cran: StAMPP | Projects | Ecosyste.ms: Papers

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

10.3389/fmicb.2021.709611

Breeding Strategy Shapes the Composition of Bacterial Communities in Female Nile Tilapia Reared in a Recirculating Aquaculture System
Cited by: 2
Author(s): Yousri Abdelhafiz, Jorge M. O. Fernandes, Simone Larger, Davide Albanese, Claudio Donati, Omid Jafari, Artem Nedoluzhko, Viswanath Kiron
Software Mentions: 14
Published: over 3 years ago

10.1002/ece3.5070

Next‐generation phylogeography of the cockleCerastoderma glaucum: Highly heterogeneous genetic differentiation in a lagoon species
Cited by: 10
Author(s): Ludmila Sromek, Didier Forcioli, Rafał Lasota, Paola Furla, Maciej Wołowicz
Software Mentions: 9
Published: almost 6 years ago

10.1093/g3journal/jkab238

Whole-genome variation of transposable element insertions in a maize diversity panel
Cited by: 13
Author(s): Yinjie Qiu, Christine H. O’Connor, Rafael Della Coletta, Jonathan S. Renk, Patrick J. Monnahan, Jaclyn M. Noshay, Zhikai Liang, Amanda M. Gilbert, Sarah N. Anderson, Suzanne E. McGaugh, Nathan M. Springer, Candice N. Hirsch
Software Mentions: 9
Published: over 3 years ago

10.1002/ece3.6214

Genotyping‐by‐sequencing and ecological niche modeling illuminate phylogeography, admixture, and Pleistocene range dynamics in quaking aspen (Populus tremuloides)
Cited by: 12
Author(s): Justin C. Bagley, Neander Marcel Heming, Eliécer E. Gutiérrez, Upendra Kumar Devisetty, Karen E. Mock, Andrew J. Eckert, Steven H. Strauss
Software Mentions: 9
Published: over 4 years ago

10.1186/s12862-018-1251-9

Molecular variation across populations of a widespread North American firefly, Photinus pyralis, reveals that coding changes do not underlie flash color variation or associated visual sensitivity
Cited by: 12
Author(s): Sarah E. Lower, Kathrin F. Stanger‐Hall, David W. Hall
Software Mentions: 8
Published: over 6 years ago

10.1002/ece3.6802

Concordant geographic and genetic structure revealed by genotyping‐by‐sequencing in a New Zealand marine isopod
Cited by: 7
Author(s): William S. Pearman, Sarah J. Wells, Olin K. Silander, Nikki E. Freed, James Dale
Software Mentions: 7
Published: about 4 years ago

10.3389/fpls.2018.00029

Population Genetic Structure in Glyphosate-Resistant and -Susceptible Palmer Amaranth (Amaranthus palmeri) Populations Using Genotyping-by-sequencing (GBS)
Cited by: 26
Author(s): Anita Küpper, Harish Manmathan, Darci A. Giacomini, Eric Patterson, William B. McCloskey, Todd A. Gaines
Software Mentions: 7
Published: almost 7 years ago

10.1111/eva.13035

Demographic history and genomics of local adaptation in blue tit populations
Cited by: 8
Author(s): Charles Perrier, Quentin Rougemont, Anne Charmantier
Software Mentions: 7
Published: over 4 years ago

10.1111/eva.12922

Resolving fine‐scale population structure and fishery exploitation using sequenced microsatellites in a northern fish
Cited by: 30
Author(s): Kara K S Layton, Brian Dempson, Paul V. R. Snelgrove, Steven J. Duffy, Amber Messmer, Ian G. Paterson, Nicholas W. Jeffery, Tony Kess, John B. Horne, Sarah J. Salisbury, Daniel E. Ruzzante, Paul Bentzen, David Côté, Cameron M. Nugent, Moira M. Ferguson, Jong S. Leong, Ben F. Koop, Ian Bradbury
Software Mentions: 7
Published: almost 5 years ago

10.3390/genes11060599

Genome-Wide Diversity, Population Structure and Demographic History of Dromedaries in the Central Desert of Iran
Cited by: 5
Author(s): Morteza Bitaraf Sani, Javad Zare Harofte, Ahmad Bitaraf, Saeid Esmaeilkhanian, Mohammad Hossein Banabazi, Nader Salim, Abbas Teimoori, Ali Naderi, Mohammad Ali Faghihi, Pamela A. Burger, Mohammad Silawi, Afsaneh Taghipour Sheshdeh
Software Mentions: 6
Published: over 4 years ago

10.3390/plants8090354

Population Genomic Approaches for Weed Science
Cited by: 14
Author(s): Sara L. Martin, Jean-Sébastien Parent, Martin Laforest, Eric R. Page, Julia M. Kreiner, Tracey James
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pone.0239122

DArTSeq SNP-based markers revealed high genetic diversity and structured population in Ethiopian cowpea [Vigna unguiculata (L.) Walp] germplasms
Cited by: 26
Author(s): Selamawit Ketema, Bizuayehu Tesfaye, Gemechu Keneni, Berhanu Amsalu Fenta, Ermias Assefa, Nicolas Greliche, Eunice Machuka, Nasser Yao
Software Mentions: 6
Published: about 4 years ago

10.1371/journal.pntd.0006698

Population genomics of Culiseta melanura, the principal vector of Eastern equine encephalitis virus in the United States
Cited by: 5
Author(s): John Soghigian, Theodore G. Andreadis, Goudarz Molaei
Software Mentions: 6
Published: over 6 years ago

10.1371/journal.pntd.0008962

Population genomics of Plasmodium vivax in Panama to assess the risk of case importation on malaria elimination
Cited by: 14
Author(s): Lucas E. Buyon, Ana María Santamaría, Angela M. Early, Mario Quijada, Itza Barahona, José Lasso, Mario Ávila, Sarah K. Volkman, Matthias Marti, Daniel E. Neafsey, Nicanor Obaldía
Software Mentions: 6
Published: about 4 years ago

10.1002/ece3.6927

Disjunction between canola distribution and the genetic structure of its recently described pest, the canola flower midge (Contarinia brassicola)
Cited by: 5
Author(s): Erin O. Campbell, Julian R. Dupuis, Jennifer Holowachuk, Shane Hladun, Meghan A. Vankosky, Boyd A. Mori
Software Mentions: 6
Published: about 4 years ago

10.1093/molbev/msab144

Population Structure Limits Parallel Evolution in Sticklebacks
Cited by: 30
Author(s): Bohao Fang, Petri Kemppainen, Paolo Momigliano, Juha Merilä
Software Mentions: 5
Published: over 3 years ago

10.3390/ani10112013

Genomic Characterization of the Istrian Shorthaired Hound
Cited by: 2
Author(s): Ivona Djurkin Kušec, Ivica Bošković, Minja Zorc, Kristina Gvozdanović, Dubravko Škorput, Peter Dovč, Goran Kušec
Software Mentions: 5
Published: about 4 years ago

10.1111/eva.12905

Divergent northern and southern populations and demographic history of the pearl oyster in the western Pacific revealed with genomic SNPs
Cited by: 21
Author(s): Takeshi Takeuchi, Tetsuji Masaoka, Hideo Aoki, Ryo Koyanagi, Manabu Fujie, Noriyuki Satoh
Software Mentions: 5
Published: almost 5 years ago

10.1111/eva.12875

Weak genetic structure despite strong genomic signal in lesser sandeel in the North Sea
Cited by: 16
Author(s): Belén Jiménez‐Mena, Alan Le Moan, Asbjørn Christensen, Mikael van Deurs, Henrik Mosegaard, Jakob Hemmer‐Hansen, Dorte Bekkevold
Software Mentions: 5
Published: about 5 years ago

10.7554/eLife.51243

Global genome diversity of the Leishmania donovani complex
Cited by: 77
Author(s): Susanne U. Franssen, Caroline Durrant, Olivia Stark, Bettina A. Moser, Tim Downing, Hideo Imamura, Jean Claude Dujardin, Mandy Sanders, Isabel Maurício, Michael A. Miles, Lionel F. Schnur, Charles L. Jaffe, Abedelmajeed Nasereddin, Henk D. F. H. Schallig, Matthew Yeo, Tapan Bhattacharyya, Mohammad Zahangir Alam, Matthew Berriman, Thierry Wirth, Gabriele Schönian, James A. Cotton
Software Mentions: 5
Published: almost 5 years ago

10.1038/s41598-020-58398-5

Phylogenomic Perspective on a Unique Mycobacterium bovis Clade Dominating Bovine Tuberculosis Infections among Cattle and Buffalos in Northern Brazil
Cited by: 8
Author(s): Marília Lima da Conceição, Emilyn Costa Conceição, Ismari Perini Furlaneto, Sandro Patroca da Silva, Arthur Emil dos Santos Guimarães, Pedro Gomes, María Laura Boschiroli, Lorraine Michelet, Thomas A. Kohl, Katharina Kranzer, Loreno da Costa Francez, Luana Nepomuceno Gondim Costa Lima, Isabel Portugal, João Perdigão, Karla Valéria Batista Lima
Software Mentions: 4
Published: almost 5 years ago

10.1111/eva.13079

Host plants and Wolbachia shape the population genetics of sympatric herbivore populations
Cited by: 11
Author(s): Zhen F. Fu, Amanda R. Meier, Brendan Epstein, Alan O. Bergland, Carmen I. Castillo Carrillo, William C. Cooper, Regina K. Cruzado, David Horton, Andrew S. Jensen, Joanna L. Kelley, Arash Rashed, Stuart R. Reitz, Silvia I. Rondon, Jenita Thinakaran, Erik J. Wenninger, Carrie H. Wohleb, David W. Crowder, William E. Snyder
Software Mentions: 4
Published: over 4 years ago

10.1534/g3.120.401053

Mutations in a Novel Cadherin Gene Associated with Bt Resistance in Helicoverpa zea
Cited by: 14
Author(s): Megan L. Fritz, Schyler O. Nunziata, Ruifeng Guo, Bruce E. Tabashnik, Yves Carrière
Software Mentions: 4
Published: over 4 years ago

10.1111/pbi.12835

Genotyping-by-sequencing through transcriptomics: implementation in a range of crop species with varying reproductive habits and ploidy levels
Cited by: 27
Author(s): M. Michelle Malmberg, Luke W. Pembleton, Rebecca C. Baillie, Michelle C. Drayton, Shimna Sudheesh, Sukhjiwan Kaur, Hiroshi Shinozuka, Preeti Verma, Germán Spangenberg, Hans D. Daetwyler, John W. Forster, Noel O. I. Cogan
Software Mentions: 4
Published: about 7 years ago

10.3390/genes12030332

Application of Genomics to Understand Salt Tolerance in Lentil
Cited by: 7
Author(s): D. R. R. P. Dissanayake, Noel O. I. Cogan, K. F. Smith, Sukhjiwan Kaur
Software Mentions: 4
Published: almost 4 years ago

10.1038/s41437-021-00455-4

Genomic methods reveal independent demographic histories despite strong morphological conservatism in fish species
Cited by: 2
Author(s): Jessika M. M. Neves, Zachary J Nolen, Nídia Noemi Fabré, Tamí Mott, Ricardo José Garcia Pereira
Software Mentions: 4
Published: over 3 years ago

10.1186/s12863-017-0553-z

Whole genome population genetics analysis of Sudanese goats identifies regions harboring genes associated with major traits
Cited by: 24
Author(s): Siham A. Rahmatalla, Danny Arends, Monika Reißmann, Ammar Said Ahmed, Klaus Wimmers, Henry Reyer, Gudrun A. Brockmann
Software Mentions: 4
Published: about 7 years ago

10.1038/s41598-021-87284-x

Genetic diversity and population structure of advanced clones selected over forty years by a potato breeding program in the USA
Cited by: 30
Author(s): Jeewan Pandey, Douglas C. Scheuring, Jeffrey W. Koym, Joseph Coombs, Richard G. Novy, Asunta L. Thompson, David G. Holm, David S. Douches, J. Creighton Miller, M. I. Vales
Software Mentions: 3
Published: over 3 years ago

10.1111/eva.12874

Genetic evidence of a northward range expansion in the eastern Bering Sea stock of Pacific cod
Cited by: 51
Author(s): Ingrid Spies, Kristen Gruenthal, Daniel P. Drinan, Anne B. Hollowed, Duane E. Stevenson, Carolyn Tarpey, Lorenz Hauser
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pone.0205862

Translocation, genetic structure and homing ability confirm geographic barriers disrupt saltwater crocodile movement and dispersal
Cited by: 17
Author(s): Yusuke Fukuda, Grahame J. W. Webb, Charlie Manolis, Garry Lindner, Sam C. Banks
Software Mentions: 3
Published: over 5 years ago

10.1111/eva.13199

The genomic signal of local environmental adaptation in Aedes aegypti mosquitoes
Cited by: 15
Author(s): Kelly L. Bennett, W. Owen McMillan, José R. Loaiza
Software Mentions: 3
Published: almost 4 years ago

10.1371/journal.pone.0207936

Gene expression is implicated in the ability of pikas to occupy Himalayan elevational gradient
Cited by: 9
Author(s): Katherine A. Solari, Uma Ramakrishnan, Elizabeth A. Hadly
Software Mentions: 3
Published: about 6 years ago

10.1186/s12864-020-07084-x

Fine-scale population structure and evidence for local adaptation in Australian giant black tiger shrimp (Penaeus monodon) using SNP analysis
Cited by: 12
Author(s): Nga Thi Thu Vu, Kyall R. Zenger, Jarrod L. Guppy, Melony J. Sellars, Catarina N. S. Silva, Shannon R. Kjeldsen, Dean R. Jerry
Software Mentions: 3
Published: about 4 years ago

10.3389/fpls.2019.00670

Validation of Genotyping by Sequencing Using Transcriptomics for Diversity and Application of Genomic Selection in Tetraploid Potato
Cited by: 30
Author(s): Brittney M. Caruana, Luke W. Pembleton, Fiona Constable, Brendan Rodoni, Anthony T. Slater, Noel O. I. Cogan
Software Mentions: 3
Published: over 5 years ago

10.3390/genes12091327

Genome-Wide SNPs Detect Hybridisation of Marsupial Gliders (Petaurus breviceps breviceps × Petaurus norfolcensis) in the Wild
Cited by: 7
Author(s): Monica Knipler, Mark Dowton, Katarina M. Mikac
Software Mentions: 3
Published: over 3 years ago

10.1186/s12864-020-06928-w

Genome-wide association study identifies favorable SNP alleles and candidate genes for frost tolerance in pea
Cited by: 21
Author(s): Sana Beji, Véronique Fontaine, Rosemonde Devaux, Martine Thomas, Sandra Negro, Nasser Bahrman, Mathieu Siol, Grégoire Aubert, Judith Burstin, Jean‐Louis Hilbert, Bruno Delbreil, Isabelle Lejeune‐Hénaut
Software Mentions: 3
Published: over 4 years ago

10.1002/ece3.5468

Population genomic structure of the gelatinous zooplankton species Mnemiopsis leidyi in its nonindigenous range in the North Sea
Cited by: 2
Author(s): Christophe Verwimp, Lies Vansteenbrugge, Sofie Derycke, Thomas Kerkhove, Hilde Muylle, Olivier Honnay, Tom Ruttink, Isabel Roldán‐Ruiz, Kris Hostens
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pntd.0007930

Genetic diversity of laboratory strains and implications for research: The case of Aedes aegypti
Cited by: 31
Author(s): Andrea Gloria‐Soria, John Soghigian, David Kellner, Jeffrey R. Powell
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pgen.1008777

An Out-of-Patagonia migration explains the worldwide diversity and distribution of Saccharomyces eubayanus lineages
Cited by: 26
Author(s): Roberto F. Nespolo, Carlos A. Villarroel, Christian I. Oporto, Sebastián M. Tapia, Franco Vega-Macaya, Kamila Urbina, Matteo De Chiara, Simone Mozzachiodi, Ekaterina Mikhalev, Dawn Thompson, Luis F. Larrondo, Pablo Saenz‐Agudelo, Gianni Liti, Francisco A. Cubillos
Software Mentions: 3
Published: over 4 years ago

10.1098/rsos.190233

Taxonomy and conservation of grassland earless dragons: new species and an assessment of the first possible extinction of a reptile on mainland Australia
Cited by: 11
Author(s): Jane Melville, Kirilee Chaplin, Mark N. Hutchinson, Joanna Sumner, Bernd Gruber, Anna J. MacDonald, Stephen D. Sarre
Software Mentions: 3
Published: over 5 years ago

10.3897/zookeys.1024.60473

A new species of leaf-toed gecko (Phyllodactylidae, Phyllodactylus) from María Cleofas Island, Nayarit, Mexico
Cited by: 4
Author(s): Tonatiuh Ramírez‐Reyes, Ilse K. Barraza-Soltero, Jose Rafael Nolasco-Luna, Oscar Flores‐Villela, Armando H. Escobedo‐Galván
Software Mentions: 3
Published: almost 4 years ago

10.1371/journal.pone.0249825

Uncovering phylogenetic relationships and genetic diversity of water dropwort using phenotypic traits and SNP markers
Cited by: 3
Author(s): Qun Ji, Haishan Zhu, Xinfang Huang, Kai Zhou, Zhengwei Liu, Yalin Sun, Zhixin Wang, Weidong Ke
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pone.0188676

Genome-wide analysis of the diversity and ancestry of Korean dogs
Cited by: 10
Author(s): Bong Hwan Choi, Hasini I. Wijayananda, Soo Hyun Lee, Doo-Ho Lee, Jong Seok Kim, Seok Il Oh, Eung Woo Park, Cheul Koo Lee, Seung Hwan Lee
Software Mentions: 2
Published: about 7 years ago

10.1371/journal.pone.0248787

Genetic analysis of a potato (Solanum tuberosum L.) breeding collection for southern Colombia using Single Nucleotide Polymorphism (SNP) markers
Cited by: 8
Author(s): Jhon A. Berdugo-Cely, Carolina Martínez-Moncayo, Túlio César Lagos Burbano
Software Mentions: 2
Published: almost 4 years ago

10.1111/eva.13214

Characterizing the demographic history and prion protein variation to infer susceptibility to chronic wasting disease in a naïve population of white‐tailed deer (Odocoileus virginianus)
Cited by: 6
Author(s): Sarah E Haworth, Larissa A. Nituch, Joseph M. Northrup, Aaron B. A. Shafer
Software Mentions: 2
Published: over 3 years ago

10.3389/fgene.2020.00546

Characterization of Genetic and Allelic Diversity Amongst Cultivated and Wild Lentil Accessions for Germplasm Enhancement
Cited by: 19
Author(s): D. R. R. P. Dissanayake, Shivraj Braich, Noel O. I. Cogan, K. F. Smith, Sukhjiwan Kaur
Software Mentions: 2
Published: over 4 years ago

10.1186/s12863-016-0416-z

Local and global patterns of admixture and population structure in Iranian native cattle
Cited by: 18
Author(s): Karim Karimi, Eva Strucken, Nasir Moghaddar, Mohammad Ferdosi, Ali Esmailizadeh, Cedric Gondro
Software Mentions: 2
Published: over 8 years ago

10.3390/genes12020258

Population Genomics of American Mink Using Whole Genome Sequencing Data
Cited by: 6
Author(s): Karim Karimi, Duy Ngoc, Mehdi Sargolzaei, Younes Miar
Software Mentions: 2
Published: almost 4 years ago

10.1038/s41598-017-04228-0

Multiple origins and a narrow genepool characterise the African tea germplasm: concordant patterns revealed by nuclear and plastid DNA markers
Cited by: 19
Author(s): Moses C. Wambulwa, M. K. Meegahakumbura, S. M. Kamunya, Alice Muchugi, Michael Möller, Jie Liu, Jianchu Xu, Li D, Lian‐Ming Gao
Software Mentions: 2
Published: over 7 years ago

10.1186/s12862-015-0563-2

Towards breed formation by island model divergence in Korean cattle
Cited by: 11
Author(s): Eva Strucken, Seung H. Lee, Gul Won Jang, Laércio R. Porto-Neto, Cedric Gondro
Software Mentions: 1
Published: about 9 years ago

10.1038/s41438-020-0281-9

Whole genome re-sequencing of sweet cherry (Prunus avium L.) yields insights into genomic diversity of a fruit species
Cited by: 24
Author(s): Aliki Xanthopoulou, Maria Manioudaki, Christos Bazakos, Christos Kissoudis, Anna‐Maria Farsakoglou, Evangelos Karagiannis, Michail Michailidis, Chrysanthi Polychroniadou, Antonios Zambounis, Konstantinos Kazantzis, Athanasios Tsaftaris, Panagiotis Madesis, Filippos Aravanopoulos, Athanassios Molassiotis, Ioannis Ganopoulos
Software Mentions: 1
Published: over 4 years ago

10.1111/pbi.12635

Characterization of a Wheat Breeders’ Array suitable for high‐throughput SNP genotyping of global accessions of hexaploid bread wheat (Triticum aestivum)
Cited by: 247
Author(s): Alexandra M. Allen, Mark Winfield, Amanda Burridge, Rowena Downie, Harriet L Benbow, Gary Barker, Paul Wilkinson, Jane A. Coghill, Christy Waterfall, Alessandro Davassi, Geoff Scopes, Ali Pirani, Teresa A. Webster, Fiona Brew, Claire Bloor, Simon Griffiths, Alison R. Bentley, Mark Alda, Peter Jack, Andrew L. Phillips, Keith J. Edwards
Software Mentions: 1
Published: about 8 years ago

10.1371/journal.pone.0241038

An insight into the evolutionary history of Indonesian cattle assessed by whole genome data analysis
Cited by: 6
Author(s): Pita Sudrajad, Subiharta Subiharta, Yudi Adinata, Af’idatul Lathifah, Jun Heon Lee, Johannes A. Lenstra, Seung Hwan Lee
Software Mentions: 1
Published: about 4 years ago

10.1002/ece3.5618

Population genetic structure, migration, and polyploidy origin of a medicinal speciesGynostemma pentaphyllum(Cucurbitaceae)
Cited by: 18
Author(s): Xiao Zhang, Hui Su, Jia Yang, Li Feng, Zhong-Hu Li, Guifang Zhao
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pone.0173039

Genetic diversity and association mapping in the Colombian Central Collection of Solanum tuberosum L. Andigenum group using SNPs markers
Cited by: 51
Author(s): Jhon A. Berdugo-Cely, Raúl Iván Valbuena, Erika Sánchez-Betancourt, Luz Stella Barrero, Roxana Yockteng
Software Mentions: 1
Published: almost 8 years ago

10.1371/journal.pone.0247787

Clustering patterns mirror the geographical distribution and genetic history of Lemnos and Lesvos sheep populations
Cited by: 4
Author(s): A. Kominakis, Eirini Tarsani, Ariadne L. Hager-Theodorides, Ioannis Mastranestasis, I. Hadjigeorgiou
Software Mentions: 1
Published: almost 4 years ago

10.3389/fpls.2018.00508

Diversity and Genome Analysis of Australian and Global Oilseed Brassica napus L. Germplasm Using Transcriptomics and Whole Genome Re-sequencing
Cited by: 26
Author(s): M. Michelle Malmberg, Fan Shi, Germán Spangenberg, Hans D. Daetwyler, Noel O. I. Cogan
Software Mentions: 1
Published: over 6 years ago

Projects: cran: StAMPP

Papers Mentioning StAMPP 58