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台灣鳥類誌 讀者回饋


3/28 15:30 Dr. Shin-Yi Lin 演講_ Genetic Dissection of TRA-1 Function and Regulation in the Sex Determination Pathways of Caenorhabditis Nematodes




李文雄院士中研院新世代基因體定序核心實驗室誠徵實驗助理1名Positions Open in High Throughput Genomics Core Facility








台灣生物多樣性資訊機構(TaiBIF)誠徵生物多樣性資訊技術員 (研發替代役可) 1名


3/28 3月份「知識饗宴」- 臺灣史研究所謝國興研究員兼所長主講「後殖民?臺灣民間信仰中的日本記憶」


3/31 3月份藝文活動「不可能的相聲」


蔡怡陞 助研究員


Dr. Isheng Jason Tsai

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tel: +886-2-2787-2230

Assistant Research Fellow
Ph D. Imperial College, UK,
Research Fields
Evolution of parasitism and pathogenicity. Eukaryotic microbe (fungi and helminths) ecology and biodiversity.
Major Research Achievements (2013-2017)
  • The principal objective of my research lies in the analysis of DNA sequence variation in large-scale genome sequencing studies, to identify how microorganisms adapt to their unique environment and in some cases, gain pathogenicity. Over these years, I have been leading or involved the de novo and comparative genome projects of various medicinally, veterinary, and agriculturally important pathogens, including the parasitic worms (helminths) and yeast re-sequencing genome projects by taking the advantage of next-generation sequencing (NGS).
Research Interests
  • Evolution and genetics of reproduction life cycles in microbes
  • Evolution of parasitism and pathogenicity in microbial pathogens
  • Chromosome evolution in nematodes and fungi
    Ongoing projects
    • Comparative and population genomics of various eukaryotic pathogens important in Taiwan, Japan and Asia
    • Metagenomics and genetic studies relating to complex human diseases
      Publications (2013-2017)
      1. Ke Huei-Mien, Prachumwat Anuphap, Yu Chun-Ping, Yang Yi-Ting, Promsri Sutitcha, Liu Kuan-Fu, Lo Chu-Fang, Lu Mei-Yeh Jade, Lai Mei-Chin, Tsai Isheng J., Li Wen-Hsiung, 2017, “Comparative genomics of Vibrio campbellii strains and core species of the Vibrio Harveyi clade”, Scientific Reports, 7, 41394. (SCI) (IF: 5.228; SCI ranking: 11.1%)
      2. Cotton James A., Steinbiss Sascha, Yokoi Toshiro, Tsai Isheng J., Kikuchi Taisei, 2016, “An expressed, endogenous Nodavirus-like element captured by a retrotransposon in the genome of the plant parasitic nematode Bursaphelenchus xylophilus”, Scientific Reports, 6, 39749. (SCI) (IF: 5.228; SCI ranking: 11.1%)
      3. Liang Shih-Hsiung, Hsu Duen-Wei, Lin Chia-Ying, Kao Chih-Ming, Huang Da-Ji, Chien Chih-Ching, Chen Ssu-Ching, Tsai Isheng Jason, Chen Chien-Cheng, 2016, “Enhancement of microbial 2,4,6-trinitrotoluene transformation with increased toxicity by exogenous nutrient amendment”, Ecotoxicology and Environmental Safety, 138, 39-46. (SCI) (IF: 3.13; SCI ranking: 24.4%,25.6%)
      4. Vicente CS, Nascimento FX, Barbosa P, Ke HM, Tsai IJ, Hirao T, Cock PJ, Kikuchi T, Hasegawa K, Mota M, 2016, “Evidence for an Opportunistic and Endophytic Lifestyle of the Bursaphelenchus xylophilus-Associated Bacteria Serratia marcescens PWN146 Isolated from Wilting Pinus pinaster.”, Microbial ecology, 72(3), 669-681. (SCI) (IF: 3.232; SCI ranking: 3.8%,35%,24.7%)
      5. Wu GL, Kuo TH, Tsay TT, Tsai IJ, Chen PJ, 2016, “Glycoside Hydrolase (GH) 45 and 5 Candidate Cellulases in Aphelenchoides besseyi Isolated from Bird's-Nest Fern.”, PloS one, 11(7), e0158663. (SCI) (IF: 3.057; SCI ranking: 17.5%)
      6. Suttiprapa S, Rinaldi G, Tsai IJ, Mann VH, Dubrovsky L, Yan HB, Holroyd N, Huckvale T, Durrant C, Protasio AV, Pushkarsky T, Iordanskiy S, Berriman M, Bukrinsky MI, Brindley PJ, 2016, “HIV-1 Integrates Widely throughout the Genome of the Human Blood Fluke Schistosoma mansoni.”, PLoS pathogens, 12(10), e1005931. (SCI) (IF: 7.003; SCI ranking: 9.8%,8.3%,6.1%)
      7. Cotton JA, Bennuru S, Grote A, Harsha B, Tracey A, Beech R, Doyle SR, Dunn M, Hotopp JC, Holroyd N, Kikuchi T, Lambert O, Mhashilkar A, Mutowo P, Nursimulu N, Ribeiro JM, Rogers MB, Stanley E, Swapna LS, Tsai IJ, Unnasch TR, Voronin D, Parkinson J, Nutman TB, Ghedin E, Berriman M, Lustigman S, 2016, “The genome of Onchocerca volvulus, agent of river blindness.”, Nature Microbiology, 2, 16216.
      8. Hunt VL, Tsai IJ, Selkirk ME, Viney M, 2016, “The genome of Strongyloides spp. gives insights into protein families with a putative role in nematode parasitism.”, Parasitology, , 1-16. (SCI) (IF: 3.031; SCI ranking: 27.8%)
      9. Hunt VL, Tsai IJ, Coghlan A, Reid AJ, Holroyd N, Foth BJ, Tracey A, Cotton JA, Stanley EJ, Beasley H, Bennett HM, Brooks K, Harsha B, Kajitani R, Kulkarni A, Harbecke D, Nagayasu E, Nichol S, Ogura Y, Quail MA, Randle N, Xia D, Brattig NW, Soblik H, Ribeiro DM, Sanchez-Flores A, Hayashi T, Itoh T, Denver DR, Grant W, Stoltzfus JD, Lok JB, Murayama H, Wastling J, Streit A, Kikuchi T, Viney M, Berriman M, 2016, “The genomic basis of parasitism in the Strongyloides clade of nematodes.”, Nature genetics, 48(3), 299-307. (SCI) (IF: 31.616; SCI ranking: 1.2%)
      10. Tsai IJ, Tanaka R, Kanzaki N, Akiba M, Yokoi T, Espada M, Jones JT, Kikuchi T, 2016, “Transcriptional and morphological changes in the transition from mycetophagous to phytophagous phase in the plant parasitic nematode Bursaphelenchus xylophilus.”, Molecular plant pathology, 17, 77-83. (SCI) (IF: 4.335; SCI ranking: 7.7%)
      11. Koufopanou V, Lomas S, Tsai IJ, Burt A, 2015, “Estimating the Fitness Effects of New Mutations in the Wild Yeast Saccharomyces paradoxus.”, Genome biology and evolution, 7(7), 1887-1895. (SCI) (IF: 4.098; SCI ranking: 19.9%,21.7%)
      12. Akiba M, Ota Y, Tsai IJ, Hattori T, Sahashi N, Kikuchi T, 2015, “Genetic Differentiation and Spatial Structure of Phellinus noxius, the Causal Agent of Brown Root Rot of Woody Plants in Japan.”, PloS one, 10(10), e0141792. (SCI) (IF: 3.057; SCI ranking: 17.5%)
      13. Palomares-Rius JE, Tsai IJ, Karim N, Akiba M, Kato T, Maruyama H, Takeuchi Y, Kikuchi T, 2015, “Genome-wide variation in the pinewood nematode Bursaphelenchus xylophilus and its relationship with pathogenic traits.”, BMC genomics, 16(1), 845. (SCI) (IF: 3.867; SCI ranking: 25.9%,19.9%)
      14. Tanaka R, Hino A, Tsai IJ, Palomares-Rius JE, Yoshida A, Ogura Y, Hayashi T, Maruyama H, Kikuchi T, 2014, “Assessment of helminth biodiversity in wild rats using 18S rDNA based metagenomics.”, PloS one, 9(10), e110769. (SCI) (IF: 3.057; SCI ranking: 17.5%)
      15. Tsai IJ, Tanaka E, Masuya H, Tanaka R, Hirooka Y, Endoh R, Sahashi N, Kikuchi T, 2014, “Comparative genomics of Taphrina fungi causing varying degrees of tumorous deformity in plants.”, Genome biology and evolution, 6(4), 861-872. (SCI) (IF: 4.098; SCI ranking: 19.9%,21.7%)
      16. Palomares-Rius JE, Hirooka Y, Tsai IJ, Masuya H, Hino A, Kanzaki N, Jones JT, Kikuchi T, 2014, “Distribution and evolution of glycoside hydrolase family 45 cellulases in nematodes and fungi.”, BMC evolutionary biology, 14, 69. (SCI) (IF: 3.406; SCI ranking: 32.6%,31.3%)
      17. Bennett HM, Mok HP, Gkrania-Klotsas E, Tsai IJ, Stanley EJ, Antoun NM, Coghlan A, Harsha B, Traini A, Ribeiro DM, Steinbiss S, Lucas SB, Allinson KS, Price SJ, Santarius TS, Carmichael AJ, Chiodini PL, Holroyd N, Dean AF, Berriman M, 2014, “The genome of the sparganosis tapeworm Spirometra erinaceieuropaei isolated from the biopsy of a migrating brain lesion.”, Genome biology, 15(11), 510. (SCI) (IF: 11.313; SCI ranking: 3.1%,4.2%)
      18. Foth BJ, Tsai IJ, Reid AJ, Bancroft AJ, Nichol S, Tracey A, Holroyd N, Cotton JA, Stanley EJ, Zarowiecki M, Liu JZ, Huckvale T, Cooper PJ, Grencis RK, Berriman M, 2014, “Whipworm genome and dual-species transcriptome analyses provide molecular insights into an intimate host-parasite interaction.”, Nature genetics, 46(7), 693-700. (SCI) (IF: 31.616; SCI ranking: 1.2%)
      19. Valentim CL, Cioli D, Chevalier FD, Cao X, Taylor AB, Holloway SP, Pica-Mattoccia L, Guidi A, Basso A, Tsai IJ, Berriman M, Carvalho-Queiroz C, Almeida M, Aguilar H, Frantz DE, Hart PJ, LoVerde PT, Anderson TJ, 2013, “Genetic and molecular basis of drug resistance and species-specific drug action in schistosome parasites.”, Science, 342(6164), 1385-1389. (SCI) (IF: 34.661; SCI ranking: 3.2%)
      20. Laing R, Kikuchi T, Martinelli A, Tsai IJ, Beech RN, Redman E, Holroyd N, Bartley DJ, Beasley H, Britton C, Curran D, Devaney E, Gilabert A, Hunt M, Jackson F, Johnston SL, Kryukov I, Li K, Morrison AA, Reid AJ, Sargison N, Saunders GI, Wasmuth JD, Wolstenholme A, Berriman M, Gilleard JS, Cotton JA, 2013, “The genome and transcriptome of Haemonchus contortus, a key model parasite for drug and vaccine discovery.”, Genome biology, 14(8), R88. (SCI) (IF: 11.313; SCI ranking: 3.1%,4.2%)
      21. Tsai IJ, Zarowiecki M, Holroyd N, Garciarrubio A, Sanchez-Flores A, Brooks KL, Tracey A, Bobes RJ, Fragoso G, Sciutto E, Aslett M, Beasley H, Bennett HM, Cai J, Camicia F, Clark R, Cucher M, De Silva N, Day TA, Deplazes P, Estrada K, Fernandez C, Holland PW, Hou J, Hu S, Huckvale T, Hung SS, Kamenetzky L, Keane JA, Kiss F, Koziol U, Lambert O, Liu K, Luo X, Luo Y, Macchiaroli N, Nichol S, Paps J, Parkinson J, Pouchkina-Stantcheva N, Riddiford N, Rosenzvit M, Salinas G, Wasmuth JD, Zamanian M, Zheng Y, Cai X, Soberon X, Olson PD, Laclette JP, Brehm K, Berriman M, 2013, “The genomes of four tapeworm species reveal adaptations to parasitism.”, Nature, 496(7443), 57-63. (SCI) (IF: 38.138; SCI ranking: 1.6%)