Education
- 2009.9-2014.12 Department of EEB, University of Connecticut, Storrs, CT, USA, Postdoctoral Research Fellow
- 2008.3-2009.8, Department of EEB, University of Michigan, Ann Arbor, MI, USA, Postdoctoral Research Fellow
- 2001.9-2007.7 Institute of Botany, Chinese Academy of Sciences, Beijing, China, Ph.D. in Botany
- 1997.9-2001.7 Department of Horticulture, China Agricultural University, Beijing, China, B.S. in Horticulture
Research interests
- Early land plant evolution, bryophyte phylogeny, phylogenomics, comparative genomics
Selected publications
Papers
- Xue JY, Wang Y, Chen M, Dong SS, Shao ZQ*, Liu Y*. 2020. Maternal Inheritance of U’s Triangle and Evolutionary Process of Brassica Mitochondrial Genomes. Frontiers in Plant Science 11:805.
- Zhang J#, Fu XX#, Li RQ#, Zhao X#, Liu Y#, Li MH#, Zwaenepoel A, Ma H, Goffinet B, Guan YL, Xue JY, et al. 2020 The hornwort genome and early land plant evolution. Nature Plants 6:107–118.
- Wang W, Liu Y. 2020. The current status, problems, and policy suggestions for reconstructing the plant tree of life. Biodiversity Science 28: doi: 10.17520/biods.2019373.
- Zhang L, Chen F, Zhang X, Li Z, Zhao Y, Lohaus R, Chang X, Dong W, Ho SYW, Liu X, Song A, Chen J, Guo W, Wang Z, Zhuang Y, Wang H, Chen X, Hu J, Liu Y, Qin Y, Wang K, Dong S, Liu Y, Zhang S, Yu X, et al. 2020. The water lily genome and the early evolution of flowering plants. Nature 577: 79–84.
- Liu Y, Johnson MG, Cox CJ, Medina R, Devos N, Vanderpoorten A, Hedenäs L, Bell NE, Shevock JR, Aguero B, Quandt D, Wickett NJ, Shaw AJ, Goffinet B*. 2019. Resolution of the ordinal phylogeny of mosses using targeted exons from organellar and nuclear genomes. Nature Communications 10:1485. 【被《南方都市报》、《广州日报》等多家媒体报道】
- Dong SS, Zhao CX, Zhang SZ, Zhang L, Wu H, Liu H, Zhu RL, Jia Y, Goffinet B, Liu Y*. 2019. Mitochondrial genomes of the early land plant lineage liverworts (Marchantiophyta): conserved genome structure, and ongoing low frequency recombination. BMC Genomics 20: 953.
- Dong SS, Zhao CX, Zhang SZ, Wu H, Mu WX, Wei T, Li N, Wan T, Liu H, Cui J, Zhu RL, Goffinet B, Liu Y*. 2019. The amount of RNA editing sites in liverwort organellar genes is correlated with GC content and nuclear PPR protein diversity. Genome Biology and Evolution 11: 3233–3239.
- Medina R, Johnson MG, Liu Y, Wickett NJ, Shaw AJ, Goffinet B. 2019. Phylogenomic delineation of Physcomitrium (Bryophyta: Funariaceae) based on targeted sequencing of nuclear exons and their flanking regions rejects the retention of Physcomitrella, Physcomitridium and Aphanorrhegma. Journal of Systematics and Evolution 57: 404–417. 【获Journal of Systematics and Evolution期刊年度最佳专刊奖】
- Dong SS, He Q, Zhang SZ, Wu H, Goffinet B, Liu Y*. 2019. The mitochondrial genomes of Bazzania tridens and Riccardia planiflora further confirm conservative evolution of mitogenomes in liverworts. The Bryologist 122: 130-139.
- Dong SS, Zhao CX, Chen F, Liu YH, Zhang SZ, Wu H, Zhang LS, Liu Y*. 2018. The complete mitochondrial genome of the early flowering plant Nymphaea colorata is highly repetitive with low recombination. BMC Genomics 19: 614.
- Wan T, Liu ZM, Li LF, Leitch AR, Leitch IJ, Liu ZJ, Xin HP, Gong YB, Liu Y, Wang WC, et al. 2018. A genome for gnetophytes and early evolution of seed plants. Nature Plants 4: 82-89.
- Dong S, Xue JY, Zhang SZ, Zhang L, Wu H, Chen ZD, Goffinet B, Liu Y*. 2018. Complete mitochondrial genome sequence of Anthoceros angustus: conservative evolution of the mitogenome in hornworts. The Bryologist 121: 14-22.【被评为年度最佳苔藓论文,获美国苔藓地衣学会Sullivant奖】
- Liu Y, Cox CJ, Wang W, Goffinet B. 2014. Mitochondrial phylogenomics of early land plants: mitigating the effects of saturation, compositional heterogeneity and codon usage bias. Systematic Biology 63: 862-878.
- Liu Y*, Medina R, Goffinet B. 2014. 350 million years of structural stasis in early land plant mitochondrial genomes. Molecular Biology and Evolution 31: 2586-2591.
- Liu Y, Forrest LL, Bainard J, Budke JM, Goffinet B. 2013. Organellar genome, nuclear ribosomal DNA repeat unit and microsatellites isolated from a small-scale of 454 GS FLX sequencing on two mosses. Molecular Phylogenetics and Evolution 66: 1089-1094.
- Liu Y*, Moskwa NL, Goffinet B. 2012. Development of eight mitochondrial markers for Funariaceae (Musci) and their amplification success in other mosses. American Journal of Botany 99, e62-e65.
- Liu Y, Budke JM, Goffinet B. 2012. Phylogenetic inference rejects sporophyte based classification of the Funariaceae (Bryophyta): Rapid radiation suggests rampant homoplasy in sporophyte evolution. Molecular Phylogenetics and Evolution 62, 130–145.
- Liu Y, Wang B, Cui P, Li L, Xue JY, Yu J, Qiu YL. 2012. The mitochondrial genome of the lycophyte Huperzia squarrosa: The most archaic form in vascular plants. PLoS ONE 7, e35168.
- Liu Y, Xue JY, Wang B, Li L, Qiu YL. 2011. The mitochondrial genomes of the early land plants Treubia lacunosa and Anomodon rugelii: Dynamic and conservative evolution. PLoS ONE 6, e25836.
Chapers
- Liu Y, Wang B, Li L, Qiu YL, Xue JY. 2012. Conservative and dynamic evolution of mitochondrial genomes in early land plants. In: Bock R, Knoop V (eds.), Genomics of chloroplasts and mitochondria. Springer, Netherlands, pp. 159-174.
Awards and honors
- 2019 Sullivant award (American Bryological and Lichenological Society)
- 2018 International Botanical Congress (IBC 2017) contribution award
- 2018 "Phoenix Tree" Talent of Yantian award, Shenzhen
- 2017 Overseas High-Caliber Personnel award, Shenzhen
Projects
- Comparative genomics on representative groups of bryophytes. Shenzhen Urban Management (202005), 2020, PI: Yang Liu.
- Assemble the cycad genome using the third generation sequencing method. Research institutes, Shenzhen Urban Management, 2019, PI: Yang Liu.
- Reconstruct the backbone phylogeny of land plants using the targeted sequencing method. Fairy Lake Botanical Garden Foundation (FLSF-2019-02), 2019, PI: Yang Liu.
- Evaluation of genetic diversity and protection effectiveness of cycads in China, Ministry of Ecology and Environment, 2019, PI: Shouzhou Zhang; co-PI: Yang Liu.
- Mitochondrial genome evolution in bryophytes. Fairy Lake Botanical Garden Foundation, 2016, PI: Yang Liu.
- Reconstruct land plant phylogeny using mitochondrial genome data, Natural Science Foundation of China Research Grant (NSFC 31470314), 2015, PI: Yang Liu.