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研究人員｜中央研究院 細胞與個體生物學研究所

研究人員
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側邊選單開關 研究人員
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游智凱老師實驗室

  • 游智凱Jr-Kai Yu 游智凱老師 Research ID 游智凱老師 ORCID
    研究員兼臨海研究站主任Research Fellow & MRS Chief
    • 專長：Developmental Biology, Evolution of Development
    • 信箱：jkyu@gate.sinica.edu.tw
    • 電話：02-2787-1516, 03-9880544 ext 17
    • 位置：R403/ICOB
友善列印
實驗室簡介展開收合

我的研究興趣在於瞭解頭索動物文昌魚的胚胎發育機制。文昌魚屬於脊索動物中的一個亞門，雖然它是無脊椎動物，但一般利用它作為一種模式生物來探討脊椎動物祖先可能具有的特徵。文昌魚與脊椎動物都具備脊索動物的基本特徵，例如：背神經管、脊索、肌節、以及鰓裂。然而脊椎動物進一步演化出文昌魚所沒有的特徵，包括：特化的頭部結構與前腦、具有遷移性的神經脊細胞群、以及經由外胚層增厚所產生的周圍感覺神經組織。我希望經由對文昌魚胚胎發育機制的研究來了解脊索動物發育的共同基礎機制；同時由於文昌魚在類緣關係上的特殊地位，文昌魚與脊椎動物的比較研究將可以提供重要的資訊來讓我們瞭解脊椎動物體制特徵發育的起源。

本實驗室初步研究重點之一為探討神經脊 (Neural crest) 的起源。在脊椎動物胚胎發育過程中，神經脊細胞是從神經板的邊緣產生。這些細胞會由表皮性的外胚層細胞轉變成一群具遷移性的細胞，並且在到達它們的遷移終點後分化成許多種不同的細胞，包括：頭部顏面骨骼、大部分的周圍神經細系統、以及皮膚的色素細胞等等。許多脊椎動物頭部特有的複雜感覺器官都包含了神經脊細胞所分化出來的構造，因此神經脊被認為是早期脊椎動物演化的重要特點之一。我們將比較文昌魚與脊椎動物胚胎神經板發育過程中的基因表現與調控，進而去瞭解發育基因網路的改變與神經脊起源的關係。

cDNA database for the cephalochordate amphioxus Branchiostoma floridae

實驗室成員展開收合
姓名 職稱 電話 Email 備註
游智凱 研究員 02-2787-1516 jkyu@gate.sinica.edu.tw
林哲毅 博士後研究 02-2789-9517 無
李潔婷 研究助理 02-2789-9517 無
林靖益 研究助理 02-2789-9517 無
黃資凱 研究助理 02-2787-1548 無
著作展開收合

  1. Ching‐Yi Lin, (Jr‐Kai Yu*), Yi‐Hsien Su*. Evidence for BMP‐mediated specification of primordial germ cells in an indirect‐developing hemichordate. Evolution & Development. e12361, 2020-12.

  2. Che-Yi Lin, Mei-Yeh Jade Lu, Jia-Xing Yue, Kun-Lung Li, Yann Le Pétillon, Luok Wen Yong, Yi-Hua Chen, Fu-Yu Tsai, Yu-Feng Lyu, Cheng-Yi Chen, Sheng-Ping L. Hwang, Yi-Hsien Su*, (Jr-Kai Yu*). Molecular asymmetry in the cephalochordate embryo revealed by single-blastomere transcriptome profiling. PLOS Genetics. 16(12) e1009294, 2020-12.

  3. Simakov O*, Marletaz F, Yue JX, O'Connell B, Jenkins J, Brandt A, Calef R, Tung CH, Huang TK, Schmutz J, Satoh N, (Yu JK), Putnam NH, Green RE, Rokhsar DS*. Deeply conserved synteny resolves early events in vertebrate evolution.. NATURE ECOLOGY & EVOLUTION. 4(6), 820-830, 2020-06.

  4. Wang YT, Tseng TL, Kuo YC, (Yu JK), Su YH, Poss KD, Chen CH*. Genetic Reprogramming of Positional Memory in a Regenerating Appendage.. CURRENT BIOLOGY. 29(24), 4193-4207.e4, 2019-12.

  5. Su YH*, Chen YC, Ting HC, Fan TP, Lin CY, Wang KT, (Yu JK*). BMP controls dorsoventral and neural patterning in indirect-developing hemichordates providing insight into a possible origin of chordates.. Proceedings of the National Academy of Sciences of the United States of America. 116(26), 12925-12932, 2019-06.

  6. Kawaguchi M, Sugiyama K, Matsubara K, Lin CY, Kuraku S, Hashimoto S, Suwa Y, Yong LW, Takino K, Higashida S, Kawamura D, (Yu JK), Seki Y*. Co-option of the PRDM14-CBFA2T complex from motor neurons to pluripotent cells during vertebrate evolution.. Development (Cambridge, England). 146(2), dev168633, 2019-01.

  7. Yong LW, Kozmikova I, (Yu JK*). Using Amphioxus as a Basal Chordate Model to Study BMP Signaling Pathway.. Methods in Molecular Biology. 1891, 91-114, 2019.

  8. Marletaz, F., Firbas, P.N., Maeso, I. #, Tena, J.J., Bogdanovic, O., Perry, M., Wyatt, C.D.R., de la Calle-Mustienes, E., Bertrand, S., Burguera, D., Acemel, R.D., van Heeringen, S.J., Naranjo, S., Herrera-Ubeda, C., Skvortsova, K., Jimenez-Gancedo, S., Aldea, D., Marquez, Y., Buono, L., Kozmikova, I., Permanyer, J., Louis, A., Albuixech-Crespo, B., Le Petillon, Y., Leon, A., Subirana, L., Balwierz, P.J., Duckett, P.E., Farahani, E., Aury, J.M., Mangenot, S., Wincker, P., Albalat, R., Benito-Gutierrez, E., Canestro, C., Castro, F., D'Aniello, S., Ferrier, D.E.K., Huang, S., Laudet, V., Marais, G.A.B., Pontarotti, P., Schubert, M., Seitz, H., Somorjai, I., Takahashi, T., Mirabeau, O., Xu, A., Yu, J.K., Carninci, P., Martinez-Morales, J.R., Crollius, H.R., Kozmik, Z., Weirauch, M.T., Garcia-Fernandez, J., Lister, R., Lenhard, B., Holland, P.W.H., Escriva, H. #, Gomez-Skarmeta, J.L. # and Irimia, M. # (2018). Amphioxus functional genomics and the origins of vertebrate gene regulation. Nature 564, 64-70.

  9. Nakashima, K.#, Kimura, S., Ogawa, Y., Watanabe, S., Soma, S., Kaneko, T., Yamada, L., Sawada, H., Tung, C.H., Lu, T.M., Yu, J.K., Villar-Briones, A., Kikuchi, S. and Satoh, N. (2018). Chitin-based barrier immunity and its loss predated mucus-colonization by indigenous gut microbiota. Nature Communications 9, 3402.

  10. Fan, T.P., Ting, H.C., Yu, J.K. and Su, Y.H.# (2018). Reiterative use of FGF signaling in mesoderm development during embryogenesis and metamorphosis in the hemichordate Ptychodera flava. BMC Evolutionary Biology 18, 120.

  11. Zieger, E., Garbarino, G., Robert, N.S.M., Yu, J.K., Croce, J.C., Candiani, S. and Schubert, M.# (2018). Retinoic acid signaling and neurogenic niche regulation in the developing peripheral nervous system of the cephalochordate amphioxus. Cell Mol Life Sci, 75, 2407-2429.

  12. Kozmikova, I.# and Yu, J.K.# (2017). Dorsal-ventral patterning in amphioxus: current understanding, unresolved issues, and future directions. Int J Dev Biol 61, 601-610.

  13. Yong, L.W., Bertrand, S., Yu, J.K., Escriva, H. and Holland, N.D.# (2017). Conservation of BMP2/4 expression patterns within the clade Branchiostoma (amphioxus): Resolving interspecific discrepancies. Gene Expr Patterns 25-26, 71-75.

  14. Su, Y.H.# and Yu, J.K.# (2017). EvoDevo: Changes in developmental controls underlying the evolution of animal body plans. Dev Biol 427, 177-178. (Editorial for the special issue).

  15. Hu, H., Uesaka, M., Guo, S., Shimai, K., Lu, T.M., Li, F., Fujimoto, S., Ishikawa, M., Liu, S., Sasagawa, Y., Zhang, G., Kuratani, S., Yu, J.K., Kusakabe, T.G., Khaitovich, P., Irie, N.# and the EXPANDE Consortium (2017). Constrained vertebrate evolution by pleiotropic genes. Nat Ecol Evol 1, 1722-1730.

  16. Yue, J.X., Kozmikova, I., Ono, H., Nossa, C.W., Kozmik, Z., Putnam, N.H., Yu, J.K. and Holland, L.Z.# (2016). Conserved noncoding elements in the most distant genera of Cephalochordates: the goldilocks principle. Genome Biol Evol 8, 2387-405.

  17. Yong, L.W. and Yu, J.K.# (2016). Tracing the evolutionary origin of vertebrate skeletal tissues: insights from cephalochordate amphioxus. Curr Opin Genet Dev 39, 55-62.

  18. Lin, C.Y., Tung, C.H., Yu, J.K.# and Su, Y.H.# (2016). Reproductive periodicity, spawning induction, and larval metamorphosis of the hemichordate acorn worm Ptychodera flava. J Exp Zool B Mol Dev Evol 326, 47-60.

  19. Chang, Y.C., Pai, C.Y., Chen, Y.C., Ting, H.C., Martinez, P., Telford, M.J., Yu, J.K. and Su, Y.H.# (2016). Regulatory circuit rewiring and functional divergence of the duplicate admp genes in dorsoventral axial patterning. Dev Biol 410, 108-18.

  20. Yue, J.X., Li, K.L. and Yu, J.K.# (2015). Discovery of germline-related genes in Cephalochordate amphioxus: A genome wide survey using genome annotation and transcriptome data. Mar Genomics 24 Pt 2, 147-57.

  21. Stumpp, M., Hu, M.Y., Tseng, Y.C., Guh, Y.J., Chen, Y.C., Yu, J.K., Su, Y.H. and Hwang, P.P.# (2015). Evolution of extreme stomach pH in bilateria inferred from gastric alkalization mechanisms in basal deuterostomes. Sci Rep 5, 10421.

  22. Soukup, V., Yong, L.W., Lu, T.M., Huang, S.W., Kozmik, Z.# and Yu, J.K.# (2015). The Nodal signaling pathway controls left-right asymmetric development in amphioxus. EvoDevo 6, 5.

  23. Simakov, O.#, Kawashima, T., Marletaz, F., Jenkins, J., Koyanagi, R., Mitros, T., Hisata, K., Bredeson, J., Shoguchi, E., Gyoja, F., Yue, J.X., Chen, Y.C., Freeman, R.M., Jr., Sasaki, A., Hikosaka-Katayama, T., Sato, A., Fujie, M., Baughman, K.W., Levine, J., Gonzalez, P., Cameron, C., Fritzenwanker, J.H., Pani, A.M., Goto, H., Kanda, M., Arakaki, N., Yamasaki, S., Qu, J., Cree, A., Ding, Y., Dinh, H.H., Dugan, S., Holder, M., Jhangiani, S.N., Kovar, C.L., Lee, S.L., Lewis, L.R., Morton, D., Nazareth, L.V., Okwuonu, G., Santibanez, J., Chen, R., Richards, S., Muzny, D.M., Gillis, A., Peshkin, L., Wu, M., Humphreys, T., Su, Y.H., Putnam, N.H., Schmutz, J., Fujiyama, A., Yu, J.K., Tagawa, K., Worley, K.C., Gibbs, R.A., Kirschner, M.W., Lowe, C.J., Satoh, N.#, Rokhsar, D.S.# and Gerhart, J.# (2015). Hemichordate genomes and deuterostome origins. Nature 527, 459-65.

  24. Jandzik, D., Garnett, A.T., Square, T.A., Cattell, M.V., Yu, J.K. and Medeiros, D.M.# (2015). Evolution of the new vertebrate head by co-option of an ancient chordate skeletal tissue. Nature 518, 534-537.

  25. Yue, J.X., Yu, J.K., Putnam, N.H. and Holland, L.Z.# (2014). The transcriptome of an amphioxus, Asymmetron lucayanum, from the Bahamas: a window into chordate evolution. Genome Biol Evol 6, 2681-96.

  26. Tung, C.H., Cheng, Y.R., Lin, C.Y., Ho, J.S., Kuo, C.H., Yu, J.K.# and Su, Y.H.# (2014). A new copepod with transformed body plan and unique phylogenetic position parasitic in the acorn worm Ptychodera flava. Biol Bull 226, 69-80.

  27. Satoh, N.#, Tagawa, K., Lowe, C.J., Yu, J.K., Kawashima, T., Takahashi, H., Ogasawara, M., Kirschner, M., Hisata, K., Su, Y.H. and Gerhart, J. (2014). On a possible evolutionary link of the stomochord of hemichordates to pharyngeal organs of chordates. Genesis 52, 925-34.

  28. Ono, H., Kozmik, Z., Yu, J.K. and Wada, H.# (2014). A novel N-terminal motif is responsible for the evolution of neural crest-specific gene-regulatory activity in vertebrate FoxD3. Dev Biol 385, 396-404.

  29. Li, K.L., Lu, T.M. and Yu, J.K.# (2014). Genome-wide survey and expression analysis of the bHLH-PAS genes in the amphioxus Branchiostoma floridae reveal both conserved and diverged expression patterns between cephalochordates and vertebrates. EvoDevo 5, 20.

  30. Chen, S.H., Li, K.L., Lu, I.H., Wang, Y.B., Tung, C.H., Ting, H.C., Lin, C.Y.#, Su, Y.H.# and Yu, J.K.# (2014). Sequencing and analysis of the transcriptome of the acorn worm Ptychodera flava, an indirect developing hemichordate. Mar Genomics 15, 35-43.