Home

Publications and Presentations

I. Journal and Book Chapter

 

2015

Jack P. Wang, Ling Chuang, Philip Loziuk, Hao Chen, Ying-Chung Lin, Rui Shi, Guan-Zheng Qu, David C. Muddiman, Ronald R. Sederoff, Vincent L. Chiang (2015).  Phosphorylation is an on/off switch for 5-hydroxyconiferaldehyde O-methyltransferase activity in poplar monolignol biosynthesis. PNAS doi:10.1073/pnas.1510473112

Quanzi Li, Ting-Feng Yeh, Chenmin Yang, Jingyuan Song, Zenn-Zong Chen, Ronald R. Sederoff, and Vincent L. Chiang (2015). Populus trichocarpa, in "Agrobacterium Protocols". Methods in Mol. Biol. 1224: 357-363.

Chien-Yuan Lin, Jack P. Wang, Quanzi Li, Hsi-Chuan Chen, Jie Liu, Philip Loziuk, Jina Song, Cranos Williams, David C. Muddiman, Ronald R. Sederoff, and Vincent L. Chiang (2015). 4-Coumaroyl and Caffeoyl Shikimic Acids Inhibit 4-Coumaric Acid: Coenzyme A Ligases and Modulate Metabolic Flux for 3-Hydroxylation in Monolignol Biosynthesis of Populus trichocarpa. Molecular Plant 8: 176-187.

 

2014

Philip L. Loziuk, Ronald R. Sederoff, Vincent L. Chiang and David C. Muddiman (2014). Establishing ion ration thresholds based on absolute peak area for absolute protein quantification using protein cleavage isotope dilution mass spectrometry. Analyst 139: 5450.

Quanzi Li, Jian Song, Shaobing Peng, Jack P. Wang, Guan-Zheng Qu, Ronald R. Sederoff and Vincent L. Chinag (2014). Plant Biotechnology for lignocellulosic biofuel production. Plant Biotechnol. J. 12: 1174-1192.

Ying-Chung Lin, Wei Li, Hao Chen, Quanzi Li, Ying-Hsuan Sun, Rui Shi, Chien-Yuan Lin, Jack P. Wang, Hsi-Chuan Chen, Ling Chuang, Guan-Zheng Qu, Ronald R. Sederoff & Vincent L. Chiang (2014). A simple improved-throughput xylem protoplast system for studying wood formation. Nat. Protoc. 9: 2194-2205. 

Wei Li, Ying-Chung Lin, Quanzi Li, Rui Shi, Chien-Yuan Lin, Hao Chen, Ling Chuang, Guan-Zheng Qu, Ronald R. Sederoff & Vincent L. Chiang (2014). A robust chromatin immunoprecipitation protocol for studying transcription factor-DNA interactions and histone modifications in wood-forming tissue. Nat. Protoc. 9: 2180-2193.

Tomoyuki Nakatsubo, Safendrri Komara Ragamustari, Takefumi Hattori, Eiichiro Ono, Masaomi Yamamura, Laigeng Li, Vincent L. Chiang and Toshiaki Umezawa (2014). A new O-methyltransferase for monolignol synthesis in Carthamus tinctorius. Plant Biotechnol. 31:545-553.

Kabindra Kafle, Rui Shi, Christopher M. Lee, Ashutosh Mittal, Yong Bum Park, Ying-Hsuan Sun, Sunkyu Park, Vincent Chiang, Seong H. Kim (2014). Vibrational sum-frequency-generation (SFG) spectroscopy study of the structural assembly of cellulose microfibrils in reaction woods. Cellulose 21: 2219-2231.

Jack P. Wang, Punith P. Naik, Hsi-Chuan Chen, Rui Shi, Chien-Yuan Lin, Jie Liu, Christopher M. Shuford, Quanzi Li, Ying-Hsuan Sun, Sermsawat Tunlaya-Anukit, Cranos M. Williams, David C. Muddiman, Joel J. Ducoste, Ronald R. Sederoff and Vincent L. Chiang (2014). Complete Proteomic-Based Enzyme Reaction and Inhibition Kinetics Reveal How Monolignol Biosynthetic Enzyme Families Affect Metabolic Flux and Lignin in Populus trichocarpa. Plant Cell 26: 894-914.

Hsi-Chuan Chen, Jina Song, Jack P. Wang, Ying-Chung Lin, Joel Ducoste, Christopher M. Shuford, Jie Liu, Quanzi Li, Rui Shi, Angelito Nepomuceno, Fikret Isik, David C. Muddiman, Cranos Williams, Ronald R. Sederoff and Vincent L. Chiang (2014). Systems Biology of Lignin Biosynthesis in Populus trichocarpa: Heteromeric 4-Coumaric Acid:Coenzyme A Ligase Protein Complex Formation, Regulation, and Numerical Modeling. Plant Cell 26: 876-893.

Anna T. Stout, Aletta A. Davis, Jean-Christophe Domeca, Chenmin Yang, Rui Shi, John S. King (2014) Growth under field conditions affects lignin content and productivity in transgenic Populus trichocarpa with altered lignin biosynthesis. Biomass and Bioenergy, 68:228–239.

 

2013

Shanfa Lu, Quanzi Li, Hairong Wei, Mao-Ju Chang, Sermsawat Tunlaya-Anukit, Hoon Kim, Jie Liu, Jingyuan Song, Ying-Hsuan Sun, Lichai Yuan, Ting-Feng Yeh, Ilona Peszlen, John Ralph, Ronald R. Sederoff, and Vincent L. Chiang (2013). Ptr-miR397a is a negative regulator of laccase genes affecting lignin content in Populus trichocarpa. PNAS 110: 10848-10853.

Enying Liu, Shaobing Peng, Quanzi Li, Ying-Hsuan Sun, Vincent L. Chiang, Ronald R. Sederoff (2013). High-level gene expression in differentiating xylem of tobacco driven by a 2.0 kb poplar COMT2 promoter and a 4x35S enhancer. Plant Biotechnol. 30: 191-198.

Toshiaki Umezawa, Safendrri Komara Ragamustari, Tomoyuki Nakatsubo, Shohei Wada, Laigeng Li, Masaomi Yamamura, Norikazu Sakakibara, Takefumi Hattori, Shiro Suzuki, Vincent L. Chiang (2013). A lignin O-methyltransferase catalyzing the regioselective methylation of matairesinol in Carthanus tinctorius. Plant Biotechnol. 30: 97-109.

Ying-Chung Lin, Wei Li, Ying-Hsuan Sun, Sapna Kumari, Hairong Wei, Quanzi Li, Sermsawat Tunlaya-Anukit, Ronald R. Sederoff and Vincent L. Chiang (2013). SND Transcription Factor-Directed Quantitative Functional Hierarchical Genetic Regulatory Network in Wood Formation in Populus trichocarpa. Plant Cell 25: 4324-4341.

Philip L. Loziuk, Jack Wang, Quanzi Li, Ronald R. Sederoff, Vincent L. Chiang and David C. Muddiman (2013). Understanding the role of Proteolytic digestion on Discovery and targeted proteomic measurements using liquid chromatography tandem mass spectrometry and design of experiments. J. Proteome Res. 12: 5820-5829.

Rui Shi, Christopher M. Shuford, Jack P. Wang, Ying-Hsuan Sun, Zhichang Yang, Hsi-Chuan Chen, Sermsawat Tunlaya-Anukit, Quanzi Li, Jie Liu, David C. Muddiman, Ronald R. Sederoff, Vincent L. Chiang (2013). Regulation of phenylalanine ammonia-lyase (PAL) gene family in wood forming tissue of Populus trichocarpa. Planta 238: 487-497.

Hsi-Chuan Chen, Jina Song, Cranos M. Williams, Christopher M. Shuford, Jie Liu, Jack P. Wang, Quanzi Li, Rui Shi, Emine Gokce, Joel Ducoste, David C. Muddiman, Ronald R. Sederoff and Vincent L. Chiang (2013). Monolignol Pathway 4-Coumaric Acid:Coenzyme A Ligases in Populus trichocarpa: Novel Specificity, Metabolic Regulation, and Simulation of Coenzyme A Ligation Fluxes. Plant Physiol. 161: 1501-1516.

 

2012

Quanzi Li, Ying-Chung Lin, Ying-Hsuan Sun, Jian Song, Hao Chen, Xing-Hai Zhang, Ronald R. Sederoff, and Vincent L. Chiang (2012). Splice variant of the SND1 transcription factor is a dominant negative of SND1 members and their regulation in Populus trichocarpa. PNAS 109: 14699-14704.

Min D, Li Q, Jameel H, Chiang V, Chang HM (2012) The cellulase-mediated saccharification on wood derived from transgenic low-lignin lines of black cottonwood (Populus trichocarpa). Applied Biochemistry and Biotechnology, 168: 947.

Rui Shi, Ying-Husan Sun, Xing-Hai Zhang, and Vincent L. Chiang (2012). Poly(T) Adaptor RT-PCR. Methods Mol. Biol. 822:53-66.

Pradeep N. Perera, Martin Schmidt, Vincent L. Chiang, P. James Schuck, Paul D. Adams (2012). Raman-spectroscopy-basednoninvasive microanalysis of native lignin structure. Anal. Bioanal. Chem. 402: 983-987.

Ying-Hsuan Sun, Rui Shi, Xing-Hai Zhang, Vincent L. Chiang and Ronald R. Sederoff (2012). MicroRNAs in trees. Plant Mol. Biol. 80: 37-53.

Jie Liu, Rui Shi, Quanzi Li, Ronald R. Sederoff, Vincent L. Chiang (2012). A standard reaction condition and a single HPLC separation system are sufficient for estimation of monolignol biosynthetic pathway enzyme activities. Planta 236: 879–885.

Shuford CM, Sederoff RR, Chiang VL, Muddiman DC (2012). Peptide production and decay rates affect the quantitative accuracy of protein cleavage isotope dilution mass spectrometry (PC-IDMS). Mol Cell Proteomics 11: 814-823.

Shuford, Christopher; Li, Quanzi; Sun, Ying-Hsuan; Chen, Hsi-Chuan; Wang, Jack; Shi, Rui; Sederoff, Ronnald; Chiang, Vincent; Muddiman, David (2012). Comprehensive Quantification of Monolignol-pathway Enzymes in Populus trichocarpa by Protein Cleavage Isotope Dilution Mass Spectrometry. J. Proteome Res. 11: 3390−3404.

Jack P. Wang, Christopher M. Shuford, Quanzi Li, Jina Song, Ying-Chung Lin, Ying-Hsuan Sun, Hsi-Chuan Chen, Cranos M. Williams, David C. Muddiman, Ronald R. Sederoff, Vincent L. Chiang (2012). Functional Redundancy of the Two 5-Hydroxylases in Monolignol Biosynthesis of Populus trichocarpa: LC-MS/MS Based Protein Quantification and Metabolic Flux Analysis. Planta 236: 795–808.

Rui Shi, Chenmin Yang, Ronald Sederoff & Vincent Chiang (2012). Validation of artificial microRNA expression by poly(A) tailing-based RT-PCR. Protocol Exchange doi:10.1038/protex.2012.003.

 

2011

Hsi-Chuan Chen, Quanzi Li, Christopher M. Shuford, Jie Liu, David C. Muddiman, Ronald R. Sederoff, and Vincent L. Chiang (2011). Membrane protein complexes catalyze both 4- and 3-hydroxylation of cinnamic acid derivatives in monolignol biosynthesis. PNAS 108: 21253-21258.

Raysa Roque-Rivera, Alan F. Talhelm, Dale W. Johnson, Vincent L. Chiang and Kurt S. Pregitzer (2011). Effects of lignin-modified Populus tremuloides on soil organic carbon. J. Plant Nutr. Soil Sci. 174: 818-826.

Shanfa Lu, Chenmin Yang and Vincent L. Chiang (2011). Conservation and Diversity of MicroRNA-associated Copper-regulatory Networks in Populus trichocarpa. JIPB 53: 879-891.

Chuanzhen Zhou, Quanzi Li, Vincent L. Chiang, Lucian A. Lucia and Dieter P. Griffis (2011) Chemical and Spatial Differentiation of Syringyl and Guaiacyl Lignins in Poplar Wood via Time-of-Flight Secondary Ion Mass Spectrometry. Anal. Chem. 83: 7020-7026.

Quanzi Li, Douyong Min, Jack P. Wang, Ilona Peszlen, Laszlo Horvath, Balazs Horvath, Yufuko Nishimura, Hasan Jameel, Hou-Min Chang and Vincent L. Chiang (2011). Down-regulation of glycosyltransferase 8D genes in Populus trichocarpa caused reduced mechanical strength and xylan content in wood. Tree Physiology 31: 226-236.

Ying-Hsuan Sun, Shanfa Lu, Rui Shi and Vincent L. Chiang (2011). Computational Prediction of Plant miRNA Targets. Methods Mol. Biol. 744: 175-186.

 

2010

Novaes, E., Kirst, M., Chiang, V. Winter-Sederoff, H., and Sederoff, R. (2010). Lignin and Biomass: A Negative Correlation for Wood Formation and Lignin Content in Trees. Plant Physiol. 154: 555-561.

Rui Shi, Chenmin Yang, Shanfa Lu, Ronald Sederoff and Vincent L. Chiang (2010). Specific down-regulation of PAL genes by artificial microRNAs in Populus trichocarpa. Planta 6: 1281-1288.

Rui Shi, Ying-Hsuan Sun, Quanzi Li, Steffen Heber, Ronald Sederoff and Vincent L. Chiang. (2010) Towards a Systems Approach for Lignin Biosynthesis in Populus trichocarpa: Transcript Abundance and Specificity of the Monolignol Biosynthetic Genes. Plant and Cell Physiology, 51: 144-163.

 

II. Conference Presentations

 

2014

Philip L. Loziuk, Ronald R. Sederoff, Vincent L. Chiang, and David C. Muddiman. Establishing ion ratio thresholds based on absolute peak area for absolute protein quantification using protein cleavage isotope dilution mass spectrometry. 62nd American Society for Mass Spectrometry Conference. Baltimore, June 15 – 19, 2014

Jack P. Wang, Punith Naik, Rui Shi, Jie Liu, Hsi-Chuan Chen, Chien-Yuan Lin, Christopher M. Shuford, Quanzi Li, David D. Muddiman, Joel Ducoste, Ronald R. Sederoff, Vincent L. Chiang. Metabolic flux, protein interaction and transcription regulation of monolignol biosynthesis in Populus trichocarpa. Jul. 2, 2014

Jack P. Wang, Punith Naik, Rui Shi, Jie Liu, Hsi-Chuan Chen, Chien-Yuan Lin, Christopher M. Shuford, Quanzi Li, David D. Muddiman, Joel Ducoste, Ronald R. Sederoff, Vincent L. Chiang (2014). Complete proteomic-based enzyme reaction and inhibition kinetics reveal how monolignol biosynthetic enzyme families affect metabolic flux and lignin in Populus trichocarpa. Plant Biology 2014 Conference. Portland, OR. July 12 -16, 2014

Jack P. Wang, Punith P. Naik, Hsi-Chuan Chen, Rui Shi, Chien-Yuan Lin, Jie Liu, Christopher M. Shuford, Quanzi Li, Cranos M. Williams, David C. Muddiman, Joel J. Ducoste, Ronald R. Sederoff, Vincent L. Chiang (2014). Complete Proteomic Based Enzyme Reaction and Inhibition Kinetics Reveal How Monolignol Biosynthetic Enzyme Families Affect Metabolic-Flux and Lignin in Populus trichocarpa. 28th Plant Molecular Biology Consortium Annual Retreat. Wrightsville Beach, NC. Sep. 12, 2014

 
2013
P.L. Loziuk, W. Li, J. Wang, Q. Li, R. Sederoff, V. L. Chiang, and D.C. Muddiman (2013). Proteolysis and Peptide Decay: Considerations for Discovery and Targeted Proteomic Workflows with Applications to Systems Modeling of Lignin and Cellulose Biosynthesis. 61st American Society for Mass Spectrometry Conference Workshop: Challenges and New Directions in Plant Proteomics. Minneapolis, MN. June 9 - 13, 2013
Vincent Chiang (2013). Systems understanding of monolignol biosynthesis. Gordon Research Conference, Plant Metabolic Engineering. Waterville Valley, NH. July 19 -24, 2015

Jack P. Wang, Punith Naik, Rui Shi, Jie Liu, Hsi-Chuan Chen, Chien-Yuan Lin, Christopher M. Shuford, Quanzi Li, David D. Muddiman, Joel Ducoste, Ronald R. Sederoff, Vincent L. Chiang. Genome based predictive dynamic metabolic-flux model of monolignol biosynthesis in Populus trichocarpa. American Society of Plant Biologists. Providence, RI. July 20-24 2013

Ying-Chung Lin, Wei Li, Ying-Hsuan Sun, Hairong Wei, Quanzi Li, Vincent L. Chiang. Populus trichocarpa differentiating xylem protoplasts as a model system for studying transcriptional regulatory hierarchy in wood formation. American Society of Plant Biologists. Providence, RI. July 20 - 24 2013

Shanfa Lu, Quanzi Li, Hairong Wei, Mao-Ju Chang, Sermsawat Tunlaya-Anukit, Hoon Kim, Jie Liu, Jingyuan Song, Ying-Hsuan Sun, Lichai Yuan, Ting-Feng Yeh, Ilona Peszlen, John Ralph, Ronald R. Sederoff, Vincent L. Chiang. Ptr-miR397a is a negative regulator of laccase genes affecting lignin content in Populus trichocarpa. American Society of Plant Biologists. Providence, RI. July 20 - 24 2013

Quanzi Li, Ying-Chung Lin, Ying-Hsuan Sun, Jian Song, Hao Chen, Xing-Hai Zhang, Ronald R. Sederoff, Vincent L. Chiang. Splice variant of the SND1 transcription factor is a dominant negative of SND1 members and their regulation in Populus trichocarpa. American Society of Plant Biologists. Providence, RI. July 20 - 24 2013

Vincent L. Chiang. Systems regulation of plant secondary cell wall formation. Special Seminar, Institute of Plant and Microbial Biology, Academia Sinica. Taipei, Taiwan. 2013

 
2012
C. Williams, H. Chen, J. Song, J. Ducoste, C. M. Shuford, Q. Li, J. Liu, R. Shi, D. Muddiman, R. Sederoff, and V. Chiang. Predictive models of regulatory and metabolic pathways for monolignol biosynthesis. Plant and Animal Genome Conference XX, January 14-18, 2012, San Diego, CA
J. Song, H.C. Chen, C.M. Shuford, Q. Li, J. Liu, R. Shi, D. Muddiman, C. Williams, J. Ducoste, R. Sederoff, and V. Chiang. Multi-enzyme system modeling for regulated metabolic pathways. Korean Student Technical and Leadership Conference (KSTLC 2012), March 16-18, Chicago, USA

V. Chiang. Regulation and Modeling of Lignin Biosynthesis: A Systems Approach for Improvement of Woody Bioenergy Crops. Symposium on Sustaining Forest Resources in a Changing Climate School of Forestry and Resource Conservation. National Taiwan University, Taipei, Taiwan, March 28 - 29, 2012

R. Sederoff. Biotechnology and the Forests of the Future: Developing New Resources for Wood, Energy, and Adaptation", Symposium on Sustaining Forest Resources in a Changing Climate School of Forestry and Resource Conservation, National Taiwan University, Taipei, Taiwan, March 28 - 29, 2012

C.M. Shuford, J. Liu, Q. Li, Y.H. Sun, H.C. Chen, J. Wang, R. Shi, R.R. Sederoff, V.L. Chiang, D.C. Muddiman. Novel and Fundamental Discoveries towards a Systems-Level Assay for Lignin Biosynthesis. Triangle Area Mass Spectrometry Discussion Group, Raleigh, NC, April 11, 2012

C.M. Shuford, J. Liu, Q. Li, Y.H. Sun, H.C. Chen, J. Wang, R. Shi, R.R. Sederoff, V.L. Chiang, D.C. Muddiman. Comprehensive Quantification of the Lignin Regulatory and Metabolic Pathway: A Systems Biology Study in the Model Woody Plant Populus trichocarpa. 60th American Society for Mass Spectrometry Conference, Vancouver, BC, Canada, May 22, 2012

Vincent L. Chiang (2012). Regulation and Modeling of Lignin Biosynthesis. V Seminar on Pulp and Paper, Lignin Biorefenery: from biomass to products. Vicosa, MG Brazil. Aug. 19 2012

Vincent L. Chiang (2012). Regulation and Modeling of Lignin Biosynthesis. The 3rd Flagship Symposium of Tropical Artificial Forest: Tree Biotechnology towards Sustainable Production of Forest Biomass. Kyoto, Japan. Oct. 13, 2012

Vincent L. Chiang. Regulation and Modeling of Lignin Biosynthesis. International Lignobiotech II Symposium. Fukouka, Japan. Oct. 15. 2012

Vincent L. Chiang (2012). Regulation and Modeling of Lignin Biosynthesis: A Systems Approach for Improvement of Woody Bioenergy Crops. Special Seminar, National Taiwan University. Taipei, Taiwan.

 
2011
Rui Shi, Chenmin Yang, Ron Sederoff, and Vincent Chiang. Specific Knock-Down of Multiple Genes by Artificial MicroRNA in Populus trichocarpa. In Vitro Biology Meeting, June 4-8, 2011, Raleigh, North Carolina, USA
Vincent Chiang, et al. (2011) Regulation and Modeling of Lignin Biosynthesis. In Vitro Biology Meeting, June 4-8, 2011, Raleigh, North Carolina, USA

Christopher M. Shuford, Jie Liu, Hsi-Chuan Chen, Ronald R. Sederoff, Vincent L. Chiang, and David C. Muddiman. A Method for Comprehensive Metabolic Profiling of Lignin Biosynthesis in Woody Plants Utilizing Liquid Chromatograph Coupled with Selective Reaction Monitoring (LC-SRM). The 59th American Society for Mass Spectrometry Conference, June 5-9, 2011, Denver, CO.

C.M. Shuford, J. Liu, H.C. Chen, R.R. Sederoff, V.L. Chiang, D.C. Muddiman. A Method for Comprehensive Metabolic Profiling of Lignin Biosynthesis in Woody Plants Utilizing Liquid Chromatography Coupled with Selected Reaction Monitoring (LC-SRM). 59th American Society for Mass Spectrometry Conference, Denver, CO, June 8, 2011

V. Chiang. A systems biology approach to understanding the regulation of lignin biosynthesis. 2011 IUFRO Tree Biotech, June 26-July 2, 2011, Porto Seguro, Bahia, Brazil

R. Sederoff. Exponential advances in forest genetics. 2011 IUFRO Tree Biotech, June 26-July 2, 2011, Porto Seguro, Bahia Brazil

 
2010

Vincent Chiang. Regulation and Modeling of Lignin Biosynthesis. The Plant & Animal Genome XVIII Conference, January 9-13, 2010, San Diego USA

Vincent Chiang, et al. Regulation and Modeling of Lignin Biosynthesis. International Workshop on Wood Biorefinery and Tree Biotechnology. Sweden, June 20-25 2010

Vincent Chiang, et al. Regulation and Modeling of Lignin Biosynthesis: A Systems Biology Approach. International Conference on Plant Vascular Biology, July 24-28, 2010.

Hsi-Chuan Chen, Jack P. Wang, et al. Regulation and Modeling of Lignin Biosynthesis Plant Biology 2010 Conference, July 31-August 4, 2010, Montreal, Canada.

Vincent Chiang, et al. (2010) Regulation and Modeling of Lignin Biosynthesis. NSF Plant Genome Research Program, 13th Annual Awardee Meeting. Arlington, VA, September 9-10, 2010.