Publications of FC Jones

Venu, V.; Harjunmaa, E.; Dreau, A.; Brady, S.; Absher, D.; Kingsley, D.; Jones, F.: Fine-scale contemporary recombination variation and its fitness consequences in adaptively diverging stickleback fish. Nature Ecology & Evolution 8 (7), pp. 1337 - 1352 (2024)

Dean, L.; Whiting, J.; Jones, F.; Maccoll, A.: Reproductive isolation in a three-way contact zone. Molecular Ecology 33 (5), e17275 (2024)

Laine, J.; Mak, S.; Martins, N.; Chen, X.; Gilbert, M.; Jones, F.; Winther Pedersen, M.; Romundset, A.; Foote, A.: Late Pleistocene stickleback environmental genomes reveal the chronology of freshwater adaptation. Current Biology 34 (5), pp. 1142 - 1147 (2024)

Čapek, D.; Safroshkin, M.; Morales-Navarrete, H.; Toulany, N.; Arutyunov, G.; Kurzbach, A.; Bihler, J.; Hagauer, J.; Kick, S.; Jones, F. et al.; Jordan, B.; Müller, P.: EmbryoNet: using deep learning to link embryonic phenotypes to signaling pathways. Nature Methods 20 (6), pp. 815 - 823 (2023)

Marques, D.; Jones, F.; Di Palma, F.; Kingsley, D.; Reimchen, T.: Genomic changes underlying repeated niche shifts in an adaptive radiation. Evolution: international journal of organic evolution 76 (6), pp. 1301 - 1319 (2022)

Roberts Kingman, G.; Vyas, D.; Jones, F.; Brady, S.; Chen, H.; Reid, K.; Milhaven, M.; Bertino , T.; Aguirre, W.; Heins, D. et al.; von Hippel, F.; Kirch, M.; Absher, D.; Myers, R.; Di Palma, F.; Bell, M.; Kingsley, D.; Veeramah, K.: Predicting future from past: The genomic basis of recurrent and rapid stickleback evolution. Science Advances 7 (25), eabg5285 (2021)

Kirch, M.; Romundset, A.; Gilbert, M.; Jones, F.; Foote, A.: Ancient and modern stickleback genomes reveal the demographic constraints on adaptation. Current Biology 31 (9), pp. 2027 - 2036 (2021)

Roberts Kingman, G.; Lee, D.; Jones, F.; Desmet, D.; Bell, M.; Kingsley, D.: Longer or shorter spines: Reciprocal trait evolution in stickleback via triallelic regulatory changes in Stanniocalcin2a. Proceedings of the National Academy of Sciences of the United States of America 118 (31), e2100694118 (2021)

Schluter, D.; Marchinko, K.; Arnegard, M.; Zhang, H.; Brady, S.; Jones, F.; Bell, M.; Kingsley, D.: Fitness maps to a large-effect locus in introduced stickleback populations. Proceedings of the National Academy of Sciences of the United States of America 118 (3), e1914889118 (2021)

Verta, J.-P.; Jones, F.: mRNA Extraction from Gill Tissue for RNA-sequencing. Bio-protocol 10 (5), e3539 (2020)

Dréau, A.; Venu, V.; Avdievich, E.; Gaspar, L.; Jones, F.: Genome-wide recombination map construction from single individuals using linked-read sequencing. Nature Communications 10 (1), 4309 (2019)

Verta, J.-P.; Jones, F.: Predominance of cis-regulatory changes in parallel expression divergence of sticklebacks. eLife 8, e43785 (2019)

Marques, D.; Jones, F.; Di Palma, F.; Kingsley, D.; Reimchen, T.: Experimental evidence for rapid genomic adaptation to a new niche in an adaptive radiation. Nature Ecology & Evolution 2 (7), pp. 1128 - 1138 (2018)

Lowe, C.; Sanchez-Luege, N.; Howes, T.; Brady, S.; Daugherty, R.; Jones, F.; Bell, M.; Kingsley, D.: Corrigendum: Detecting differential copy number variation between groups of samples. Genome Research 28 (5), p. 766 (2018)

Lowe, C.; Sanchez-Luege, N.; Howes, T.; Brady, S.; Daugherty, R.; Jones, F.; Bell, M.; Kingsley, D.: Detecting differential copy number variation between groups of samples. Genome Research 28 (2), pp. 256 - 265 (2018)

Bay, R.; Arnegard, M.; Conte, G.; Best, J.; Bedford, N.; McCann, S.; Dubin, M.; Chan, Y.; Jones, F.; Kingsley, D. et al.; Schluter, D.; Peichel, C.: Genetic coupling of female mate choice with polygenic ecological divergence facilitates stickleback speciation. Current Biology 27 (21), pp. 3344 - 3349 (2017)

Marques, D.; Taylor, J.; Jones, F.; Di Palma, F.; Kingsley, D.; Reimchen, T.: Convergent evolution of SWS2 opsin facilitates adaptive radiation of threespine stickleback into different light environments. PLoS Biology 15 (4), e2001627 (2017)

Indjeian, V.; Kingman, G.; Jones, F.; Guenther, C.; Grimwood, J.; Schmutz, J.; Myers, R.; Kingsley, D.: Evolving New Skeletal Traits by cis-Regulatory Changes in Bone Morphogenetic Proteins. Cell 164 (1-2), pp. 45 - 56 (2016)

Conte, G.; Arnegard, M.; Best, J.; Chan, Y.; Jones, F.; Kingsley, D.; Schluter, D.; Peichel, C.: Extent of QTL Reuse During Repeated Phenotypic Divergence of Sympatric Threespine Stickleback. Genetics 201 (3), pp. 1189 - 1200 (2015)

O'Brown, N.; Summers, B.; Jones, F.; Brady, S.; Kingsley, D.: A recurrent regulatory change underlying altered expression and Wnt response of the stickleback armor plates gene EDA. eLife 4, e05290 (2015)