Publications

Pre-prints

Nunez JCB*, Coronado-Zamora M*, Gautier M, Kapun M, Steindl S, Ometto L, Hoedjes KM, Beets J, Wiberg RAW, Mazzeo GR, Bass DJ, plus 95 co-authors, Flatt T*, Bergland AO*, Gonzalez J*. (2024). Footprints of worldwide adaptation in structured populations of D. melanogaster through the expanded DEST 2.0 genomic resource. BioRxiv: 10.1101/2024.11.10.622744

Bitter MC, Greenblum S, Rajpurohit S, Bergland AO, Hemker JA, Betancourt NJ, Tilk S, Berardi S, Oke H, Schmidt P, Petrov D. (2024). Pervasive fitness trade-offs revealed by rapid adaptation in large experimental populations of Drosophila melanogaster. BioRxiv: 10.1101/2024.10.28.620721

Berardi S, Rhodes JA, Berner MC, Greenblum SI, Bitter MC, Behrman EL, Betancourt NJ, Bergland AO, Petrov DA, Rajpurohit S, Schmidt P. (2024). Drosophila melanogaster pigmentation demonstrates adaptive phenotypic parallelism but genomic unpredictability over multiple timescales. BioRxiv: 10.1101/2024.08.09.607378

Erickson PA, Bangerter A, Ansleigh Gunter, Nikolaos T. Polizos, Bergland AO. (2024). Limited population structure but signals of recent selection in introduced African Fig Fly (Zaprionus indianus) in North America. BioRxiv: 10.1101/2024.09.20.614190v1

Murray CS, Nunez JCB, Bass DJ, Becker D, Ratan A, Bergland AO. (2024). Balancing selection and the functional effects of shared polymorphism in cryptic Daphnia species. BioRxiv: 10.1101/2024.04.16.589693v1

Akhund-Zade J, Yoon D, Bangerter A, Polizos N, Campbell M, Soloshenko A, Zhang T, Wice E, Albright A, Narayanan A, Schmidt P, Saltz J, Ayroles J, Klein M, Bergland A, de Bivort B. (2020). Wild flies hedge their thermal preference bets in response to seasonal fluctuations. BioRxiv: 10.1101/2020.09.16.300731

2024

Lenhart BA, Ahsan Y, McHatty M, Bergland AO. Improvement of starvation resistance via periodic fasting is genetically variable in Drosophila melanogaster. (2024). Physiological Entomology: 10.1111/phen.12443. pdf.

2023

Rakes LM, Delamont M, Cole C, Yates JA, Blevins LJ, Hassan FN, Bergland AO, Erickson PA. (2023). Spatial and temporal variation in abundance of introduced African fig fly (Zaprionus indianus) (Diptera: Drosophilidae) in the eastern United States. Journal of Insect Science: 10.1093/jisesa/iead092. pdf.

Porter RJ*, Gutierrez GM*, Barnard-Kubow KB, Bergland AO. (2023). Maternal control of spontaneous dormancy termination in Daphnia pulex. Hydrobiologia: 10.1007/s10750-023-05361-w. pdf. code.

2022

Yu Y, Bergland AO. (2022). Unique signals of clinal and seasonal allele frequency change at eQTLs in Drosophila melanogaster. Evolution: 10.1111/evo.14617. pdf. code.

Becker D, Barnard-Kubow K, Porter R, Edwards A, Beckerman A, Bergland AO. (2022). Adaptive phenotypic plasticity is under stabilizing selection in Daphnia. Nature Ecology and Evolution. Nature Ecology & Evolution: 10.1038/s41559-022-01837-5. pdf. code. DAPCHA code.

Barnard-Kubow K, Becker D, Murray C, Porter R, Gutierrez G, Erickson P, Nunez JCB, Voss E, Suryamohan K, Ratan A Beckerman A, Bergland AO. (2022). Polygenic variation in sexual investment across an ephemerality gradient in Daphnia pulex. Molecular Biology and Evolution: 10.1093/molbev/msac121. pdf. code.

2021

Machado HE*, Bergland AO*, Taylor R, Tilk S, Behrman E, Dyer K, Fabian D, Flatt T, Gonzalez J, Karasov T, Kim B, Kozeretska O, Lazzaro B, Merritt T, Pool J, O’Brien K, Rajpurohit S, Roy P, Schaeffer S, Serga S, Schmidt P, Petrov D. (2021). Broad geographic sampling reveals the shared basis and environmental correlates of seasonal adaptation in Drosophila. eLife: 10:e67577 DOI: 10.7554/eLife.67577. pdf. code.

Weller CAW, Tilk S, Rajpurohit S, Bergland AO. (2021). Accurate, ultra-low coverage genome reconstruction and association studies in Hybrid Swarm mapping populations. G3: 10.1093/g3journal/jkab062. pdf. code.

2020

Erickson P.A., Weller CA, Song DY, Bangerter AS, Schmidt P, Bergland AO (2020) Unique genetic signatures of local adaptation over space and time for diapause, an ecologically relevant complex trait, in Drosophila melanogaster. PLoS Genetics: 16(11): e1009110. pdf. code.

Fu Z, Meier AR, Epstein B, Bergland AO, Castillo Carrillo CI, Cooper WR, … & Synder WE. (2020). Host plants and Wolbachia shape the population genetics of sympatric herbivore populations. Evolutionary Applications: (13)2740–2753. pdf

Wang Y, Kapun M, Waidele L, Kuenzel S, Bergland AO, & Staubach F. (2020). Common structuring principles of the Drosophila melanogaster microbiome on a continental scale and between host and substrate. Environmental Microbiology Reports: 12(2), 220-228. pdf

Kapun M, Barrón MG, Staubach F, Obbard DJ, Wiberg RAW, Vieira J, … & Flatt T, Gonzalez J. (2020). Genomic analysis of European Drosophila melanogaster populations reveals longitudinal structure, continent-wide selection, and previously unknown DNA viruses. Molecular Biology and Evolution: 37(9), 2661-2678.pdf

Stone HM, Erickson PA*, Bergland AO*. 2020. Phenotypic plasticity, but not adaptive tracking, underlies seasonal variation in post‐cold hardening freeze tolerance of Drosophila melanogaster. Ecology and Evolution: 10.1002/ece3.5887 pdf

Waldvogel AM, Feldmeyer B, Rolshausen G, Exposito‐Alonso M, Rellstab C, Kofler R, Mock T, Schmid K, Schmitt I, Bataillon T, Savolainen O, Bergland A, Flatt T, Guillaume F, Pfenninger M. 2020. Evolutionary genomics can improve prediction of species’ responses to climate change. Evolution Letters: 10.1002/evl3.154 pdf

2019

Tilk S, Bergland AO, Goodman A, Schmidt P, Petrov D, Greeblum S. 2019. Accurate allele frequencies from ultra-low coverage pool-seq samples in evolve-and-resequence experiments. G3: 10.1534/g3.119.400755 pdf

2018

Rajpurohit S, Gefen E, Bergland AO, Petrov DA, Gibbs AG, Schmidt PS. 2018. Spatiotemporal dynamics and genome‐wide association analysis of desiccation tolerance in Drosophila melanogaster. Molecular Ecology: 10.1111/mec.14814 pdf

Behrman EL, Howick VM, Kapun M, Staubach F, Bergland AO, Petrov DA, Lazzaro BP, Schmidt PS. 2018. Rapid seasonal evolution in innate immunity of wild Drosophila melanogaster. Proc. R. Soc. B: 10.1098/rspb.2017.2599 pdf

2017

Rajpurohit S, Hanus R, Vrkoslav V, Behrman EL, Bergland AO, Petrov D, Cvačka J, Schmidt PS. 2017. Adaptive dynamics of cuticular hydrocarbons in Drosophila. Journal of Evolutionary Biology: 10.1111/jeb.12988 pdf

Anderson C, Reiss I, Zhou C, Cho A, Siddiqi H, Mormann B, Avelis C, Deford P, Bergland AO, Roberts E, Taylor J, Vasiliauskas D, Johnston R. 2017. Natural variation in stochastic photoreceptor specification and color preference in Drosophila. eLife: 10.7554/eLife.29593 pdf

Wittmann MJ, Bergland AO, MW Feldman, PS Schmidt, DA Petrov. 2017. Segregation lift: A general mechanism for the maintenance of polygenic variation under seasonally fluctuating selection. PNAS: doi: 10.1073/pnas.1702994114 pdf

Fu Z, Epstein B, Kelley JL, Zheng Q, Bergland AO, Castillo Carrillo C, Jensen AS, Dahan J, Karasev AV, Snyder WE. 2017. Using NextRAD sequencing to infer movement of herbivores among host plants. PLoS One: doi: 10.1371/journal.pone.0177742 pdf

Akhund-Zade J, Bergland AO, Crowe SO, Unckless R. 2017. The Genetic Basis of Natural Variation in Drosophila (Diptera: Drosophilidae) Virgin Egg Retention. Journal of Insect Science: doi: 10.1093/jisesa/iew094 pdf

2016

Rajpurohit S, Hanus R, Vrkoslav V, Behrman EL, Bergland AO, Petrov D, Cvačka J, Schmidt PS. 2016. Adaptive dynamics of cuticular hydrocarbons in Drosophila. Journal of Evolutionary Biology: doi: 10.1111/jeb.12988 pdf

Beckerman AP, Childs DZ, Bergland AO. 2016. Eco-evolutionary Biology: Feeding and Feedback Loops. Current Biology: doi:10.1016/j.cub.2016.01.013 pdf

Tuttle EM*, Bergland AO* , Korody ML, Brewer MS, Newhouse DJ, Minx P, Stager M, Betuel A, Cheviron ZA, Warren WC, Gonser RA, Balakrishnan CN. 2016. Divergence and Functional Degradation of a Sex Chromosome-like Supergene. Current Biology: doi:10.1016/j.cub.2015.11.069 pdf
[Check out the Perspective by S. Edwards & L. Campagna in Science]
[Check out the Dispatch by L. Campagna in Current Biology]
[Check out News Feature on this paper and Dr. Tuttle’s life and work by C. Arnold in Nature]

Machado H, Bergland AO, O’Brien K, Behrman E, Schmidt P & Petrov D. 2016. Comparative population genomics of latitudinal variation in Drosophila simulans and Drosophila melanogaster. Molecular Ecology: doi:10.1111/mec.13446 pdf
[Check out the News and Views by T. Flatt in Molecular Ecology]

Bergland AO, Tobler R, González J, Schmidt P & Petrov D. 2016. Secondary contact has contributed to genome-wide patterns of clinal variation in North American and Australian populations of Drosophila melanogaster. Molecular Ecology: doi:10.1111/mec.13445 pdf
[Check out the News and Views by T. Flatt in Molecular Ecology]

2015

Zhao X, Bergland AO, Behrman EL, Gregory BD, Petrov DA & Schmidt PS. 2015. Global Transcriptional Profiling of Diapause and Climatic Adaptation in Drosophila melanogaster. Molecular Biology Evolution: doi:10.1093/molbev/msv263 pdf

2014

Paaby AB, Bergland AO, Behrman EL, Schmidt PS. 2014. A highly pleiotropic amino acid polymorphism in the Drosophila Insulin Receptor contributes to life-history adaptation. Evolution: doi:10.1111/evo.12546 pdf

Adrion J, Pascual M, Burrack H, Haddad N, Bergland AO, Machado H, Sackton T, Schlenke T, Watada M, Singh N. 2014. Reconstructing the invasion history of Drosophila suzukii using multilocus sequence data. Molecular Biology Evolution: doi:10.1093/molbev/msu246. pdf

Bergland AO, Behrman EL, O’Brien KR , Schmidt PS, Petrov D. 2014. Genomic evidence of rapid and stable adaptive oscillations over seasonal time scales in Drosophila. PLoS Genetics 10(11): e1004775. pdf
[Check out the F1000 evaluation by E. Svensson]

2012

Feder A, Petrov F, Bergland AO. 2012. Estimation of linkage disequilibrium from high-throughput pooled resequencing data. PLoS One 7(11): e48588. doi:10.1371/journal.pone.0048588. pdf [Download program]

Zhu Y, Bergland AO, Gonzalez J, Petrov D. 2012. Empirical validation of pooled whole genome population re-sequencing in Drosophila melanogaster. PLoS One 7(7): e41901. doi: 10.1371/journal.pone.0041901. pdf

Bergland AO, Chae HS, Kim YJ, Tatar M. 2012. Fine scale mapping of natural variation in fly fecundity identifies neuronal domain of expression and function of an aquaporin. PLoS Genetics 8(4): e1002631, doi: 10.1371/journal.pgen.1002631. pdf
[Check out the F1000 evaluation by J. True & J. Lachance]

2011 & earlier

Bergland AO. 2011. Mechanisms and ecological genetics of reproduction in Dipteran insects. In Molecular mechanisms of life history evolution, eds. Flatt, T. & A. Heyland. Oxford University Press, Oxford, UK. pdf

Bergland AO, Genissel A, Nuzhdin SV, Tatar M. 2008. Quantitative trait loci affecting phenotypic plasticity and the allometric relationship of ovariole number and thorax length in Drosophila melanogaster. Genetics 180: 567-582. pdf

Bergland AO, Agotsch M, Mathias D, Bradshaw WE, Holzapfel CM. 2005. Factors influencing the seasonal life history of the pitcher plant mosquito, Wyeomyia smithii. Ecological Entomology, 30: 129-137. pdf

Data Notes

Nunez JCB, Paris M, Machado H, Bogaerts M, Gonzalez J, Flatt T, Coronado M, Kapun M, Schmdit P, Petrov D, Bergland A. Note: Updating the metadata of four misidentified samples in the DrosRTEC dataset. BioRxiv: 10.1101/2021.01.26.428249