Faculty
Renyi Liu
Assistant Professor and Evolutionary Genomicist (Ph.D., 2005, University of Georgia)
Office: 3109 Batchelor Hall
Phone: (951) 827-3987
Fax: (951) 827-4437
Email: renyi.liu@ucr.edu
Research Interests
- Computational analysis of high-throughput biological data
- Genome-wide analysis of small RNAs in plant genomes
- DNA methylation and demethylation in plant genomes
- Mechanisms of mRNA decay in plants
- Comparative analysis of plant genomes
Recent Publications
Zhang X, Xia J, Lii Y, Barrera-Figueroa B, Zhou X, Gao S, Lu L, Niu D, Liang W, Chen Z, Leung C, Wong T, Zhang H, Guo J, Li Y, Liu R, Zhu JK, Zhang W, Jin H. 2012. Genome-wide analysis of plant nat-siRNAs reveals insights into their distribution, biogenesis and function. Genome Biology. 13:R20.
Barrera-Figueroa BE, Wu Z, Liu R. Abiotic stress-associated microRNAs in plants: discovery, expression analysis, and evolution. 2012. Frontiers in Biology. 2012 Apr 5. [Epub ahead of print].
Lertpanyasampatha M, Gao L, Kongsawadworakul P, Viboonjun U, Chrestin H, Liu R, Chen X, Narangajavana J. 2012. Genome-wide analysis of microRNAs in rubber tree (Hevea brasiliensis L.) using high throughput sequencing. Planta. 2012 Mar 10. [Epub ahead of print]
Martínez-Macías MI, Qian W, Miki D, Pontes O, Liu Y, Tang K, Liu R, Morales-Ruiz T, Ariza RR, Roldán-Arjona T, Zhu JK. 2012. A DNA 3' phosphatase functions in active DNA demethylation in Arabidopsis. Molecular Cell. 45:357-370.
Chaston JM et al. 2011. The entomopathogenic bacterial endosymbionts Xenorhabdus and Photorhabdus: convergent lifestyles from divergent genomes. Plos ONE. 6: e27909.
Barrera-Figueroa BE, Gao L, Diop NN, Wu Z, Ehlers JD, Roberts PA, Close TJ, Zhu J-K, Liu R. 2011. Identification and comparative analysis of drought-associated microRNAs in two cowpea genotypes. BMC Plant Biology 11:127.
Liu R. 2009. Origin and evolution of the bacterial flagellar system. In: Ken F. Jarrell (Ed.). Pili and Flagella: Current research and future trends. Caister Academic Press, Norfolk, UK. pp.207-214.
DeBarry J, Liu R, Bennetzen JL. 2008. Discovery and assembly of repeat family pseudomolecules from sparse genomic sequence data using the Assisted Automated Assembler of Repeat Families (AAARF) algorithm. BMC Bioinformatics. 9:235.
Liu, R. and Ochman, H. 2007. The origins of flagellar gene operons and secondary flagellar systems. J. Bacteriol. doi:10.1128/JB.00643-07.
Liu, R., Vitte, C., Ma, J., Mahama, A.A., Dhliwayo, T., Lee, M. and Bennetzen, J.L. 2007. A GeneTrek analysis of the maize genome. Proc. Natl. Acad. Sci. U S A 104:11844-49.
Liu, R. and Asmussen, M.A. 2007. Cytonuclear dynamics of selfing populations under selection. Theor. Popul. Biol. 71:445-53.
Liu R. and Ochman, H. 2007. Stepwise formation of the bacterial flagellar system. Proc. Natl. Acad. Sci. U S A 104:7116-21.
Ochman, H., Liu, R. and Rocha, E.P.C. 2007. Erosion of interaction networks in reduced and degraded genomes. J. Exp. Zool. (Mol. Dev. Evol.) 308B:97-103.