Evolutionary Biology

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Catalán, A., A. D. Briscoe, and S. Höhna. 2019. Drift and Directional Selection Are the Evolutionary Forces Driving Gene Expression Divergence in Eye and Brain Tissue of Heliconius Butterflies. Genetics 213:581–594. https://www.genetics.org/content/213/2/581

Ramnarine, T., A. Glaser-Schmitt, A. Catalán, and J. Parsch. 2019. Population Genetic and Functional Analysis of a cis-Regulatory Polymorphism in the Drosophila melanogaster Metallothionein A gene. Genes (Basel). 10:147. https://doi.org/10.3390/genes10020147

Catalán, A., A. Macias-Muñoz, and A. D. Briscoe. 2018. Evolution of sex-biased gene expression and dosage compensation in the eye and brain of heliconius butterflies. Mol. Biol. Evol. 35:2120–2134. https://doi.org/10.1093/molbev/msy111

Darragh K, Byers KJRP, Merrill RM, McMillan WO, Schulz S, Jiggins CD (2019) Male pheromone composition depends on larval but not
adult diet in Heliconius melpomene. Ecological Entomology 

Merrill RM, Rastas P, Martin SH, Melo MC, Barker S, Davey  J, McMillan WO, Jiggins CD (2019) Genetic dissection of assortative mating
behavior. PLOS Biology

Grosser S, Sauer J, Paijmans AJ, Caspers BA, Forcada J, Wolf JBW, Hoffman JI (2019) Fur seal microbiota are shaped by the social and physical environment, show mother-offspring similarities and are associated with host genetic quality. Molecular Ecology: 1–17.

Knief U, Bossu CM, Saino N et al. (2019) Epistatic mutations under divergent selection govern phenotypic variation in the crow hybrid zone. Nature Ecology & Evolution.

Wu C-C, Klaesson A, Buskas J et al. (2019) In situ quantification of individual mRNA transcripts in melanocytes discloses gene regulation of relevance to speciation. Journal of Experimental Biology, 222, jeb194431.

Foote AD, Martin M, Louis M et al. (2019) Killer whale genomes reveal a complex history of recurrent admixture and vicariance. Molecular Ecology, 520718.

Ramnarine TJS, Glaser-Schmitt A, Catalán A, Parsch J (2019) Population genetic and functional analysis of a cis-regulatory polymorphism in the Drosophila melanogaster Metallothionein A gene. Genes (Basel) 10: 147.


Glaser-Schmitt A, Zečić A, Parsch J (2018) Gene regulatory variation in Drosophila melanogaster renal tissue. Genetics 210:287-301.

Peona V, Weissensteiner MH, Suh A (2018) How complete are “complete” genome assemblies? – An avian perspective. Mol Ecol Resour. 2018; 1-8

Faria R, Triant D, Perdomo-Sabogal A, Overduin B, Bleidorn Ch, Bermudez Santana CI, Langenberger D, Dall’Olio GM, Indrischek H, Aerts J, Engelhardt J, Engelken J, Liebal K, Fasold M, Robb S, Grath S, Kolora SRR, Carvalho T, Salzburger W, Jovanovic V, Nowick K (2018) Introducing evolutionary biologists to the analysis of big data: guidelines to organize extended bioinformatics training courses. Evolution: Education and Outreach

Link VM, Romanoski CE, Metzler D, Glass CK (2018) MMARGE: Motif Mutation Analysis for Regulatory Genomic Elements. Nucleic Acids Research gky491.

Pemberton TJ, Verdu P, Becker NS, Willer CJ, Hewlett BS, Le Bomin S, Froment A, Rosenberg NA , Heyer E (2018) A genome scan for genes underlying adult body size differences between Central African hunter-gatherers and farmers. Human Genetics/ 137: 487-509.

Catalán A, Macias-Muñoz A, Briscoe AD (2018) Evolution of Sex-Biased Gene Expression and Dosage Compensation in the Eye and Brain of Heliconius Butterflies. Molecular Biology and Evolution, msy111.

Link V, Duttke S, Chun H, Holtman I, Westin E, Hoeksema M, Abe Y, Skola D, Romanoski C, Tao J, Fonseca G, Troutman T, Spann N, Strid T, Sakai M, Yu M, Hu R, Fang F, Metzler D, Ren B, Glass C (2018) Analysis of Genetically Diverse Macrophages Reveals Local and Domain-wide Mechanisms that Control Transcription Factor Binding and Function. Cell 173:1–14.

Argyridou E, Parsch J (2018). Regulation of the X chromosome in the germline and soma of Drosophila melanogaster males. Genes (Basel), 9:242

Nieuwenhuis BPS, Tusso S, Bjerling P, Stångberg J, Wolf JBW, Immler S (2018) Repeated evolution of self-compatibility for reproductive assurance. Nature Communications, 9:1639.

Glaser-Schmitt A, Parsch J (2018) Functional characterization of adaptive variation within a cis-regulatory element influencing Drosophila melanogaster growth. PLoS Biol 16:e2004538.

Wittmann M, Stuis H, Metzler D (2018) Genetic Allee effects and their interaction with ecological Allee effects. Journal of Animal Ecology 7:11-23.

Condamine F, Rolland J, Höhna S, Sperling F, Sanmartín I (2018) Testing the Role of the Red Queen and Court Jester as Drivers of the Macroevolution of Apollo Butterflies. Systematic Biology, syy009.

Freyman WA, Höhna S (2018) Cladogenetic and Anagenetic Models of Chromosome Number Evolution: A Bayesian Model Averaging Approach. Systematic Biology 67: 195–215.


Martin CH, Höhna S (2017) New evidence for the recent divergence of Devil's Hole pupfish and the plausibility of elevated mutation rates in endangered taxa. Molecular Ecology DOI: 10.1111/mec.14404.

Höhna S, Coghill LM, Mount GG, Thomson RC, Brown JM (2017) P3: Phylogenetic Posterior Prediction in RevBayes. Molecular Biology and Evolution, msx286.

Holtmann B, Santos ESA, Lara CE, Nakagawa S (2017) Personality- matching habitat choice, rather than behavioural plasticity, is a likely driver of a phenotype–environment covariance. Proceedings of the Royal Society B 284: 20170943.

Pereira RJ, Sasaki MC, Burton RS (2017) Adaptation to a latitudinal thermal gradient within a widespread copepod species: the contributions of genetic divergence and phenotypic plasticity. Proceedings of the Royal Society B 284(1853): 20170236–8. 

Dutoit L, Vijay N, Mugal CF, Bossu CM, Burri R, Wolf JBW, Ellegren H (2017) Covariation in levels of nucleotide diversity in homologous regions of the avian genome long after completion of lineage sorting. Proceedings of the Royal Society B 284: 20162756.

Ellegren H, Wolf JBW (2017) Parallelism in genomic landscapes of differentiation, conserved genomic features and the role of linked selection. Journal of Evolutionary Biology 30: 1516–1518.

Martin CH, Höhna S, Crawford JE, Turner BJ, Richards EJ, Simons LH (2017) The complex effects of demographic history on the estimation of substitution rate: concatenated gene analysis results in no more than twofold overestimation. Proceedings of the Royal Society B 284 (1860): 20170537.

Shafer ABA, Peart CR, Tusso S, Maayan I, Brelsford A, Wheat CW, Wolf JBW (2017) Bioinformatic processing of RAD-seq data dramatically impacts downstream population genetic inference. Methods in Ecology and Evolution 8: 907–917.

Vijay N, Weissensteiner M, Burri R, Kawakami T, Ellegren H, Wolf JBW (2017) Genomewide patterns of variation in genetic diversity are shared among populations, species and higher-order taxa. Molecular Ecology 26: 4284–4295.

Weissensteiner MH, Pang AWC, Bunikis I, Höijer I, Vinnere-Petterson O, Suh A, Wolf JBW (2017) Combination of short-read, long-read, and optical mapping assemblies reveals large-scale tandem repeat arrays with population genetic implications. Genome Research 27: 697–708.

Nabholz B, Wolf JBW (2017) Colonisation of subterranean ecosystems leads to larger genome in waterlouse (Aselloidea). Peer Community in Evolutionary Biology: 100029.

Garz A, Wolf S, Grath S, Gaidzik V, Habringer S, Vick B, Rudelius M, Ziegenhain C, Herold S, Weickert M, Smets M, Peschel C, Oostendorp RAJ, Bultmann S, Jeremias I, Thiede C, Döhner K, Keller U, Götze KS (in press) Azacitidine combined with the selective FLT3 kinase inhibitor crenolanib disrupts stromal protection and inhibits expansion of residual leukemia-initiating cells in FLT3-ITD AML with concurrent epigenetic mutations. Oncotarget.

Knief U, Forstmeier W, Pei Y, Ihle M, Wang , Martin K, Opatová P, Albrechtová J, Wittig M, Franke A, Albrecht T, Kempenaer B (2017) A sex-chromosome inversion causes strong overdominance for sperm traits that affect siring success. Nature Ecology & Evolution.

Argyridou E, Huylmans AK, Königer A, Parsch J (2017) X-linkage is not a general inhibitor of tissue-specific gene expression in Drosophila melanogaster. Heredity 119: 27-34.

Knief U, Schielzeth H, Backström N, Hemmrich-Stanisak G, Wittig M, Franke A, Griffith SC, Ellegren H, Kempenaers B, Forstmeier W (2017) Association mapping of morphological traits in wild and captive zebra finches: reliable within but not between populations. Molecular Ecology 26: 1285–1305.

Wolf JBW and Ellegren H (2017) Making sense of genomic islands of differentiation in light of speciation. Nature Reviews Genetics 18: 87–100.

Croze M, Wollstein A, Božičević V, Živković D, Stephan W, Hutter S (2017) A genome-wide scan for genes under balancing selection in Drosophila melanogaster. BMC Evolutionary Biology 17: 15.

Grandke F, Ranganathan S, van Bers N, de Haan JR, Metzler D (2017) PERGOLA: Fast and deterministic linkage mapping of polyploids. BMC Bioinformatics 18: 12.

Knief U, B Kempenaers, W Forstmeier 2017: Meiotic recombination shapes precision of pedigree- and marker-based estimates of inbreeding. Heredity 118: 239–248.

Grosser S, Abdelkrim J, Wing J, Robertson BC, Gemmell NJ (in press) Strong isolation by distance argues for separate population management of endangered blue duck (Hymenolaimus malacorhynchos). Conservation Genetics.

Wollenberg Valero KC, Garcia-Porta J, Rodriguez A, Arias M, Shah A, Randrianiaina RD, Brown JL, Glaw F, Amat F, Künzel S, Metzler D, Isokpehi RD, Vences M (2017) Transcriptomic and macroevolutionary evidence for phenotypic uncoupling between frog life history phases. Nature Communications 8:15213


Foote A, Vijay N, Ávila-Arcos MC, Baird RW, Durban JW, Fumagalli M, Gibbs RA, Hanson MB, Korneliussen TS, Martin MD, Robertson KM, Sousa VC, Vieira FG, Vinař T, Wade P, Kim CW, Excoffier L, Morin PA, Gilbert MTP, Wolf JBW (2016) Genome-culture coevolution promotes rapid divergence of killer whale ecotypes. Nature Communications 7: 11693.

von Heckel K, Stephan W, Hutter S (2016) Canalization of gene expression is a major signature of regulatory cold adaptation in temperate Drosophila melanogaster. BMC Genomics 17: 574.

Croze M, Živković D, Stephan W, Hutter S (2016) Balancing selection on immunity genes: Review of the current literature and new analysis in Drosophila melanogaster. Zoology 119: 322-329.

Gong X, Bräcker L, Bölke N, Plata C, Zeitlmayr S, Metzler D, Olbricht K, Gompel N, Parniske M (2016) Identification of strawberry accessions with reduced emergence rates of the pest Drosophila suzukii. Frontiers in Plant Science 7: 1880.

Metzler D, Jordan F, Pamminger T, Foitzik S (2016) The influence of space and time on the evolution of altruistic defense: the case of ant slave rebellion. Journal of Evolutionary Biology 29: 874–886.

Staab P, Metzler D (2016) Coala: An R framework for coalescent simulation. Bioinformatics 32(12): 1903-1904.

Grandke F, Singh P, Heuven HCM, de Haan JR, Metzler D (2016) Advantages of continuous genotype values over genotype classes for GWAS in higher polyploids: a comparative study in hexaploid chrysanthemum. BMC Genomics 17: 672.

von Thienen W, Metzler D, Witte V (2016) How memory and motivation modulate the responses to trail pheromones in three ant species. Behavioral Ecology and Sociobiology 70(3): 393-407.

Catalán A, Glaser-Schmitt A, Argyridou E, Duchen P, Parsch J (2016) An indel polymorphism in the MtnA 3' untranslated region is associated with gene expression variation and local adaptation in Drosophila melanogaster. PLoS Genetics 12: e1005987.

Huylmans AK, López Ezquerra A, Parsch J, Cordellier M (2016) De novo transcriptome assembly and sex-biased gene expression in the cyclical parthenogenetic Daphnia galeata. Genome Biology and Evolution 8: 3120.

Grath S, Parsch J (2016) Sex-biased gene expression. Annual Review of Genetics 50: 29.

Knief U, Hemmrich-Stanisak G, Wittig M, Franke A, Griffith SC, Kempenaers B, Forstmeier W (2016) Fitness consequences of polymorphic inversions in the zebra finch genome. Genome Biology 17: 199.

Becker NS, Margos G, Blum H, Krebs S, Graf A, Lane RS, Castillo-Ramírez S, Sing A, Fingerle V (2016) Recurrent evolution of host and vector association in bacteria of the Borrelia burgdorferi sensu lato species complex. BMC Genomics 17: 734.

Vijay N, Bossu CM, Poelstra JW, Weissensteiner MH, Suh A, Kryukof AG, Wolf JBW (2016) Evolution of heterogenous genome differentiation across multiple contact zones in a crow species complex. Nature Communications 7: 13195.