Dr Scott Allen

Wang, Yiguan, Allen, Scott L., Reddiex, Adam J. and Chenoweth, Stephen F. (2024). The impacts of positive selection on genomic variation in Drosophila serrata: Insights from a deep learning approach. Molecular Ecology, 33 (18) e17499, e17499. doi: 10.1111/mec.17499

Ambrose, Luke, Allen, Scott L., Iro’ofa, Charlie, Butafa, Charles and Beebe, Nigel W. (2024). Genetic and geographic population structure in the malaria vector, Anopheles farauti, provides a candidate system for pioneering confinable gene-drive releases. Heredity, 132 (5), 1-15. doi: 10.1038/s41437-024-00677-2

Novelo, Mario, Dutra, Heverton LC, Metz, Hillery C., Jones, Matthew J., Sigle, Leah T., Frentiu, Francesca D., Allen, Scott L., Chenoweth, Stephen F. and McGraw, Elizabeth A. (2023). Dengue and chikungunya virus loads in the mosquito Aedes aegypti are determined by distinct genetic architectures. PLoS Pathogens, 19 (4) e1011307, e1011307. doi: 10.1371/journal.ppat.1011307

Hine, Emma, Runcie, Daniel E., Allen, Scott L., Wang, Yiguan, Chenoweth, Stephen F., Blows, Mark W. and McGuigan, Katrina (2022). Maintenance of quantitative genetic variance in complex, multitrait phenotypes: the contribution of rare, large effect variants in 2 Drosophila species. Genetics, 222 (2) iyac122, 1-17. doi: 10.1093/genetics/iyac122

Rusuwa, Bosco B., Chung, Henry, Allen, Scott L., Frentiu, Francesca D. and Chenoweth, Stephen F. (2022). Natural variation at a single gene generates sexual antagonism across fitness components in Drosophila. Current Biology, 32 (14), 3161-3169.e7. doi: 10.1016/j.cub.2022.05.038

Wilkinson, Melanie J., Roda, Federico, Walter, Greg M., James, Maddie E., Nipper, Rick, Walsh, Jessica, Allen, Scott L., North, Henry L., Beveridge, Christine A. and Ortiz-Barrientos, Daniel (2021). Adaptive divergence in shoot gravitropism creates hybrid sterility in an Australian wildflower. Proceedings of the National Academy of Sciences, 118 (47) e2004901118, e2004901118. doi: 10.1073/pnas.2004901118

Dutra, Heverton L. C., Ford, Suzanne A., Allen, Scott L., Bordenstein, Sarah R., Chenoweth, Stephen F., Bordenstein, Seth R. and McGraw, Elizabeth A. (2021). The impact of artificial selection for Wolbachia-mediated dengue virus blocking on phage WO. PLoS Neglected Tropical Diseases, 15 (7) e0009637, e0009637. doi: 10.1371/journal.pntd.0009637

James, Maddie E., Arenas-Castro, Henry, Groh, Jeffrey S., Allen, Scott L., Engelstädter, Jan and Ortiz-Barrientos, Daniel (2021). Highly replicated evolution of parapatric ecotypes. Molecular Biology and Evolution, 38 (11), 4805-4821. doi: 10.1093/molbev/msab207

Ford, Suzanne A., Albert, Istvan, Allen, Scott L., Chenoweth, Stephen F., Jones, Matthew, Koh, Cassandra, Sebastian, Aswathy, Sigle, Leah T. and McGraw, Elizabeth A. (2020). Artificial selection finds new hypotheses for the mechanism of Wolbachia-mediated dengue blocking in mosquitoes. Frontiers in Microbiology, 11 1456, 1456. doi: 10.3389/fmicb.2020.01456

Ford, Suzanne A., Allen, Scott L., Ohm, Johanna R., Sigle, Leah T., Sebastian, Aswathy, Albert, Istvan, Chenoweth, Stephen F. and McGraw, Elizabeth A. (2019). Selection on Aedes aegypti alters Wolbachia-mediated dengue virus blocking and fitness. Nature Microbiology, 4 (11), 1832-1839. doi: 10.1038/s41564-019-0533-3

Koh, Cassandra, Allen, Scott L., Herbert, Rosemarie I., McGraw, Elizabeth A. and Chenoweth, Stephen F. (2018). The transcriptional response of Aedes aegypti with variable extrinsic incubation periods for dengue virus. Genome Biology and Evolution, 10 (12), 3141-3151. doi: 10.1093/gbe/evy230

Allen, Scott L., Bonduriansky, Russell and Chenoweth, Stephen F. (2018). Genetic constraints on microevolutionary divergence of sex-biased gene expression. Philosophical Transactions of the Royal Society B: Biological Sciences, 373 (1757) 20170427, 20170427. doi: 10.1098/rstb.2017.0427

Collet, Julie M., McGuigan, Katrina, Allen, Scott L., Chenoweth, Stephen F. and Blows, Mark W. (2018). Mutational pleiotropy and the strength of stabilizing selection within and between functional modules of gene expression. Genetics, 208 (4), 1601-1616. doi: 10.1534/genetics.118.300776

Reddiex, Adam J., Allen, Scott L. and Chenoweth, Stephen F. (2018). A genomic reference panel for Drosophila serrata. G3: Genes, Genomes, Genetics, 8 (4), 1335-1346. doi: 10.1534/g3.117.300487

Terradas, Gerard, Allen, Scott L., Chenoweth, Stephen F. and McGraw, Elizabeth A. (2017). Family level variation in Wolbachia-mediated dengue virus blocking in Aedes aegypti. Parasites and Vectors, 10 (1) 622, 1-12. doi: 10.1186/s13071-017-2589-3

Allen, Scott L., McGuigan, Katrina, Connallon, Tim, Blows, Mark W. and Chenoweth, Stephen F. (2017). Sexual selection on spontaneous mutations strengthens the between-sex genetic correlation for fitness. Evolution, 71 (10), 2398-2409. doi: 10.1111/evo.13310

Allen, Scott L., Delaney, Emily K., Kopp, Artyom and Chenoweth, Stephen F. (2017). Single-molecule sequencing of the Drosophila serrata genome. G3 , 7 (3), 781-788. doi: 10.1534/g3.116.037598

Allen, Scott L. , Bonduriansky, Russell, Sgro, Carla M. and Chenoweth, Stephen F. (2017). Sex-biased transcriptome divergence along a latitudinal gradient. Molecular Ecology, 26 (5), 1256-1272. doi: 10.1111/mec.14015

Ye, Yixin H., Chenoweth, Stephen F., Carrasco, Alison M., Allen, Scott L., Frentiu, Francesca D., van den Hurk, Andrew F., Beebe, Nigel W. and McGraw, Elizabeth A. (2016). Evolutionary potential of the extrinsic incubation period of dengue virus in Aedes aegypti. Evolution, 70 (11), 2459-2469. doi: 10.1111/evo.13039

Chenoweth, Stephen F., Appleton, Nicholas C., Allen, Scott L. and Rundle, Howard D. (2015). Genomic evidence that sexual selection impedes adaptation to a novel environment. Current Biology, 25 (14), 1860-1866. doi: 10.1016/j.cub.2015.05.034

Blows, Mark W., Allen, Scott L., Collet, Julie M., Chenoweth, Stephen F. and McGuigan, Katrina (2015). The phenome-wide distribution of genetic variance. American Naturalist, 186 (1), 15-30. doi: 10.1086/681645

McGuigan, Katrina, Collet, Julie M., Allen, Scott L., Chenoweth, Stephen F. and Blows, Mark W. (2014). Pleiotropic mutations are subject to strong stabilizing selection. Genetics, 197 (3), 1051-1062. doi: 10.1534/genetics.114.165720

McGuigan, Katrina, Collet, Julie M., McGraw, Elizabeth A., Ye, Yixin H., Allen, Scott L., Chenoweth, Stephen F. and Blows, Mark W. (2014). The nature and extent of mutational pleiotropy in gene expression of male Drosophila serrata. Genetics, 196 (3), 911-921. doi: 10.1534/genetics.114.161232

Allen, Scott L., Bonduriansky, Russell and Chenoweth, Stephen F. (2013). The genomic distribution of sex-biased genes in Drosophila serrata: X chromosome demasculinization, feminization, and hyperexpression in both sexes. Genome Biology and Evolution, 5 (10), 1986-1994. doi: 10.1093/gbe/evt145

Ford, Suzanne, Allen, Scott, Sebastian, Aswathy, Albert, Istvan, Chenoweth, Stephen and McGraw, Elizabeth (2019). Using evolutionary approaches to dissect the genetic basis of Wolbachia-mediated blocking of dengue virus in Aedes aegypti. 68th Annual Meeting of the American Society for Tropical Medicine and Hygiene (ASTMH), National Harbor, MD, United States, 20 - 24 November 2019. Deerfield, IL, United States: American Society of Tropical Medicine and Hygiene. doi: 10.4269/ajtmh.abstract2019

Terradas, Gerard, Allen, Scott L., Chenoweth, Stephen F. and McGraw, Elizabeth A. (2017). Genetic architecture of Wolbachia-mediated dengue virus blocking in Aedes aegypti. 66th Annual Meeting of the American Society of Tropical Medicine and Hygiene (ASTMH), Baltimore, MD United States, 5 - 9 November 2017. Deerfield, IL United States: American Society of Tropical Medicine and Hygiene.

Koh, Cassandra, Allen, Scott L., Herbert, Rosemarie I., McGraw, Elizabeth A. and Chenoweth, Stephen F. (2017). Differential transcriptomic responses associated with Denv Eip in Aedes aegypti. 66th Annual Meeting of the American-Society-of-Tropical-Medicine-and-Hygiene (ASTMH), Baltimore, MD, United States, 5-9 November 2017. Deerfield, IL, United States: American Society of Tropical Medicine and Hygiene.

Allen, Scott (2018). The evolution of sex-biased gene expression in Drosophila serrata. PhD Thesis, School of Biological Sciences, The University of Queensland. doi: 10.14264/uql.2018.246

Allen, Scott and Chenoweth, Steve (2024). Drosophila serrata genome scaffolding and annotation. The University of Queensland. (Dataset) doi: 10.48610/ce96855

Luke Ambrose, Scott Allen and Nigel W. Beebe (2023). Anopheles farauti microsatellite and Anopheles farauti complex sequence data (mitogenome and Cardinal gene). The University of Queensland. (Dataset) doi: 10.48610/7d691e8

Hine, Emma, Runcie, Daniel E. , Allen, Scott L. , Wang, Yiguan , Chenoweth, Stephen F. , Blows, Mark W. and McGuigan, Katrina (2021). R code and input files required to generate figures and tables for BSFG analysis of standing variance in two Drosophila datasets. This dataset is the current version and supercedes any earlier versions.. The University of Queensland. (Dataset) doi: 10.48610/a3c5652

Hine, Emma, Runcie, Daniel E., Allen, Scott L., Wang, Yiguan, Chenoweth, Stephen F., Blows, Mark W. and McGuigan, Katrina (2021). Enrichment analysis results for heritable common factors of Drosophila gene expression. The University of Queensland. (Dataset) doi: 10.48610/90441fc

Wilkinson, Melanie J., Roda, Federico, Walter, Greg M., James, Maddie E., Nipper, Rick, Walsh, Jessica, Allen, Scott L., North, Henry L., Beveridge, Christine A. and Ortiz-Barrientos, Daniel (2021). Data associated with forthcoming publication - Wilkinson et al. 2021 - "Adaptive divergence in shoot gravitropism creates hybrid sterility in an Australian wildflower". The University of Queensland. (Dataset) doi: 10.48610/2c603c6

Hine, Emma , Runcie, Daniel E., Allen, Scott L., Wang, Yiguan, Chenoweth, Stephen F. , Blows, Mark W. and McGuigan, Katrina (2021). Two Drosophila datasets used in the Bayesian sparse factor analysis of standing genetic variance in 3385 gene expression traits. The University of Queensland. (Dataset) doi: 10.48610/f3eede4

Hine, Emma, Runcie, Daniel E., Allen, Scott L., Wang, Yiguan, Chenoweth, Stephen F., Blows, Mark W. and McGuigan, Katrina (2021). R code used to implement Bayesian sparse factor genetic analysis of Drosophila gene expression.. The University of Queensland. (Dataset) doi: 10.48610/ec9b92c

Dr Scott Allen

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