pypi: ipyrad | Projects | Ecosyste.ms: Papers

10.1093/molbev/msaa266

Genomic Adaptations to Salinity Resist Gene Flow in the Evolution of Floridian Watersnakes
Cited by: 10
Author(s): Rhett M. Rautsaw, Tristan D. Schramer, Rachel Acuña, Lindsay N Arick, Mark DiMeo, Kathryn P. Mercier, Michael Schrum, Andrew J. Mason, Mark J. Margres, Jason L. Strickland, Christopher L. Parkinson
Software Mentions: 9
Published: almost 4 years ago

10.1111/1755-0998.13280

The genome of Draba nivalis shows signatures of adaptation to the extreme environmental stresses of the Arctic
Cited by: 13
Author(s): Michael Nowak, Siri Birkeland, Terezie Mandáková, Rimjhim Roy Choudhury, Xi Guo, Lovisa Gustafsson, Abel Gizaw, Audun Schrøder-Nielsen, Marco Fracassetti, Anne K. Brysting, Loren H. Rieseberg, Tanja Slotte, Christian Parisod, Martin A. Lysak, Christian Brochmann
Software Mentions: 8
Published: almost 4 years ago

10.1038/s41598-019-41886-8

Geographic separation and genetic differentiation of populations are not coupled with niche differentiation in threatened Kaiser’s spotted newt (Neurergus kaiseri)
Cited by: 24
Author(s): Forough Goudarzi, Mahmoud‐Reza Hemami, Loïs Rancilhac, Mansoureh Malekian, Sima Fakheran, Kathryn R. Elmer, Sebastian Steinfartz
Software Mentions: 7
Published: over 5 years ago

10.1038/s42003-020-01482-3

Evaluating insect-host interactions as a driver of species divergence in palm flower weevils
Cited by: 11
Author(s): Bruno A. S. de Medeiros, Brian D. Farrell
Software Mentions: 7
Published: almost 4 years ago

10.1002/ece3.4994

Sampling related individuals within ponds biases estimates of population structure in a pond‐breeding amphibian
Cited by: 23
Author(s): Kyle A. O’Connell, Kevin P. Mulder, Jose A. Maldonado, Kathleen L. Currie, Dennis M. Ferraro
Software Mentions: 7
Published: over 5 years ago

10.1111/evo.13754

The comparative biogeography of Philippine geckos challenges predictions from a paradigm of climate‐driven vicariant diversification across an island archipelago
Cited by: 20
Author(s): Jamie R. Oaks, Cameron D. Siler, Rafe M. Brown
Software Mentions: 5
Published: over 5 years ago

10.1111/eva.12766

Population structure, genetic connectivity, and adaptation in the Olympia oyster ( Ostrea lurida ) along the west coast of North America
Cited by: 35
Author(s): Katherine Silliman
Software Mentions: 5
Published: over 5 years ago

10.1111/eva.12960

Genomic insights into historical population dynamics, local adaptation, and climate change vulnerability of the East Asian Tertiary relict Euptelea (Eupteleaceae)
Cited by: 12
Author(s): Yanan Cao, Shanshan Zhu, Jun Chen, Hans Peter Comes, Ian Wang, Luyao Chen, Shota Sakaguchi, Ying‐Xiong Qiu
Software Mentions: 5
Published: over 4 years ago

10.7717/peerj.7484

Phylogenomic analyses confirm a novel invasive North AmericanCorbicula(Bivalvia: Cyrenidae) lineage
Cited by: 20
Author(s): Amanda E. Haponski, Diarmaid Ó Foighil
Software Mentions: 5
Published: about 5 years ago

10.1002/ece3.7099

Divergent lineages in a semi‐arid mallee species, Eucalyptus behriana, correspond to a major geographic break in southeastern Australia
Cited by: 7
Author(s): Patrick S. Fahey, Rachael M. Fowler, Todd G. B. McLay, Frank Udovicic, David J. Cantrill, Michael J. Bayly
Software Mentions: 5
Published: almost 4 years ago

10.3390/ani11092702

Trait Plasticity among Invasive Populations of the Ant Technomyrmex brunneus in Japan
Cited by: 3
Author(s): Diyona Putri, Masanori Yokozawa, Toshiro Yamanaka, Adam L. Cronin
Software Mentions: 4
Published: about 3 years ago

10.1093/molbev/msy023

RADpainter and fineRADstructure: Population Inference from RADseq Data
Cited by: 234
Author(s): Milan Malinsky, Emiliano Trucchi, Daniel J. Lawson, Daniel Falush
Software Mentions: 4
Published: over 6 years ago

10.7717/peerj.5089

Whole-genome amplification in double-digest RADseq results in adequate libraries but fewer sequenced loci
Cited by: 31
Author(s): Bruno A. S. de Medeiros, Brian D. Farrell
Software Mentions: 4
Published: about 6 years ago

10.1002/ece3.4360

RAD sequencing resolved phylogenetic relationships in European shrub willows (SalixL. subg.Chamaetiaand subg.Vetrix) and revealed multiple evolution of dwarf shrubs
Cited by: 31
Author(s): Natascha D. Wagner, S.M. Gramlich, Elvira Hörandl
Software Mentions: 4
Published: about 6 years ago

10.1002/ece3.6185

Panmixia across elevation in thermally sensitive Andean dung beetles
Cited by: 3
Author(s): Ethan Linck Linck, Jorge Celi, Kimberly S. Sheldon
Software Mentions: 4
Published: over 4 years ago

10.1002/ece3.6093

Using genomic information for management planning of an endangered perennial,Viola uliginosa
Cited by: 9
Author(s): Kyung Min Lee, Pertti Ranta, Jarmo Saarikivi, Lado Kutnar, Branko Vreš, М. А. Джус, Marko Mutanen, Laura Kvist
Software Mentions: 4
Published: over 4 years ago

10.1002/ece3.4457

Habitat or temporal isolation: Unraveling herbivore-parasitoid speciation patterns using double digest RADseq
Cited by: 9
Author(s): Y. Miles Zhang, Amber Bass, Diana Catalina Fernández, Barbara J. Sharanowski
Software Mentions: 4
Published: about 6 years ago

10.1111/eva.12893

Secondary contacts and genetic admixture shape colonization by an amphiatlantic epibenthic invertebrate
Cited by: 20
Author(s): Jamie Hudson, Kerstin Johannesson, Christopher D. McQuaid, Marc Rius
Software Mentions: 3
Published: almost 5 years ago

10.1371/journal.pgen.1009370

Hybrid seed incompatibility in Capsella is connected to chromatin condensation defects in the endosperm
Cited by: 13
Author(s): Katarzyna Dziasek, Lauriane Simon, Clément Lafon‐Placette, Benjamin Laenen, Cecilia Wärdig, Juan Santos‐González, Tanja Slotte, Claudia Köhler
Software Mentions: 3
Published: over 3 years ago

10.1002/ece3.8015

Pleistocene dynamics of the Eurasian steppe as a driving force of evolution: Phylogenetic history of the genus Capsella (Brassicaceae)
Cited by: 7
Author(s): Anže Žerdoner Čalasan, Herbert Hurka, Dmitry A. German, Simon Pfanzelt, Frank R. Blattner, Anna Seidl, Barbara Neuffer
Software Mentions: 3
Published: about 3 years ago

10.1186/s12859-020-03701-4

AdmixPipe: population analyses in Admixture for non-model organisms
Cited by: 17
Author(s): Steven M. Mussmann, Marlis R. Douglas, Tyler K. Chafin
Software Mentions: 3
Published: about 4 years ago

10.3390/genes10090693

Interspecific Genetic Differences and Historical Demography in South American Arowanas (Osteoglossiformes, Osteoglossidae, Osteoglossum)
Cited by: 10
Author(s): Fernando Henrique Santos de Souza, Manolo F. Perez, Luiz Antônio Carlos Bertollo, Ezequiel Aguiar de Oliveira, Sébastien Lavoué, Carla C. Gestich, Petr Ráb, Tariq Ezaz, Thomas Liehr, Patrik Ferreira Viana, Eliana Feldberg, Marcelo de Bello Cioffi
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pntd.0007554

Complex interplay of evolutionary forces shaping population genomic structure of invasive Aedes albopictus in southern Europe
Cited by: 22
Author(s): Verena Pichler, Panayiota Kotsakiozi, Beniamino Caputo, Paola Serini, Adalgisa Caccone, Alessandra della Torre
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pone.0216992

Adaptive genetic variation underlies biocomplexity of Atlantic Cod in the Gulf of Maine and on Georges Bank
Cited by: 12
Author(s): Gemma V. Clucas, Lisa A. Kerr, Steven X. Cadrin, Douglas R. Zemeckis, Graham D. Sherwood, David Goethel, Zachary T. Whitener, Adrienne I. Kovach
Software Mentions: 3
Published: over 5 years ago

10.1093/gbe/evz113

Genome-wide SNP Data Reveal an Overestimation of Species Diversity in a Group of Hawkmoths
Cited by: 35
Author(s): Anna K. Hundsdoerfer, Kyung Min Lee, Ian J. Kitching, Marko Mutanen
Software Mentions: 3
Published: over 5 years ago

10.3389/fgene.2019.00719

Extensive Cryptic Diversity Within the Physalaemus cuvieri–Physalaemus ephippifer Species Complex (Amphibia, Anura) Revealed by Cytogenetic, Mitochondrial, and Genomic Markers
Cited by: 7
Author(s): Juliana Damieli Nascimento, Jucivaldo Dias Lima, Pablo Suárez, Diego Baldo, Gilda Vasconcellos de Andrade, Todd W. Pierson, Benjamin M. Fitzpatrick, Célio F. B. Haddad, Shirlei Maria Recco‐Pimentel, Luciana Bolsoni Lourenço
Software Mentions: 2
Published: about 5 years ago

10.3389/fpls.2019.01074

Phylogeny of Hawaiian Melicope (Rutaceae): RAD-seq Resolves Species Relationships and Reveals Ancient Introgression
Cited by: 33
Author(s): Claudia Paetzold, Kenneth R. Wood, Deren A. R. Eaton, Warren L. Wagner, Marc S. Appelhans
Software Mentions: 2
Published: almost 5 years ago

10.1111/eva.12778

Deconstructing an infamous extinction crisis: Survival of Partula species on Moorea and Tahiti
Cited by: 9
Author(s): Amanda E. Haponski, Taehwan Lee, Diarmaid Ó Foighil
Software Mentions: 2
Published: over 5 years ago

10.3389/fpls.2021.662715

Highly Diverse Shrub Willows (Salix L.) Share Highly Similar Plastomes
Cited by: 11
Author(s): Natascha Wagner, Martin Volf, Elvira Hörandl
Software Mentions: 2
Published: about 3 years ago

10.3389/fpls.2020.01077

Phylogenomic Relationships and Evolution of Polyploid Salix Species Revealed by RAD Sequencing Data
Cited by: 53
Author(s): Natascha Wagner, Li He, Elvira Hörandl
Software Mentions: 2
Published: about 4 years ago

10.3390/genes12020252

High Genetic Diversity despite Conserved Karyotype Organization in the Giant Trahiras from Genus Hoplias (Characiformes, Erythrinidae)
Cited by: 4
Author(s): Francisco de Menezes Cavalcante Sassi, Manolo F. Perez, Vanessa Cristina Sales Oliveira, Geize Aparecida Deon, Fernando Henrique Santos de Souza, Pedro H. N. Ferreira, Ezequiel Aguiar de Oliveira, Terumi Hatanaka, Thomas Liehr, Luiz Antônio Carlos Bertollo, Marcelo de Bello Cioffi
Software Mentions: 2
Published: over 3 years ago

10.1038/s41598-017-09906-7

Reference-based RADseq resolves robust relationships among closely related species of lichen-forming fungi using metagenomic DNA
Cited by: 29
Author(s): Felix Grewe, Jen-Pen Huang, Steven D. Leavitt, H. Thorsten Lumbsch
Software Mentions: 2
Published: about 7 years ago

10.1371/journal.pone.0198882

Reconciling species diversity in a tropical plant clade (Canarium, Burseraceae)
Cited by: 12
Author(s): Sarah Federman, Michael J. Donoghue, Douglas C. Daly, Deren A. R. Eaton
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0216903

Genetic and morphological identification of a recurrent Dicksonia tree fern hybrid in New Zealand
Cited by: 15
Author(s): Lara D. Shepherd, Patrick J. Brownsey, Chris Stowe, Claire L. Newell, Leon R. Perrie
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-021-87244-5

An approach using ddRADseq and machine learning for understanding speciation in Antarctic Antarctophilinidae gastropods
Cited by: 7
Author(s): Juan Moles, Shahan Derkarabetian, Stefano Schiaparelli, Michael Schrödl, Jesús Souza Troncoso, Nerida G. Wilson, Gonzalo Giribet
Software Mentions: 2
Published: over 3 years ago

10.1038/s41598-021-88417-y

Revisiting the hyperdominance of Neotropical tree species under a taxonomic, functional and evolutionary perspective
Cited by: 11
Author(s): Gabriel Damasco, Christopher Baraloto, Alberto Vicentini, Douglas C. Daly, Bruce G. Baldwin, Paul V. A. Fine
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pone.0190440

Revisiting the phylogeography, demography and taxonomy of the frog genus Ptychadena in the Ethiopian highlands with the use of genome-wide SNP data
Cited by: 18
Author(s): Jacobo Reyes-Velasco, Joseph D. Manthey, Yann Bourgeois, Xenia Freilich, Stéphane Boissinot
Software Mentions: 1
Published: over 6 years ago

10.1038/s41598-021-90612-w

Discovery of cryptic plant diversity on the rooftops of the Alps
Cited by: 11
Author(s): Florian C. Boucher, Cédric Dentant, Sébastien Ibanez, Thibaut Capblancq, Martí Boleda, Louise Boulangeat, Jan Smyčka, Cristina Roquet, Sébastien Lavergne
Software Mentions: 1
Published: over 3 years ago

10.3897/zookeys.927.51142

Revision of the genus Hoplodrina Boursin, 1937 (Lepidoptera, Noctuidae, Xyleninae). I. Hoplodrina octogenaria (Goeze, 1781) and its sister species H. alsinides (Costantini, 1922) sp. rev. in Europe
Cited by: 5
Author(s): Peter Huemer, J. Haxaire, Kyung Min Lee, Marko Mutanen, Oleg Pekarsky, Stefano Scalercio, László Ronkay
Software Mentions: 1
Published: over 4 years ago

10.1186/s12864-021-07465-w

Low impact of different SNP panels from two building-loci pipelines on RAD-Seq population genomic metrics: case study on five diverse aquatic species
Cited by: 6
Author(s): Adrián González Casanova, Francesco Maroso, Andrés Blanco, Miguel Hermida, Néstor Ríos, Graciela García, Alice Manuzzi, Lorenzo Zane, Ana Veríssimo, José‐Luis García‐Marín, Carmen Bouza, Manuel Vera, Paulino Martı́nez
Software Mentions: 1
Published: over 3 years ago

10.1111/eva.13275

Testing for evolutionary change in restoration: A genomic comparison between ex situ , native, and commercial seed sources of Helianthus maximiliani
Cited by: 3
Author(s): Joseph Braasch, Lionel N Di Santo, Zachary J. Tarble, Jarrad R. Prasifka, John Hamilton
Software Mentions: 1
Published: about 3 years ago

10.1002/evl3.136

Selfing ability and drift load evolve with range expansion
Cited by: 27
Author(s): Matthew H. Koski, Nathan C. Layman, Carly J. Prior, Jeremiah W. Busch, Laura F. Galloway
Software Mentions: 1
Published: almost 5 years ago

10.1186/s12862-020-01605-8

Nuclear phylogeography of the temperate tree species Chiranthodendron pentadactylon (Malvaceae): Quaternary relicts in Mesoamerican cloud forests
Cited by: 5
Author(s): Diana Gabriela Hernández-Langford, María Elena Siqueiros-Delgado, Eduardo Ruiz‐Sánchez
Software Mentions: 1
Published: over 4 years ago

10.3389/fpls.2021.631178

Evolution in the Model Genus Antirrhinum Based on Phylogenomics of Topotypic Material
Cited by: 9
Author(s): Ana Otero, Mario Fernández‐Mazuecos, Pablo Vargas
Software Mentions: 1
Published: over 3 years ago

10.3389/fpls.2020.00750

How Many Tree Species of Birch Are in Alaska? Implications for Wetland Designations
Cited by: 0
Author(s): Carol A. Rowe, Robert W. Lichvar, Paul G. Wolf
Software Mentions: 1
Published: over 4 years ago

10.3390/genes11030265

Geographic Life History Differences Predict Genomic Divergence Better than Mitochondrial Barcodes or Phenotype
Cited by: 14
Author(s): Daniel P. Duran, Robert Laroche, Harlan M. Gough, Rodger A. Gwiazdowski, C. Barry Knisley, David P. Herrmann, Stephen J. Roman, Scott P. Egan
Software Mentions: 1
Published: over 4 years ago

10.1098/rspb.2019.1311

The conundrum of species delimitation: a genomic perspective on a mitogenetically super-variable butterfly
Cited by: 32
Author(s): Vlad Dincă, Kyung Min Lee, Roger Vila, Marko Mutanen
Software Mentions: 1
Published: almost 5 years ago

10.1371/journal.pone.0232936

Museomics for reconstructing historical floristic exchanges: Divergence of stone oaks across Wallacea
Cited by: 10
Author(s): Joeri S. Strijk, Hoàng Thị Bình, Nguyễn Văn Ngọc, Joan T. Pereira, J. W. Ferry Slik, Rahayu Sukmaria Sukri, Yoshihisa Suyama, Shuichiro Tagane, Jan J. Wieringa, Tetsukazu Yahara, Damien Daniel Hinsinger
Software Mentions: 1
Published: over 4 years ago

Projects: pypi: ipyrad

Papers Mentioning ipyrad 48