Faculty Website
Education
- Ph.D., University of Notre Dame, USA
- M.S., Chinese Academy of Sciences
- B.S., Shandong University, China
Research Interests
- Cancer biology: molecular (epigenetic) mechanisms and treatments
- Virus evolution & phylogenetic network
- Microbiome and metagenomics for cellulosic plant material decomposition
- Fungal bioluminescence and fungal biodiversity
- Phytoplanktons: ecology and evolution
- Genomic evolution, lateral gene transfer, origin of life, and speciation
- Population genetics and evolution theories
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Select Publications
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- The Genomic Data Science Community Network, ..., X. Xie. 2022. Diversifying the genomic data science research community. Genome Research: https://genome.cshlp.org/content/early/2022/07/18/gr.276496.121
- Xie, X.*, T.-J. Lewis, N. Green, and Z. Wang. 2021. Phylogenetic network analysis revealed the recombinant origin of the SARS-CoV-2 VOC202012/01 (B.1.1.7) variant first discovered in U.K.. (*Corresponding author) bioRxiv doi: 10.1101/2021.06.24.449840
- Li, X., J. Zhu, F. Hu, S. Ge, M. Ye, H. Xiang, G. Zhang, X. Zheng, H. Zhang, S. Zhang, Q. Li, R. Luo, C. Yu, J. Yu, J. Sun, X. Zou, X. Cao, X. Xie*, J. Wang*, W. Wang*. 2012. Single-base resolution maps of cultivated and wild rice methylomes and regulatory roles of DNA methylation in plant gene expression. BMC Genomics13, 300. (*Corresponding author) [read the paper]
- Xie, X.*, J. Molina, R. Hernandez, A. Reynolds, A.R. Boyko, C.D. Bustamante, and M. Purugganan. 2011. Levels and patterns of nucleotide variation in domestication QTL regions on rice chromosome 3 suggest lineage-specific selection. PLoS One 6, e20670. (*Corresponding author) [read the paper]
- Xie, X.*, W. Qiu, and P. Lipke. 2011. Accelerated and adaptive evolution of yeast sexual adhesins. Molecular Biology and Evolution 2, 3127-3137. (*Corresponding author) [read the paper]
- Xie, X., A. P. Michel, D. Schwarz, J. Rull, S. Velez, A. A. Forbes, M. Aluja, and J. Feder. 2008. Radiation and divergence in the Rhagoletis pomonella species complex: Inferences from DNA sequence data. Journal of Evolutionary Biology 21, 900-913. [read the paper]
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Speaking Engagements (selected)
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- Xie, X. Phylogenetic network analysis of the SARS-CoV-2 virus genomes revealed possible recombinant origin of some variant. Harvard University, 2022
- Xie, X. Comparative and evolutionary study of bioluminescent fungi in Brazil. National Institute of Amazonian Research, Brazil, 2022
- Xie, X., T. Lewis, N. Green, Z. Wang. Integrate phylogenetic network and recombination analysis for better study of virus evolution. Wellcome Virus Genomics and Evolution Conference, 2021.
- Xie, X. Ditch trees, build networks: Paradigm shift in evolutionary studies. The Society for Molecular Biology and Evolution Annual Meeting, Manchester, U.K., 2019.
- Xie, X., A.B. Anderson, L.J. Wran, M.G. Serrano, G.A. Buck. Coevolution of Termites and Their Microbiomes? The Society for Molecular Biology and Evolution Annual Meeting, Yokohama, Japan, 2018.
- Xie, X. Characterization of Cellulose-Degrading Microbiomes from Termite and Soil. University of Virginia, 2017.
- Xie, X. Systems Biology Studies of Yeast Gene Evolution at the Genomic Level Reveal Drivers of Evolution. The Society for Molecular Biology and Evolution Annual Meeting, Gold Coast, Australia, 2016.
- Xie, X. Understanding evolution and biology through genomic analyses. US Department of Energy Joint Genome Institute, California, 2012.
- Xie, X., W. Qiu, and P. Lipke. The origin of sex and the origin of species: From yeasts to humans. Joint Annual Meeting of the Society for the Study of Evolution, the Society of Systematic Biologists, and the American Society of Naturalists, Norman, Oklahoma, USA, 2011.
- Xie, X. Epigenetics, genomic evolution, and evo-devo: A new evolutionary synthesis. The annual meeting of the Society for Molecular Biology and Evolution, Iowa City, Iowa, 2009.
- Xie, X. Allopatric speciation in the Rhagoletis pomonella species complex. Ernst Mayr Award Symposium at the Joint Annual Meeting of the Society for the Study of Evolution, the Society of Systematic Biologists, and the American Society of Naturalists, Stony Brook University, 2006.
- Xie, X. The Sympatric, allopatric, and allo-sympatric divergence in Rhagoletis pomonella flies: A synthetic view from genetic, biogeographic, and ecological evidences. Duke University, 2005.
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