*Co-first author, equal contribution

Bold color indicates lab members.

Witt E, Shao Z, Hu C, Krause HM, Zhao L. Single-cell RNA-sequencing reveals pre-meiotic X-chromosome dosage compensation in Drosophila testis. bioRxiv. doi: LINK.

Webapp for testis single cell sequencing results:

Durkin SM, Chakraborty M, Abrieux A, Lewald KM, Gadau A, Svetec N, Peng J, Kopyto M, Langer CB, Chiu JC, Emerson JJ, Zhao L (2021). Behavioral and genomic sensory adaptations underlying the pest activity of Drosophila suzukii. Molecular Biology and Evolutionmsab048. doi: 10.1093/molbev/msab048. LINK. PDF.

bioRxiv version. doi: LINK.

Witt E, Svetec N, Benjamin S, Zhao L (2021). Transcription factors drive opposite relationships between gene age and tissue specificity in male and female Drosophila gonads. Molecular Biology and Evolutionmsab011. doi: 10.1093/molbev/msab011. LINK. PDF.

bioRxiv version. doi: LINK

Khodursky S*, Svetec N*, Durkin S, Zhao L (2020). The evolution of sex-biased gene expression in the Drosophila brain. Genome Research. doi:10.1101/gr.259069.119. LINK. PDF.

bioRxiv version. doi:

Witt E, Benjamin S, Svetec N, Zhao L (2019). Testis single-cell RNA-seq reveals the dynamics of de novo gene transcription and germline mutational bias in Drosophila. eLife 8:e47138.  LINK. PDF.

eLife Insight link. RU Press news story link. bioRxiv version. doi:

Levran, O., Even-Tov, E.,  Zhao, L (2020). A hominid-specific shift in cerebellar expression, upstream retrotransposons, and a potential cis-regulatory mechanism: bioinformatics analyses of the mu-opioid receptor gene. Heredity  124:325–335. doi:10.1038/s41437-019-0282-3. LINK. PDF.

Li S, Zheng EB, Zhao L, Liu S. (2019). Nonreciprocal and Conditional Cooperativity Directs the Pioneer Activity of Pluripotency Transcription Factors. Cell Reports 28:2689-2703.e4. LINK. PDF.

bioRxiv version. doi:

Svetec N, Saelao P, Cridland JM, Hoffmann AA, Begun DJ (2019). Functional analysis of a putative target of spatially varying selection in the Menin1 gene of Drosophila melanogaster . G3: Genes, Genomes, Genetics 9: 73–80. PDF

Matthews BJ, Dudchenko O, Kingan S, et al…, Zhao L, et al…, Vosshall LB, (2018). Improved Aedes aegypti mosquito reference genome assembly enables biological discovery and vector control. Nature 563, 501–507. PDF

bioRxiv version: doi:

Zhao L, Begun DJ (2017). Genomics of parallel adaptation at two timescales in the Drosophila model. PLOS Genetics. 13 (10), e1007016 PDF

Svetec N, Cridland JM, Zhao L, Begun DJ (2016). The adaptive significance of natural genetic variation in the DNA damage response of Drosophila melanogaster. PLOS Genetics. 12(3): e1005869. PDF

Li X., Fan D., Zhang W., Liu G., Zhang L., Zhao L., Fang X., Chen L., Dong Y., Chen Y., Ding Y., Zhao R., Feng M., Zhu Y., Feng Y., Jiang X., Zhu D., Xiang H., Feng X., Li S., Wang J., Zhang G., Kronforst M. R., Wang W., (2015). Outbred genome sequencing and CRISPR/Cas9 gene editing in butterflies. Nature communications. 6:8212. PDF

Zhao L, Wit J, Svetec N, Begun DJ. (2015). Parallel gene expression differences between low and high latitude populations of Drosophila melanogaster and D. simulans. PLOS Genetics. 11(5): e1005184. PDF

Svetec N, Zhao L, Saelao P, Chiu JC, Begun DJ. (2015). Evidence that natural selection maintains genetic variation for sleep in Drosophila melanogaster. BMC Evolutionary Biology. 15:41 PDF

Zhao L, Saelao P, Jones CD, and Begun DJ. (2014). Origin and spread of de novo genes in Drosophila melanogaster populations. Science 343:769–772. PDF

Chiu JC, Jiang X, Zhao L, Hamm CA, Cridland JM, Saelao P, Hamby KA, Lee EK, Kwok RS, Zhang G, Zalom FG, Walton VM, Begun DJ. (2013). Genome of Drosophila suzukii, the spotted wing Drosophila. G3: Genes, Genomes, Genetics 3:2257–2271. PDF

Zhou Q*, Zhu HM*, Huang QF*, Zhao L*, Zhang GJ*, Roy SW, Vicoso B, Xuan ZL, Ruan J, Zhang Y, Zhao RP, Ye C, Zhang XQ, Wang J, Wang W, Bachtrog D. (2012) Deciphering neo-sex and B chromosome evolution by complete genome of Drosophila albomicans. BMC genomics 13:109 PDF

Xing WJ, Han BD, Wu Q, Zhao L, Bao XH, Bou S. Molecular cloning and characterization of Izumo1 gene from sheep and cashmere goat reveal alternative splicing. Molecular Biology Reports 2011, 38(3): 1995-2006 PDF

Ding Y*, Zhao L*, Yang S, Jiang Y, Chen Y, Zhao R, Zhang Y, Zhang G, Dong Y, Yu H, Zhou Q, Wang W. (2010) A young Drosophila duplicate gene plays essential roles in spermatogenesis by regulating several Y-linked male fertility genes. PLOS Genetics 6:p. e1001255  PDF

Xiang H, Zhu J, Chen Q, Dai F, Li X, Li M, Zhang H, Zhang G, Li D, Dong Y, Zhao L, Lin Y, Cheng D, Yu J, Sun J, Zhou X, Ma K, He Y, Zhao Y, Guo S, Ye M, Guo G, Li Y, Li R, Zhang X, Ma L, Kristiansen K, Guo Q, Jiang J, Beck S, Xia Q, Wang W, Wang J. (2010) Single base-resolution methylome of the silkworm reveals a sparse epigenomic map. Nature Biotechnology 28:516-20  PDF

Li X*, Zhao L*, Jiang H, Wang W. (2009) Short homologous sequences are strongly associated with the generation of chimeric RNAs in eukaryotes. Journal of Molecular Evolution 68:56-65  PDF