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Ying-Chung Jimmy Lin Associate Professor

Education:

Ph.D. North Carolina State University, USA 2014

MS   National Taiwan University, Taiwan 2008

BS   National Tsing Hua University, Taiwan      2006
Specialty: Plant Molecular Biology

E-mail: YCJimmyLin@ntu.edu.tw

Laboratory: Life Science Building R1136

Telelphone: 886-2-3366-2509

Current Research Interests

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  1. Transcriptional regulation in secondary cell wall

  2. Xylem development, Wood formation

  3. Biofuel

Laboratory Introduction

Wood is the most important raw material for the production of pulp for paper making, of lumber for construction and furniture, and of ethanol for energy. Wood formation is a complex developmental process involving differentiation of secondary xylem cells from the vascular cambium, followed by thickening of the cell wall (secondary cell wall). Growth and development in multicellular organisms are regulated at many levels by transacting molecules following well-structured regulatory hierarchies. Understanding the regulatory hierarchy of wood formation will offer novel and more precise genetic approaches to improve the productivity of forest trees. Using Populus trichocarpa protoplasts from stem-differentiating xylem (SDX) as a model, we have begun to reveal the transcriptional regulatory network involved in secondary cell wall formation.
Wood is secondary xylem and, in angiosperm trees, consists of three types of cells, fiber, vessel and ray. In vascular cambium, a thin layer of undifferentiated cells, the fusiform initials or the stem cells, divides and differentiates to give rise to all the three wood cell types. The three types of cells have unique functions. Fiber cells provide support, vessels transport water, and ray cells store nutrients and extractives. Of the three cell types, fibers and vessel elements are the two major ones, with fibers accounting for approximately 60 to 80% of the wood volume. We will use Laser Capture Microdissection (LCM) to isolate vascular cambium, fiber, vessel, and ray cells to study the mechanism of xylem development.
Biofuels and biomass depend on plants as feedstocks for fermentation and other energy related processing. Wood, the most abundant form of plant biomass, can be produced sustainably on land that is not suitable for food crops. Understanding wood formation would improve plant productivity, production of materials, energy, and food. A sustainable and abundant wood supply continues to be an essential national resource.

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Selected Publications

  1. Chung-Shu Yeh, Zhifeng Wang, Fang Miao, Hongyan Ma, Chung-Ting Kao, Tzu-Shu Hsu, Jhong-He Yu, Er-Tsi Hung, Chia-Chang Lin, Chen-Yu Kuan, Ni-Chiao Tsai, Chenguang Zhou, Guan-Zheng Qu, Jing Jiang, Guifeng Liu, Jack P Wang, Wei Li, Vincent L Chiang, Tien-Hsien Chang and Ying-Chung Lin*. (2019) A novel synthetic-genetic-array based yeast one-hybrid system for high discovery rate and short processing time. Genome Research. doi: https://doi.org/10.1101/gr.245951.118 ( 5-yr IF: 11.638 ; R/C: 3.8% in GENOME RESEARCH).

  2. Li S.*, Lin YCJ*, Wang P., Zhang B., Li M., Chen S., Shi R., Tunlaya-Anukit S., Liu X., Wang Z., Dai X., Yu J. , Zhou C., Liu B., Wang JP, Chiang VL, Li W. (2018) Histone Acetylation Cooperating with AREB1 Transcription Factor Regulates Drought Response and Tolerance in Populus trichocarpa. The Plant Cell DOI: https://doi.org/ 10.1105/tpc.18.00437. (* Co-first author) (IF=9.378; R/C=6/223, PLANT SCIENCES).

  3. Yan X., Liu J., Kim H., Liu B., Huang X., Yang Z., Lin YCJ, Chen H., Yang C., Wang JP., Muddiman DC, Ralph J., Sederoff RR, Li Q., Chiang VL (2018) CAD1 and CCR2 protein complex formation in monolignol biosynthesis in Populus trichocarpa. New Phytologist doi: https://doi.org/10.1111/nph.15505 (IF=7.433; R/C=7/223 , PLANT SCIENCES)

  4. Wang JP, Matthews ML, Williams CM, Shi R., Yang C., Tunlaya-Anukit S., Chen HC, Li Q., Liu J., Lin CY, Naik P., Sun YH, Loziuk PL, Yeh TF, Kim H., Gjersing E., Shollenberger T., Shuford CM, Song J., Miller Z., Huang YY, Edmunds CW, Liu B., Sun Y., Lin YCJ, Li W., Chen H., Peszlen I ., Ducoste JJ, Ralph J., Chang HM, Muddiman DC, Davis MF, Smith C., Isik F., Sederoff R., Chiang VL (2018) Improving wood properties for wood utilization through multi-omics integration in lignin biosynthesis. Nature Communications 9, 1579 (IF=12.1; R/C=3/64, MULTIDISCIPLINARY SCIENCES).

  5. Lin YCJ*, Chen H.*, Li Q.*, Shi R., Tunlaya-Anukit S., Shuai P., Li W., Li H., Sun YH, Sederoff RR, Chiang VL (2017). Reciprocal cross -regulation of VND and SND multi-gene TF families in wood formation in Populus trichocarpa. PNAS 114(45):E9722-E9729 (* Co-first author) (IF=9.7; R/C=4/64, MULTIDISCIPLINARY SCIENCES) .

  6. Shi R., Wang JP, Lin YC, Li Q., Sun YH, Chen H., Sederoff RR, Chiang VL (2017). Tissue and cell-type co-expression networks of transcription factors and cell-type co-expression networks of transcription factors and component genes in Populus wood trichocarpa. Planta 245, 927–938 (IF=3.2; R/C=28/197, PLANT SCIENCES).

  7. Wang PJ*, Chuang L.*, Loziukc PL, Chen H., Lin YC, Shi R., Qu GZ, Muddiman DC, Sederoff RR, Chiang VL (2015). Phosphorylation is an on/off switch for 5-hydroxyconiferaldehyde O -methyltransferase activity in poplar monolignol biosynthesis. PNAS, 112, 8481–8486. (* Co-first author). (IF=9.4; R/C=4/57, MULTIDISCIPLINARY SCIENCES).

  8. Lin, YC, Li, W., Li, Q., Chen, H., Sederoff, RR, and Chiang, VL (2014). A simple improved-throughput xylem protoplast system for studying wood formation. Nature Protocols, 9, 2194 -2205. (IF= 9.6; R/C=2/79, BIOCHEMICAL RESEARCH METHODS).

  9. Li, W., Lin, YC, Li, QZ, Chen, H., Sederoff, RR, and Chiang, VL (2014). A robust chromatin immunoprecipitation protocol for studying transcription factor--DNA interactions and histone modifications in wood-forming tissue . Nature Protocols, 9, 2180-2193. (IF= 9.6; R/C=2/79, BIOCHEMICAL RESEARCH METHODS).

  10. Chen, H.-C.*, Song, J.*, Wang, PJ*, Lin, YC, Ducoste, J., Shuford, MC, Liu, J., Li Q., Shi, R., Nepomuceno, A ., Isil, F., Muddiman, CD, Williams, C., Sederoff, RR, and Chiang, VL (2014). Systems Biology of Lignin Biosynthesis in Populus trichocarpa: Heteromeric 4-Coumaric acid: CoA Ligase (4CL) Protein Complex Formation, Regulation and Numerical Modeling. The Plant Cell. 26, 876-893. (* Co-first author) (IF=9.3; R/C=4/204, PLANT SCIENCES).

  11. Lin, YC*, Li, W.*, Sun, YH, Kumari, S., Wei, HR, Li, QZ, Tunlaya-Anukit, S., Sederoff, RR, and Chiang, VL (2013). SND1 transcription factor -directed quantitative functional hierarchical genetic regulatory network in wood formation in Populus trichocarpa. The Plant Cell 25, 4324-4341. (* Co-first author). (IF=9.6; R/C=4/204, PLANT SCIENCES).

  12. Li Q.*, Lin YC*, Sun YH, Song J., Chen H., Zhang XH, Sederoff RR, and Chiang VL (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. (* Co-first author) (IF=9.7; R/C=4/57, MULTIDISCIPLINARY SCIENCES).

  13. Wang JP, Shuford CM, Li Q., Song J., Lin YC, Sun YH, Chen HC, Williams CM, Muddiman DC, Sederoff RR, Chiang VL (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(3):795-808. (IF=3.3; R/C=28/197, PLANT SCIENCES).

Courses Taught

  • General Biology

  • Phytophysiology

  • Protoplast transformation system

Courses Taught

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