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Chen H, Neubauer M, Wang JP (2022). Enhancing HR Frequency for Precise Genome Editing in Plants. Frontiers in Plant Science  doi:10.3389/fpls.2022.883421.

Liu H, Gao J, Sun J, Li S, Zhang B, Wang Z, Zhou C, Sulis DB, Wang JP, Chiang VL, Li W (2022). Dimerization of PtrMYB074 and PtrWRKY19 mediates transcriptional activation of PtrbHLH186 for secondary xylem development in Populus trichocarpa. New Phytologist doi:10.1111/nph.18028.

Huang X, Wang W, Gong T, Wickell D, Kuo L, Zhang X, Wen J, Kim H, Lu F, Zhao H, Chen S, Li H, Wu W, Yu C, Chen S, Fan W, Chen S, Bao X, Li L, Zhang D, Jiang L, Yan X, Liao Z, Zhou G, Luo Y, Ralph J, Sederoff RR, Wei H, Zhu P, Li FW, Ming R, Li Q (2022). The flying spider-monkey tree fern genome provides insights into fern evolution and arborescence. Nature Plants 8, 500-512.

Zhao y, Yang Z, Wang S, Wang H, Chao Y, Sederoff RR, Sederoff H, Yan H, Pan J, Peng, M, Wu, RB, Niu B (2022). Gene sdaB is involved in the nematocidal activity of Enterobacter iudwigii AA4 against the pine wood nematode Bursaphelenchus xylophilus. Frontiers in Microbiology. doi: 10.3389/fmicb.2022.870519.

Bing RG, Straub CT, Sulis DB, Wang JP, Adams MWW, Kelly RM (2022). Plant biomass fermentation by the extreme thermophile Caldicellulosiruptor bescii for co-production of green hydrogen and acetone: technoeconomic analysis. Bioresource Technology 126780.

Yu J, Zhou C, Li D, Li S, Lin YCJ, Wang JP, Chiang VL, Li W (2022). A PtrLBD39-Mediated Transcriptional Network Regulates Tension Wood Formation in Populus trichocarpa. Plant Communications doi:10.1016/ j.xplc.2021.100250.


Lin CY, Yi S, Song J, Chen HC, Shi R, Yang C, Liu J, Tunlaya-Anukit S, Liu B, Loziuk PL, Williams CM, Muddiman DC, Lin CH, Sederoff R, Wang JP, Chiang VL (2021). Enzyme complexes of Ptr4CL-PtrHCT modulate co-enzyme A ligation of hydroxycinnamic acids for monolignol biosynthesis in Populus trichocarpa. Frontiers in Plant Biology doi:10.3389/fpls.2021.727932.

Zhang S, Yang J, Li H, Chiang CL, Fu Y (2021). Cooperative Regulation of Flavonoid and Lignin Biosynthesis in Plants. Critical Reviews in Plant Sciences 40:109-126.

Yan H, Pei X, Zhang H, Li X, Xhang X, Zhao M, Chiang VL, Sederoff RR, Zhao X (2021). MYB-Mediated Regulation of Anthocyanin Biosynthesis. International Journal of Molecular Sciences 22:3103.

Li H, Dai X, Huang X, Xu, M, Wang Q, Yan X, Sederoff RR, Li Q (2021). Single-cell RNA sequencing reveals a high-resolution cell atlas of xylem in Populus. Journal of Integrative Plant Biology doi: 10.1111/jipb.13159.

Wang J, Chen B, Ali S, Zhang T, Wang Yu, Zhang H, Wang L, Zhang Y, Xie L, Jiang T, Yin J, Sederoff HW, Zinta G, Sederoff RR, Li Y, Zhang Q (2021). Epigenetic modification associated with climate regulates betulin biosynthesis in birch. Journal of Forestry Research doi: 10.1007/s11676-021-01424-7.

Li X, Li Y, Zhao M, Hu Y, Meng F, Song X, Tigabu M, Chiang VL, Sederoff R, Ma W, Zhao X (2021). Molecular and metabolic insights into Anthocyanin biosynthesis for leaf color change in chokecherry (Padus virginiana). International Journal of Molecular Sciences 22: 10697.

Liu C, Li K, Wang M, Fan E, Yang C, Wang J, Fu P, Ge X, Sederoff HW, Sederoff RR, Chiang VL, Wang S, Qu G (2021). Qu-2, a robust poplar suspension cell line for molecular biology. Journal of Forestry Research 32:733-740.

Li Y, Li X, Zhao MH, Pang ZY, Wei JT, Tigabu M, Chiang VL, Sederoff H, Sederoff R, Zhao XY (2021). Horticulturae 7: 252.

Li S, He X, Gao Y, Zhou C, Chiang VL, Li W (2021). Histone acetylation changes in Plant Response to Drought Stress. Genes 12: 1409.

Whitehill JGA, Yuen MMS, Bohlmann J (2021). Constitutive and insect-induced transcriptomes of weevil-resistant and susceptible Sitka spruce. Plant-Environment Interactions. doi:10.1002/pei3.10053.

Wang Q, Dai X, Pang H, Cheng Y, Huang X, Li H, Yan X, Lu F, Wei H, Sederoff RR, Li Q (2021). BEL1-like Homeodomain Protein BLH6a Is a Negative Regulator of CAl5H2 in Sinapyl Alcohol Monolignol Biosynthesis in Poplar. Frontiers in Plant Science. doi:10.3389/fpls.2021.695223

de Vries L, Brouckaert M, Chanoca A, Kim H, Regner M, Timokhin V, Sun Y, De Meester B, Van Doorsselaere J, Goeminne G, Chiang VL, Wang JP, Ralph J, Morreel K, Vanholme R, Boerjan W (2021). CRISPR-Cas9 Editing of Caffeoyl Shikimate Esterase 1 and 2 Shows Their Importance and Partial Redundancy in Lignification in Populus tremula x P. alba. Plant Biotechnology Journal doi: 10.1111/pbi.13651.

Bing RG, Sulis DB, Wang JP, Adams MWW, Kelly RM (2021). Thermophilic microbial deconstruction and conversion of natural and transgenic lignocellulose. Environmental Microbiology Reports doi:10.1111/1758-2229.12943.

Liu B, Liu J, Yu J, Wang Z, Sun Y, Lin YCJ, Chiang VL, Li W, Wang JP (2021). Transcriptional reprogramming of xylem cell wall biosynthesis in tension wood of Populus trichocarpa. Plant Physiology doi:10.1093/plphys/kiab038.


Matthews ML, Wang JP, Sederoff RR, Chiang VL, Williams CM (2021). A multiscale model of lignin biosynthesis for predicting bioenergy traits in Populus trichocarpa. Computational and Structural Biotechnology Journal 19:168-182.


Wang Z, Mao Y, Gao J, Guo Y, Liu X, Li S, Lin YCJ, Chen H, Wang JP, Chiang VL, Li W (2020). PtrMYB161 mediates feedback regulation of PtrSND1 family genes for wood formation in Populus trichocarpa. Plant Physiology doi:10.1104/pp.20.01033.

Niu B, Wang W, Yuan Z, Sederoff RR, Sederoff H, Chiang VL, Borriss R (2020). Microbial Interactions Within Multiple-Strain Biological Control Agents Impact Soil-Borne Plant Disease. Frontiers in Microbiology doi:10.3389/fmicb.2020.585404.

Abbas M, Peszlen I, Shi R, Kim H, Katahira R, Kafle K, Xiang Z, Huang X, Min D, Mohamadamin M, Yang C, Dai C, Yan C, Park S, Li Y, Kim SH, Davis M, Ralph J, Sederoff RR, Chiang VL, Li Q (2020). Involvement of CesA4, CesA7-A/B and CesA8-A/B in secondary wall formation in Populus trichocarpa wood. Tree Physiology 40:73-89.

Sulis B, Wang JP (2020). Regulation of lignin biosynthesis by post-translational protein modifications. Frontiers in Plant Science doi:10.3389/fpls.2020.00914.

Matthews ML, Wang JP, Muddiman DC, Sederoff RR, Chiang VL, Williams CM (2020). Modeling regulatory influences on monolignol transcripts and proteins in Populus trichocarpa under single and combinatorial monolignol gene knockdowns. PLoS Computational Biology doi:10.1101/677047.

Kim, H; Li, Q; Karlen, S; Smith, R; Shi, R; Liu, J; Yang, C; Wang, JP; Chang, HM; Sederoff, RR; Ralph, J; Chiang, V (2020). Monolignol benzoates incorporate into the lignin of transgenic Populus trichocarpa depleted in C3H and C4H. ACS Sustainable Chemistry & Engineering 8:3644-3654.

Straub, C; Bing, RG; Wang, JP; Chiang, V; Adams, M; Kelly, R (2020). Use of the lignocellulose-degrading bacterium Caldicellulosiruptor bescii to assess recalcitrance and conversion of wild-type and transgenic poplar. Biotechnology for Biofuels 13:43.

Liu, B; Wang, JP (2020). Tracheid Associated Transcription Factors in Loblolly Pine (2020). Tree Physiology 40:700-703.


Strauss SH, Boerjan W, Chiang V, Costanza A, Coleman H, Davis JM, Lu M-Z, Mansfield SD, Merkle S, Myburg AA, Nilsson O, Pilate G, Powell WA, Seguin A, Valenzuela S (2019). Certification for gene-edited forests. Science 365:767-768.

Straub, C; Khatibi, P; Wang, JP; Conway, J; Williams-Rhaesa, A; Peszlen, I; Chiang, V; Adams, M; Kelly, R (2019) Quantitative fermentation of unpretreated transgenic poplar by Caldicellulosiruptor bescii. Nature Communications 10:3548.


Yeh, CH; Wang, Z; Fang, M; Ma, H; Kao, CT; Hsu, TS; Yu, JH; Hung, ET; Lin CC; Kuan, CY; Zhou, C; Qu, GZ; Jiang, J; Liu, G; Wang, JP; Li, W; Chiang, VL; Chang, TH; Lin, YCJ (2019) A robust meiosis-directed yeast one-hybrid system with high discovery rate and short processing time. Genome Research 29:1343-1351.

Allona I, Kirst M, Boerjan W, Strauss S, Sederoff R (2019). Editorial: Forest Genomics and Biotechnology. Frontiers in Plant Science doi:10.3389/fpls.2019.01187.

Myburg, Alexander A; Hussey, Steven G; Wang, Jack P; Street, Nathaniel R; Mizrachi, Eshchar (2019) Systems and Synthetic Biology of Forest Trees: A Bioengineering Paradigm for Woody Biomass Feedstocks. Frontiers in Plant Science doi:10.3389/fpls.2019.00775

Chen, Hao; Wang, Jack P; Liu, Huizi; Li, Huiyu; Lin, Ying-Chung; Shi, Rui; Yang, Chenmin; Gao, Jinghui; Zhou, Chenguang; Li, Quanzi; Sederoff, Ronald R; Li, Wei; Chiang, Vincent L (2019) Hierarchical transcription-factor and chromatin binding network for wood formation in Populus trichocarpa. Plant Cell doi:10.1105/tpc.18.00620


Wang, Jack P; Liu, Baoguang; Sun, Yi; Chiang, Vincent L; Sederoff, Ronald R (2019) Enzyme-enzyme interactions in monolignol biosynthesis. Frontiers in Plant Science doi:10.3389/fpls.2018.01942


Wang, Jack P; Matthews, Megan L; Naik, Punith P; Williams, Cranos M; Ducoste, Joel J; Sederoff, Ronald R; Chiang, Vincent L (2019) Flux modeling for monolignol biosynthesis. Current Opinion in Biotechnology 56:187-192.



Li, Shuang; Lin, Ying-Chung Jimmy; Wang, Pengyu; Zhang, Baofeng; Li, Meng; Chen, Su; Shi, Rui; Tunlaya-Anukit, Sermsawat; Liu, Xinying; Wang, Zhifeng; Dai, Xiufang; Yu, Jing; Zhou, Chenguang; Liu, Baoguang; Wang, Jack P; Chiang, Vincent L; Li, Wei (2018) Histone Acetylation Cooperating with AREB1 Transcription Factor Regulates Drought Response and Tolerance in Populus trichocarpa. Plant Cell doi:10.1105/tpc.18.00437


Naik, Punith; Wang, Jack P; Sederoff, Ronald; Chiang, Vincent; Williams, Cranos; Ducoste, Joel J (2018) Assessing the impact of the 4CL enzyme complex on the robustness of monolignol biosynthesis using metabolic pathway analysis. PLoS One 13:e0193896


Yan, Xiaojing; Liu, Jie; Kim, Hoon; Liu, Baoguang; Huang, Xiong; Yang, Zhichang; Lin, Ying-Chung Jimmy; Chen, Hao; Yang, Chenmin; Wang, Jack P; Muddiman, David C; Ralph, John; Sederoff, Ronald R; Li, Quanzi; Chiang, Vincent L (2018) CAD1 and CCR2 protein complex formation in monolignol biosynthesis in Populus trichocarpa. New Phytologist doi:10.1111/nph.15505


Wang, Jack P; Matthews, Megan L; Williams, Cranos M; Shi, Rui; Yang, Chenmin; Tunlaya-Anukit, Sermsawat; Chen, Hsi-Chuan; Li, Quanzi; Liu, Jie; Lin, Chien-Yuan; Naik, Punith; Sun, Ying-Hsuan; Loziuk, Philip L; Yeh, Ting-Feng; Kim, Hoon; Gjersing, Erica; Shollenberger, Todd; Shuford, Christopher M; Song, Jina; Miller, Zachary; Huang, Yung-Yun; Edmunds, Charles W; Liu, Baoguang; Sun, Yi; Lin, Ying-Chung Jimmy; Li, Wei; Chen, Hao; Peszlen, Ilona; Ducoste, Joel J; Ralph, John; Chang, Hou-Min; Muddiman, David C; Davis, Mark F; Smith, Chris; Isik, Fikret; Sederoff, Ronald; Chiang, Vincent L (2018) Improving wood properties for wood utilization through multi-omics integration in lignin biosynthesis. Nature Communications 9:1579.



Blumer-Schuette, Sara E; Zurawski, Jeffrey V; Conway, Jonathan M; Khatibi, Piyum; Lewis, Derrick L; Li, Quanzi; Chiang, Vincent L; Kelly, Robert M (2017) Caldicellulosiruptor saccharolyticus transcriptomes reveal consequences of chemical pretreatment and genetic modification of lignocellulose. Microbial Biotechnology 10:1546-1557.


Lin, Ying-Chung Jimmy; Chen, Hao; Li, Quanzi; Li, Wei; Wang, Jack P; Shi, Rui; Tunlaya-Anukit, Sermsawat; Shuai, Peng; Wang, Zhifeng; Ma, Hongyan; Li, Huiyu; Sun, Ying-Hsuan; Sederoff, Ronald R; Chiang, Vincent L (2017) Reciprocal cross-regulation of VND and SND multigene TF families for wood formation in Populus trichocarpa. Proceedings of the National Academy of Sciences USA 14: E9722-E9729.


Shi, Rui; Wang, Jack P; Lin, Ying-Chung; Li, Quanzi; Sun, Ying-Hsuan; Chen, Hao; Sederoff, Ronald R; Chiang, Vincent L (2017) Tissue and cell-type co-expression networks of transcription factors and wood component genes in Populus trichocarpa. Planta 245:927-938.



Lin, Chien-Yuan; Li, Quanzi; Tunlaya-Anukit, Sermsawat; Shi, Rui; Sun, Ying-Hsuan; Wang, Jack P; Liu, Jie; Loziuk, Philip; Edmunds, Chales W; Miller, Zachery; Peszlen, Ilona; Muddiman, David C; Sederoff, Ronald R; Chiang, Vincent L (2016) A cell wall-bound anionic peroxidase, PtrPO21, is involved in lignin polymerization in Populus trichocarpa. Tree Genetics and Genomes 12:1-18.


Kumari, Sapna; Deng, Wenping; Gunasekara, Chathura; Chiang, Vincent; Chen, Huann-Sheng; Ma, Hao; Davis, Xin; Wei, Hairong (2016) Bottom-up GGM algorithm for constructing multilayered hierarchical gene regulatory networks that govern biological pathways or processes. BMC Bioinformatics 17:132.


Loziuk, Philip L; Parker, Jennifer; Li, Wei; Lin, Chien-Yuan; Wang, Jack P; Li, Quanzi; Sederoff, Ronald R; Chiang, Vincent L; Muddiman, David C (2015) Elucidation of Xylem-Specific Transcription Factors and Absolute Quantification of Enzymes Regulating Cellulose Biosynthesis in Populus trichocarpa. Journal of Proteome Research 14:4158-4168.

Wang, Jack P; Chuang, Ling; Loziuk, Philip L; Chen, Hao; Lin, Ying-Chung; Shi, Rui; Qu, Guan-Zheng; Muddiman, David C; Sederoff, Ronald R; Chiang, Vincent L (2015) Phosphorylation is an on/off switch for 5-hydroxyconiferaldehyde O-methyltransferase activity in poplar monolignol biosynthesis. Proceedings of the National Academy of Sciences USA 112:8481-8486.

Lin, Chien-Yuan; Wang, Jack P; Li, Quanzi; Chen, Hsi-Chuan; Liu, Jie; Loziuk, Philip; Song, Jina; Williams, Cranos; Muddiman, David C; Sederoff, Ronald R; Chiang, Vincent L (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.


Liu, Jinwen; Hai, Guanghui; Wang, Chong; Cao, Shenquan; Xu, Wenjing; Jia, Zhigang; Yang, Chuanping; Wang, Jack P; Dai, Shaojun; Chang, Yuxiang (2015) Comparative proteomic analysis of Populus trichocarpa early stem from primary to secondary growth. Journal of Proteomics 126:94-108.



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.


Suvi Sutela, Terhi Hahl, Heidi Tiimonen, Tuija Aronen, Tiina Ylioja, Tapio Laakso, Pekka Saranpää, Vincent L. Chiang, Riitta Julkunen-Tiitto, Hely Häggman (2014) Phenolic Compounds and Expression of 4CL Genes in Silver Birch Clones and Pt4CL1a Lines. PLoS One 9e114434.


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


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


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


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


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


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: CoA ligase (4CL) protein complex formation, regulation, and numerical modeling. Plant Cell 26:876-893. 


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, and Vincent L. Chiang. (2014) Complete proteomic-based enzyme reaction and inhibition kinetics reveal how monolignol biosynthetic enzyme families affect metabolic-flux and lignin. Plant Cell 26:894-914.


Xiang Li, Chathura Gunasekara, Yufeng Guo, Hang Zhang, Liang Lei, Sermsawat Tunlaya-Anukit, Victor Busov, Vincent L. Chiang, and Wei, Hairong. (2014) Pop’s Pipes: poplar gene expression data analysis pipelines. Tree Genetics and Genomes 10:1093-1101.

Neale, David B; Wegrzyn, Jill L; Stevens, Kristian A; Zimin, Aleksey V; Puiu, Daniela; Crepeau, Marc W; Cardeno, Charis; Koriabine, Maxim; Holtz-Morris, Ann E; Liechty, John D; Martínez-García, Pedro J; Vasquez-Gross, Hans A; Lin, Brian Y; Zieve, Jacob J; Dougherty, William M; Fuentes-Soriano, Sara; Wu, Le-Shin; Gilbert, Don; Marçais, Guillaume; Roberts, Michael; Holt, Carson; Yandell, Mark; Davis, John M; Smith, Katherine E; Dean, Jeffrey F D; Lorenz, W Walter; Whetten, Ross W; Sederoff, Ronald; Wheeler, Nicholas; McGuire, Patrick E; Main, Doreen; Loopstra, Carol A; Mockaitis, Keithanne; deJong, Pieter J; Yorke, James A; Salzberg, Steven L; Langley, Charles H (2014) Decoding the massive genome of loblolly pine using haploid DNA and novel assembly strategies. Genome Biology 15:R59.


Lin, Ying-Chung; Li, Wei; Sun, Ying-Hsuan; Kumari, Sapna; Wei, Hairong; Li, Quanzi; Tunlaya-Anukit, Sermsawat; Sederoff, Ronald R; Chiang, Vincent L (2013) SND1 transcription factor-directed quantitative functional hierarchical genetic regulatory network in wood formation in Populus trichocarpa. Plant Cell 25:4324-4341.


Amborella Genome Project. (2013). The Amborella Genome and the Evolution of Flowering Plants. Science 342:1241089-10.

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

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

Chen, Hsi-Chuan; Song, Jina; Williams, Cranos M; Shuford, Christopher M; Liu, Jie; Wang, Jack P; Li, Quanzi; Shi, Rui; Gokce, Emine; Ducoste, Joel; Muddiman, David C; Sederoff, Ronald R; Chiang, Vincent L (2013) Monolignol pathway 4-coumaric acid:coenzyme A ligases in Populus trichocarpa: novel specificity, metabolic regulation, and simulation of coenzyme A ligation fluxes. Plant Physiology 161:1501-1516.

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


Myburg, A.A., Lev-Yadun, S., Sederoff, R.R. (2013) Xylem Structure and Function. Encyclopedia Life Science (eLS) John Wiley & Sons Ltd doi:10.1002/9780470015902.a0001302.pub2]online.     
Fang, G-C., Blackmon, B.P., Staton, M.E., Nelson, C.D., Kubisiak, T.L., Olukolu, B., Henry, D., Zhebentyayeva, T., Saski, C.A., Cheng, C-H., Monsanto, M., Ficklin, S., Atkins, A., Georgi, L., Barakat, A., Wheeler, N., Carlson, J.E., Sederoff, R., Abbott, A.G. (2013). Physical mapping of the genome of Chinese chestnut (Castanea mollissima (Blume))
Tree Genetics and Genomes 9:525-537.    
Kubisiak,T.L., Nelson, C.D., Staton, M.E., Zhebentyayeva, T., Smith, C., Olukolu, B.A., Fang, G-C., Hebard, F.V., Agnostakis, S., Wheeler, N., Sisco, P., Abbott, A.G.,  and R.R. Sederoff. (2013). A transcriptome-based genetic map of Chinese chestnut, (Castanea mollissima), and identification of regions of segmental homology with peach (Prunus persica).
Tree Genetics and Genomes 9: 557-571.

Min, Douyong; Li, Quanzi; Jameel, Hasan; Chiang, Vincent; Chang, Hou-min (2012) The cellulase-mediated saccharification on wood derived from transgenic low-lignin lines of black cottonwood (Populus trichocarpa). Applied Biochemical Biotechnology 168:947-955.

Shuford, Christopher M; Sederoff, Ronald R; Chiang, Vincent L; Muddiman, David C (2012) Peptide production and decay rates affect the quantitative accuracy of protein cleavage isotope dilution mass spectrometry (PC-IDMS). Molecular Cell Proteomics 11:814-823.

Wang, Jack P; Shuford, Christopher M; Li, Quanzi; Song, Jina; Lin, Ying-Chung; Sun, Ying-Hsuan; Chen, Hsi-Chuan; Williams, Cranos M; Muddiman, David C; Sederoff, Ronald R; Chiang, Vincent L (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.

Shi, Rui; Sun, Ying-Husan; Zhang, Xing-Hai; Chiang, Vincent L (2012) Poly(T) adaptor RT-PCR. Methods Mol Biol 822:53-66.
Liu, Jie; Shi, Rui; Li, Quanzi; Sederoff, Ronald R; Chiang, Vincent L (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.

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

Sun, Ying-Hsuan; Shi, Rui; Zhang, Xing-Hai; Chiang, Vincent L; Sederoff, Ronald R (2012) MicroRNAs in trees. Plant Mol Biol 80:37-53.
Shuford, Christopher M; Li, Quanzi; Sun, Ying-Hsuan; Chen, Hsi-Chuan; Wang, Jack; Shi, Rui; Sederoff, Ronald R; Chiang, Vincent L; Muddiman, David C (2012) Comprehensive quantification of monolignol-pathway enzymes in Populus trichocarpa by protein cleavage isotope dilution mass spectrometry.
Journal of Proteome Research 11:3390-3404.

Barakat, Abdelali; Staton, Meg; Cheng, Chun-Huai; Park, Joseph; Yassin, Norzawani Buang M; Ficklin, Stephen; Yeh, Chia-Chun; Hebard, Fred; Baier, Kathleen; Powell, William; Schuster, Stephan C; Wheeler, Nicholas; Abbott, Albert; Carlson, John E; Sederoff, Ronald (2012) Chestnut resistance to the blight disease: insights from transcriptome analysis. BMC Plant Biology 12:38.


Barakat, A., Staton, M., Cheng, C-H., Park, J., Yassin, N.B.M., Ficklin, S., Yeh, C-C., Hebard, F., Baier, K., Powell, W., Schuster, S., Wheeler, N., Abbott, A., Carlson, J., and Sederoff, R.  (2012)  Chestnut resistance to the blight disease: insights from transcriptome analysis. BMC Plant Biology 12:38.


Chiang, Vincent (2011) A systems biology approach to understanding the regulation of lignin biosynthesis. BMC Proceedings 5:I14-I14.

Zhou, Chuanzhen; Li, Quanzi; Chiang, Vincent L; Lucia, Lucian A; Griffis, Dieter P (2011) Chemical and spatial differentiation of syringyl and guaiacyl lignins in poplar wood via time-of-flight secondary ion mass spectrometry. Analytical Chemistry 83:7020-7026.

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


Sun, Ying-Hsuan; Shi, Shi; Zhang, Xing-Hai; Chiang, Vincent L; Sederoff, Ronald R (2011). MicroRNAs in trees. Plant Molecular Biology doi:10.1007/s11103-011-9864-z.

Sun, Ying-Hsuan; Lu, Shanfa; Shi, Rui; Chiang, Vincent L (2011) Computational prediction of plant miRNA targets. Methods in Molecular Biology 744:175-186.

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


Sederoff, R. 2011. Exponential advances in Forest Genetics: the past 25 years and the next 25 weeks. BMC Proceedings 5:K1


Shi, Rui; Yang, Chenmin; Lu, Shanfa; Sederoff, Ronald; Chiang, Vincent L (2010) Specific down-regulation of PAL genes by artificial microRNAs in Populus trichocarpa. Planta 232:1281-1288.


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 Physiology 154:555-561.

Shi, Rui; Sun, Ying-Hsuan; Li, Quanzi; Heber, Steffen; Sederoff, Ronald; Chiang, Vincent L (2010) Towards a systems approach for lignin biosynthesis in Populus trichocarpa: transcript abundance and specificity of the monolignol biosynthetic genes. Plant Cell Physiology 51:144-163.


Shi, R., Yang, C., Lu, S., Sederoff, R., and Chiang, V.L. (2010) Specific down regulation of genes in the PAL gene family by artificial microR in Populus trichocarpa. Planta 232:1281-1288.    
Sederoff, R., Myburg, A., and Kirst, M. (2010) Genomics, domestication and evolution of forest trees. 
Cold Spring Harbor Symposium of Quantitative Biology 74: 303-317.    
Kremer, A., Sederoff, R., and Wheeler, N. (2010) Genomics of forest and ecosystem health in the Fagaceae: Meeting Report.
Tree Genetics and Genomes 6:815-820.    
Gleick, P.H., Adams, R.M., Amasino, R.M., Anders, E., Anderson, D.J., Anderson, W.W., Anselin, L.E., Arroyo, M.K., Asfaw, B., Ayala, F.J., et al. (including Sederoff, R.R.). (2010) Climate Change and the Integrity of Science. 
Science 328: 689-690.    
Wyatt, S.E., Sederoff, R., Flaishman, M.A., and Lev-Yadun, S. (2010) Arabidopsis thaliana as a model for gelatinous fiber formation.
Russian Journal of Plant Physiology 57:363-367.

Lu, Shanfa; Sun, Ying-Hsuan; Chiang, Vincent L (2009) Adenylation of plant miRNAs. Nucleic Acids Research 37:1878-1885.

Sutela, Suvi; Niemi, Karoliina; Edesi, Jaanika; Laakso, Tapio; Saranpää, Pekka; Vuosku, Jaana; Mäkelä, Riina; Tiimonen, Heidi; Chiang, Vincent L; Koskimäki, Janne; Suorsa, Marja; Julkunen-Tiitto, Riitta; Häggman, Hely (2009) Phenolic compounds in ectomycorrhizal interaction of lignin modified silver birch. BMC Plant Biology 9:124.


M. Schmidt, A. M. Schwartzberg, P. N. Perera, A. Weber-Bargioni, A. Carroll, P. Sarkar, E. Bosneaga, J. J. Urban, J. Song, M. Y. Balakshin, E. A. Capanema, M. Auer, P. D. Adams, V. L. Chiang, P. James Schuck. (2009). Label-free in situ imaging of lignification in the cell wall of low lignin transgenic Populus trichocarpa. Planta 230:589-597.


Kumar, M., Thammannagowda, S., Bulone, V., Chiang, V., Han, K-H., Joshi, C. P., Mansfield, S. D., Mellerowicz, E., Sundberg, B., Teeri, T., Ellis, B. E. (2009). An update on the nomenclature for the cellulose synthase genes in Populus. Trends in Plant Science 14:248-254.


Osakabe, Y., Osakabe, K., and Chiang, V.L. (2009). Characterization of the tissue-specific expression of phenylalanine ammonia-lyase gene promoter from loblolly pine (Pinus taeda) in Nicotiana tabacum. Plant Cell Reports 28:1309-1317.


Sisco, P.H., Sederoff, R.R., Tomkins, J.P., Carlson, J.E., Kubisiak, T.L., Staton, M.E., Hebard, F.V., Agnostakis, S.L., Powell, W.A., and Smith, C.P. (2009) The United States tiol Science Foundation project on developing tools for the study of the Fagaceae: Castanea, Quercus, and Fagus. Proc. IVth Intertiol Chestnut Symposium. Eds. Qin Ling and Huang Hong-wen: Acta Horticulturae 844: 267-274.    
Barakat, A., DiLoreto, D.S., Zhang, Y., Smith, C., Baier, K., William A Powell, Wheeler, N., Sederoff, R., and Carlson, J.E. (2009) Comparison of the transcriptomes of American chestnut (Castanea dentata) and Chinese chestnut (Castanea mollissima) in response to the chestnut blight infection.
BMC Plant Biology 9:51.    
Wheeler, N. and Sederoff, R.  (2009). Role of genomics in the restoration of the American chestnut.
Tree Genetics and Genome 5:181-187.    
Grattapaglia, D, Plomion, C., Kirst, M., and Sederoff, R.R. (2009).  Genomics of growth traits in forest trees.
Current Opinion in Plant Biology 12:148-156.

Lu, Shanfa; Sun, Ying-Hsuan; Chiang, Vincent L (2008) Stress-responsive microRNAs in Populus. Plant Journal 55:131-151.

Lu, Shanfa; Li, Laigeng; Yi, Xiaoping; Joshi, Chandrashekhar P; Chiang, Vincent L (2008) Differential expression of three eucalyptus secondary cell wall-related cellulose synthase genes in response to tension stress. J of Experimental Botany 59:681-695.

Novaes, Evandro; Drost, Derek R; Farmerie, William G; Pappas, Georgios J; Grattapaglia, Dario; Sederoff, Ronald R; Kirst, Matias (2008) High-throughput gene and SNP discovery in Eucalyptus grandis, an uncharacterized genome. BMC Genomics 9:312.


Tiimonen, H., Aronen, T., Laakso, T., Saranpää, P., Chiang, V.L., Häggman, H., and Niemi, K. (2008) Paxillus involutus forms an ectomycorrhizal symbiosis and enhances survival of PtCOMT-modified Betula pendula in vitro. Silvae Genetica 57:235-242.


Adomas, A., Heller, G., Olson, A., Osbourne, J., Karlsson,M., halkova, J., van Zyl, L., Sederoff, R., Stenlid, J., Finlay, R., and F.O. Asiegbu. (2008) Comparative analysis of transcript abundance in Pinus sylvestris after challenge with a saprophytic, pathogenic or mutualistic fungus. Tree Physiology 28:885-897.    
Novaes, E., Drost, D.R., Farmerie, W.G., Pappas Jr., G.J., Grattapaglia, D., Sederoff, R., and Kirst, M. (2008) High-throughput gene and SNP discovery in Eucalyptus grandis, an uncharacterized genome.
BMC Genomics 9:312.     
Heller, G., Adomas, A., Li,G., Osbourne, J., van Zyl, L., Sederoff, R., Finlay. R., Stenlid,J., And Asiegbu, F.  (2008) Transcriptiol alysis of Pinus sylvestris roots challenged with the ectomycorrhizal fungus Lacciaria bicolor.
BMC Plant Biology  8:19.

Hancock, Jessica E; Loya, Wendy M; Giardina, Christian P; Li, Laigeng; Chiang, Vincent L; Pregitzer, Kurt S (2007) Plant Growth, Biomass Partitioning and Soil Carbon Formation in Response to Altered Lignin Biosynthesis in Populus tremuloides. New Phytologist 173:732–742.


Nakatsubo,Tomoyuki; Li, Laigeng; Hattori,Takefumi; Lu, Shanga; Sakakibara, Norikazu; Chiang, Vincent L; Shimada, Mikio; Suzuki, Shiro; Umezawa, Toshiaki (2007) Roles of 5-hydroxyconiferylaldehyde and caffeoyl CoA O-methyltransferases in monolignol biosynthesis in Carthamus tinctorius. Cellulose Chemistry and Technology 41:511-520.


Lu, Shanfa; Sun, Ying-Hsuan; Amerson, Henry; Chiang, Vincent L (2007) MicroRNAs in loblolly pine (Pinus taeda L.) and their association with fusiform rust gall development. Plant Journal 51:1077-1098.


Yeh, Ting-Feng; Wang, Jack P; Shi, Rui; Sun, Ying-Hsuan; Chiang, Vincent L (2007) A novel O-methyltransferase-like gene with drastic ectopic expression in response to tension wood formation in Populus trichocarpa. Cellulose Chemistry and Technology 41:521-528.


Mazur, M., Hope-Ross. K., Kadla, J.F., Sederoff, R., and Chang, H.M. (2007). Synthesis of  hydroxyphenylpropanoid b-D-glucosides. Journal of Wood  Chemistry and Technology 27:1-8.    
Adomas, A., Heller, G., Li, G., Olson, A., Chu, T-M.,  Osborne, J., Craig, D.,  Van Zyl, L., Wolfinger, R., Sederoff, R., Dean, R.A.,  Stenlid, J.,  Finlay, R.,  and F.O. Asiegbu. (2007) Transcript profiling of conifer pathosystem: response of Pinus sylvestris root tissues to pathogen (Heterobasidion annosum) invasion.
Tree Physiology 27:1441-1458.    
Sederoff, R. (2007)  Regulatory Science in Forest Biotechnology.
Tree Genetics and Genome 3:71-74.

Yamada, Tatsuhiko Yeh, Ting-Feng; Chang, Hou-Min; Li, Laigeng; Kadla, John F; Chiang, Vincent L (2006) Rapid analysis of transgenic trees using transmittance near-infrared spectroscopy (NIR). Holzforschung 60:24-28.


Li, Laigeng; Lu, Shanfa; Chiang, Vincent L (2006) A genomic and molecular view of wood formation. Critical Review in Plant Science 25:215-233.


Song, Jingyuan; Lu, Shanfa; Chen, Zenn-Zong; Lourenco, Rodrigo; Chiang, Vincent L (2006) Genetic transformation of Populus trichocarpa genotype Nisqually-1: A functional genomic tool for woody plants. Plant Cell Physiology 47:1582-1589.


Suzuki, Shiro; Li, Laigeng; Sun, Ying-Hsuan; Chiang, Vincent L (2006) The cellulose synthase gene superfamily and biochemical functions of xylem-specific cellulose synthase-like genes in Populus trichocarpa. Plant Physiology 142:1233-1245.

Lu, Shanfa; Zhou, Yihua; Li, Laigeng; Chiang, Vincent L (2006) Distinct roles of cinnamate 4-hydroxylase genes in Populus. Plant Cell Physiology 47:905-914.


Shi, Rui; Chiang, Vincent L (2005) Facile means for quantifying microRNA expression by real-time PCR. Biotechniques 39:519-525.

Yeh, Ting-Feng; Yamada, Tatsuhiko; Capanema, Ewellyn; Chang, Hou-Min; Chiang, Vincent; Kadla, John F (2005) Rapid screening of wood chemical component variations using transmittance near-infrared spectroscopy. Journal of Agricultural and Food Chemistry 53:3328-3332.

Li, Laigeng; Cheng, Xiaofei; Lu, Shanfa; Nakatsubo, Tomoyuki; Umezawa, Toshiaki; Chiang, Vincent L (2005) Clarification of cinnamoyl co-enzyme A reductase catalysis in monolignol biosynthesis of Aspen. Plant Cell Physiology 46:1073-1082.


Tiimonen, Heidi; Aronen, Tuija; Laakso, Tapio; Saranpaa, Pekka; Chiang, Vincent L; Ylioja, Tinna; Roininen, Heikki; Haggman, Hely (2005) Does lignin modification affect feeding preference or growth performance of insect herbivores in transgenic silver birch (Betula pendula Roth)? Planta 222:699-708.

Lu, Shanfa; Sun, Ying-Hsuan; Shi, Rui; Clark, Catherine; Li, Laigeng; Chiang, Vincent L (2005) Novel and mechanical stress-responsive MicroRNAs in Populus trichocarpa that are absent from Arabidopsis. Plant Cell 17:2186-2203.

Kirst, Matias; Basten, Christopher J; Myburg, Alexander A; Zeng, Zhao-Bang; Sederoff, Ronald R (2005) Genetic architecture of transcript-level variation in differentiating xylem of a eucalyptus hybrid. Genetics 169:2295-2303.

Wadenbäck, Johan; Clapham, David H; Craig, Deborah; Sederoff, Ronald; Peter, Gary F; von Arnold, Sara; Egertsdotter, Ulrika (2005) Comparison of standard exponential and linear techniques to amplify small cDNA samples for microarrays. BMC Genomics 6:61.


Marques, CM, Carocha, VJ, Pereira de S, AR, Oliveira, MR, Pires, AM, Sederoff, R, Borralho, NMG. (2005) Verification of QTL linked markers for propagation traits in eucalyptus. Tree Genet Genome 1:103-108.    
Wadenback, J., Clapham, D., Craig, D., Sederoff, R., Peter, G., von Arnold, S., and Egertsdotter, U. (2005)  Comparison of standard exponential and linear techniques to amplify small cD samples for microarrays.  
Bio Med Central Genomics 6:61-68.    
Kirst, M., Basten, C.J., Myburg, A.A., Zeng, Z-B. Sederoff, R.R. (2005) Genetic architecture of transcript level variation in Eucalyptus differentiating xylem.
Genetics 169:2295-2303.

Lu, Shanfa; Shi, Rui; Tsao, Cheng-Chung; Yi, Xiaoping; Li, Laigeng; Chiang, Vincent L (2004) RNA silencing in plants by the expression of siRNA duplexes. Nucleic Acids Research 32:e171.

Kirst, Matias; Myburg, Alexander A; De León, José P G; Kirst, Mariana E; Scott, Jay; Sederoff, Ronald (2004) Coordinated genetic regulation of growth and lignin revealed by quantitative trait locus analysis of cDNA microarray data in an interspecific backcross of eucalyptus. Plant Physiol 135:2368-2378.
Morris, Cameron R; Scott, Jay T; Chang, Hou-Min; Sederoff, Ronald R; O'Malley, David; Kadla, John F (2004) Metabolic profiling: a new tool in the study of wood formation. 
Journal of Agricultural and Food Chemistry 52:1427-1434.

Myburg, Alexander A; Vogl, Claus; Griffin, A Rod; Sederoff, Ronald R; Whetten, Ross W (2004) Genetics of postzygotic isolation in Eucalyptus: whole-genome analysis of barriers to introgression in a wide interspecific cross of Eucalyptus grandis and E. globulus. Genetics 166:1405-1418.

Busov, Victor B; Johannes, Eva; Whetten, Ross W; Sederoff, Ronald R; Spiker, Steven L; Lanz-Garcia, Carmen; Goldfarb, Barry (2004) An auxin-inducible gene from loblolly pine (Pinus taeda L.) is differentially expressed in mature and juvenile-phase shoots and encodes a putative transmembrane protein. Planta 218:916-927.


Morris, C.R., Scott, J.T., Chang, H-M, Sederoff, R.R., O�Malley, D. and Kadla, J.F. (2004) Metabolic profiling: a new tool in the study of wood formation. Journal of Agricultural and Food Chemistry 52:1427-1234.
Egertsdotter, U., van Zyl, L.M., MacKay, J., Peter, G., Kirst, M., Clark, C., Whetten, R. and R. Sederoff. (2004) Gene Expression during Formation of Earlywood and Latewood in Loblolly Pine: Expression Profiles of 350 Genes. 
Plant Biology 6:654-663.    
Kirst, M., Myburg, A.A., Kirst, M.E., Scott, J., and Sederoff, R.R. (2004) Coordited genetic regulation of growth and lignin content revealed by QTL alysis of cD microarray data in an interspecific cross of Eucalyptus.
Plant Physiology 135:2368-2378.    
Stasolla, C., Bozhkov, P.V., Chu, T.-M., van Zyl, L., Egertsdotter, U., Suarez, M.F., Craig, D., Wolfinger,  R.D., von Arnold, S., and R.R. Sederoff.  (2004)  A transcriptiol pathway during somatic embryogenesis in gymnosperms. 
Tree Physiology 24:1073-1085.
Brinker, M., van Zyl, L., Liu, W., Craig, D., Sederoff, R., Clapham, D., von Arnold, S. (2004) Microarray alyses of gene expression during adventitious root development in Pinus contorta. 
Plant Physiology 135:1526-1539.    
Stasolla, C., Belmonte, M., van Zyl, L., Craig, D., Liu, W., Yeung, E., and Sederoff, R. (2004) The effect of reduced glutathione on morphology and gene expression of white spruce (Picea glauca) somatic embryos.
Journal of Experimental Botany 55:695-709.     
Busov, V.B., Johannes, E., Whetten, R.W., Sederoff, R.R., Spiker, S.L., Lanz-Garcia, C. and B. Goldfarb. (2004) An auxin-inducible gene from loblolly pine (Pinus taeda L.) is differentially expressed in mature and juvenile phase shoots and encodes a putative transmembrane protein. 
Planta 218:916-927.    
Kirst, M., Myburg, A. and Sederoff, R.R. (2004) Genetic Mapping in Forest Trees: Markers, Linkage Alysis and Genomics. 
Genetic Engineering Journal Setlow ed., Plenum, NY. 26:105-141.    
Myburg AA, Vogl, C., Griffin, A., Sederoff, R., and Whetten, R.  (2004) Genetics of Postzygotic Isolation in Eucalyptus.  Comparative Whole-Genome Alysis of Barriers to Introgression in a Wide Interspecific Cross of E. grandis and E. globulus.
Genetics 166:1405-1418.

Li, Laigeng; Zhou, Yihua; Cheng, Xiaofei; Sun, Jiayan; Marita, Jane M; Ralph, John; Chiang, Vincent L (2003) Combinatorial modification of multiple lignin traits in trees through multigene cotransformation. Proceedings of the National Academy of Sciences USA 100:4939-4944.


Kirst, Matias; Johnson, Arthur F; Baucom, Christie; Ulrich, Erin; Hubbard, Kristy; Staggs, Rod; Paule, Charles; Retzel, Ernest; Whetten, Ross; Sederoff, Ronald (2003) Apparent homology of expressed genes from wood-forming tissues of loblolly pine (Pinus taeda L.) with Arabidopsis thaliana. Proceedings of the National Academy of Sciences USA 100:7383-7388.


Nakatsubo, Tomoyuki; Li, Laigeng.; Chiang, Vincent L.; Hattori, Takefumi; Shimada, Mikio.; Umezawa, Toshiaki (2003) Basic studies towards elucidation of heartwood formation mechanisms.  Wood Research 90:5-6.

van Zyl, Leonel; Bozhkov, Peter V; Clapham, David H; Sederoff, Ronald R; von Arnold, Sara (2003) Up, down and up again is a signature global gene expression pattern at the beginning of gymnosperm embryogenesis. Gene Expression Patterns 3:83-91. 3:83-91.

Zhang, Yi; Brown, Garth; Whetten, Ross; Loopstra, Carol A; Neale, David; Kieliszewski, Marcia J; Sederoff, Ronald R (2003) An arabinogalactan protein associated with secondary cell wall formation in differentiating xylem of loblolly pine. Plant Molecular Biology 52:91-102.


Patzlaff, A., Newman, L., Dubos, C., Whetten, R.W., Smith, C., McInnis, S., Bevan, M., Sederoff, R.R and Campbell, M.M. (2003) Characterization of PtMYB1, an R2R3-MYB from pine xylem. Plant Molecular Biology 53:597-608.    
Patzlaff, A., McInnis, S., Courtey, A., Surman, C., Newman, L., Smith, C., Bevan, M., Whetten, R., Mansfield, S., Whetten, R.W., Sederoff, R. and Campbell, M.  (2003)  Characterisation of a MYB that can regulate lignification. 
Plant Journal 36:743-754.    
Watkinson, J. I., Sioson, A. A., Vasquez-Robinet, C., Shukla, M., Ellis, M., Heath, L. S., Ramakrishn, N., Chevone, B., Watson, L.T., Egertsdotter, U., van Zyl, L., Sederoff, R. R. and Grene, R., (2003)  Photosynthetic acclimation is reflected in specific patterns of gene expression in drought-stressed loblolly pine. 
Plant Physiology 133:1702-1716.     
Sasaki, T., and Sederoff, R.R. 2003. Editorial overview. The rice genome and comparative genomics of higher plants.
Current Opinion in Plant Biology 6:97-100.    
Stasolla, C. van Zyl, L., Egertsdotter, U., Craig, D., Liu, W., Sederoff, R.  2003. The effects of polyethylene glycol (PEG) on gene expression of developing white spruce somatic embryos.
 Plant Physiology 131:1-12.     
Kim, H., Ralph, J., Lu, F., Ralph, S.A., Boudet, AM, MacKay, J. J., Sederoff, R. R., Ito, T., Kawai, S., Ohashi, H. and Higuchi, T., 2003. NMR analysis of lignins in CAD-deficient plants. Part 1. Incorporation of hydroxybenzaldehydes and hydroxybenzaldehydes into lignins, 
Organic Biomolecular Chemistry 1:268-281.    
Zhang, Y., Brown, G., Whetten, R., Loopstra, C.A., Neale, D.B., Kielisewski, M., and Sederoff, R.R. (2003). An Arabinogalactan-Protein Associated with Secondary Cell Wall Formation in Differentiating Xylem of Loblolly Pine. 
Plant Molecular Biology 52:91-102.    
Kirst, M., Johnson, A., Baucom, C., Ulrich, E., Hubbard, C., Staggs, R., Paule, C., Retzel, E., Whetten, R., and Sederoff, R. (2003) Apparent homology of expressed genes from wood-forming tissues of loblolly pine (Pinus taeda L.) with Arabidopsis thalia.  
Proceedings of the National Academy of Sciences USA 100:7383-7388.    
Stasolla, C., van Zyl, L., Egertsdotter, U., Craig, D., Liu, W-B., and Sederoff, R.R. (2003) Transcript profiles of stress related genes in developing white spruce (Picea glauca) somatic embryos cultured with polyethylene glycol.
Plant Science 165:719-729.     
Stasolla, C. Scott, J., Egertsdotter, U., Kadla, J., O Malley, D., Sederoff, R. and van Zyl, L. (2003) Analysis of lignin produced by cinnamyl alcohol dehydrogenase deficient Pinus taeda cultured cells.
Plant Physiology and Biochemistry 41:439-445.     
Myburg, A. A., Griffin, A. R., Sederoff, R. R., Whetten, R. W. (2003) Comparative Genetic Linkage Maps of E. grandis, E. globulus and their F1 Hybrid Based on a Double Pseudo-Backcross Mapping Approach. 
Theoretical and Applied Genetics 107:1028-1042.


Chiang, Vincent L (2002) From rags to riches. Nature Biotechnology 20:557-558.


van Zyl, Leonel; von Arnold, Sara; Bozhkov, Peter; Chen, Yongzhong; Egertsdotter, Ulrika; Mackay, John; Sederoff, Ronald R; Shen, Jing; Zelena, Lyubov; Clapham, David H (2002) Heterologous array analysis in Pinaceae: hybridization of Pinus taeda cDNA arrays with cDNA from needles and embryogenic cultures of P. Taeda, P. Sylvestris or Picea abies. Comp Funct Genomics 3:306-318.

Heath, Lenwood S; Ramakrishnan, Naren; Sederoff, Ronald R; Whetten, Ross W; Chevone, Boris I; Struble, Craig A; Jouenne, Vincent Y; Chen, Dawei; van Zyl, Leonel; Grene, Ruth (2002) Studying the functional genomics of stress responses in loblolly pine with the Expression microarray experiment management system. Comparative and Functional Genomics 3:226-243.


Kirst, M., Johnson, A., Retzel, E., van Zyl, L., Craig, D., Li, Z., Whetten, R., Baucom, C., Ulrich, E., Hubbard, K., and Sederoff, R. (2002) Quantitative inference in functional genomics of Loblolly Pine (Pinus taeda L.) using ESTS and Microarrays.  Proceedings of the 10th IAPTC&B Congress. Orlando, FL. June 23-28. pp 73-79.    
van Zyl, L., Bozhkov, P., Clapham, D., Sederoff, R., von Arnold, S. (2002) Up, down and up again is a signature global gene expression pattern at the beginning of gymnosperm embryogenesis. 
Gene Expression Pattern 3:83-91.    
Heath, L. S.; Ramakrishn, N.; Sederoff, R. R.; Whetten, R. W.; Chevone, B. I.; Struble, C. A.; Jouenne, V. Y.; Chen, D. W.; Van Zyl, L.; Grene, R. (2002) Studying the functional genomics of stress responses in loblolly pine with the Expression microarray experiment management system.
Comparative and Functional Genomics 3:226-243.    
Marques CM, Brondani RPV, Grattapaglia D, Sederoff R.  (2002) Conservation and synteny of SSR loci and QTLs for vegetative propagation in four Eucalyptus species.
Theoretical and Applied Genetics 105:474-477.



Tang, W., Sederoff, R. Whetten, R., (2001) Regeneration of transgenic loblolly pine (Pinus taeda) from zygotic embryos transformed with Agrobacterium tumefaciens. Planta 213:981-989.
"Lev-Yadun, S. and Sederoff, R. (2001) Grafting for transgene containment.
Nature Biotechnology 19:2. 
Dimmel, D.R., MacKay, J.J. Althen, E.M., Parks, C., and Sederoff, R.R. (2001) Pulping and bleaching of CAD deficient wood. 
Journal of Wood Chemistry and Technology  21:1-17.   
Sato, Y., Bao, W.L., Sederoff, R., and Whetten, R. (2001) Molecular cloning and expression of eight laccase CDS in loblolly pine (Pinus taeda).
Journal of Plant Research 114:147-155.    
Tang, W., Whetten, R. and Sederoff R. (2001) Genotypic control of high-frequency adventitious shoot regeneration via somatic organogenesis in loblolly pine. 
Plant Science 161:267-272.    
Robertson, G.P., Barry, P.J., Busta, F.F., Collier, R.J., Keen, N.T., Sederoff, R.R., Simpkins, W.W., Stormshak, F., and Urban, T.N. (2001) Moribund funding in agricultural research. 
Science 291:2089-2090.     
Myburg, A.A., Remington, D.L., O-Malley, D.M., Sederoff, R.R., and R. W. Whetten. (2001) High throughput AFLP analysis using infrared dye-labeled primers and an automated D sequencer. 
Biotechniques 30:384-357.    
Whetten, R. Sun, Y-H., Zhang, Y. and Sederoff, R. (2001) Functional genomics and cell wall biosynthesis in loblolly pine. Plant Mol. Biol. 47:275-291.     
Ralph, J., Lapierre, C., Marita, J.M., Kim, H., Lu, F., Hatfield, R.D., Ralph, S., Chapple, C., Franke, R., Hemm, M., van Doorsselaere, J., Sederoff, R.R., O'Malley, D.M., Scott, J.T., MacKay, J.J., Yahiaoui, N., Boudet, A., Pean, M., Pilate, G., Jouin, L., and Boerjan, W. (2001) Elucidation of new structures in lignins of CAD- and COMT-deficient plants by NMR. 
Phytochemistry 57:993-1003.



Lev-Yadun, S., and Sederoff R.  (2000) Pines as model gymnosperms to study evolution, wood formation and perennial growth. Journal of Plant Growth and Regulation 19:290-305.     
Lapierre, C, Pollet, B., MacKay, J.J., and Sederoff, R.R. (2000) Lignin structure in a mutant pine deficient in cinnamyl alcohol dehydrogenase.
 Journal of Agricultural and Food Chemistry  48:2326-2331.     
Zhang, Y., Sederoff, R.R., and Allo, I. (2000)  Differential expression of genes encoding cell wall proteins in vascular tissues from vertical and bent pine trees. 
Tree Physiology 20:457-466.
Sederoff. R.R. (2000) Tree genomes: what will we understand about them by the year 2020 and how might we use that knowledge? 
Forest Genetics and Sustainability C. Matyas ed., Kluwer Academic Publishers 63:23-30.     

Sederoff, R.R. (1999) Surfing on AG Biotech into Genomics. 
Molecular Breeding 5:485-491.
Sederoff, R.R. (1999) Building better trees with antisense.
Nature Biotechnology 17:750-751.
Liu, B.-H., Sederoff, R.R. (1999) Genetic dissection of vegetative propagation traits in Eucalyptus tereticornis and E. globulus.
Theor Appl Genet 99:936-946.
MacKay, J.J., Presnell, T., Jameel, H., Taneda, H., O'Malley, D., and Sederoff, R. (1999) Modified lignin properties and delignification during pulping with a mutant loblolly pine. 
Holzforschung  53:403-410.     
Myburg AA, Sederoff RR, (1999)  Xylem structure and function. 
Encyclopedia of Life Science. Nature Pub. Group: Macmillan; New York, NY.    
Sederoff, R.R., Mackay, J.J., Ralph, J., and Hatfield, R. D.  (1999) Unexpected variation in lignin.  
Current Opinion in Plant Biology 2:145-152.     

Wenck, A.R., Quinn, M., Whetten, R., Pullman, G., and Sederoff, R.R. (1998) High efficiency Agrobacterium mediated transformation of Norway spruce (Picea abies) and loblolly pine (Pinus taeda).
Plant Molecular Biology 39:407-416.    
Sederoff, R.R. (1998)  The promise of forest biotechnology. 
Paper Age. August issue: pp 13-18.    
Whetten, R.W., Mackay, J.J., and Sederoff, R.R. (1998) Recent Advances in Understanding Lignin Biosynthesis. 
Plant Molecular Biology 49:585-609.     
Allo, I., Quinn, M., Shoop, E., Swope, K., St. Cyr., S., Carlis, J., Riedl, J., Retzel, E., Campbell, M.M., Sederoff, R.R., and Whetten, R.  (1998)  Analysis of xylem formation in pine by cDNA sequencing.  
Proceedings of the National Academy of Sciences USA 95:9693-9698.     
Marques, C.M., Carocha, V.J., Araujo, J.A., Ferriera, J.G., O-Malley, D.M., Liu, B.H., and Sederoff, R.R. (1998) AFLP Genetic maps in Eucalyptus globulus and E. terecticornis.
Theoretical and Applied Genetics 96:727-737.     

MacKay, J. O-Malley, D.M., Presnell, T., Booker, F.L., Campbell, M.M., Whetten, R.W., and Sederoff, R.R. (1997) Inheritance, gene expression, and lignin characterization in a mutant pine deficient in cinnamyl alcohol dehydrogenase. 
Proceedings of the National Academy of Sciences USA 94:8255-8260.     
Ralph, J. MacKay, J. Hatfield, R., Whetten, R.W., O-Malley, D.M., and Sederoff, R.R. (1997) Abnormal lignin in a loblolly pine mutant. 
Science 277:235-239.

O-Malley, D.M., MacKay, J.J., Whetten, R., Campbell, M., Liu, B-H., and Sederoff, R.R. (1996) Genomic approaches to manipulating lignin composition and amount in wood.  
TAPPI Proceedings, pp 105-109.    
Furman, B.J., Dvorak, W.S., Sederoff, R.R., and O-Malley, D.M. (1996)  Molecular markers as diagnostic tools to identify species, hybrids, and introgression: a study of Central American and Mexican pines. 
Proceedings of IUFRO pp 485-491.      
Grattapaglia, D., Bertolucci, F.L.G., Penchel, R., Sederoff, R.  (1996)  Genetic mapping of quantitative trait loci controlling growth and wood quality traits in Eucalyptus grandis using a maternal half-sib family and RAPD markers. 
Genetics 144:1205-1214.    
Sederoff, R.R. and Sederoff, M.K. (1996) Taq polymerase and the experimental use exemption.
 Journal of NIH Research 8:43-44.     
Neale D.B. and R.R. Sederoff.  (1996) Genome mapping in gymnosperms: a case study in loblolly pine (Pinus taeda L.). 
Genomic mapping in plants eds. Patterson, A. and R.G. Landes Co. pp 309-319.     
Sederoff, R. R. (1996)  Genomic mapping of resistance to fusiform rust disease in loblolly pine.  
Proceedings of the National Academy of Sciences USA 93:3859-3864.    

Wilcox. P.L., Amerson, H.V., Kuhlman, E.G., Liu, B.-H., O-Malley, D.M., and Campbell, M.M., and Sederoff, R.R. (1996) Variation in lignin content and composition: mechanisms of control and implications for the genetic improvement of plants. Plant Physiology 110:3-13.    
O-Malley, D.M., Grattapaglia, D., Chaparro, J.X., Wilcox. P.L., Amerson, H.V., Liu, B.-H., Whetten, R., McKeand, S., Kuhlman, E.G., McCord, S., Crane, B., and Sederoff, R. 1996.  Molecular markers, forest genetics and tree breeding. 
Genomes of Plants and Animals 21st Stadler Genetics Symposium. Eds. Gustafson, J. Perry and Flavell, R.B. Plenum Press, N.Y. pp 87-102.     

Sederoff, R. and Meagher, L.  (1995)  Access to intellectual property in biotechnology: constraints on the research enterprise.  
Proceedings of BC Symposium Reports 7:71-78.    
Grattapaglia, D., Bertolucci, F.L., Penchel, R., and Sederoff, R. 1995. Advances in Genetic mapping of Eucalyptus grandis
CRCTHF-IUFRO Conference Proceedings  Hobart, Australia pp 392-397.     
Loopstra, C.A., No, E.-G., and Sederoff, R.R. (1995)  Expression and function of arabinogalactan proteins in xylem of loblolly pine.
Proceedings of the 23rd SFTIC, pp 153-160.    
Whetten, R. and Sederoff, R.  (1995)  Lignin Biosynthesis.  
Plant Cell 7:1001-1013.    
Tsang, E. Charest, P. and Sederoff, R.  (1995) Transformation in conifers. 
Recent Progress in Forest Biotechnology pp 16-28.    
MacKay, J.J., Liu, W., Whetten, R.W., Sederoff, R.R., and O-Malley, D.M.  (1995). Genetic analysis of cinnamyl alcohol dehydrogese (Cad) in loblolly pine. Single gene inheritance, molecular characterization and evolution. 
Molecular Genetics and Genomics 247:537-545.    
Voo, K.S., Whetten, R.W., O'Malley, D.M. and Sederoff, R.R. (1995) 4-Coumarate:CoA Ligase from loblolly pine xylem: Characterization and complementary DNA cloning.  
Plant Physiology 108:85-97.    
Grattapaglia, D., Bertolucci, F.L. and Sederoff, R.R. (1995) Genetic mapping of quantitative trait loci controlling vegetative propagation in Eucalyptus grandis and E. urophylla using a pseudotestcross mapping strategy and RAPD markers.
Theoretical and Applied Genetics 90:933-947    
Sederoff, R.R. DNA transfer in forest trees. (1995) 
Transformation in plants and soil micro-organisms eds. Wang, K. Herrera-Estrella, A. and van Montagu, M. pp 150-163.    
Loopstra, C.A., and Sederoff, R.R. 1995. Xylem specific gene expression in loblolly pine. 
Plant Molecular Biology 27:277-291.    

Grattapaglia, D., Bertolucci, F.L., Penchel, R., and Sederoff, R. (1994) Molecular genetic mapping of economically important traits in Eucalyptus grandis.  
TAPPI Biology Science Symposium pp 133-137.
Sederoff, R., Campbell, M., O'Malley, D. and Whetten, R. (1994) Genetic regulation of lignin biosynthesis and the potential modification of wood by genetic engineering in loblolly pine. 
Recent Advances in Phytochemistry 28:313-355.    
Bao, W., O'Malley, D.M., Whetten, R., and Sederoff, R.R. (1994)  A laccase in xylem cell walls of loblolly pine.  
Polyphenols Actualites 10:22-24.    
Grattapaglia, D., Sederoff, R. (1994) Genetic linkage maps of Eucalyptus grandis and E. urophylla using a pseudotestcoss mapping strategy and RAPD markers.
Genetics 137:1121-1137.    
Chaparro, J.X., Werner, D.J., O'Malley, D.O. and Sederoff, R.R. 1994. Targeted mapping and linkage analysis of morphological isozyme, and RAPD markers in peach. 
Theoretical and Applied Genetics 87:805-815.    

O'Malley, D., Whetten, R., Bao, W., Chen, C-L., and Sederoff, R.R. (1993)  The role of laccase in lignification. 
Plant Journal 4:751-757.    
Bao, W., O-Malley, D.M., Whetten, R., and Sederoff, R.R. (1993)  A laccase associated with lignification. 
Science 260:672-674.    
Sederoff, R. and Stomp, A.M. (1993)  DNA transfer in conifers. In "
Clonal Forestry I: Genetics and Biotechnology" ed. Ahuja, M.R. and Libby, W.J. Springer-Verlag Berlin Heidelberg:  pp 241-255. 

Bao. W., O'Malley, D., and Sederoff, R.R. (1992) Wood contains a cell wall structural protein. 
Proceedings of the National Academy of Sciences USA 89:6604-6608.    
Robertson, D. Weissinger, A.K., Glover, S., Ackley, R., and Sederoff, R.R. (1992) Transient and stable transformation following microprojectile bombardment in Norway spruce. 
Plant Molecular Biology 19:925-935.    
Loopstra, C.A., Weissinger, A.K., and Sederoff, R.R. 1992.  Transient gene expression in differentiating wood in loblolly pine. 
Canadian Journal of Forest Research 22:993-996.    
O'Malley, D.M., Porter, S., and Sederoff, R.R. (1992) Purification and characterization of cinnamaldehyde dehydrogenase in loblolly pine. 
Plant Physiology 98:1364-1371.    

Whetten, R. and Sederoff, R.R. (1991) Phenylalanine ammonia-lyase in loblolly pine: Purification of the enzyme and isolation of a cDNA clone. 
Plant Physiology 98:380-386.    
Stomp, A.M., Weissinger, A.K., and Sederoff, R.R. (1991) Transient expression from microprojectile-mediated DNA transfer in Pinus taeda.
Plant Cell Reports 10:187-190.    

Harry, D.E., Strauss, S.H., and Sederoff, R.R. (1991) Molecular Genetics Comes of Age: 4th Meeting, Molecular Genetics Working party, Intertiol Union of Forestry Research Organizations. 
Plant Molecular Biology Reports 9:169-174.    
Sederoff, R. R. and Chang, H-M. (1991) Lignin Biosynthesis.  In "
Structure and Composition of Wood."  eds. M. Lewin and I. Goldstein.  M. Dekker, N.Y. pp 263-285.    
Whetten, R. and Sederoff, R.R. (1991) Genetic Engineering of Wood.  
Journal of Forest Ecology and Management 43:301-316.    

Kinlaw, C.S., Harry, D.E. and Sederoff, R.R. (1990) Isolation and characterization of alcohol dehydrogese cDNA clones from Pinus radiata.
Canadian Journal of Forest Research 20:1343-1350.    
Stomp, A.M., Loopstra, C. A., Chilton, W. S., Sederoff, R. R. and Moore, L.W. (1990)  Extended host range of Agrobacterium tumefaciens in the Genus Pinus.
Plant Physiology 92:1226-1232.    
Loopstra, C. A., Stomp. A. M., and Sederoff, R.R. (1990)  Agrobacterium mediated DNA transfer in sugar pine.  
Plant Molecular Biology 15:1-9.     

Neale, D. B., Marshall, R.A. and Sederoff, R.R. (1989)  Chloroplast and mitochondrial DNA are paternally inherited in Sequoia sempervirens.
Proceedings of the National Academy of Sciences USA 86:9347-9349.    
Harry D. E., Mordecai, K.S., Kinlaw, C.S., Loopstra, C.A. and Sederoff, R.R. (1989)  DNA Sequence diversity in alcohol dehydrogenase genes from pines.  
Proceedings of Southern Forest Tree Improvement Conference 20:373:380.    
Neale D.B. and Sederoff, R.R. (1989) Paternal inheritance of chloroplast DNA and material inheritance of mitochondrial DNA loblolly pine.  
Theoretical and  Applied Genetics 77:212-216.    

Neale D.B., Marshall, K.A., and Sederoff, R.R. (1988) Inheritance of chloroplast and mitochondrial D in conifers. In "
Proceedings of the Frans Kempe Symposium, Molecular Genetics of Forest Trees."  Studia Forestalia Suecica: pp 89-100     
Kinlaw, C.S. Harry, D.E., Sleeter, D.D. and Sederoff, R.R. (1988) Using heterologous probes to isolate and characterize conifer genes.  In "
Molecular genetics of forest trees," eds. W.M. Cheliak and A.C. Yapa.  Published by the Petawawa tiol Forest Institute, Chalk River, Ont., Cada.  pp 9-18.     
Stomp, A.M., Loopstra, C., Sederoff, R.R., Chilton, S., Fillatti, J., Dupper, G., Tadeschi, P. and Kinlaw, C.  (1988)  Development of a D transfer system for pines.  In "
Genetic manipulation of woody plants."  eds. J. Hanover and D. Keathley, Plenum Press, N.Y. pp 231-241.    
Neale, D.B. and Sederoff, R.R. (1988) Inheritance and evolution of conifer organelle genomes. In "
Genetic manipulation of woody plants."  eds. J. Hanover and D. Keathley.  Plenum Press N.Y. pp 251-164.

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