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Peer Reviewed Publications (*coresponding author, +graduate student, # undergraduate student)

 Ahmad Rajeh A#., Lv J., and Lin Z.* Heterogeneous rates of genome rearrangement contributed to the disparity of species richness in Ascomycota. BMC Genomics 2018 In press

Chen, F., Dong, W., Zhang, J., Guo, X., Lin, Z., Tang, H., Zhang, L., The sequenced angiosperm genomes and genome databases  Frontiers Plant Science 2018 9:418. doi: 10.3389/fpls.2018.00418 [Full Text | PDF]

Chen F., Hu Y.,  Vannozzi A., Wu K., Cai H., Qin Y., Mullis A+., Lin Z*., and Zhang L*. The WRKY transcription factor family in model plants and crops. Critical Reviews in Plant Sciences. 2018 DOI: 10.1080/07352689.2018.1441103 [Full Text | PDF]

Wang B, Han X, Bai Y, Lin Z, Qiu M, Nie X, Wang S, Zhang F, Zhuang Z, Yuan J, Wang S. Effects of nitrogen metabolism on growth and aflatoxin biosynthesis in Aspergillus flavus. J Hazard Mater. 2017;324(Pt B):691-700. [ Full text  |PDF 

Zhang, L., Chen, F., Zhang, GQ., Zhang, YQ., Niu, S.; Xiong, JS., Lin, Z.,Cheng, Z.,Liu, ZJ.; Origin and mechanism of crassulacean acid metabolism in orchids as implied by comparative transcriptomics and genomics of the carbon fixation pathway. The Plant Journal; 2016: 86: 175-185 [ Full text  |PDF 

Li, Y., Zhang, W., Zheng, D., Zhou, Z., Yu, W., Zhang, L., Feng, L., Liang, X., Guan, W., Zhou, J., Chen, J. and Lin, Z*. Genomic Evolution of Saccharomyces cerevisiae under Chinese Rice Wine Fermentation. Genome Biol Evol. 2014: 6: 2516-2526  [ Full text  |PDF 

Lin, Z. and W.-H. Li, Comparative Genomics and Evolutionary Genetics of Yeast Carbon Metabolism, in Molecular Mechanisms in Yeast Carbon Metabolism, J. Piškur and C. Compagno, Editors. 2014, Springer Berlin Heidelberg. p. 97-120. [full text | PDF ]

Zhu,Y., Lin, Z., and Nakhleh, L., Evolution After Whole-genome Duplication: A Network Perspective. G3: Genes, Genomes, Genetics; 2013:3:2049-2057 [ Full text  |PDF 

Lin, Z., Wang TY, Tsai BS, Wu FT, Yu FJ, Tseng YJ, Sung HM and Li WH. Identifying cis-regulatory changes involved in the evolution of aerobic fermentation in yeasts. Genome Biol. Evol: 2013:5:1065-1078.  [ Full text  |PDF 

Li, Y., Zhang, L.,Ball, RL., Liang, X., Li, J., Lin, Z., and Liang, H. Comparative analysis of somatic copy-number alterations across different human cancer types reveals two distinct classes of breakpoint hotspots. Hum. Mol. Genet. 2012:21:4957-4965 [ Full text  |PDF 

Lin, Z., and Li, WH.  Evolution of 5’untranslated region length and gene expression reprogramming in yeasts.  Mol. Biol. Evol: 2012:29:81-89 [ Full text |PDF ]

Lin, Z., and Li, WH.  The evolution of aerobic fermentation in Schizosaccharomyces pombe was associated with regulatory reprogramming but not nucleosome reorganization.  Mol. Biol. Evol; 2011: 28: 1407-1413  [ Full text  |PDF]

Lin, Z., and Li, WH. Expansion of hexose transporter genes was associated with evolution of aerobic fermentation in yeasts. Mol. Biol. Evol; 2011: 28: 131-142 [ Full text |PDF ]

Lin, Z., Wu, WS., Liang, H., Woo, Y and Li, WH. Spatial distributions of cis regulatory elements and nucleosomes in yeast promoters and their effects on transcriptional regulation. BMC Genomics; 2010, 11:581 [ Full text |PDF ]

Zhou, X., Lin, Z., and Ma, H.  Phylogenetic detection of numerous gene duplications shared by animals, fungi and plants. Genome Biology; 2010; 11: R38 [Full text| PDF ]

Li, Y., H. Liang, Gu, Z.,  Lin, Z., Guan, W., Zhou, L., Li, Y. and Li, W. H. Detecting positive selection in the budding yeast genome. J Evol Biol; 2009; 22: 2430. [Full text | PDF ]

Lin, Z.*, Ma, H., and Nei, M. Ultraconserved coding regions outside the homeobox of mammalian Hox genes.  BMC Evol Biol. 2008; 8: 260. [ Full text |PDF |Commented by J. of Biology article]

Lin, Z., Nei, M., and Ma, H. The origins and early evolution of DNA mismatch repair genes: multiple horizontal gene transfers and co-evolution. Nucleic Acids Res2007; 35, 7591-7603. [ Full text | PDF ]

Lin, Z., Kong, H., Nei, M., and Ma, H. Origins and evolution of the recA/RAD51 gene family: evidence for ancient gene duplication and endosymbiotic gene transfer.Proc. Natl. Acad. Sci. U S A 2006; 103, 10328-10333. [ Full text | PDF |Faculty of 1000 Biology recommended  Science Editors' Choice ]

Li, W., Yang, X., Lin, Z., Timofejeva, L., Xiao, R., Makaroff, C.A., and Ma, H. TheAtRAD51C gene is required for normal meiotic chromosome synapsis and double-stranded break repair in Arabidopsis. Plant Physiol 2005; 138, 965-976.  [ Full text | PDF ]

Other Publications

Zhenguo Lin, Gene Transfer from Organelles to Nuclei Visualized, Molecular Evolution Forum, 2012-07

Zhenguo Lin, Instant Insecticide Resistance by Symbiosis, Molecular Evolution Forum, 2012-06

Zhenguo Lin, Evolution of a Poison-Resistance Gene through Introgression, Molecular Evolution Forum, 2012-04

 

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