Modelling the genomic landscapes of selection and speciation

Laplace transform in population genetics: from theory to efficient algorithms

Autori: Gertjan Bisschop
Pubblicato in: 2022
Editore: Edinburghj University
DOI: 10.7488/era/2813

The genome sequence of the small copper, Lycaena phlaeas (Linnaeus, 1760)

Autori: Konrad Lohse, Dominik R. Laetsch, Roger Vila, null null, null null, null null, null null, null null
Pubblicato in: Wellcome Open Research, Numero 6, 2022, Pagina/e 294, ISSN 2398-502X
Editore: F1000
DOI: 10.12688/wellcomeopenres.17289.1

The impact of global selection on local adaptation and reproductive isolation

Autori: Gertjan Bisschop, Derek Setter, Marina Rafajlović, Stuart J. E. Baird, Konrad Lohse
Pubblicato in: Philosophical Transactions of the Royal Society B: Biological Sciences, Numero 375/1806, 2020, Pagina/e 20190531, ISSN 0962-8436
Editore: Royal Society of London
DOI: 10.1098/rstb.2019.0531

The genome sequence of the Glanville fritillary, Melitaea cinxia (Linnaeus, 1758)

Autori: Roger Vila; Alexander Hayward; Konrad Lohse; Charlotte J. Wright
Pubblicato in: Wellcome Open Research, 2021, ISSN 2398-502X
Editore: Wellcome Trust
DOI: 10.12688/wellcomeopenres.17283.1

Rewinding the Ratchet: Rare Recombination Locally Rescues Neo-W Degeneration and Generates Plateaus of Sex-Chromosome Divergence

Autori: Thomas Decroly, Roger Vila, Konrad Lohse, Alexander Mackintosh
Pubblicato in: Molecular Biology and Evolution, Numero 41, 2024, ISSN 0737-4038
Editore: Oxford University Press
DOI: 10.1093/molbev/msae124

Experimental introgression in Drosophila: Asymmetric postzygotic isolation associated with chromosomal inversions and an incompatibility locus on the X chromosome

Autori: Noora Poikela, Dominik R. Laetsch, Maaria Kankare, Anneli Hoikkala, Konrad Lohse
Pubblicato in: Molecular Ecology, 2022, ISSN 0962-1083
Editore: Blackwell Publishing Inc.
DOI: 10.1111/mec.16803

The genome sequence of the lesser marbled fritillary, Brenthis ino, and evidence for a segregating neo-Z chromosome

Autori: Alexander Mackintosh; Dominik R Laetsch; Tobias Baril; Robert G Foster; Vlad Dincă; Roger Vila; Alexander Hayward; Konrad Lohse
Pubblicato in: G3: Genes | Genomes | Genetics, 2022, ISSN 2160-1836
Editore: Genetics Society of America
DOI: 10.1093/g3journal/jkac069

The genome sequence of the Common Blue, Polyommatus icarus (Rottemburg, 1775)

Autori: Konrad Lohse, null null, null null, null null, Roger Vila, null null
Pubblicato in: Wellcome Open Research, Numero 8, 2024, Pagina/e 72, ISSN 2398-502X
Editore: F1000
DOI: 10.12688/wellcomeopenres.18772.1

The genome sequence of the white admiral, Limenitis camilla (Linnaeus, 1764)

Autori: Roger Vila, Konrad Lohse, Alex Hayward, Dominik R. Laetsch, null null, null null, null null, Niklas Wahlberg, null null
Pubblicato in: Wellcome Open Research, Numero 7, 2023, Pagina/e 301, ISSN 2398-502X
Editore: F1000
DOI: 10.12688/wellcomeopenres.18594.1

The genome sequence of the scarce swallowtail, Iphiclides podalirius

Autori: Alexander Mackintosh, Dominik R Laetsch, Tobias Baril, Sam Ebdon, Paul Jay, Roger Vila, Alex Hayward, Konrad Lohse
Pubblicato in: G3 Genes|Genomes|Genetics, 2022, ISSN 2160-1836
Editore: Genetics Society of America
DOI: 10.1093/g3journal/jkac193

The genome sequence of the Adonis blue, Lysandra bellargus (Rottemburg, 1775)

Autori: Konrad Lohse; Roger Vila; Caitlin Howe
Pubblicato in: Wellcome Open Research, 2021, ISSN 2398-502X
Editore: Wellcome Trust
DOI: 10.12688/wellcomeopenres.18330.1

Graph-based algorithms for Laplace transformed coalescence time distributions

Autori: Gertjan Bisschop
Pubblicato in: PLOS Computational Biology, 2022, ISSN 1553-734X
Editore: Public Library of Science
DOI: 10.1371/journal.pcbi.1010532

Demographically explicit scans for barriers to gene flow using gIMble

Autori: Dominik R Laetsch, Gertjan Bisschop, Simon H Martin, Simon Aeschbacher, Derek Setter, Konrad Lohse
Pubblicato in: PLOSGenetics, Numero 19(10), 2024, Pagina/e e1010999, ISSN 1553-7404
Editore: Public Library of Science
DOI: 10.1101/2022.10.27.514110

The genome sequence of the Arran brown, Erebia ligea (Linnaeus, 1758)

Autori: Konrad Lohse, Alex Hayward, Dominik R. Laetsch, Roger Vila, Kay Lucek, null null, null null, null null, null null
Pubblicato in: Wellcome Open Research, Numero 7, 2023, Pagina/e 259, ISSN 2398-502X
Editore: F1000
DOI: 10.12688/wellcomeopenres.18115.1

Efficient ancestry and mutation simulation with msprime 1.0

Autori: Franz Baumdicker, Gertjan Bisschop, Daniel Goldstein, Graham Gower, Aaron P Ragsdale, Georgia Tsambos, Sha Zhu, Bjarki Eldon, E Castedo Ellerman, Jared G Galloway, Ariella L Gladstein, Gregor Gorjanc, Bing Guo, Ben Jeffery, Warren W Kretzschumar, Konrad Lohse, Michael Matschiner, Dominic Nelson, Nathaniel S Pope, Consuelo D Quinto-Cortés, Murillo F Rodrigues, Kumar Saunack, Thibaut Sellinger, Kev
Pubblicato in: Genetics, 2021, ISSN 0016-6731
Editore: Genetics Society of America
DOI: 10.1093/genetics/iyab229

The genome sequence of the Silver-spotted Skipper, Hesperia comma (Linnaeus, 1758)

Autori: Konrad Lohse, Roger Vila, Alex Hayward, Dominik R. Laetsch, Eric Toro-Delgado, null null, null null, null null, null null
Pubblicato in: Wellcome Open Research, Numero 8, 2024, Pagina/e 457, ISSN 2398-502X
Editore: F1000
DOI: 10.12688/wellcomeopenres.19762.1

The Pleistocene species pump past its prime: Evidence from European butterfly sister species.

Autori: Ebdon, Sam; Laetsch, Dominik R.; Dapporto, Leonardo; Hayward, Alexander; Ritchie, Michael G.; Dincă, Vlad; Vila, Roger; Lohse, Konrad
Pubblicato in: Molecular Ecology, 2020, ISSN 0962-1083
Editore: Blackwell Publishing Inc.
DOI: 10.1111/mec.15981

The genome sequence of the northern brown argus, Aricia artaxerxes (Fabricius, 1793)

Autori: Sam Ebdon, Konrad Lohse, null null, null null, null null, Alexandra Jansen Van Rensburg, null null
Pubblicato in: Wellcome Open Research, Numero 7, 2023, Pagina/e 314, ISSN 2398-502X
Editore: F1000
DOI: 10.12688/wellcomeopenres.18664.1

The genome sequence of the large white, Pieris brassicae (Linnaeus, 1758)

Autori: Konrad Lohse; Alexander Mackintosh
Pubblicato in: Wellcome Open Research, 2021, ISSN 2398-502X
Editore: Wellcome Trust
DOI: 10.12688/wellcomeopenres.17274.1

The genome sequence of the clouded yellow, Colias crocea (Geoffroy, 1785)

Autori: Sam Ebdon, Alex Mackintosh, Alex Hayward, Karl Wotton, null null, null null, null null, null null, null null
Pubblicato in: Wellcome Open Research, Numero 6, 2022, Pagina/e 284, ISSN 2398-502X
Editore: F1000
DOI: 10.12688/wellcomeopenres.17292.1

The genome sequence of the small white, Pieris rapae (Linnaeus, 1758)

Autori: Sam Ebdon; Konrad Lohse; Roger Vila; Jonathan Threlfall
Pubblicato in: Wellcome Open Research, 2021, ISSN 2398-502X
Editore: Wellcome Trust
DOI: 10.12688/wellcomeopenres.17288.1

Chromosome Fissions and Fusions Act as Barriers to Gene Flow betweenBrenthisFritillary Butterflies

Autori: Alexander Mackintosh, Roger Vila, Dominik R Laetsch, Alex Hayward, Simon H Martin, Konrad Lohse
Pubblicato in: Molecular Biology and Evolution, Numero 40, 2023, ISSN 0737-4038
Editore: Oxford University Press
DOI: 10.1093/molbev/msad043

The genome sequence of the orange-tip butterfly, Anthocharis cardamines (Linnaeus, 1758)

Autori: Sam Ebdon, Gertjan Bisschop, Konrad Lohse, Ilik Saccheri, James Davies, null null, null null, null null, null null
Pubblicato in: Wellcome Open Research, Numero 7, 2022, Pagina/e 260, ISSN 2398-502X
Editore: F1000
DOI: 10.12688/wellcomeopenres.18117.1

The genome sequence of the high brown fritillary, Fabriciana adippe (Dennis & Schiffermüller, 1775)

Autori: Konrad Lohse, Roger Vila, Alex Hayward, Dominik R Laetsch, null null, null null, null null, Niklas Wahlberg, null null
Pubblicato in: Wellcome Open Research, Numero 7, 2023, Pagina/e 298, ISSN 2398-502X
Editore: F1000
DOI: 10.12688/wellcomeopenres.18569.1

The genome sequence of the marbled white butterfly, Melanargia galathea (Linnaeus, 1758)

Autori: Konrad Lohse; Roger Vila; Jonathan Threlfall; Dominik Laetsch
Pubblicato in: Wellcome Open Research, 2022, ISSN 2398-502X
Editore: Wellcome Trust
DOI: 10.12688/wellcomeopenres.17807.1

The genome sequence of the silver-studded blue, Plebejus argus (Linnaeus, 1758)

Autori: Alex Hayward, Konrad Lohse, Dominik R. Laetsch, Roger Vila, null null, null null, null null, Emma Taluy, null null
Pubblicato in: Wellcome Open Research, Numero 7, 2023, Pagina/e 315, ISSN 2398-502X
Editore: F1000
DOI: 10.12688/wellcomeopenres.18607.1

The genome sequences of the male and female green-veined white, Pieris napi (Linnaeus, 1758)

Autori: Konrad Lohse; Alexander Hayward; Sam Ebdon
Pubblicato in: Wellcome Open Research, 2021, ISSN 2398-502X
Editore: Wellcome Trust
DOI: 10.12688/wellcomeopenres.17277.1

The genome sequence of the Pearl-bordered Fritillary, Boloria euphrosyne (Linnaeus, 1758)

Autori: Simon H. Martin, Konrad Lohse, Sam Ebdon, Alex Mackintosh, null null, null null, null null, null null, null null
Pubblicato in: Wellcome Open Research, Numero 9, 2024, Pagina/e 267, ISSN 2398-502X
Editore: F1000
DOI: 10.12688/wellcomeopenres.21586.1

The genome sequence of the scotch argus butterfly, Erebia aethiops (Esper, 1777)

Autori: Oskar Lohse, Konrad Lohse, null null, null null, null null, Hannah Augustijnen, Kay Lucek, null null
Pubblicato in: Wellcome Open Research, Numero 7, 2022, Pagina/e 217, ISSN 2398-502X
Editore: F1000
DOI: 10.12688/wellcomeopenres.17927.1

The genome sequence of the wall brown, Lasiommata megera (Linnaeus, 1767)

Autori: Konrad Lohse; Charlotte Wright
Pubblicato in: Wellcome Open Research, 2022, ISSN 2398-502X
Editore: Wellcome Trust
DOI: 10.12688/wellcomeopenres.18106.1

The genome sequence of the speckled wood butterfly, Pararge aegeria (Linnaeus, 1758)

Autori: Konrad Lohse; Jonathan Threlfall; Evelyn Taylor-Cox
Pubblicato in: Wellcome Open Research, 2021, ISSN 2398-502X
Editore: Wellcome Trust
DOI: 10.12688/wellcomeopenres.17278.1

Toward the integration of speciation research

Autori: Sean Stankowski, Asher D Cutter, Ina Satokangas, Brian A Lerch, Jonathan Rolland, Carole M Smadja, J Carolina Segami Marzal, Christopher R Cooney, Philine G D Feulner, Fabricius Maia Chaves Bicalho Domingos, Henry L North, Ryo Yamaguchi, Roger K Butlin, Jochen B W Wolf, Jenn Coughlan, Patrick Heidbreder, Rebeca Hernández-Gutiérrez, Karen B Barnard-Kubow, David Peede, Loïs Rancilhac, Rodrigo Bri
Pubblicato in: Evolutionary Journal of the Linnean Society, Numero 3, 2024, ISSN 2752-938X
Editore: The Linnean Society
DOI: 10.1093/evolinnean/kzae001

Chromosomal inversions and the demography of speciation inDrosophila montanaandDrosophila flavomontana

Autori: N. Poikela, D. R. Laetsch, V. Hoikkala, K. Lohse, M Kankare
Pubblicato in: Genome Biology and Evolution, Numero 16(3), 2024, Pagina/e evae024, ISSN 1759-6653
Editore: Oxford University Press
DOI: 10.1101/2022.11.15.516589

The determinants of genetic diversity in butterflies

Autori: Alexander Mackintosh, Dominik R. Laetsch, Alexander Hayward, Brian Charlesworth, Martin Waterfall, Roger Vila, Konrad Lohse
Pubblicato in: Nature Communications, Numero 10/1, 2019, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/s41467-019-11308-4

The genome sequence of the Arctic Skipper, Carterocephalus palaemon (Pallas, 1771)

Autori: Konrad Lohse, Sam Ebdon, Alex Mackintosh, Simon Martin, Ilik J Saccheri, Nigel A D Bourn, Roger Vila, null null, null null, null null, null null
Pubblicato in: Wellcome Open Research, Numero 8, 2024, Pagina/e 369, ISSN 2398-502X
Editore: F1000
DOI: 10.12688/wellcomeopenres.19573.1

The genome sequence of the meadow brown, Maniola jurtina (Linnaeus, 1758)

Autori: Konrad Lohse, Jamie Weir, null null, null null, null null, null null, null null
Pubblicato in: Wellcome Open Research, Numero 6, 2023, Pagina/e 296, ISSN 2398-502X
Editore: F1000
DOI: 10.12688/wellcomeopenres.17304.1

Sweeps in time: leveraging the joint distribution of branch lengths

Autori: Bisschop, Gertjan; Lohse, Konrad; Setter, Derek
Pubblicato in: Genetics, 2021, ISSN 0016-6731
Editore: Genetics Society of America
DOI: 10.1093/genetics/iyab119

The genome sequence of the large tortoiseshell, Nymphalis polychloros (Linnaeus, 1758)

Autori: Konrad Lohse; Roger Vila; Jonathan Threlfall; Dominik Laetsch
Pubblicato in: Wellcome Open Research, 2021, ISSN 2398-502X
Editore: Wellcome Trust
DOI: 10.12688/wellcomeopenres.17196.1

The genome sequence of the common yellow swallowtail, Papilio machaon (Linnaeus, 1758)

Autori: Konrad Lohse, Alex Hayward, Dominik R. Laetsch, Roger Vila, null null, null null, null null, Tarunkishwor Yumnam, null null
Pubblicato in: Wellcome Open Research, Numero 7, 2022, Pagina/e 261, ISSN 2398-502X
Editore: F1000
DOI: 10.12688/wellcomeopenres.18119.1

The genome sequence of the heath fritillary, Melitaea athalia (Rottemburg, 1775)

Autori: Alexander Hayward; Roger Vila; Dominik R. Laetsch; Konrad Lohse; Tobias Baril
Pubblicato in: Wellcome Open Research, 2021, ISSN 2398-502X
Editore: Wellcome Trust
DOI: 10.12688/wellcomeopenres.17280.1

The genome sequence of the red admiral, Vanessa atalanta (Linnaeus, 1758)

Autori: Konrad Lohse, Aurora García-Berro, Gerard Talavera, null null, null null, null null, null null, null null
Pubblicato in: Wellcome Open Research, Numero 6, 2023, Pagina/e 356, ISSN 2398-502X
Editore: F1000
DOI: 10.12688/wellcomeopenres.17524.1

Demes: a standard format for demographic models

Autori: Graham Gower, Aaron P. Ragsdale, Gertjan Bisschop, Ryan N. Gutenkunst, Matthew Hartfield, Ekaterina Noskova, Stephan Schiffels, Travis J. Struck, Jerome Kelleher, Kevin R. Thornton
Pubblicato in: Genetics, Numero 222(3):, 2023, Pagina/e iyac131, ISSN 0016-6731
Editore: Genetics Society of America
DOI: 10.1101/2022.05.31.494112

Do chromosome rearrangements fix by genetic drift or natural selection? Insights from Brenthis butterflies

Autori: Alexander Mackintosh, Roger Vila, Simon H. Martin, Derek Setter, Konrad Lohse
Pubblicato in: Molecular Ecology, 2023, ISSN 0962-1083
Editore: Blackwell Publishing Inc.
DOI: 10.1111/mec.17146

The genome sequence of the black-veined white butterfly, Aporia crataegi (Linnaeus, 1758)

Autori: Jonathan Threlfall; Konrad Lohse; Sam Ebdon; Rebecca Whitla; Saad Arif
Pubblicato in: Wellcome Open Research, 2022, ISSN 2398-502X
Editore: Wellcome Trust
DOI: 10.12688/wellcomeopenres.17709.1

Estimating the rates of crossover and gene conversion from individual genomes

Autori: Derek Setter, Sam Ebdon, Ben Jackson, Konrad Lohse
Pubblicato in: Genetics, 2022, ISSN 0016-6731
Editore: Genetics Society of America
DOI: 10.1093/genetics/iyac100

The genome sequence of the grizzled skipper, Pyrgus malvae (Linnaeus, 1758)

Autori: Konrad Lohse; Roger Vila; Jonathan Threlfall; Dominik Laetsch
Pubblicato in: Wellcome Open Research, 2022, ISSN 2398-502X
Editore: Wellcome Trust
DOI: 10.12688/wellcomeopenres.17806.1

The genome sequence of the small tortoiseshell butterfly, Aglais urticae (Linnaeus, 1758)

Autori: Gertjan Bishop; Sam Ebdon; Konrad Lohse; Roger Vila
Pubblicato in: Wellcome Open Research, 2021, ISSN 2398-502X
Editore: Wellcome Trust
DOI: 10.12688/wellcomeopenres.17197.1

Genomic analyses inDrosophilado not support the classic allopatric model of speciation

Autori: Leeban H. Yusuf, Dominik R. Laetsch, Konrad Lohse, Michael G. Ritchie
Pubblicato in: biorxiv, 2024
Editore: Cold Spring Harbor Laboratory
DOI: 10.1101/2024.05.20.595063

Genomic regions of current low hybridisation mark long-term barriers to gene flow in scarce swallowtail butterflies

Autori: Sam Ebdon, Dominik R. Laetsch, Roger Vila, Stuart J.E. Baird, Konrad Lohse
Pubblicato in: bioarxiv, 2024
Editore: Cold Spring Harbor Laboratory
DOI: 10.1101/2024.06.03.597101

Coalescent Simulation with msprime

Autori: Jerome Kelleher, Konrad Lohse
Pubblicato in: Statistical Population Genomics, Numero 2090, 2020, Pagina/e 191-230, ISBN 978-1-0716-0198-3
Editore: Springer US
DOI: 10.1007/978-1-0716-0199-0_9

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