cran: phytools | Projects | Ecosyste.ms: Papers

10.1038/s41598-019-54004-5

An Escherichia coli ST131 pangenome atlas reveals population structure and evolution across 4,071 isolates
Cited by: 61
Author(s): Arun Gonzales Decano, Tim Downing
Software Mentions: 30
Published: about 5 years ago

10.1371/journal.pcbi.1006242

Phylogeny-corrected identification of microbial gene families relevant to human gut colonization
Cited by: 29
Author(s): Patrick H. Bradley, Stephen Nayfach, Katherine S. Pollard
Software Mentions: 27
Published: over 6 years ago

10.1093/molbev/msaa288

Special Care Is Needed in Applying Phylogenetic Comparative Methods to Gene Trees with Speciation and Duplication Nodes
Cited by: 6
Author(s): Tina Begum, Marc Robinson‐Rechavi
Software Mentions: 22
Published: about 4 years ago

10.1186/s12866-021-02282-3

Associations between the gut microbiome and metabolome in early life
Cited by: 14
Author(s): Quang P. Nguyen, Margaret R. Karagas, Juliette C. Madan, Erika Dade, Thomas J. Palys, Hilary G. Morrison, Wimal Pathmasiri, Susan McRitche, Susan Sumner, H. Robert Frost, Anne G. Hoen
Software Mentions: 19
Published: over 3 years ago

10.1371/journal.pone.0238665

Generalized linear models provide a measure of virulence for specific mutations in SARS-CoV-2 strains
Cited by: 19
Author(s): Anastasis Oulas, Maria Zanti, Marios Tomazou, Margarita Zachariou, George Minadakis, Marilena M. Bourdakou, Margarita Zachariou, George M. Spyrou
Software Mentions: 18
Published: almost 4 years ago

10.1186/s12862-020-01717-1

Climatic and topographic changes since the Miocene influenced the diversification and biogeography of the tent tortoise (Psammobates tentorius) species complex in Southern Africa
Cited by: 7
Author(s): Zhongning Zhao, Neil Heideman, Phillip Armand Bester, Adriaan Jordaan, Margaretha D. Hofmeyr
Software Mentions: 18
Published: about 4 years ago

10.1038/s41598-020-75345-6

High gene flow maintains genetic diversity following selection for high EPSPS copy number in the weed kochia (Amaranthaceae)
Cited by: 9
Author(s): Sara L. Martin, Leshawn Benedict, Wei Wei, Connie A. Sauder, Hugh J. Beckie, Linda M. Hall
Software Mentions: 17
Published: about 4 years ago

10.1038/s42003-021-02025-0

SARS-CoV-2 shifting transmission dynamics and hidden reservoirs potentially limit efficacy of public health interventions in Italy
Cited by: 23
Author(s): Marta Giovanetti, Eleonora Cella, Francesca Benedetti, Brittany Rife Magalis, Vagner Fonseca, Silvia Fabris, Giovanni Campisi, Alessandra Ciccozzi, Silvia Angeletti, Alessândra Borsetti, Vittoradolfo Tambone, Caterina Sagnelli, Stefano Pascarella, Alberto Riva, Giancarlo Ceccarelli, Alessandro Marcello, Taj Azarian, Eduan Wilkinson, Túlio de Oliveira, Luiz Carlos Júnior Alcântara, Roberto Cauda, Arnaldo Caruso, Natalie E. Dean, Cameron J. Browne, José Lourenço, Marco Salemi, Davide Zella, Massimo Ciccozzi
Software Mentions: 17
Published: over 3 years ago

10.1038/s42003-021-01757-3

Jaw shape and mechanical advantage are indicative of diet in Mesozoic mammals
Cited by: 20
Author(s): Nuria Melisa Morales-García, Pamela G. Gill, Christine M. Janis, Emily J. Rayfield
Software Mentions: 16
Published: almost 4 years ago

10.1093/gbe/evab127

Genome-Inferred Correspondence between Phylogeny and Metabolic Traits in the Wild Drosophila Gut Microbiome
Cited by: 4
Author(s): Jeffery S. McMullen, Eduardo Bueno, Frances Blow, Angela E. Douglas
Software Mentions: 16
Published: over 3 years ago

10.1371/journal.pgen.1008866

Phylogenetic background and habitat drive the genetic diversification of Escherichia coli
Cited by: 119
Author(s): Marie Touchon, Perrin Amandine, Jorge Moura de Sousa, Belinda Vangchhia, Samantha Burn, Claire O’Brien, Erick Denamur, David M. Gordon, Eduardo P. C. Rocha
Software Mentions: 16
Published: over 4 years ago

10.1186/s12866-019-1598-0

Characterization of Salmonella Dublin isolated from bovine and human hosts
Cited by: 35
Author(s): Narayan Paudyal, Hang Pan, Mohammed Elbediwi, Xiao Hua Zhou, Xianqi Peng, Xiaoliang Li, Weihuan Fang, Min Yue
Software Mentions: 15
Published: about 5 years ago

10.3389/fmicb.2020.580691

No Assembly Required: Using BTyper3 to Assess the Congruency of a Proposed Taxonomic Framework for the Bacillus cereus Group With Historical Typing Methods
Cited by: 20
Author(s): Laura M. Carroll, Rachel A. Cheng, Jasna Kovač
Software Mentions: 15
Published: about 4 years ago

10.1186/s40168-020-00961-3

Whole microbial community viability is not quantitatively reflected by propidium monoazide sequencing approach
Cited by: 30
Author(s): Wang Ya, Yan Yan, Kelsey N. Thompson, Sena Bae, Emma K. Accorsi, Yancong Zhang, Jiaxian Shen, Hera Vlamakis, Erica M. Hartmann, Curtis Huttenhower
Software Mentions: 15
Published: almost 4 years ago

10.1128/mBio.00034-20

Proposal of a Taxonomic Nomenclature for the Bacillus cereus Group Which Reconciles Genomic Definitions of Bacterial Species with Clinical and Industrial Phenotypes
Cited by: 98
Author(s): Laura M. Carroll, Martin Wiedmann, Jasna Kovač
Software Mentions: 15
Published: almost 5 years ago

10.3389/fpls.2021.618028

Floral UV Features of Plant Species From a Neotropical Savanna
Cited by: 6
Author(s): Priscila Tunes, Maria Gabriela Gutierrez Camargo, Elza Guimarães
Software Mentions: 15
Published: over 3 years ago

10.3390/cells10030620

Measuring Pre- and Post-Copulatory Sexual Selection and Their Interaction in Socially Monogamous Species with Extra-Pair Paternity
Cited by: 6
Author(s): Emily R. A. Cramer
Software Mentions: 14
Published: almost 4 years ago

10.1093/iob/obab004

Patterns of Body Shape Diversity and Evolution in Intertidal and Subtidal Lineages of Combtooth Blennies (Blenniidae)
Cited by: 4
Author(s): Joshua Egan, Thaddaeus John Buser, Michael D. Burns, Andrew M. Simons, Peter J. Hundt
Software Mentions: 14
Published: almost 4 years ago

10.1093/molbev/msab063

Extensive Genome-Wide Phylogenetic Discordance Is Due to Incomplete Lineage Sorting and Not Ongoing Introgression in a Rapidly Radiated Bryophyte Genus
Cited by: 42
Author(s): Olena Meleshko, Michael D. Martin, Thorfinn Sand Korneliussen, C. Schluechter, P. Lamkowski, Jeremy Schmutz, Adam Healey, Bryan Piatkowski, A. Jonathan Shaw, David J. Weston, Kjell Ivar Flatberg, Péter Szövényi, Kristian Hassel, Hans K. Stenøien
Software Mentions: 14
Published: almost 4 years ago

10.1038/s42003-021-01887-8

The impact of locomotion on the brain evolution of squirrels and close relatives
Cited by: 23
Author(s): Ornella Bertrand, Hans P. Püschel, Julia A. Schwab, Mary Silcox, Stephen L. Brusatte
Software Mentions: 13
Published: over 3 years ago

10.1002/ece3.5645

Testing adaptive hypotheses on the evolution of larval life history in acorn and stalked barnacles
Cited by: 11
Author(s): Christine Ewers‐Saucedo, Paula Pappalardo
Software Mentions: 13
Published: over 5 years ago

10.12688/f1000research.7082.3

EvolQG - An R package for evolutionary quantitative genetics
Cited by: 31
Author(s): Diogo Melo, Guilherme Garcia, Alex Hubbe, Ana Paula A. Assis, Gabriel Marroig
Software Mentions: 13
Published: about 8 years ago

10.3390/tropicalmed5020064

Disease Ecology of Rickettsial Species: A Data Science Approach
Cited by: 6
Author(s): Sergé Morand, Kittipong Chaisiri, Anamika Kritiyakan, Rawadee Kumlert
Software Mentions: 13
Published: over 4 years ago

10.1371/journal.pone.0253546

Tone and genes: New cross-linguistic data and methods support the weak negative effect of the “derived” allele of ASPM on tone, but not of Microcephalin
Cited by: 1
Author(s): Dan Dediu
Software Mentions: 13
Published: over 3 years ago

10.7717/peerj.1668

Monogenean anchor morphometry: systematic value, phylogenetic signal, and evolution
Cited by: 26
Author(s): Tsung Fei Khang, Oi Yoon Michelle Soo, Wooi Boon Tan, L. H. S. Lim
Software Mentions: 13
Published: almost 9 years ago

10.3389/fmicb.2019.00144

Characterization of Emetic and Diarrheal Bacillus cereus Strains From a 2016 Foodborne Outbreak Using Whole-Genome Sequencing: Addressing the Microbiological, Epidemiological, and Bioinformatic Challenges
Cited by: 70
Author(s): Laura M. Carroll, Manjarí Mukherjee, David Nicholas, Lisa A. Mingle, Nellie B. Dumas, Jocelyn A. Cole, Jasna Kovač
Software Mentions: 12
Published: almost 6 years ago

10.3389/fmicb.2019.02597

New Insights Into Cinnamoyl Esterase Activity of Oenococcus oeni
Cited by: 9
Author(s): Ingrid Collombel, Chrats Melkonian, Douwe Molenaar, Francisco M. Campos, Tim Hogg
Software Mentions: 12
Published: about 5 years ago

10.1371/journal.pone.0202824

Allometry predicts trabecular bone structural properties in the carnivoran jaw joint
Cited by: 6
Author(s): Matthew Wysocki, Z. Jack Tseng
Software Mentions: 12
Published: over 6 years ago

10.1038/srep26340

Phylogenetic niche conservatism explains an inverse latitudinal diversity gradient in freshwater arthropods
Cited by: 41
Author(s): Jérôme Morinière, Matthew H. Van Dam, Oliver Hawlitschek, Johannes Bergsten, Mariano C. Michat, Lars Hendrich, Ignacio Ribera, Emmanuel F. A. Toussaint, Michael Balke
Software Mentions: 12
Published: over 8 years ago

10.1002/ece3.6606

Evolution of breeding plumages in birds: A multiple‐step pathway to seasonal dichromatism in New World warblers (Aves: Parulidae)
Cited by: 16
Author(s): Ryan S. Terrill, Glenn F. Seeholzer, Jared D. Wolfe
Software Mentions: 12
Published: over 4 years ago

10.1093/molbev/msaa128

Evolution of the Insecticide Target Rdl in African Anopheles Is Driven by Interspecific and Interkaryotypic Introgression
Cited by: 25
Author(s): Xavier Grau‐Bové, Sean Tomlinson, Andrias O. O’Reilly, Nicholas J. Harding, Alistair Miles, Dominic Kwiatkowski, Martin Donnelly, David Weetman
Software Mentions: 12
Published: over 4 years ago

10.1098/rspb.2021.0394

Testing hypotheses of marsupial brain size variation using phylogenetic multiple imputations and a Bayesian comparative framework
Cited by: 7
Author(s): Orlin S. Todorov, Simone P. Blomberg, Anjali Goswami, Karen E. Sears, Patrik Drhlík, James Peters, Vera Weisbecker
Software Mentions: 12
Published: over 3 years ago

10.1002/ece3.6044

Variation of chemical compounds in wild Heliconiini reveals ecological factors involved in the evolution of chemical defenses in mimetic butterflies
Cited by: 21
Author(s): Ombeline Sculfort, Érika Cristina Pinheiro de Castro, Krzysztof M. Kozak, Søren Bak, Marianne Élias, Bastien Nay, Violaine Llaurens
Software Mentions: 11
Published: almost 5 years ago

10.1371/journal.pone.0151959

Physiological Limits along an Elevational Gradient in a Radiation of Montane Ground Beetles
Cited by: 28
Author(s): R. O. Slatyer, Sean D. Schoville
Software Mentions: 11
Published: over 8 years ago

10.1111/mec.13636

Escape from the cryptic species trap: lichen evolution on both sides of a cyanobacterial acquisition event
Cited by: 34
Author(s): Kevin Schneider, Philipp Resl, Toby Spribille
Software Mentions: 11
Published: over 8 years ago

10.1098/rspb.2021.0616

Juvenile ecology drives adult morphology in two insect orders
Cited by: 4
Author(s): Peter T. Rühr, Thomas van de Kamp, Tomáš Faragó, Jörg U. Hammel, Fabian Wilde, Elena Borisova, Carina Edel, Melina Frenzel, Tilo Baumbach, Alexander Blanke
Software Mentions: 11
Published: over 3 years ago

10.3389/fmicb.2017.00682

Comparative Genomic Analysis of the Class Epsilonproteobacteria and Proposed Reclassification to Epsilonbacteraeota (phyl. nov.)
Cited by: 314
Author(s): David W. Waite, Inka Vanwonterghem, Christian Rinke, Donovan H. Parks, Ying Zhang, Ken Takai, Stefan M. Sievert, Jörg Simon, Barbara J. Campbell, Thomas E. Hanson, Tanja Woyke, Martin G. Klotz, Philip Hugenholtz
Software Mentions: 11
Published: over 7 years ago

10.1177/1176934320956575

Vesicle Transport in Plants: A Revised Phylogeny of SNARE Proteins
Cited by: 10
Author(s): Xiaoyan Gu, Adrian C. Brennan, Wenbin Wei, Guang-Qin Guo, Keith Lindsey
Software Mentions: 11
Published: almost 5 years ago

10.3389/fmicb.2020.00926

Chromosome Architecture and Gene Content of the Emergent Pathogen Acinetobacter haemolyticus
Cited by: 3
Author(s): Semiramis Castro-Jaimes, Elena Bello-López, Consuelo Velázquez-Acosta, Patricia Volkow-Fernández, Patricia Lozano-Zaraín, Santiago Castillo-Ramírez, Miguel A. Cevallos
Software Mentions: 11
Published: over 4 years ago

10.1111/tpj.14784

Segmental duplications are hot spots of copy number variants affecting barley gene content
Cited by: 4
Author(s): Gianluca Bretani, Laura Rossini, Chiara Ferrandi, Joanne Russell, Robbie Waugh, Benjamin Kilian, Paolo Bagnaresi, Luigi Cattivelli, Agostino Fricano
Software Mentions: 11
Published: over 4 years ago

10.1186/s40168-020-00805-0

Domestication of Oryza species eco-evolutionarily shapes bacterial and fungal communities in rice seed
Cited by: 80
Author(s): Hyun Kim, Kiseok Keith Lee, Jongbum Jeon, William Harris, Yong-Hwan Lee
Software Mentions: 11
Published: almost 5 years ago

10.3390/plants8120547

New Insights on Lilium Phylogeny Based on a Comparative Phylogenomic Study Using Complete Plastome Sequences
Cited by: 12
Author(s): Hyoung Tae Kim, Ki-Byung Lim, Jung Sung Kim
Software Mentions: 11
Published: about 5 years ago

10.1093/aobpla/plw010

Host trait combinations drive abundance and canopy distribution of atmospheric bromeliad assemblages
Cited by: 12
Author(s): Cleber Juliano Neves Chaves, Júlio César Dyonisio, Davi Rodrigo Rossatto
Software Mentions: 10
Published: over 9 years ago

10.1038/srep42808

Deciphering the distance to antibiotic resistance for the pneumococcus using genome sequencing data
Cited by: 21
Author(s): Fredrick M. Mobegi, Amelieke J. H. Cremers, Marien I. de Jonge, Stephen D. Bentley, Sacha A. F. T. van Hijum, Aldert Zomer
Software Mentions: 10
Published: almost 8 years ago

10.1098/rsos.171218

Tongues on the EDGE: language preservation priorities based on threat and lexical distinctiveness
Cited by: 2
Author(s): Nicolas Perrault, Maxwell J. Farrell, T. Jonathan Davies
Software Mentions: 10
Published: about 7 years ago

10.1371/journal.pone.0138031

The Effect of Host-Plant Phylogenetic Isolation on Species Richness, Composition and Specialization of Insect Herbivores: A Comparison between Native and Exotic Hosts
Cited by: 16
Author(s): Julio Miguel Grandez-Rios, Leonardo Lima Bergamini, Walter Santos de Araújo, Fabricio Villalobos, Mário Almeida‐Neto
Software Mentions: 10
Published: over 9 years ago

10.1002/ece3.5412

learnPopGen : An R package for population genetic simulation and numerical analysis
Cited by: 6
Author(s): Liam J. Revell
Software Mentions: 10
Published: over 5 years ago

10.1371/journal.pone.0226203

Mating strategy is determinant of adenovirus prevalence in European bats
Cited by: 4
Author(s): Federica Rossetto, María Iglesias-Caballero, H. Christoph Liedtke, Iván Gómez-Mestre, José Miguel Berciano, Gonzalo Pérez-Suárez, Óscar de Paz, Carlos Ibáñez, Juan E. Echevarrı́a, Inmaculada Casas
Software Mentions: 10
Published: almost 5 years ago

10.7554/eLife.55993

Combining agent-based, trait-based and demographic approaches to model coral-community dynamics
Cited by: 7
Author(s): Bruno Carturan, Jason Pither, Jean‐Philippe Maréchal, Corey J. A. Bradshaw, Lael Parrott
Software Mentions: 10
Published: over 4 years ago

10.3389/fpubh.2018.00235

One Health Relationships Between Human, Animal, and Environmental Microbiomes: A Mini-Review
Cited by: 110
Author(s): Pauline Trinh, Jesse Zaneveld, Sarah Safranek, Peter Rabinowitz
Software Mentions: 10
Published: over 6 years ago

10.1128/mBio.01105-19

Evolution and Global Transmission of a Multidrug-Resistant, Community-Associated Methicillin-Resistant Staphylococcus aureus Lineage from the Indian Subcontinent
Cited by: 42
Author(s): Eike J. Steinig, Sebastián Duchêne, D. Ashley Robinson, Stefan Monecke, Maho Yokoyama, Maisem Laabei, Peter Slickers, Patiyan Andersson, Deborah A. Williamson, Angela Kearns, Richard V. Goering, Elizabeth Dickson, Ralf Ehricht, Margaret Ip, Matthew V. N. O’Sullivan, Geoffrey W. Coombs, Andreas Petersen, Gráinne I. Brennan, Anna C. Shore, David C. Coleman, Annalisa Pantosti, Hermı́nia de Lencastre, Henrik Westh, Nobumichi Kobayashi, Helen Heffernan, Birgit Strommenger, Franziska Layer, Stefan Weber, Hege Vangstein Aamot, Leila Skakni, Sharon J. Peacock, Derek S. Sarovich, Simon R. Harris, Julian Parkhill, Ruth C. Massey, Matthew T. G. Holden, Stephen D. Bentley, Steven Y. C. Tong
Software Mentions: 10
Published: almost 5 years ago

10.7554/eLife.66036

A new Heterodontosaurus specimen elucidates the unique ventilatory macroevolution of ornithischian dinosaurs
Cited by: 8
Author(s): Viktor J. Radermacher, Vincent Fernández, Emma R. Schachner, Richard J. Butler, Emese M. Bordy, Michael Naylor Hudgins, William J. De Klerk, Kimberley E. J. Chapelle, Jonah N. Choiniere
Software Mentions: 10
Published: over 3 years ago

10.1038/s41598-021-96431-3

Phytochemistry reflects different evolutionary history in traditional classes versus specialized structural motifs
Cited by: 7
Author(s): Kathryn A. Uckele, Joshua P. Jahner, Eric J. Tepe, Lora A. Richards, Lee A. Dyer, Kaitlin M. Ochsenrider, Casey S. Philbin, Massuo Jorge Kato, Lydia F. Yamaguchi, Matthew L. Forister, Angela M. Smilanich, Craig D. Dodson, Christopher S. Jeffrey, Thomas L. Parchman
Software Mentions: 9
Published: over 3 years ago

10.3389/fmicb.2020.01398

Microbiome Shifts Associated With the Introduction of Wild Atlantic Horseshoe Crabs (Limulus polyphemus) Into a Touch-Tank Exhibit
Cited by: 9
Author(s): Ariel D. Friel, Sean A. Neiswenter, Cale O. Seymour, Lauren Rose Bali, Ginger McNamara, Fabian Leija, Jack Jewell, Brian P. Hedlund
Software Mentions: 9
Published: over 4 years ago

10.3390/toxics9010010

Phylogenetic Integration Reveals the Zebrafish Core Microbiome and Its Sensitivity to Environmental Exposures
Cited by: 18
Author(s): Thomas J. Sharpton, Keaton Stagaman, Michael J. Sieler, Holly K. Arnold, Edward W. Davis
Software Mentions: 9
Published: almost 4 years ago

10.3389/fmicb.2020.557253

Sixty-One Volatiles Have Phylogenetic Signals Across Bacterial Domain and Fungal Kingdom
Cited by: 16
Author(s): Moamen M. Elmassry, Mohamed A. Farag, Robert Preißner, Björn-Oliver Gohlke, Birgit Piechulla, Marie Chantal Lemfack
Software Mentions: 9
Published: about 4 years ago

10.1038/s41598-019-42921-4

Haematological traits co-vary with migratory status, altitude and energy expenditure: a phylogenetic, comparative analysis
Cited by: 14
Author(s): Kang Nian Yap, Olivia Tsai, Tony Williams
Software Mentions: 9
Published: over 5 years ago

10.1038/s41598-020-59068-2

Tritrophic interactions follow phylogenetic escalation and climatic adaptation
Cited by: 5
Author(s): Alan Kergunteuil, Lauréline Humair, Anne-Laure Maire, María Fernanda Moreno‐Aguilar, Adrienne L. Godschalx, Pilar Catalán, Sergio Rasmann
Software Mentions: 9
Published: almost 5 years ago

10.12688/wellcomeopenres.14694.1

RhierBAPS: An R implementation of the population clustering algorithm hierBAPS
Cited by: 161
Author(s): Gerry Tonkin‐Hill, John A. Lees, Stephen D. Bentley, Simon D. W. Frost, Jukka Corander
Software Mentions: 9
Published: over 6 years ago

10.1111/evo.13072

Niche divergence facilitated by fine‐scale ecological partitioning in a recent cichlid fish adaptive radiation
Cited by: 37
Author(s): Antonia G. P. Ford, Lukas Rüber, Jason Newton, Kanchon K. Dasmahapatra, J.D. Balarin, Kristoffer Bruun, Julia J. Day
Software Mentions: 9
Published: about 8 years ago

10.1186/s12862-020-01671-y

Sex determination systems in reptiles are related to ambient temperature but not to the level of climatic fluctuation
Cited by: 12
Author(s): Paola Cornejo‐Páramo, Andrés Lira‐Noriega, Ciro Ramírez-Suástegui, Fausto Méndez-de-la-Cruz, Tamás Székely, Araxi O. Urrutia, Diego Cortez
Software Mentions: 9
Published: over 4 years ago

10.1002/ece3.6335

High dispersal capacity and biogeographic breaks shape the genetic diversity of a globally distributed reef‐dwelling calcifier
Cited by: 16
Author(s): Martina Prazeres, Raphaël Morard, Thomas E. Roberts, Steve S. Doo, Jamaluddin Jompa, Christiane Schmidt, Marleen Stuhr, Willem Renema, Michal Kučera
Software Mentions: 9
Published: over 4 years ago

10.1098/rsos.172177

The evolutionary history of polycotylid plesiosaurians
Cited by: 27
Author(s): Valentin Fischer, Roger Benson, Patrick S. Druckenmiller, Hilary F. Ketchum, Nathalie Bardet
Software Mentions: 9
Published: almost 7 years ago

10.1371/journal.pcbi.1008742

Wide range of metabolic adaptations to the acquisition of the Calvin cycle revealed by comparison of microbial genomes
Cited by: 11
Author(s): Johannes Asplund-Samuelsson, Elton P. Hudson
Software Mentions: 9
Published: almost 4 years ago

10.1002/ece3.5309

Evidence of strong stabilizing effects on the evolution of boreoeutherian (Mammalia) dental proportions
Cited by: 16
Author(s): Tesla A. Monson, Jean‐Renaud Boisserie, Marianne F. Brasil, Selene M. Clay, Rena R. Dvoretzky, Shruti Ravindramurthy, Christopher A. Schmitt, Antoine Souron, Risa Takenaka, Peter S. Ungar, Sunwoo Yoo, Michael Zhou, Madeleine E. Zuercher, Leslea J. Hlusko
Software Mentions: 9
Published: over 5 years ago

10.1186/s12983-016-0162-0

Evolution of body morphology and beak shape revealed by a morphometric analysis of 14 Paridae species
Cited by: 28
Author(s): Shimiao Shao, Quan Qing, Tianlong Cai, Gang Song, Yanhua Qu, Fumin Lei
Software Mentions: 9
Published: over 8 years ago

10.1186/s12915-020-00908-y

First evidence of convergent lifestyle signal in reptile skull roof microanatomy
Cited by: 11
Author(s): Roy Ebel, Johannes Müller, Till Ramm, Christy A. Hipsley, Eli Amson
Software Mentions: 9
Published: about 4 years ago

10.1186/s12862-015-0440-z

The influence of ecological and geographical context in the radiation of Neotropical sigmodontine rodents
Cited by: 48
Author(s): Andrés Parada, Guillermo D’Elı́a, R. Eduardo Palma
Software Mentions: 9
Published: over 9 years ago

10.1038/s41396-019-0458-0

Virome heterogeneity and connectivity in waterfowl and shorebird communities
Cited by: 53
Author(s): Michelle Wille, Mǎng Shī, Marcel Klaassen, Aeron C. Hurt, Edward C. Holmes
Software Mentions: 9
Published: over 5 years ago

10.1186/s12983-017-0241-x

Trabecular architecture in the forelimb epiphyses of extant xenarthrans (Mammalia)
Cited by: 37
Author(s): Eli Amson, Patrick Arnold, Anneke H. van Heteren, Aurore Canoville, John A. Nyakatura
Software Mentions: 9
Published: about 7 years ago

10.1371/journal.pone.0036664

Functional Morphometric Analysis of the Furcula in Mesozoic Birds
Cited by: 33
Author(s): Roger A. Close, Emily J. Rayfield
Software Mentions: 9
Published: over 12 years ago

10.1002/ece3.3163

Genome size in arthropods; different roles of phylogeny, habitat and life history in insects and crustaceans
Cited by: 54
Author(s): Kristian Alfsnes, Hans Petter Leinaas, Dag O. Hessen
Software Mentions: 9
Published: over 7 years ago

10.1186/1471-2148-13-134

Phylogenetic signal in the acoustic parameters of the advertisement calls of four clades of anurans
Cited by: 42
Author(s): Bruno Gingras, Elmira Mohandesan, Drasko Boko, W. Tecumseh Fitch
Software Mentions: 8
Published: almost 12 years ago

10.3389/fmicb.2021.660920

Insights on the Evolutionary Genomics of the Blautia Genus: Potential New Species and Genetic Content Among Lineages
Cited by: 28
Author(s): José Luis Maturana, Juan Pablo Cárdenas
Software Mentions: 8
Published: over 3 years ago

10.3389/fpls.2020.00212

Functional Trait Variation Among and Within Species and Plant Functional Types in Mountainous Mediterranean Forests
Cited by: 28
Author(s): Nikolaos M. Fyllas, Chrysanthi Michelaki, Alexandros Galanidis, Eleftherios Evangelou, Joana Zaragoza‐Castells, Panayiotis G. Dimitrakopoulos, Christos Tsadilas, Μαργαρίτα Αριανούτσου, J. Lloyd
Software Mentions: 8
Published: almost 5 years ago

10.3390/toxins9080242

Enter the Dragon: The Dynamic and Multifunctional Evolution of Anguimorpha Lizard Venoms
Cited by: 36
Author(s): Ivan Koludarov, Timothy N. W. Jackson, Bianca op den Brouw, James Dobson, Daniel Dashevsky, Kevin Arbuckle, Christofer J. Clemente, Edward J. Stockdale, Chip Cochran, Jordan Debono, Carson Stephens, Nadya Panagides, Bin Li, Mary-Louise Roy Manchadi, Aude Violette, Rudy Fourmy, Iwan Hendrikx, Amanda Nouwens, Judith A. Clements, Paolo Martelli, Hang Fai Kwok
Software Mentions: 8
Published: over 7 years ago

10.1038/s41598-018-35827-0

Convergent evolution of an extreme dietary specialisation, the olfactory system of worm-eating rodents
Cited by: 31
Author(s): Quentin Martinez, Renaud Lebrun, Anang S. Achmadi, Jacob A. Esselstyn, Alistair R. Evans, Lawrence R. Heaney, Roberto Portela Miguez, Kevin C. Rowe, Pierre Henri Fabre
Software Mentions: 8
Published: about 6 years ago

10.7717/peerj.7476

Estimating the phylogeny of geoemydid turtles (Cryptodira) from landmark data: an assessment of different methods
Cited by: 9
Author(s): Eduardo Ascarrunz, Claude Julien, Walter G. Joyce
Software Mentions: 8
Published: over 5 years ago

10.1186/s12862-015-0570-3

Phylogenetic analyses suggest that diversification and body size evolution are independent in insects
Cited by: 19
Author(s): James Rainford, Michael Hofreiter, Peter J. Mayhew
Software Mentions: 8
Published: almost 9 years ago

10.1093/database/baz098

Progress in the study of genome size evolution in Asteraceae: analysis of the last update
Cited by: 14
Author(s): Daniel Vitales, P. Fernández, Teresa Garnatje, Sònia Garcia
Software Mentions: 8
Published: almost 6 years ago

10.3389/fpls.2021.647375

Molecular Evolution and Organization of Ribosomal DNA in the Hawkweed Tribe Hieraciinae (Cichorieae, Asteraceae)
Cited by: 11
Author(s): Judith Fehrer, Renata Slavíková, Ladislava Paštová, Jiřina Josefiová, Patrik Mráz, Jindřich Chrtek, Yann Bertrand
Software Mentions: 8
Published: almost 4 years ago

10.1002/evl3.110

Comparative genomics of 10 newCaenorhabditisspecies
Cited by: 105
Author(s): Lewis Stevens, Marie‐Anne Félix, Toni Beltran, Christian Braendle, Carlos Caurcel, Sarah Fausett, David Fitch, Lise Frézal, Charlie Gosse, Taniya Kaur, Karin Kiontke, Matthew D. Newton, Luke M. Noble, Aurélien Richaud, Matthew V. Rockman, Walter Sudhaus, Mark Blaxter
Software Mentions: 8
Published: over 5 years ago

10.1371/journal.pcbi.1008757

Using neural networks to mine text and predict metabolic traits for thousands of microbes
Cited by: 4
Author(s): Timothy J. Hackmann, Bo Zhang
Software Mentions: 8
Published: almost 4 years ago

10.1371/journal.pgen.1009253

Resistance to pirimiphos-methyl in West African Anopheles is spreading via duplication and introgression of the Ace1 locus
Cited by: 22
Author(s): Xavier Grau‐Bové, Eric R. Lucas, Dimitra Pipini, Emily J. Rippon, Arjèn Emiel van 't Hof, Constant Edi, Samuel Dadzie, Alexander Egyir-Yawson, John Essandoh, Joseph Chabi, Luc Djogbénou, Nicholas J. Harding, Alistair Miles, Dominic P. Kwiatkowski, Martin J. Donnelly, David Weetman
Software Mentions: 8
Published: almost 4 years ago

10.1002/ece3.7269

3D genital shape complexity in female marine mammals
Cited by: 15
Author(s): Dara N. Orbach, Charlotte A. Brassey, James Gardiner, Patricia L. R. Brennan
Software Mentions: 8
Published: almost 4 years ago

10.1371/journal.ppat.1006525

Abundance and co-occurrence of extracellular capsules increase environmental breadth: Implications for the emergence of pathogens
Cited by: 53
Author(s): Olaya Rendueles, Marc García-Garcerá, Bertrand Néron, Marie Touchon, Eduardo P. C. Rocha
Software Mentions: 8
Published: over 7 years ago

10.1371/journal.pone.0199129

The microstructure of white feathers predicts their visible and near-infrared reflectance properties
Cited by: 23
Author(s): Devi Stuart‐Fox, Elizabeth Newton, Raoul A. Mulder, Liliana D’Alba, Matthew D. Shawkey, Branislav Igic
Software Mentions: 8
Published: over 6 years ago

10.1186/s12862-019-1466-4

The multi-peak adaptive landscape of crocodylomorph body size evolution
Cited by: 42
Author(s): Pedro Godoy, Roger Benson, Mario Bronzati, Richard J. Butler
Software Mentions: 8
Published: over 5 years ago

10.1002/ece3.7995

The hidden side of diversity: Effects of imperfect detection on multiple dimensions of biodiversity
Cited by: 7
Author(s): Aline Richter, Gabriel Nakamura, Cristiano Agra Iserhard, Leandro da Silva Duarte
Software Mentions: 8
Published: over 3 years ago

10.1098/rspb.2020.1585

The signature of competition in ecomorphological traits across the avian radiation
Cited by: 8
Author(s): Angela-Maria Chira, Christopher R. Cooney, Jen A. Bright, E. J. R., Emma C. Hughes, Christopher J. Moody, Lara O Nouri, Zoë K Varley, Gavin H. Thomas
Software Mentions: 8
Published: about 4 years ago

10.1111/mec.14523

Shifts in diversification rates and host jump frequencies shaped the diversity of host range among Sclerotiniaceae fungal plant pathogens
Cited by: 39
Author(s): Olivier Navaud, Adelin Barbacci, Andrew Taylor, John P. Clarkson, Sylvain Raffaele
Software Mentions: 8
Published: almost 7 years ago

10.1371/journal.pone.0100687

In the Wake of Invasion: Tracing the Historical Biogeography of the South American Cricetid Radiation (Rodentia, Sigmodontinae)
Cited by: 65
Author(s): Rafael N. Leite, Sergios‐Orestis Kolokotronis, Francisca Cunha Almeida, Fernanda P. Werneck, Donald E. Rogers, Marcelo Weksler
Software Mentions: 8
Published: over 10 years ago

10.1002/ece3.2641

Convergent evolution in social swallows (Aves: Hirundinidae)
Cited by: 12
Author(s): Allison E. Johnson, Jonathan S. Mitchell, Mary Bomberger Brown
Software Mentions: 8
Published: about 8 years ago

10.3390/plants10081512

Floral Scent Evolution in the Genus Jaborosa (Solanaceae): Influence of Ecological and Environmental Factors
Cited by: 6
Author(s): Marcela Moré, Florencia Soteras, Ana C. Ibañez, Stefan Dötterl, Andrea A. Cocucci, Robert A. Raguso
Software Mentions: 8
Published: over 3 years ago

10.1002/ece3.6263

Diet specialization and brood parasitism in cuckoo species
Cited by: 4
Author(s): Federico Morelli, Yanina Benedetti, Anders Pape Møller
Software Mentions: 8
Published: over 4 years ago

10.1371/journal.pone.0226689

Role of ecology in shaping external nasal morphology in bats and implications for olfactory tracking
Cited by: 15
Author(s): Alyson F. Brokaw, Michael Smotherman
Software Mentions: 8
Published: almost 5 years ago

10.1371/journal.pone.0180435

White-nose syndrome pathology grading in Nearctic and Palearctic bats
Cited by: 38
Author(s): Jiří Pikula, Sybill K. Amelon, Hana Banďouchová, Tomáš Bartonička, Hana Berková, Jiří Brichta, Sarah E. Hooper, Tomasz Kokurewicz, Miroslav Kolařík, Bernd Köllner, Veronika Kováčová, Petr Linhart, Vladimír Piaček, Gregory G. Turner, Jan Zukal, Natália Martínková
Software Mentions: 8
Published: over 7 years ago

10.1002/ece3.6172

Habitat transitions alter the adaptive landscape and shape phenotypic evolution in needlefishes (Belonidae)
Cited by: 10
Author(s): Matthew A. Kolmann, Michael D. Burns, Justin Y. K. Ng, Nathan R. Lovejoy, Devin D. Bloom
Software Mentions: 8
Published: almost 5 years ago

10.3389/fpls.2020.601975

Flower Diversification Across “Pollinator Climates”: Sensory Aspects of Corolla Color Evolution in the Florally Diverse South American Genus Jaborosa (Solanaceae)
Cited by: 9
Author(s): Marcela Moré, Ana C. Ibañez, María Eugenia Drewniak, Andrea A. Cocucci, Robert A. Raguso
Software Mentions: 8
Published: about 4 years ago

10.3389/fmicb.2017.01271

Nutrient and Rainfall Additions Shift Phylogenetically Estimated Traits of Soil Microbial Communities
Cited by: 26
Author(s): Kelly Gravuer, Anu Eskelinen
Software Mentions: 8
Published: over 7 years ago

Projects: cran: phytools

Papers Mentioning phytools 586