2025

Wheatcroft, D., N. Backström, L. Dutoit, S.E. McFarlane, C.F. Mugal, M. Wang, M. Ålund, H. Ellegren, and A. Qvarnström. 2025. Divergence in expression of a singing-related neuroplasticity gene in the brains of two Ficedula flycatchers and their hybrids. G3: Genes, Genomes, Genetics 15(2):jkae293. https://doi.org/10.1093/g3journal/jkae293

Chen, S., and S.E. McFarlane. 2025. Reappraisal of the dilution and amplification effect framework: a case study in Lyme disease. bioRxiv 2025-01. https://doi.org/10.1101/2025.01.13.632839

2024

Ålund, M.,S.E. McFarlane, A. Husby, J. Knape, T. Pärt, P. Sirkiä, F.J. Weissing, D. Wheatcroft, Y. Zhu, and A. Qvarnström. 2024. Inheritance of material wealth in a natural population. Ecology Letters 27(12):e14505.https://doi.org/10.1111/ele.14505

Lowman, H.E., M. DeSiervo, R.O. Hall Jr, J.P. Jahner, S.O. Jimoh, D.C. Laughlin, A.C. Patterson, C. Weiss-Lehman, C.C. Barbosa, K.L. Bell, J.R. Blaszczak, C.A. Buerkle, A.M. Carter, S.M. Collins, V. DeLeo, M. Dunkle, D. Gannon, E.M. Grames, J.G. Harrison, S.E. McFarlane, I. Oleksy, B.F. Powers, C. Ray, A. Stears, B. Summers, C.L. Torrens, M. Trentman, C.M. Werner, and L.G. Shoemaker. 2024. Reply to Hu: Postdoctoral consortia remove barriers to retention and effectively prepare participants for career advancement. Proceedings of the National Academy of Sciences 121(45):e2418956121. https://doi.org/10.1073/pnas.2418956121

Carranza, J., J. Pérez‐González, G. Anaya, M. de Jong, C. Broggini, F.E. Zachos, A.D. McDevitt, M. Niedziałkowska, M. Sykut, S. Csányi, N. Bleier, L. Csirke, K. Røed, C. Saint‐Andrieux, A. Barboiron, A. Gort‐Esteve, J. Ruiz‐Olmo, J.M. Seoane, J.A. Godoy, P. Mackiewicz, E. de la Peña, G. Vedel, S.E. McFarlane, J. Pemberton, and A. Membrillo. 2024. Genome‐wide SNP assessment of contemporary European red deer genetic structure highlights the distinction of peripheral populations and the main admixture zones in Europe. Molecular Ecology 33(18):e17508. https://doi.org/10.1111/mec.17508

Lowman, H.E., M. DeSiervo, R.O. Hall Jr, J.P. Jahner, S.O. Jimoh, D.C. Laughlin, A.C. Patterson, C. Weiss-Lehman, C.C. Barbosa, K.L. Bell, J.R. Blaszczak, C.A. Buerkle, A.M. Carter, S.M. Collins, V. DeLeo, M. Dunkle, D. Gannon, E.M. Grames, J.G. Harrison,S.E. McFarlane, I. Oleksy, B.F. Powers, C. Ray, A. Stears, B. Summers, C.L. Torrens, M. Trentman, C.M. Werner, and L.G. Shoemaker. 2024. Collaborative consortia can boost postdoctoral workforce development. Proceedings of the National Academy of Sciences 121(28):e2401812121. https://doi.org/10.1073/pnas.2401812121

McFarlane, S.E., J.P. Jahner, D. Lindtke, C.A. Buerkle, and E.G. Mandeville. 2024. Selection leads to remarkable variability in the outcomes of hybridisation across replicate hybrid zones. Molecular Ecology 33(11):e17359. https://doi.org/10.1111/mec.17359

Jahner, J.P., C.A. Buerkle, D.G. Gannon, E.M. Grames, S.E. McFarlane, A. Siefert, K.L. Bell, V.L. DeLeo, M.L. Forister, J.G. Harrison, D.C. Laughlin, A.C. Patterson, B.F. Powers, C.M. Werner, and I.A. Oleksy. 2024. Interpretable and predictive models to harness the life science data revolution. bioRxiv 2024-03. https://doi.org/10.1101/2024.03.15.585297

2023
Ålund, M., M. Cenzer, N. Bierne, J.W. Boughman, J. Cerca, M.S. Comerford, A. Culicchi, B. Langerhans, S.E. McFarlane, M.H. Möst, H. North, A. Qvarnström, M. Ravinet, R. Svanbäck, and S.A. Taylor. 2023. Anthropogenic change and the process of speciation. Cold Spring Harbor Perspectives in Biology 15(12):a041455. doi: 10.1101/cshperspect.a041455

McFarlane, S.E. and E.G. Mandeville. 2023. Diverse data sources and new statistical models offer prospects for improving the predictability of anthropogenic hybridization. Global Change Biology 29(4):923–925.DOI: 10.1111/gcb.16527

2022
Pyne, C.B., S.E. McFarlane, and E.G. Mandeville. 2022. Identification of sex-determining loci in hybridizing Catostomus fish species. bioRxiv 2022-05. https://doi.org/10.1101/2022.05.03.490509

2021
McFarlane, S.E. and J.M. Pemberton. 2021. Admixture mapping reveals loci for carcass mass in red deer x sika hybrids in Kintyre, Scotland. G3: Genes| Genomes| Genetics 11(1):https://doi.org/10.1093/g3journal/jkab274

McFarlane, S.E.* , M. Ålund*, P.M. Sirkiä and A. Qvarnström. 2021. Low heritability but significant early environmental effects on resting metabolic rate in a wild passerine. American Naturalist https://doi.org/10.1086/715842
*these authors contributed equally to this manuscript

McFarlane, S.E., H.V. Senn, S.L. Smith and J.M. Pemberton. 2021. Locus-specific introgression in young hybrid swarms: drift dominates selection. Molecular Ecology https://doi.org/10/111/mec.15862

2020
Mugal, C.F., M. Wang, N. Backström, D. Wheatcroft, M. Ålund, M. Sémon, S.E. McFarlane, L. Dutoit, A. Qvarnström and H. Ellegren. 2020. Tissue-specific patterns of regulatory changes underlying gene expression differences among Ficedula flycatchers and their naturally-occuring F1 hybrids. Genome Research 30(12):1727-1739

P. de Villemereuil, A. Charmantier , D. Arlt , P. Bize , P. Brekke , L. Brouwer , A. Cockburn , S.D. Côté , F.S. Dobson , S.R. Evans , M. Festa-Bianchet , M. Gamelon , S. Hamel , J. Hegelbach , K. Jerstad , B. Kempenaers , L.E.B. Kruuk , J. Kumpula , T. Kvalnes , A.G. McAdam , S.E. McFarlane , M.B. Morrissey , T. Pärt , J.M. Pemberton , A. Qvarnström , O.W. Røstad , J. Schroeder , J.C. Senar , B.C. Sheldon , M. van de Pol , M.E. Visser , N.T. Wheelwright , J. Tufto , L.-M. Chevin. 2020 Fluctuating optimum and temporally variable selection on breeding data in birds and mammals. Proceedings of the Natural Academy of Sciences DOI:10.1073/pnas.2009003117.

Koski, T.M., P.M. Sirkiä, S.E. McFarlane, M.Ålund and A. Qvarnström. 2020. Differences in incubation behaviour and niche separation of two competing flycatcher species. Behavioural Ecology and Sociobiology 74(8)1:10

McFarlane, S.E., D.C. Hunter, H.V. Senn, S.L. Smith, R. Holland, J. Huisman, J.M. Pemberton. 2020 Increased genetic marker density reveals high levels of admixture between red deer and introduced Japanese sika in Kintyre, Scotland. Evolutionary Applications 13(2) doi: https://doi.org/10.1101/588327

2019
McFarlane, S.E. and J.M. Pemberton. Detecting the true extent of introgression during anthropogenic hybridization. 2019. Trends in Ecology and Evolution 34(4): 315 – 326 DOI:https://doi.org/10.1016/j.tree.2018.12.013

2018
Ålund, M., S. Persson Schmiterlöw, S.E. McFarlane and A. Qvarnström. 2018. Optimal sperm length for high siring success depends on forehead patch size in collared flycatchers. Behavioral Ecology DOI:10.1093/beheco/ary115

J.E. Lane, A.G. McAdam, S.E. McFarlane, C.T. Williams, M.M. Humphries, D.W. Coltman, J.C. Gorrell, and S. Boutin. 2018. Phenological shifts in North American red squirrels: disentangling the roles of phenotypic plasticity and microevolution. Journal of Evolutionary Biology https://doi.org/10.1111/jeb.13263

McFarlane, S.E., M. Ålund, P.M. Sirkiä and A. Qvarnström. 2018. Difference in plasticity of resting metabolic rate – the proximate explanation to different niche breadth in sympatric Ficedula flycatchers. Ecology and Evolution DOI:10.1002/ece3.3987

2017
Sirkiä, P.M.*, S.E. McFarlane* , W. Jones, D. Wheatcroft, M. Ålund, J. Rybinski and A. Qvarnström. 2017. Climate change-driven build up of temporal isolation in a young avian hybrid zone. Evolution 72(2):363-374
*these authors contributed equally to this manuscript

Silva, C.N.S.*, S.E. McFarlane* , I.J. Hagen, L. Rönnegård, A.M. Billing, T. Kvalnes, P. Kemppainen, B. Rønning, T.H. Ringsby, E.-E. Sæther, A. Qvarnström, H. Ellegren, H. Jensen and A. Husby. 2017. Insights into the genetic architecture of morphological and sexually selected traits in two passerine bird species. Heredity DOI:10.1038/hdy.201729
*these authors contributed equally to this manuscript.

2016
McFarlane, S.E., P.M. Sirkiä, M. Ålund and A. Qvarnström. 2016 Hybrid dysfunction expressed as elevated metabolic rate in Ficedula flycatchers. PLoS One DOI:10.1371/journal.pone.0161547

Rybinski, J.*, P.M. Sirkiä*, S.E. McFarlane* , N. Vallin, D. Wheatcroft, M. Ålund and A. Qvarnström. 2016. Competition-driven build-up of habitat isolation and selection modified dispersal in a young avian hybrid zone. Evolution DOI:10.1111/evo.13019
*these authors contributed equally to this manuscript

McFarlane, S.E., A. Söderberg, D. Wheatcroft, and A. Qvarnström. 2016. Song discrimination by nestling collared flycatchers during early development. Biology Letters DOI:10.1098/rsbl.2016.0234

Cramer, E.R.A., M. Ålund, S.E. McFarlane, A. Johnsen and A. Qvarnström. 2016. Females discriminate against heterospecific sperm in a natural hybrid swarm. Evolution DOI:10.1111/evo.12986

Kardos, M., A. Husby, S.E. McFarlane, A. Qvarnström and H. Ellegren. 2016. Whole genome resequencing of extreme phenotypes in collared flycatchers highlights the difficulty of detecting quantitative trait loci in natural populations. Molecular Ecology Resources, DOI:10.1111/1755-0998.12498

Rönnegård, L.*, S.E. McFarlane* , A. Husby, T. Kawakami, H. Ellegren and A. Qvarnström. 2016. Increasing the power of genome wide association studies in natural populations using repeated measures – evaluation and implementation. Methods in Ecology and Evolution, DOI:10.1111/2041-210X.12535
*these authors contributed equally to this manuscript

Qvarnström, A, M. Ålund, S.E. McFarlane and P. Sirkiä. 2016. Climate adaptation and speciation: particular focus on reproductive barriers in Ficedula Flycatchers. Evolutionary Applications. DOI:10:1111/evo.12276

2015
McFarlane, S.E., J.C. Gorrell, D.W. Coltman, M.M. Humphries, S. Boutin and A.G. McAdam. The nature of nurture in a wild mammal’s fitness. Proceedings of the Royal Society of London B: Biological Sciences 282(1806):20142422 DOI:10.1098/rspb.2014.2422

2014 and earlier
D.W.A. Noble, S.E. McFarlane, J.S. Keogh and M.J. Whiting. 2014. Maternal and additive genetic effects contribute to variation in offspring traits in a lizard. Behavioural Ecology 25(3):633-640 DOI:10.1093/beheco/aru032

McFarlane, S.E., J.C. Gorrell, D.W. Coltman, M.M. Humphries, S. Boutin and A.G. McAdam. 2014. Very low levels of direct additive genetic variance in fitness and fitness components in a red squirrel population. Ecology and Evolution 4(10):1729 – 1738 DOI:10.1002/ece3.982

McFarlane, S.E., J.E. Lane, R.W. Taylor, J.C. Gorrell, D.W. Coltman, M.M. Humphries, S. Boutin and A.G. McAdam. 2011. The heritability of multiple male mating in a promiscuous mammal. Biology Letters DOI:10.1098/rsbl.2010.1003