BRCAS

Biodiversity Research Center, Academia Sinica

Dr. Wen-Hsiung Li Distinguished Research Fellow

Lab PI

Dr. Wen-Hsiung Li

Distinguished Research Fellow

Brown University, Providence, RI, USA Ph.D.

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Office: terdisciplinary Research Building for Science and Technology  A203

Tel: +886-2-2787-2256

Research Fields
  • Evolutionary Genomics
  • Molecular Evolution
  • Bioinformatics and Computational Biology
Research Directions
    • I. Avian evolutionary genetics and genomics
      Explaining how and why the endless forms of life surrounding us evolved has been a central question in biology.  The feathers of birds display a great degree of diversity among species and body parts.  Our goals are to understand the genetic and genomic changes creating the origin and evolution of these novelties.  We use comparative genomic, transcriptomic, and developmental genetic approaches to gain a deeper understanding of the molecular pathways that control feather development and evolution.
    • II. Synthetic biology: a new approach to biotechnology
      Synthetic biology is a field of translational research that combines science and technology. It has been dubbed a possible “biological” industrial revolution. It is the design and assembly of bio-bricks into genetic circuits for new biological entities and systems. It has a huge potential for applications, e.g., bio-fuel, green materials, agriculture and medicine. It is expected to be a key area in the commercialization of research, with close ties between academics and industry.
    • III. C4 plant leave developmental evolution
      Compared to C3 plants (e.g. rice), C4 plants (e.g., maize) are more efficient in CO2 concentration, and in water and nitrogen use, leading to better adaptation to hotter and dryer environments. Inserting the C4 photosynthetic pathway into rice should increase rice yield, double water use efficiency, and use less fertilizer. Essential to this endeavor is to understand the regulation of kranz anatomy development in C4 plants. We have therefore been using a combination of genomic, bioinformatic and molecular biology approaches to understand the developmental differences between rice and maize and to identify the key regulators of kranz anatomy development. We have also been transforming C4 genes into the rice genome.

 

Latest published paper

期刊論文 ( 2016 - 2019 )

  1. Chang YM, Lin HH, Liu WY, Yu CP, Chen HJ, Wartini PP, Kao YY, Wu YH, Lin JJ, Lu MJ, Tu SL, Wu SH, Shiu SH, Ku MSB, Li WH*, 2019, “Comparative transcriptomics method to infer gene coexpression networks and its applications to maize and rice leaf transcriptomes.”, Proceedings of the National Academy of Sciences of the United States of America, 116(8), 3091-3099. (SCI) (IF: 9.661; SCI ranking: 6.3%) Link
  2. Gomez Luciano LB, Jason Tsai I, Chuma I, Tosa Y, Chen YH, Li JY, Li MY, Jade Lu MY, Nakayashiki H, Li WH*, 2019, “Blast fungal genomes show frequent chromosomal changes, gene gains and losses, and effector gene turnover.”, Molecular biology and evolution, https://doi.org/10.1093/molbev/msz045. (SCI) (IF: 6.202; SCI ranking: 12.8%,9%,10.4%) Link
  3. Huang CJ, Lu MY, Chang YW, Li WH*, 2018, “Experimental Evolution of Yeast for High Temperature Tolerance.”, Molecular biology and evolution, 35(8), 1823-1839. (SCI) (IF: 6.202; SCI ranking: 12.8%,9%,10.4%) Link
  4. Huang J, Li J, Zhou J, Wang L, Yang S, Hurst LD, Li WH, Tian D, 2018, “Identifying a large number of high-yield genes in rice by pedigree analysis, whole-genome sequencing, and CRISPR-Cas9 gene knockout.”, Proceedings of the National Academy of Sciences of the United States of America, 115(32), E7559-E7567. (SCI) (IF: 9.661; SCI ranking: 6.3%) Link
  5. Pi HW, Anandharaj M, Kao YY, Lin YJ, Chang JJ, Li WH, 2018, “Engineering the oleaginous red yeast Rhodotorula glutinis for simultaneous beta-carotene and cellulase production.”, Scientific reports, 8(1), 10850. (SCI) (IF: 4.259; SCI ranking: 15.6%) Link
  6. Chang JJ, Anandharaj M, Ho CY, Tsuge K, Tsai TY, Ke HM, Lin YJ, Ha Tran MD, Li WH*, Huang CC, 2018, “Biomimetic strategy for constructing Clostridium thermocellum cellulosomal operons in Bacillus subtilis.”, Biotechnology for biofuels, 11, 157. (SCI) (IF: 5.203; SCI ranking: 12%,11.9%) Link
  7. Lee MH, Lin JJ, Lin YJ, Chang JJ, Ke HM, Fan WL, Wang TY, Li WH*, 2018, “Genome-wide prediction of CRISPR/Cas9 targets in Kluyveromyces marxianus and its application to obtain a stable haploid strain.”, Scientific reports, 8(1), 7305. (SCI) (IF: 4.259; SCI ranking: 15.6%) Link
  8. Chang JJ, Lin YJ, Lay CH, Thia C, Wu YC, Hou YH, Huang CC, Li WH, 2018, “Constructing a cellulosic yeast host with an efficient cellulase cocktail.”, Biotechnology and bioengineering, 115(3), 751-761. (SCI) (IF: 4.481; SCI ranking: 14.4%) Link
  9. Wu P, Yan J, Lai YC, Ng CS, Li A, Jiang X, Elsey RM, Widelitz R, Bajpai R, Li WH, Chuong CM, 2018, “Multiple Regulatory Modules Are Required for Scale-to-Feather Conversion.”, Molecular biology and evolution, 35(2), 417-430. (SCI) (IF: 6.202; SCI ranking: 12.8%,9%,10.4%) Link
  10. Ke HM, Prachumwat A, Yu CP, Yang YT, Promsri V, Liu KF, Lo CF, Lu MYJ, Lai MC, Tsai IJ, Li WH*, 2017, “Comparative genomics of Vibrio campbellii strains and core species of the Vibrio Harveyi clade”, Scientific Reports, 7, 41394. (SCI) (IF: 4.259; SCI ranking: 15.6%) Link
  11. Su SC, Lin CW, Liu YF, Fan WL, Chen MK, Yu CP, Yang WE, Su CW, Chuang CY, Li WH, Chung WH, Yang SF, 2017, “Exome Sequencing of Oral Squamous Cell Carcinoma Reveals Molecular Subgroups and Novel Therapeutic Opportunities.”, Theranostics, 7(5), 1088-1099. (SCI) (IF: 8.766; SCI ranking: 6.3%) Link
  12. Chang JJ, Lin YJ, Lay CH, Thia C, Wu YC, Hou YH, Li WH*, 2017, “Constructing a Cellulosic Yeast Host with an Efficient Cellulase Cocktail”, BIOTECHNOLOGY AND BIOENGINEERING, 115(3), 751-761. (SCI) (IF: 4.481; SCI ranking: 14.4%) Link
  13. Huang CF, Yu CP, Wu YH, Lu MJ, Tu SL, Wu SH, Shiu SH, Ku MSB, Li WH*, 2017, “Elevated auxin biosynthesis and transport underlie high vein density in C4 leaves.”, Proceedings of the National Academy of Sciences of the United States of America, 114(33), E6884-E6891. (SCI) (IF: 9.661; SCI ranking: 6.3%) Link
  14. Chen CK, Yu CP, Li SC, Wu SM, Lu MJ, Chen YH, Chen DR, Ng CS, Ting CT, Li WH*, 2017, “Identification and evolutionary analysis of long non-coding RNAs in zebra finch.”, BMC genomics, 18(1), 117. (SCI) (IF: 3.729; SCI ranking: 21.9%,29.9%) Link
  15. Lin YJ, Chang JJ, Lin HY, Thia C, Kao YY, Huang CC, Li WH*, 2017, “Metabolic engineering a yeast to produce astaxanthin.”, Bioresource technology, 245(Pt A), 899-905. (SCI) (IF: 5.651; SCI ranking: 8.8%,7.1%,9.8%) Link
  16. Wu P, Yan J, Lai YC, Ng CS, Li A, Jiang X, Lin JJ, Elsey R, Widelitz R, Bajpai R, Li WH, Chuong CM, 2017, “Multiple regulatory modules are required for scale-to-feather conversion”, MOLECULAR BIOLOGY AND EVOLUTION, 35(2), 417-430. (SCI) (IF: 6.202; SCI ranking: 12.8%,9%,10.4%) Link
  17. Lin JJ, Wang FY, Li WH*, Wang TY, 2017, “The rises and falls of opsin genes in 59 ray-finned fish genomes and their implications for environmental adaptation.”, Scientific reports, 7(1), 15568. (SCI) (IF: 4.259; SCI ranking: 15.6%) Link
  18. Li H, Xiang-Yu J, Dai G, Gu Z, Ming C, Yang Z, Ryder OA, Li WH*, Fu YX, Zhang YP, 2016, “Large numbers of vertebrates began rapid population decline in the late 19th century.”, Proceedings of the National Academy of Sciences of the United States of America, 113(49), 14079-14084. (SCI) (IF: 9.661; SCI ranking: 6.3%) Link
  19. Tsai KJ, Lu MJ, Yang KJ, Li M, Teng Y, Chen S, Ku MS, Li WH*, 2016, “Assembling the Setaria italica L. Beauv. genome into nine chromosomes and insights into regions affecting growth and drought tolerance.”, Scientific reports, 6, 35076. (SCI) (IF: 4.259; SCI ranking: 15.6%) Link
  20. Bhattacharjee MJ, Yu CP, Lin JJ, Ng CS, Wang TY, Lin HH, Li WH*, 2016, “Regulatory Divergence among Beta-Keratin Genes during Bird Evolution.”, Molecular biology and evolution, 33(11), 2769-2780. (SCI) (IF: 6.202; SCI ranking: 12.8%,9%,10.4%) Link
  21. Chen CK, Ng CS, Wu SM, Chen JJ, Cheng PL, Wu P, Lu MY, Chen DR, Chuong CM, Cheng HC, Ting CT, Li WH*, 2016, “Regulatory Differences in Natal Down Development between Altricial Zebra Finch and Precocial Chicken.”, Molecular biology and evolution, 33(8), 2030-2043. (SCI) (IF: 6.202; SCI ranking: 12.8%,9%,10.4%) Link
  22. Mei-Ju May Chen, Li-Kai Chen, Yu-Shing Lai, Yu-Yu Lin, Dung-Chi Wu, Yi-An Tung, Kwei-Yan Liu, Hsueh-Tzu Shih, Yi-Jyun Chen, Yan-Liang Lin, Li-Ting Ma, Jian-Long Huang, Po-Chun Wu, Ming-Yi Hong, Fang-Hua Chu, June-Tai Wu, Wen-Hsiung Li* and Chien-Yu Chen*, 2016, “Integrating RNA-seq and ChIP-seq data to characterize long non-coding RNAs in Drosophila melanogaster”, BMC Genomics, 17, 220. (SCI) (IF: 3.729; SCI ranking: 21.9%,29.9%) Link
  23. Huang CF, Chang YM, Lin JJ, Yu CP, Lin HH, Liu WY, Yeh S, Tu SL, Wu SH, Ku MS, Li WH*, 2016, “Insights into the regulation of C leaf development from comparative transcriptomic analysis.”, Current opinion in plant biology, 30, 1-10. (SCI) (IF: 7.357; SCI ranking: 3.8%) Link
  24. Yu CP, Lin JJ, Li WH*, 2016, “Positional distribution of transcription factor binding sites in Arabidopsis thaliana.”, Scientific reports, 6, 25164. (SCI) (IF: 4.259; SCI ranking: 15.6%) Link

Lab members

博士後研究及助理
研究生及其他人員
辦公室位置
電  話

陳湘君     吳業華    張肇罡 

李明璇     劉憲霖     安馬瑞

皮宏偉     陳素蘭

跨領域A203 

2787-2257

林玉儒     高薏盈    芮瓦娜

蔡松蒲

鄭廉樺     郭陳浩

跨領域A203 

2787-2259

2787-2274

劉文裕     林信宏    林進之

黃志仁     黃啟發    張至堯

杰羅姆     陳春樺

跨領域A203 

2787-2262

王瑋馥     張耀明    游竣評

陳志冠

古麥斯     張湘茹     陳彥霖

跨領域A203 

2787-2263