Human Genome
    Toni Gabaldón · 2009 · Encyclopedia of Life Sciences
85. Systematizing morphology: a total evidence approach to ditrysian phylogenetics (Lepidoptera)
    Maria Heikkilä · 2014 · Työväentutkimus Vuosikirja
86. Theoretical And Practical Utility Of Gene Sequences in Phylogenetic and Phylogeographic Analysis
    Robert Makowsky · 2009
87. Studies on epidemiology, molecular detection and genetic diversity of selected viruses infecting cassava and wine grapes
    Olufemi J. Alabi · 2009
88. Molecular approaches to the study of ecdysozoan evolution
    Omar Rota‐Stabelli · 2010 · UCL Discovery (University College London)
89. SURVEY AND SUMMARY Darwinian evolution in the light of genomics
    Eugene V. Koonin · 2009
90. Researchthe tree of life or get lost in the woods
    Ruben E. Valas · 2010
91. Running head: CHLOROPLAST PHYLOGENOMICS OF INTRACTABLE BAMBOOS Title: Chloroplast Phylogenomic Analyses Resolve Deep-Level Relationships of an Intractable Bamboo Tribe Arundinarieae (Poaceae)
    Pengfei Ma, Chun‐Xia Zeng, Zhenhua Guo · 2014
92. Phylogenetics And Molecular Evolution Of Highly Eusocial Wasps
    Federico López‐Osorio · 2016 · ScholarWorks -A service of University of Vermont Libraries (University of Vermont)
93. Mayr Versus Woese: Akaryotes and Eukaryotes
    C. G. Kurland, Ajith Harish · 2018 · Grand challenges in biology and biotechnology
94. Ewolucjonizm darwinowski w świetle genomiki
    Eugene V. Koonin · 2021 · Filozoficzne Aspekty Genezy
95. Molecular genetic insights into deuterostome evolution from the direct-developing hemichordateSaccoglossus kowalevskii
    Christopher J. Lowe · 2009 · Oxford University Press eBooks
96. Genomic Perspectives
    David J. Gower, Hussam Zaher · 2022 · Cambridge University Press eBooks
97. Foreword
    2009 · Oxford University Press eBooks
98. Copyright Page
    2009 · Oxford University Press eBooks
99. Contributors
    2009 · Oxford University Press eBooks
100. Introduction
     2009 · Oxford University Press eBooks