Publications

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[e]:equal contribution. Bold: people from the Shiu lab.

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Contents

2008

Rensing SA, ... Hanada K, ... Shiu SH,... Boore JL (70 co-authors). (2008) The genome of the moss Physcomitrella patens reveals evolutionary insights into the conquest of land by plants. Science 319:64-69 pubmed pdf
Zhang X, Shiu S, Cal A, Borevitz JO. (2008) Global analysis of genetic, epigenetic and transcriptional polymorphisms in Arabidopsis thaliana using whole genome tiling arrays. PLoS Genet. 4:e1000032. pubmed pdf
Shiu, S. H. and Borevitz, J. O. (2008). The next generation of microarray research: applications in evolutionary and ecological genomics. Heredity 100:141-9. [Review] pubmed pdf

2007

Gingerich DJ, Hanada K, Shiu SH, and Vierstra RD. (2007) Large-Scale, Lineage-Specific Expansion of a Bric-a-Brac/Tramtrack/Broad Complex Ubiquitin-Ligase Gene Family in Rice. Plant Cell 19:2329. pubmed pdf
Hanada K, Shiu SH, and Li WH. (2007) The Nonsynonymous/synonymous substitution rate ratio versus the radical/conservative replacement rate ratio in the evolution of mammalian genes. Mol Biol Evol 24:2235-4. pubmed pdf
Hanada K, Zhang X, Borevitz JO, Li WH., and Shiu SH (2007) A large number of novel coding small open reading frames in the intergenic regions of the Arabidopsis thaliana Genome are transcribed and/or under purifying selection. Genome Research 17(5): 632-640. pubmed pdf

suppA suppB suppC

Robatzek S, Bittel P, Chinchilla D, Kochner P, Felix G, Shiu SH, Boller T. (2007) Molecular identification and characterization of the tomato flagellin receptor LeFLS2, an orthologue of Arabidopsis FLS2 exhibiting characteristically different perception specificities. Plant Mol. Biol. 64:539-547. pubmed pdf
Ahn YO, Zheng M, Bevan DR, Esen A, Shiu SH, Benson J, Peng HP, Miller JT, Cheng CL, Poulton JE, Shih MC (2007) Functional genomic analysis of Arabidopsis thaliana glycoside hydrolase family 35. Phytochemistry 68:1510-20. pubmed pdf
Hallen, HE, Huebner M, Shiu, SH, Guldener U, Trail F. (2007) Gene expression shifts during perithecium development in Gibberella zeae (anamorph Fusarium graminearum), with particular emphasis on ion transport proteins. Fungal Genet Biol 24:2235-4. pubmed pdf

Schaller GE, Doi K, Hwang I, Kieber JJ, Khurana JP, Kurata N, Mizuno T, Pareek A, Shiu SH, Wu P, Yip WK. (2007) Nomenclature for two-component signaling elements of rice. Plant Physiol. 143:555-7 [Letter to the Editor]

pubmed pdf

2006

Wang, W., Esch, J. J., Shiu, S.-H., Agula, H., Binder, B. M., Chang, C., Patterson, S. E. and Bleecker, A. B. (2006). Identification of Important Regions for Ethylene Binding and signaling in the Transmembrane Domain of the ETR1 Ethylene Receptor of Arabidopsis. Plant Cell 18: 3429-3442. pubmed pdf
Samuel, M. A., Salt, J. N., Shiu, S.-H., and Goring, D. R. (2006). Multifunctional arm repeat domains in plants. Int J Cytol 253:1-26. [Review] pubmed pdf
Kim, J.[e], Shiu, S.-H.[e], Thoma, S., Li, W.-H., Patterson, S. A. (2006). Patterns of expansion and expression divergence in the plant polygalacturonase gene family. Genome Biology 7, R87. pubmed pdf
Shiu, S.-H., Byrnes, J. K., Pan, R., Zhang, P., and Li, W. H. (2006). Role of positive selection in the retention of duplicate genes in mammalian genomes. Proc Natl Acad Sci U S A 103, 2232-2236. pubmed pdf

Pre-Michigan State

Shiu, S.-H., Shih, M. C., and Li, W. H. (2005). Transcription factor families have much higher expansion rates in plants than in animals. Plant Physiol 139, 18-26. pubmedpdfcite
Mudgil, Y.[e], Shiu, S.-H.[e], Stone, S. L., Salt, J. N., and Goring, D. R. (2004). A large complement of the predicted Arabidopsis ARM repeat proteins are members of the U-box E3 ubiquitin ligase family. Plant Physiol 134, 59-66. pubmedpdfcite
Shiu, S.-H., Karlowski, W. M., Pan, R., Tzeng, Y. H., Mayer, K. F., and Li, W. H. (2004). Comparative analysis of the receptor-like kinase family in Arabidopsis and rice. Plant Cell 16, 1220-1234. pubmedpdfcite
Shiu, S.-H., and Li, W. H. (2004). Origins, Lineage-Specific Expansions, and Multiple Losses of Tyrosine Kinases in Eukaryotes. Mol Biol Evol 21, 828-840. pubmedpdfcite
Nakhamchik, A., Zhao, Z., Provart, N. J., Shiu, S.-H., Keatley, S. K., Cameron, R. K., and Goring, D. R. (2004). A comprehensive expression analysis of the Arabidopsis proline-rich extensin-like receptor kinase gene family using bioinformatic and experimental approaches. Plant Cell Physiol 45, 1875-1881. pubmedpdfcite
Shiu, S.-H., and Bleecker, A. B. (2003). Expansion of the receptor-like kinase/Pelle gene family and receptor-like proteins in Arabidopsis. Plant Physiol 132, 530-543. pubmedpdfcite
Gagne, J. M., Downes, B. P., Shiu, S.-H., Durski, A. M., and Vierstra, R. D. (2002). The F-box subunit of the SCF E3 complex is encoded by a diverse superfamily of genes in Arabidopsis. Proc Natl Acad Sci U S A 99, 11519-11524. pubmedpdfcite
Shiu, S.-H., and Bleecker, A. B. (2001). Plant receptor-like kinase gene family: diversity, function, and signaling. Science STKE 2001, RE22. [Review] pubmedpdfcite
Shiu, S.-H., and Bleecker, A. B. (2001). Receptor-like kinases from Arabidopsis form a monophyletic gene family related to animal receptor kinases. Proc Natl Acad Sci U S A 98, 10763-10768. pubmedpdfcite

Back in PI's college days

Tzean, S.-S., S.-C. Chiu, J.-L. Chen, S.-H. Shiu, G.-H. Lin, G.-Y. Liou, C.-C. Chen, and W.-H. Hsu. 1994. Penicillium and related teleomorphs from Taiwan. Mycological Monograph No. 9. Food Industry Research and Development Institute, Hsinchu, Taiwan. - -
Tzean, S.-S., J.-L. Chen, and S.-H. Shiu. 1992. Talaromyces unicus sp-nov from Taiwan. Mycologia 84: 739-749. - pdf

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