Publications

Alternatively, see my Google Scholar Page or ORCiD page.

Preprints

Gould, E., Fraser, H. S., Parker, T.H., et al [300+ authors including Parker, D. J.]. 2023. Same data, different analysts: variation in effect sizes due to analytical decisions in ecology and evolutionary biology. EcoEvoRxiv. doi: https://doi.org/10.32942/X2GG62. [Code]

Cook, N*., Parker, D. J*., Turner, F., Tauber, E., Pannebakker, B. A., Shuker, D. M. 2019. Genome-wide disruption of DNA methylation by 5-aza-2’-deoxycytidine in the parasitoid wasp Nasonia vitripennis. bioRxiv. doi: https://doi.org/10.1101/437202 [GitHub]
* these authors contributed equally to this work

Published

Dittrich, C., Hoelzl, F., Smith, S., Fouilloux, C. A., Parker, D. J., O’Connell, L. A., Knowles, L. S., Hughes, M., Fewings, A., Morgan, R., Rojas, B., Comeault, A. A. 2024. Genome assembly of the dyeing poison frog provides insights into the dynamics of transposable element and genome-size evolution. Genome Biology and Evolution: evae109. [bioRxiv] [Genome assembly and annotation]

Freitas, S., Parker, D. J., Labédan, M., Dumas, Z., Schwander, T. 2023. Evidence for cryptic gene flow in parthenogenetic stick insects of the genus Timema. Proceedings of the Royal Society B. 290: 20230404. [pdf] [bioRxiv] [Code]

Li, Z., Frank, E. T., Oliveira-Honorato, T., Azuma, F., Bachmann, V., Parker, D. J., Schmitt, T., Economo, E., Ulrich, Y. 2023. Behavioural individuality determines infection risk in clonal ant colonies. Nature Communications. 14: 5233. [pdf] [bioRxiv] [Code]

Larose, C., Lavanchy, G., Freitas, S., Parker, D. J., Schwander, T. 2023. Facultative parthenogenesis: a transient state in transitions between sex and obligate asexuality in stick insects? Peer Community Journal. 3: e60. [pdf] [bioRxiv] [GitHub] [PCI]

Parker, D. J., Jaron, K. S., Dumas, Z., Robinson-Rechavi, M., Schwander, T. 2022. X chromosomes show relaxed selection and complete somatic dosage compensation across Timema stick insect species. Journal of Evolutionary Biology. 35: 1734–1750. [pdf] [bioRxiv] [GitHub]

Djordjevic, J., Dumas, Z., Robinson-Rechavi, M., Schwander, T., Parker, D. J. 2022. Dynamics of sex-biased gene expression over development in the stick insect Timema californicum. Heredity. 129: 113–122. [pdf] [bioRxiv] [PCI] [GitHub] [Cover image]

Jaron, K. S*., Parker, D. J*., Anselmetti, Y., Tran Van, P. T., Bast, J., Dumas,  Z., Figuet, E., François, C. M., Hayward, K., Rossier, V., Simion, P., Robinson-Rechavi,  M., Galtier, N., Schwander, T. 2022. Convergent consequences of parthenogenesis on stick insect genomesScience Advances. 8: eabg3842. [pdf] [bioRxiv] [GitHub] [Genome assembly and annotation]
* these authors contributed equally to this work

Brandt, A., Tran Van, P., Bluhm, C., Anselmetti, Y.,  Dumas, Z., Figuet, E., François, C. M., Galtier, N., Heimburger, B., Jaron K. S., Labédan, M., Maraun, M., Parker, D. J., Robinson-Rechavi, M., Schaefer, I., Simion, P., Scheu, S., Schwander, T. & Bast, J. 2021. Haplotype divergence supports ancient asexuality in the oribatid mite Oppiella novaProceedings of the National Academy of Sciences of the United States of America. 118: e2101485118. [pdf] [bioRxiv] [GitHub]

Tran Van, P. T., Anselmetti, Y., Bast, J., Dumas Z., Galtier, N., Jaron, K. S., Martens, K., Parker, D. J., Robinson-Rechavi, M., Schwander, T., Simion, P., Schön, I. 2021. First annotated draft genomes of non-marine ostracods (Ostracoda, Crustacea) with different reproductive modesG3: Genes | Genomes | Genetics. 11: jkab043. [pdf] [bioRxiv] [GitHub]

Parker, D. J., Envall, T., Ritchie, M. G., Kankare, M. 2021. Sex-specific responses to cold in a very cold-tolerant, northern Drosophila speciesHeredity. 126: 695–705. [pdf[bioRxiv[GitHub]

Dussex, N., Kutschera, V. E., Wiberg, R. A. W., Parker, D. J., Hunt, G. R., Gray, R. D., Rutherford, K., Abe, H., Fleischer, R. C., Ritchie, M. G., Rutz, C., Wolf, J. B. W., Gemmell, N. J. 2020. A genome-wide investigation of adaptations related to tool behaviour in New Caledonian and Hawaiian crows. Molecular Ecology. 30: 973-986. [pdf]

Parker, D. J., Bast, J., Jalvingh, K., Dumas, Z., Robinson-Rechavi, M., Schwander, T. 2019. Sex-biased gene expression is repeatedly masculinized in asexual femalesNature Communications. 10: 4638. [pdf] [bioRxiv] [GitHub]

Cook, N*., Parker, D. J*., Turner, F., Tauber, E., Pannebakker, B. A., Shuker, D. M. 2019. Validating the demethylating effects of 5-aza-2′-deoxycytidine in insects requires a whole-genome approach (A reply to Ellers et al.). The American Naturalist. 194: 432-43. [pdf]
* these authors contributed equally to this work

Parker, D. J., Djordjevic, J., Schwander, T. 2019. Olfactory proteins in Timema stick insects. Frontiers in Ecology and Evolution. doi: 10.3389/fevo.2019.00101. [pdf]

Parker, D. J., Bast, J., Jalvingh, K., Dumas, Z., Robinson-Rechavi, M., Schwander, T. 2019. Repeated evolution of asexuality involves convergent gene expression changesMolecular Biology and Evolution. 36: 350–364. [pdf] [bioRxiv] [GitHub]

Larose, C., Parker, D. J., Schwander, T. 2018. Fundamental and realized feeding niche breadths of sexual and asexual stick-insects. Proceedings of the Royal Society, Series B. 285: 20181805. [pdf] [bioRxiv]

Ma, W. J., Veltsos, P., Sermier, R., Parker, D. J., Perrin, N. 2018. Evolutionary and developmental dynamics of sex-biased gene expression in common frogs with proto-Y chromosomesGenome Biology. 19:156. [pdf] [GitHub]

Parker, D. J., Wiberg, R. A. W., Trivedi, U., Tyukmaeva, V. I., Gharbi, K., Butlin, R. K., Kankare, M., Ritchie, M. G. 2018. Inter- and intra-specific genomic divergence in Drosophila montana shows evidence for cold adaptationGenome Biology and Evolution. 10: 2086–2101. [pdf] [bioRxiv] [Genome assembly] [Genome annotation]

Bast, J., Parker, D. J., Dumas, Z., Jalvingh, K. M., Tran Van, P., Jaron, K. S., Figuet, E., Brandt, A., Galtier, N., Schwander, T. 2018. Consequences of asexuality in natural populations: insights from stick insectsMolecular Biology and Evolution. 35: 1668–1677. [pdf] [GitHub]

Tapanainen, R., Parker, D. J., Kankare, M. 2018. Photosensitive alternative splicing of the circadian clock gene timeless is population specific in a cold-adapted fly, Drosophila montana. G3: Genes | Genomes | Genetics. 8: 1291-1297. [pdf]

Parker, D. J., Zaborowska, J., Ritchie, M. G., Vahed, K. 2017. Paternity analysis of wild-caught females shows that sperm package size and placement influence fertilization success in the bushcricket Pholidoptera griseoapteraMolecular Ecology. 26: 3050–3061. [pdf]

Vigoder, F. M*., Parker, D. J*., Cook, N., Tournière, O., Sneddon, T., Ritchie, M. G. 2016. Inducing cold-sensitivity in the frigophilic fly Drosophila montana by RNAiPLoS ONE. 11: e0165724. [pdf]
* these authors contributed equally to this work

Kankare, M., Parker, D. J., Merisalo, M., Salminen, T. S., Hoikkala, A. 2016. Transcriptional differences between diapausing and non-diapausing D. montana females reared under the same photoperiod and temperature. PLoS ONE. 11: e0161852. [pdf]

Parker, D. J., Ritchie, M. G., Kankare, M. 2016. Preparing for winter: the transcriptomic response associated with different day lengths in Drosophila montana. G3: Genes | Genomes | Genetics. 3:1373-81. [pdf] [Data]

Cunningham, C. B., Ji, L., Wiberg, R. A. W., Shelton, J. M., McKinney, E. C., Parker, D. J., Meagher, R. B., Benowitz, K. M., Roy-Zokan, E. M., Ritchie, M. G., Brown, S. J., Schmitz, R. J., Moore, A. J. 2015. The genome and methylome of a beetle with complex social behavior, Nicrophorus vespilloides (Coleoptera: Silphidae). Genome Biology and Evolution. 7: 3383-3396. [pdf] [bioRxiv]

Parker, D. J., Cunningham, C. B., Walling, C. A., Stamper, C. E., Head, M. L., Roy-Zokan, E. M., McKinney, E. C., Ritchie, M. G., Moore, A. J. 2015. Transcriptomes of parents identify parenting strategies and sexual conflict in a subsocial beetle. Nature Communications. 6: 8449. [pdf]

Longdon, B., Murray, G. G. R., Palmer, W. J., Day, J. P., Parker, D. J., Welch, J. J., Obbard, D. J., and Jiggins, F. M. 2015. The evolution, diversity and host associations of rhabdoviruses. Virus Evolution. 1: vev014. [pdf] [bioRxiv]

Parker, D. J. Vesala, L., Ritchie, M. G., Laiho, A., Hoikkala, A., and Kankare, M. 2015. How consistent are the transcriptome changes associated with cold acclimation in two species of the Drosophila virilis group? Heredity. 115: 13-21. [pdf]

Neville, M. C., Nojima, T., Ashley, E., Parker, D. J., Walker, J., Southall, T., Van de Sande, B., Marques, A. C., Fischer, B., Brand, A. H., Russell, S., Ritchie, M. G., Aerts, S., and Goodwin, S. F. 2014. Male-specific Fruitless isoforms target neurodevelopmental genes to specify a sexually dimorphic nervous system. Current Biology. 24: 229-241. [pdf]

Parker, D. J., Gardiner, A., Neville, M. C., Ritchie, M. G., and Goodwin, S. F. 2014. The evolution of novelty in conserved genes; evidence of positive selection in the Drosophila fruitless gene is localised to alternatively spliced exons. Heredity. 112: 300-306. [pdf]

Campos, J. L., Zeng, K., Parker, D. J., Charlesworth, B., and Haddrill, P. R. 2013. Codon usage bias and effective population sizes on the X chromosome versus the autosomes in Drosophila melanogaster. Molecular Biology and Evolution. 30: 811-823. [pdf]

Morrissey, M. B., Parker, D. J., Korsten, P., Pemberton, J. M., Kruuk, L. E. B., and Wilson, A. J. 2012. The prediction of adaptive evolution: empirical application of the secondary theorem of selection and comparison to the breeder’s equation. Evolution. 66: 2399-2410. [pdf]

Vahed, K. and Parker, D. J. 2012. The Evolution of Large Testes: Sperm Competition or Male Mating Rate? Ethology. 118: 107-117. [pdf]

Vahed, K., Parker, D. J. and Gilbert, J. D. J. 2011. Larger testes are associated with a higher level of polyandry, but a smaller ejaculate volume, across bushcricket species (Tettigoniidae). Biology Letters. 7: 261-264. [pdf]

Parker, D. J. and Vahed, K. 2010. The intensity of pre- and post-copulatory mate guarding in relation to spermatophore transfer in the cricket Gryllus bimaculatus. Journal of Ethology. 28: 245-249. [pdf]

Parker, D. J. 2009. Pre- and post-copulatory mate choice in Platygryllus primiformis: cryptic female choice and sexual conflict. Bioscience Horizons. 2: 164-171. [pdf]

2

0