I. The on/off switch of reversible gene expression by sugar starvation and provision 有糖、缺糖反向調控基因表現的開與關
II. Nutrient starvation and hormone cross signaling during germination and seedling growth 營養缺乏與荷爾蒙的訊息傳遞交集
III. Signaling pathway regulating flooding tolerance
調控耐淹水的訊息傳遞
Yu, S-M*, Lee, H-T, Lo, S-F, and Ho, T-HD (2019) How does rice cope with too little oxygen during its early life. New Phytol (in press).
Chen, Y-S, Ho, THD, Liu, L, Lee, DH, Lee, C-H, Chen, Y-R, Lin, S-Y, Lu, C-A and Yu, S-M* (2019) Sugar regulated interactions between MYBS2 and 14-3-3 proteins enhances plant growth, stress tolerance and grain weight in rice. Pro Natl Acad Sci, Plus, USA, 116:21925-21935.
Yu, S-M*, Lo, S-F and Ho, THD (2015) Source-Sink Communication: Regulated by Hormone, Nutrient, and Stress Cross-signaling. Trends Plant Sci 20: 844-857. (Review).
Wu, C-S, Kuo-W-Tin, Chang, C-Yu, Kuo, J-Y, Tsai, Y-T, Yu, S-M. Wu, H-T, and Chen, P-W* (2014) The modified rice αAmy8 promoter confers high-level foreign gene expression in a novel hypoxia-inducible expression system in transgenic rice seedlings. Plant Mol Biol (85:147-161.)
Lee, K-W, Chen, P-W and Yu, S-M* (2014) Metabolic adaptation to sugar/O2 deficiency for anaerobic germination and seedling growth in rice. A special issue on Flooding Stress in Plants.Plant, Cell & Environ (37:2234-2244) (invited review).
Lin, C-R, Chen, Ch-Y, Ho, H-L, Chen, J-L, Hong, Y-F, Lee, K-W, Lu, C-A and Yu, S-M* (2014) SKIN modulates the starvation signaling sensor SnRK1 in source-sink communication for nutrient mobilization in cereal grains under abiotic stresses. Plant Cell 2014 26: 808-827.
Ho, S-L*, Huang, L-F, Lu, C-A, Wang, C-C, Chen, J, and Yu, S-M* (2012) The Sugar starvation- and GA-inducible calcium-dependent protein kinase 1 feedback regulates GA biosynthesis and activates a 14-3-3 protein to confer drought tolerance in rice seedlings. Plant Mol Biol 81:347–361.
Hong, Y-F, Ho, T-H David, Wu, C-F, Ho, S-L, Yeh, R-H, Lu, C-A, Chen, P-W, and Yu, S-M* (2012) Convergent starvation signals and hormone crosstalk in regulating nutrient mobilization upon germination. Plant Cell 24:2857-2873.
Su, C-F, Wang, Y-C, Lu, C-A, Hsieh, T-H and Yu, S-M* (2010) A novel MYBS3-dependent pathway confers cold tolerance in rice. Plant Physiol 153: 145-158
Lu, C-A, Lin, C-C, Lee, K-W, Chen, J-L, Ho, S-L, Huang, L-F, Hsing, Y-I, and Yu, S-M* (2007) The SnRK1A protein kinase plays a key role in sugar signalling during germination and seedling growth of rice. Plant Cell 19: 2484-2499.
Wang, H-J, Wan, A-R, Hsu, C-M, Lee, K-W, Yu, S-M and Jauh, G-Y* (2006) Transcriptomic adaptations in rice suspension cells under sucrose starvation. Plant Mol Biol 63: 441-463.
Chen, P-W, Chiang, C-M, Tseng, T-H and Yu, S-M* (2006) Interaction between Rice MYBGA and GA response element controls tissue-specific sugar sensitivity of α-amylases genes. Plant Cell 18: 2326-2340.
Chen, M-H, Huang, L-F Li, H-M, Chen, Y-R, and Yu, S-M* (2004) Signal peptide-dependent targeting of a rice α-amylase and cargo proteins to plastids and extracellular compartments of plant cells. Plant Physiol 135: 1367-1377.
Lee, Y-C, Lu, C-A, Casaretto, J and Yu, S-M* (2003) An ABA inducible bZIP protein, OsBZ8, mediates sugar repression of α-amylase gene expression. Physiol Plant 119:78-86.
Lu, C-A, Ho, T-HD, Ho, S-L and Yu, S-M* (2002) Three novel Myb proteins with DNA-binding repeat mediate sugar and hormonal regulation of α-amylase gene expression. Plant Cell 14:1963-1980.
Chen, P-W, Lu, C-A, Yu, T-S, Tseng, T-H, Wang, C-S and Yu, S-M* (2002) Rice α-amylase transcriptional enhancers direct multiple mode regulation of promoters in transgenic rice. J Biol Chem 277: 13641-13649.
Ho, S-L, Chao, Y-C, Tong, W-F, and Yu, S-M* (2001) Sugar coordinately and differentially regulates growth- and stress-related gene expression via a complex signal transduction network and multiple control mechanisms. Plant Physiol 125: 877-890.
Yu, S-M* (1999) Regulation of α-amylase gene expression. In: Molecular Biology of Rice. K. Shimamoto (ed.), Chapter 9. Springer-Verlag, Tokyo. p.161-178. (invited review)
Chan, M-T and Yu, S-M* (1998) The 3'untranslated region of a rice α-amylase gene functions as a sugar-dependent mRNA stability determinant. Proc Natl Acad Sci USA 95:6543-6547.
Chan, M-T, and Yu, S-M* (1998) The 3'untranslated region of a rice α-amylase gene mediate sugar-dependent abundance of mRNA. Plant J 15:685-696.
Lu, C-A, Lim, E-K and Yu, S-M* (1998) Sugar response sequence in the promoter of a rice α-amylase gene serves as a transcriptional enhancer. J Biol Chem 273:10120-10131.
Sheu, J-J, Yu, T-S, Tong, W-F, and Yu, S-M* (1996) Carbohydrate starvation stimulates differential expression of rice α-amylase genes that is modulated through complicated transcriptional and post-transcriptional processes. J Biol Chem 271:26998-27004.
Yu, S-M*, Lee, Y-J, Fang, S-C, Chan, M-T, Hwa, S-F, and Liu, L-F (1996) Sugars act as signal molecules and osmotica to regulate the expression of α-amylase genes and metabolic activities in germinating cereal grains. Plant Mol Biol 30: 1277-1289
Chen, M-H, Liu, L-F, Chen, Y-R, Wu, H-K, and Yu, S-M* (l994) Expression of α-amylases, carbohydrate metabolism, and autophagy in cultured rice cells are coordinately regulated by sugar nutrient. Plant J 6:625-636.
Chan, M-T, Chao, Y-C, and Yu, S-M* (1994) Novel gene expression system for plant cells based on induction of α-amylase promoter by carbohydrate starvation. J Biol Chem 269: 17635-17641.
Sheu, J-J Jan, S-P, Lee, H-T, and Yu, S-M* (1994) Control of transcription and mRNA turnover as mechanisms of metabolic regulation in rice α-amylase gene expression. Plant J 5:655-664.
Chan, M-T, Chang, H-H, Ho, S-L, Tong, W-F, and Yu, S-M* (1993) Agrobacterium-mediated production of transgenic rice plants expressing a chimeric α-amylase promoter/ß-glucuronidase gene. Plant Mol Biol 22:491-506.
Yu, S-M*, Tzou, W-S, Lo, W-S, Lee, H-T, and Wu, R (l992) Regulation of α-amylase-encoding gene expression in germinating seeds and cultured cells of rice. Gene 122:247-253.
Yu, S-M*, Kuo, Y-H, Sheu, G, Sheu, Y-J, and Liu, L-F (l991) Metabolic derepression of α-amylase gene expression in suspension-cultured cells of rice. J Biol Chem 266: 21131-21137.
IV. Rice functional genomics research
水稻功能性基因體研究
V. Root system and stress tolerance
水稻根系生長與逆境 適應能力
Lo, S-F, Cheng, M-L, Lin, C-W, Hong, Y-F, Lee, K-Wei, Hsiao, Y, Hsiao, A-S, Chen, P-J, Wong, L-I, Chen, N-C, Hsing, Y-I, Reuzeau, C*, Yu, S-M*, Ho, T-HD* (2019) RBG1 increases cell division and auxin levels to enhance seed and root development and stress recovery. Plant Biotech J (under revision)
Wang, P, Karki, Shanta, Biswal, AK, Lin, H-C, Dionora, MJ, Rizal, G, Yin, X, Schuler, ML, Hughes, T, Fouracre, JP, Jamous, BA, Sedelnikova, O, Lo, S-F, Bandyopadhyay, A, Yu, S-M, Kelly, S, Quick, WP and Langdale, JA* (2017) Candidate regulators of vein spacing in maize perturb hormone signalling and secondary cell wall formation when constitutively expressed in rice. Sci Rep 2017 Jul 3;7(1):4535. doi: 10.1038/s41598-017-04361-w.
Cheng, M-L, Lo, S-F, Hsiao, A-S, Hong, Y-F, Yu, S-M*, Ho THD* (2017) Ectopic expression of WINDING1 leads to asymmetrical distribution of auxin and a spiral phenotype in rice. Plant Cell Physiol, 58:1494-1506.
Lo, S-F, Ho, T-H D*, Liu, Y-L, Jiang, M-J, Hsieh, K-T, Chen, K-T, Yu, L-C, Lee, M-H, Chen, C-Y, Huang, T-P, Kojima, M, Sakakibara, H, Chen, L-J*, and Yu, S-M* (2017) Ectopic expression of specific GA2 oxidase mutants promotes yield and stress tolerance in rice. Plant Biotechnol J 15:850–864.
Wei, F-J, Tsai, Y-C, Hsu, Y-M, Chen, Y-A, Huang, C-T, Wu, H-P, Huang, L-T, Lai, M-H, Kuang, L-Y, Lo, S-F, Yu, S-M, Lin, Y-R, Hsing, Y-I.* (2016) Lack of Genotype and Phenotype Correlation in a Rice T-DNA Tagged Line Is Likely Caused by Introgression in the Seed Source. PLoS One. 2016 May 17;11(5):e0155768.
Feldman, AB, Murchie, EH*, Leung, H, Baraoidan, M, Coe, R, Yu, S-M, Lo, S-F, Quick, WP (2014) Increasing leaf vein density by mutagenesis: Laying the foundation for C4 rice. PLOS ONE 9(4): e94947. doi:10.1371/journal.pone.0094947.
Tseng, I-C, Hong, C-Y, Kao, Y-T, Yu, S-M and Ho, T-H D* (2013) A group of highly proline-rich glycoproteins mediate ABA/stress regulated root growth in rice. Plant Physiol 163:118-134.
Kanjanaphachoat, P, Wei, B-Y, Lo, S-F, Wang, I-W, Wang, C-S, Wang, Yu, S-M, Yen, M-L, Chiu, S-H, Lai, C-C* and Chen, L-J* (2012) Serotonin accumulation in transgenic rice by over-expressing tryptophan decarboxlyase results in a dark brown phenotype and stunted growth. Plant Mol Biol 78:525–543.
Su, C-F, Wang, Y-C, Lu, C-A, Hsieh, T-H and Yu, S-M* (2010) A novel MYBS3-dependent pathway confers cold tolerance in rice. Plant Physiol 153: 145-158.
Huang, C-K, Yu, S-M, Lu, C-A* (2010) A rice DEAD-box protein, OsRH36, can complement an Arabidopsis atrh36 mutant, but cannot functionally replace its yeast homolog Dbp8p. Plant Mol Biol 74: 119-128.
Krishnan, A, Guiderdoni, E, An, G, Hsing, Y-IC, Han, C-D; Lee, MC, Yu, S-M, Upadhyaya, N, Ramachandran, S, Zhang, Q, Sundaresan, V, Hirochika, H, Leung, H* (2008) Mutant Resources in Rice for Functional Genomics of the Grasses. Plant Physiol 149: 165-170.
Lo, S-F, Yang, S-Y, Chen, K-T, Hsing, Y-I, Zeevaart, JAD, Chan, L-C* and Yu, S-M* (2008) A novel class of gibberellin 2-oxidasees control semidwarfism, terllering and root development in rice. Plant Cell 20:2603-2618.
Lee, C-Y, Agrawal, DC, Chou, T-M, Wang, C-S, Yu, S-M, Chen, J-W and Tsay, H-S* (2008) T-DNA activation tagging as a tool to isolate Salvia miltiorrhiza Bunge transgenic lines for higher yields of tanshinones. Planta Medica 74: 780-786.
Lu, C-A, Lin, C-C, Lee, K-W, Chen, J-L, Ho, S-L, Huang, L-F, Hsing, Y-I, and Yu, S-M* (2007) The SnRK1A protein kinase plays a key role in sugar signalling during germination and seedling growth of rice. Plant Cell 19: 2484-2499.
Guiderdoni, E*, An, G, Yu, S-M, Hsing, Y-I, and Wu, C (2007) T-DNA insertion mutants as a resource for rice functional genomics. In: Rice Functional Genomics – Challenges, Progress and Prospects, Chapter 9. Narayana Upadhyaya (ed.), Springer. p. 181-221. (invited review)
Chern, C-Ga, Fan, M-Ja, Yu, S-Ma, Hour A-L, Lu P-C, Lin Y-C, Wei F-J, Huang S-C, Chen S, Lai M-H, Tseng C-S, Yen H-M, Jwo W-S, Wu C-C, Yang T-L, Li, L-S, Kuo Y-C, Li S-M, Li C-P, Wey C-K, Trisiriroj A, Lee H-F, and Hsing, Y-I* (2007) A rice phenomics study-Phenotype scoring and seed propagation of a T-DNA insertion-induced rice mutant population. A special issue on Rice Functional Genomics and Biotechnology in Asia. Wilhelm Gruissem (ed.). Plant Mol Biol 65: 427-438. (Invited article) (a Co-first author)
Yu, S-M, Ko, S-S, Hong, C-Y, Sun, H-J, Hsing, Y-I and Ho, T-HD* (2007) Global functional analyses of rice promoters by genomics approaches. A special issue on Rice Functional Genomics in Asia. Wilhelm Gruissem (ed.). Plant Mol Biol 65: 417-425. (Invited article)
Hsing, Y-I, Chern, C-G, Fan, M-J, Lu, P-C, Chen, K-T, Lo, S-F, Sun, P-K, Ho, S-L, Lee, K-W, Wang, Y-C, Huang, W-L, Ko, S-S, Chen, S, Chen, J-L, Chung, C-I, Lin, Y-C, Hour, A-L, Wang, Y-W, Chang, Y-C, Tsai, M-W, Lin, Y-S, Chen, Y-C, Yen, H-M, Li, C-P, Wey, C-K, Tseng, C-S, Lai, M-H, Huang, S-C, Chen, L-J, Yu, S-M* (2007) A rice gene activation/knockout mutant resource for high throughput functional genomics. Plant Mol Biol 63:351-364. [Selected as a Fast Breaking Paperin the field of Plant & Animal Science, one of the most-cited papers (top 1%) in its discipline published during 2006-2007].
Ho, T-HD*, Hong, C-Y, Chan, M-T and Yu, S-M (2006) “Designing and constructing novel gene promoters to generate stress-tolerant plants without yield penalty” in Rice Genetics V: Proceedings of the Fifth International Rice Genetics Symposium, Darshan S Brar, David J Mackill & Bill Hardy (ed.). p.331-340.
Chao, Y-T, Chen, C-S, Chen, H-H, Chow, T-Y, Chung, M-C, Hsieh, J-S, Hsing, Y-I, Lee, P-F, Lin, Y-R, Shaw, J-F, Su, C-L, Wu, H-P, and Yu, S-M (2003) Rice structural and functional genome research in ASPGC, Academia Snica. J Genet and Mol Biol 14: 201-206.
Ho, S-L, Tong, W-F, and Yu, S-M* (2000) Multiple mode regulation of a cysteine proteinase gene expression in rice. Plant Physiol
122: 57-66.
Arencibia, A*, Elva, C, Chan, M-T, Yu, S-M, Pilar, T, and Sala, F (1998) An efficient protocol for sugarcane transformation mediated by Agrobacterium tumefaciens. Transgenic Res 7:213-222.
Chan, M-T, Chang, H-H, Ho, S-L, Tong, W-F, and Yu, S-M* (1993) Agrobacterium-mediated production of transgenic rice plants expressing a chimeric a-amylase promoter/ß-glucuronidase gene. Plant Mol Biol 22:491-506.
VI. Molecular Farming and Cellulases 分子農場及纖維水解酵素
Wu, M-H, Lin, M-C, Lee, C-C, Yu, S-M, Wang, AH-J, Ho, T-HD* (2019) Enhancement of laccase activity by pre-incubation with organic solvents. Sci Rep (in press)
Kao, M-R, Kuo, H-W, Lee, C-C, Huang, K-Y, Huang, T-Y, Li, C-W, Chen, CW, Wang, AH-J, Yu, S-M, Ho, T-HD (2019) Chaetomella raphigera β-glucosidase D2-BGL has intriguing structural features and a high substrate affinity that renders it an efficient cellulase supplement for lignocellulosic biomass hydrolysis. Biotechnol Biofuels (in press).
Wu, M-H, Lee, C-C, Hsiao, A-S, Yu, S-M, Wang, AH-J, Ho, T-HD* (2018) Kinetic analysis and structural studies of a high-efficiency laccase from Cerrena sp. RSD 1. FEBS Open Bio 8: 1230-1246.
Chang, C-J, Lee, C-C, Chan, Y-T, Trudeau, DL, Wu, M-H, Tsai, C-H, Yu, S-M, Ho, T-HD, Wang, AH-J, Hsiao, C-D, Arnold, FH and Chao,Y-C* (2016) Exploring the mechanism responsible for cellulase thermostability by structure-guided recombination. PLOS ONE 17:11(3):e0147485.
Yoneda, A, Kuo, H-W D, Ishihara, M, Azadi, P, Yu, S-M and Ho,T-H D* (2014) Glycosylation variants of a β-glucosidase 1 secreted by a Taiwanese fungus, Chaetomella raphigera, exhibit variant-specific catalytic and biochemical properties. PLOS ONE 9(9): e106306. doi:10.1371/journal.pone.0106306.
Yeh, Y-F, Chang, S C-Y, Kuo, H-W, Tong, C-G, Yu, S-M*, Ho, T-H D* (2012) A metagenomic approach for the identification and cloning of an endoglucanase from rice straw compost. Gene 519: 360-366.
Chang, C-J, Wu, C P, Lu, S-C, Chao, A, Ho, THD, Yu, S-M, and Chao, Y-C* (2012) A novel exo-cellulase from white spotted longhorn beetle (Anoplophora malasiaca). Insect Biochem and Mol Biol 42: 629-636.
Su, C-F, Kuo, I-C, Huang, C-H, Seow, SV, Chen, P-W, Chua, KY* and Yu, S-M* (2011) Characterization of an immunomodulatory Der p 2-FIP-fve fusion protein produced in transgenic rice cell culture. Transgenic Res (2012) 21:177–192.
Ng, I-S, Tsai, S-W, Ju, Y-M, Yu, S-M*, Ho, T-h D* (2011) Dynamic Synergistic Effect on Trichoderma reesei cellulases by novel β-glucosidases from Taiwanese fungi. Bioresource Tech 2011 May;102(10):6073-81.
Chen, P-T, Shaw, J-F, Chao, Y-P, Ho, T-H D*, Yu, S-M* (2010) Construction of chromosomally located T7 expression 1 system for production of heterologous secreted proteins in Bacillus subtilis. J Agric Food Chem 58: 5392-5399.
Ng, I-S, Li, C-W, Chan, S-P, Chir, J-L, Chen, P-T, Tong, C-G, Yu, S-M*, Ho, T-HD* (2009) High-level production of a thermoacidophilic β-glucosidase from Penicillium citrinum YS40-5 by solid state fermentation with rice brans. Bioresource Tech 101:1310-1317.
Ng, I-S, Li, C-W, Yeh, Y-F, Chen, P-T, Chir, J-L, Ma, C-H, Yu, S-M, Ho, T-HD*, Tong, C-G* (2009) A novel endoglucanase from the thermophilic bacterium Geobacillus sp. 70PC53 with high activity and stability over a broad range of temperature. Extremophiles 13: 425-435.
Hong, Y-F, Liu, C-Y, Cheng, K-J, Hour, A-L, Chan, M-T, Tseng, T-H, Chen, K-Y, Shaw, J-F and Yu, S-M* (2008) The sweet potato sporamin promoter confers high-level phytase expression and improves organic phosphorus acquisition and tuber yield in transgenic potato. Plant Mol Biol 67:347-361.
Huang, L.-F., Liu, Y.-K., Hsieh, S-L. and Yu, S.-M.* (2005) Production of human serum albumin by sugar starvation induced promoter and rice cell cultures. Transgenic Res 14:569-581.
Chiang, C-M, Yeh, F-S, Tseng, T-H, Wang, C-S, Lur, H-S, Shaw, J-F and Yu, S-M* (2005) Expression of a bifunctional and thermostable amylopullulanase in transgenic rice seeds leads to starch autohydrolysis and altered composition of starch. Mol Breeding 15: 125-143.
Hong, C-Y, Chen, K-J, Liu, L-F, Tseng, T-H, Wang, C-S, and Yu, S-M* (2004) Production of two highly active bacterial phytases with broad pH optima in germinating transgenic rice seeds. Transgenic Res 13: 29-39.