Modelling the genomic landscapes of selection and speciation

Project Information

ModelGenomLand

Grant agreement ID: 757648

DOI 10.3030/757648

Project closed

EC signature date 20 September 2017

Start date 1 February 2018

End date 31 July 2024

Funded under

• EXCELLENT SCIENCE - European Research Council (ERC)

Total cost € 1 497 755,00

EU contribution € 1 497 755,00

Coordinated by

THE UNIVERSITY OF EDINBURGH
United Kingdom

Publications

Thesis and dissertations (1)

Laplace transform in population genetics: from theory to efficient algorithms

Author(s): Gertjan Bisschop
Published in: 2022
Publisher: Edinburghj University
DOI: 10.7488/era/2813

Peer reviewed articles (46)

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

Author(s): Konrad Lohse, Dominik R. Laetsch, Roger Vila, null null, null null, null null, null null, null null
Published in: Wellcome Open Research, Issue 6, 2022, Page(s) 294, ISSN 2398-502X
Publisher: F1000
DOI: 10.12688/wellcomeopenres.17289.1

The impact of global selection on local adaptation and reproductive isolation

Author(s): Gertjan Bisschop, Derek Setter, Marina Rafajlović, Stuart J. E. Baird, Konrad Lohse
Published in: Philosophical Transactions of the Royal Society B: Biological Sciences, Issue 375/1806, 2020, Page(s) 20190531, ISSN 0962-8436
Publisher: Royal Society of London
DOI: 10.1098/rstb.2019.0531

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

Author(s): Roger Vila; Alexander Hayward; Konrad Lohse; Charlotte J. Wright
Published in: Wellcome Open Research, 2021, ISSN 2398-502X
Publisher: 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

Author(s): Thomas Decroly, Roger Vila, Konrad Lohse, Alexander Mackintosh
Published in: Molecular Biology and Evolution, Issue 41, 2024, ISSN 0737-4038
Publisher: 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

Author(s): Noora Poikela, Dominik R. Laetsch, Maaria Kankare, Anneli Hoikkala, Konrad Lohse
Published in: Molecular Ecology, 2022, ISSN 0962-1083
Publisher: 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

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

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

Author(s): Konrad Lohse, null null, null null, null null, Roger Vila, null null
Published in: Wellcome Open Research, Issue 8, 2024, Page(s) 72, ISSN 2398-502X
Publisher: F1000
DOI: 10.12688/wellcomeopenres.18772.1

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

Author(s): Roger Vila, Konrad Lohse, Alex Hayward, Dominik R. Laetsch, null null, null null, null null, Niklas Wahlberg, null null
Published in: Wellcome Open Research, Issue 7, 2023, Page(s) 301, ISSN 2398-502X
Publisher: F1000
DOI: 10.12688/wellcomeopenres.18594.1

The genome sequence of the scarce swallowtail, Iphiclides podalirius

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

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

Author(s): Konrad Lohse; Roger Vila; Caitlin Howe
Published in: Wellcome Open Research, 2021, ISSN 2398-502X
Publisher: Wellcome Trust
DOI: 10.12688/wellcomeopenres.18330.1

Graph-based algorithms for Laplace transformed coalescence time distributions

Author(s): Gertjan Bisschop
Published in: PLOS Computational Biology, 2022, ISSN 1553-734X
Publisher: Public Library of Science
DOI: 10.1371/journal.pcbi.1010532

Demographically explicit scans for barriers to gene flow using gIMble

Author(s): Dominik R Laetsch, Gertjan Bisschop, Simon H Martin, Simon Aeschbacher, Derek Setter, Konrad Lohse
Published in: PLOSGenetics, Issue 19(10), 2024, Page(s) e1010999, ISSN 1553-7404
Publisher: Public Library of Science
DOI: 10.1101/2022.10.27.514110

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

Author(s): Konrad Lohse, Alex Hayward, Dominik R. Laetsch, Roger Vila, Kay Lucek, null null, null null, null null, null null
Published in: Wellcome Open Research, Issue 7, 2023, Page(s) 259, ISSN 2398-502X
Publisher: F1000
DOI: 10.12688/wellcomeopenres.18115.1

Efficient ancestry and mutation simulation with msprime 1.0

Author(s): 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
Published in: Genetics, 2021, ISSN 0016-6731
Publisher: Genetics Society of America
DOI: 10.1093/genetics/iyab229

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

Author(s): Konrad Lohse, Roger Vila, Alex Hayward, Dominik R. Laetsch, Eric Toro-Delgado, null null, null null, null null, null null
Published in: Wellcome Open Research, Issue 8, 2024, Page(s) 457, ISSN 2398-502X
Publisher: F1000
DOI: 10.12688/wellcomeopenres.19762.1

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

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

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

Author(s): Sam Ebdon, Konrad Lohse, null null, null null, null null, Alexandra Jansen Van Rensburg, null null
Published in: Wellcome Open Research, Issue 7, 2023, Page(s) 314, ISSN 2398-502X
Publisher: F1000
DOI: 10.12688/wellcomeopenres.18664.1

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

Author(s): Konrad Lohse; Alexander Mackintosh
Published in: Wellcome Open Research, 2021, ISSN 2398-502X
Publisher: Wellcome Trust
DOI: 10.12688/wellcomeopenres.17274.1

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

Author(s): Sam Ebdon, Alex Mackintosh, Alex Hayward, Karl Wotton, null null, null null, null null, null null, null null
Published in: Wellcome Open Research, Issue 6, 2022, Page(s) 284, ISSN 2398-502X
Publisher: F1000
DOI: 10.12688/wellcomeopenres.17292.1

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

Author(s): Sam Ebdon; Konrad Lohse; Roger Vila; Jonathan Threlfall
Published in: Wellcome Open Research, 2021, ISSN 2398-502X
Publisher: Wellcome Trust
DOI: 10.12688/wellcomeopenres.17288.1

Chromosome Fissions and Fusions Act as Barriers to Gene Flow between<i>Brenthis</i>Fritillary Butterflies

Author(s): Alexander Mackintosh, Roger Vila, Dominik R Laetsch, Alex Hayward, Simon H Martin, Konrad Lohse
Published in: Molecular Biology and Evolution, Issue 40, 2023, ISSN 0737-4038
Publisher: Oxford University Press
DOI: 10.1093/molbev/msad043

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

Author(s): Sam Ebdon, Gertjan Bisschop, Konrad Lohse, Ilik Saccheri, James Davies, null null, null null, null null, null null
Published in: Wellcome Open Research, Issue 7, 2022, Page(s) 260, ISSN 2398-502X
Publisher: F1000
DOI: 10.12688/wellcomeopenres.18117.1

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

Author(s): Konrad Lohse, Roger Vila, Alex Hayward, Dominik R Laetsch, null null, null null, null null, Niklas Wahlberg, null null
Published in: Wellcome Open Research, Issue 7, 2023, Page(s) 298, ISSN 2398-502X
Publisher: F1000
DOI: 10.12688/wellcomeopenres.18569.1

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

Author(s): Konrad Lohse; Roger Vila; Jonathan Threlfall; Dominik Laetsch
Published in: Wellcome Open Research, 2022, ISSN 2398-502X
Publisher: Wellcome Trust
DOI: 10.12688/wellcomeopenres.17807.1

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

Author(s): Alex Hayward, Konrad Lohse, Dominik R. Laetsch, Roger Vila, null null, null null, null null, Emma Taluy, null null
Published in: Wellcome Open Research, Issue 7, 2023, Page(s) 315, ISSN 2398-502X
Publisher: F1000
DOI: 10.12688/wellcomeopenres.18607.1

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

Author(s): Konrad Lohse; Alexander Hayward; Sam Ebdon
Published in: Wellcome Open Research, 2021, ISSN 2398-502X
Publisher: Wellcome Trust
DOI: 10.12688/wellcomeopenres.17277.1

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

Author(s): Simon H. Martin, Konrad Lohse, Sam Ebdon, Alex Mackintosh, null null, null null, null null, null null, null null
Published in: Wellcome Open Research, Issue 9, 2024, Page(s) 267, ISSN 2398-502X
Publisher: F1000
DOI: 10.12688/wellcomeopenres.21586.1

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

Author(s): Oskar Lohse, Konrad Lohse, null null, null null, null null, Hannah Augustijnen, Kay Lucek, null null
Published in: Wellcome Open Research, Issue 7, 2022, Page(s) 217, ISSN 2398-502X
Publisher: F1000
DOI: 10.12688/wellcomeopenres.17927.1

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

Author(s): Konrad Lohse; Charlotte Wright
Published in: Wellcome Open Research, 2022, ISSN 2398-502X
Publisher: Wellcome Trust
DOI: 10.12688/wellcomeopenres.18106.1

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

Author(s): Konrad Lohse; Jonathan Threlfall; Evelyn Taylor-Cox
Published in: Wellcome Open Research, 2021, ISSN 2398-502X
Publisher: Wellcome Trust
DOI: 10.12688/wellcomeopenres.17278.1

Toward the integration of speciation research

Author(s): 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
Published in: Evolutionary Journal of the Linnean Society, Issue 3, 2024, ISSN 2752-938X
Publisher: The Linnean Society
DOI: 10.1093/evolinnean/kzae001

Chromosomal inversions and the demography of speciation in<i>Drosophila montana</i>and<i>Drosophila flavomontana</i>

Author(s): N. Poikela, D. R. Laetsch, V. Hoikkala, K. Lohse, M Kankare
Published in: Genome Biology and Evolution, Issue 16(3), 2024, Page(s) evae024, ISSN 1759-6653
Publisher: Oxford University Press
DOI: 10.1101/2022.11.15.516589

The determinants of genetic diversity in butterflies

Author(s): Alexander Mackintosh, Dominik R. Laetsch, Alexander Hayward, Brian Charlesworth, Martin Waterfall, Roger Vila, Konrad Lohse
Published in: Nature Communications, Issue 10/1, 2019, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-019-11308-4

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

Author(s): 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
Published in: Wellcome Open Research, Issue 8, 2024, Page(s) 369, ISSN 2398-502X
Publisher: F1000
DOI: 10.12688/wellcomeopenres.19573.1

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

Author(s): Konrad Lohse, Jamie Weir, null null, null null, null null, null null, null null
Published in: Wellcome Open Research, Issue 6, 2023, Page(s) 296, ISSN 2398-502X
Publisher: F1000
DOI: 10.12688/wellcomeopenres.17304.1

Sweeps in time: leveraging the joint distribution of branch lengths

Author(s): Bisschop, Gertjan; Lohse, Konrad; Setter, Derek
Published in: Genetics, 2021, ISSN 0016-6731
Publisher: Genetics Society of America
DOI: 10.1093/genetics/iyab119

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

Author(s): Konrad Lohse; Roger Vila; Jonathan Threlfall; Dominik Laetsch
Published in: Wellcome Open Research, 2021, ISSN 2398-502X
Publisher: Wellcome Trust
DOI: 10.12688/wellcomeopenres.17196.1

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

Author(s): Konrad Lohse, Alex Hayward, Dominik R. Laetsch, Roger Vila, null null, null null, null null, Tarunkishwor Yumnam, null null
Published in: Wellcome Open Research, Issue 7, 2022, Page(s) 261, ISSN 2398-502X
Publisher: F1000
DOI: 10.12688/wellcomeopenres.18119.1

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

Author(s): Alexander Hayward; Roger Vila; Dominik R. Laetsch; Konrad Lohse; Tobias Baril
Published in: Wellcome Open Research, 2021, ISSN 2398-502X
Publisher: Wellcome Trust
DOI: 10.12688/wellcomeopenres.17280.1

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

Author(s): Konrad Lohse, Aurora García-Berro, Gerard Talavera, null null, null null, null null, null null, null null
Published in: Wellcome Open Research, Issue 6, 2023, Page(s) 356, ISSN 2398-502X
Publisher: F1000
DOI: 10.12688/wellcomeopenres.17524.1

Demes: a standard format for demographic models

Author(s): Graham Gower, Aaron P. Ragsdale, Gertjan Bisschop, Ryan N. Gutenkunst, Matthew Hartfield, Ekaterina Noskova, Stephan Schiffels, Travis J. Struck, Jerome Kelleher, Kevin R. Thornton
Published in: Genetics, Issue 222(3):, 2023, Page(s) iyac131, ISSN 0016-6731
Publisher: Genetics Society of America
DOI: 10.1101/2022.05.31.494112

Do chromosome rearrangements fix by genetic drift or natural selection? Insights from <i>Brenthis</i> butterflies

Author(s): Alexander Mackintosh, Roger Vila, Simon H. Martin, Derek Setter, Konrad Lohse
Published in: Molecular Ecology, 2023, ISSN 0962-1083
Publisher: Blackwell Publishing Inc.
DOI: 10.1111/mec.17146

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

Author(s): Jonathan Threlfall; Konrad Lohse; Sam Ebdon; Rebecca Whitla; Saad Arif
Published in: Wellcome Open Research, 2022, ISSN 2398-502X
Publisher: Wellcome Trust
DOI: 10.12688/wellcomeopenres.17709.1

Estimating the rates of crossover and gene conversion from individual genomes

Author(s): Derek Setter, Sam Ebdon, Ben Jackson, Konrad Lohse
Published in: Genetics, 2022, ISSN 0016-6731
Publisher: Genetics Society of America
DOI: 10.1093/genetics/iyac100

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

Author(s): Konrad Lohse; Roger Vila; Jonathan Threlfall; Dominik Laetsch
Published in: Wellcome Open Research, 2022, ISSN 2398-502X
Publisher: Wellcome Trust
DOI: 10.12688/wellcomeopenres.17806.1

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

Author(s): Gertjan Bishop; Sam Ebdon; Konrad Lohse; Roger Vila
Published in: Wellcome Open Research, 2021, ISSN 2398-502X
Publisher: Wellcome Trust
DOI: 10.12688/wellcomeopenres.17197.1

Other (2)

Genomic analyses in<i>Drosophila</i>do not support the classic allopatric model of speciation

Author(s): Leeban H. Yusuf, Dominik R. Laetsch, Konrad Lohse, Michael G. Ritchie
Published in: biorxiv, 2024
Publisher: 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

Author(s): Sam Ebdon, Dominik R. Laetsch, Roger Vila, Stuart J.E. Baird, Konrad Lohse
Published in: bioarxiv, 2024
Publisher: Cold Spring Harbor Laboratory
DOI: 10.1101/2024.06.03.597101

Book chapters (1)

Coalescent Simulation with msprime

Author(s): Jerome Kelleher, Konrad Lohse
Published in: Statistical Population Genomics, Issue 2090, 2020, Page(s) 191-230, ISBN 978-1-0716-0198-3
Publisher: Springer US
DOI: 10.1007/978-1-0716-0199-0_9