| Year |
Citation |
Score |
| 2024 |
Chou C, Lin CY, Lin CY, Wang A, Fan TP, Wang KT, Yu JK, Su YH. Tracing the evolutionary origin of chordate somites in the hemichordate Ptychodera flava. Integrative and Comparative Biology. PMID 38637301 DOI: 10.1093/icb/icae020 |
0.423 |
|
| 2024 |
Yu JK, Peng LY, Chen CY, Lu TM, Holland ND, Holland LZ. Asymmetric segregation of maternal mRNAs and germline-related determinants in Cephalochordate embryos: implications for the evolution of early patterning events in chordates. Integrative and Comparative Biology. PMID 38599626 DOI: 10.1093/icb/icae012 |
0.621 |
|
| 2023 |
Huang Z, Xu L, Cai C, Zhou Y, Liu J, Xu Z, Zhu Z, Kang W, Cen W, Pei S, Chen D, Shi C, Wu X, Huang Y, Xu C, ... ... Yu JK, et al. Three amphioxus reference genomes reveal gene and chromosome evolution of chordates. Proceedings of the National Academy of Sciences of the United States of America. 120: e2201504120. PMID 36867684 DOI: 10.1073/pnas.2201504120 |
0.337 |
|
| 2022 |
Gil-Gálvez A, Jiménez-Gancedo S, Pérez-Posada A, Franke M, Acemel RD, Lin CY, Chou C, Su YH, Yu JK, Bertrand S, Schubert M, Escrivá H, Tena JJ, Gómez-Skarmeta JL. Gain of gene regulatory network interconnectivity at the origin of vertebrates. Proceedings of the National Academy of Sciences of the United States of America. 119: e2114802119. PMID 35263228 DOI: 10.1073/pnas.2114802119 |
0.355 |
|
| 2021 |
Yong LW, Lu TM, Tung CH, Chiou RJ, Li KL, Yu JK. Somite Compartments in Amphioxus and Its Implications on the Evolution of the Vertebrate Skeletal Tissues. Frontiers in Cell and Developmental Biology. 9: 607057. PMID 34041233 DOI: 10.3389/fcell.2021.607057 |
0.363 |
|
| 2021 |
Bertrand S, Carvalho JE, Dauga D, Matentzoglu N, Daric V, Yu JK, Schubert M, Escrivá H. The Ontology of the Amphioxus Anatomy and Life Cycle (AMPHX). Frontiers in Cell and Developmental Biology. 9: 668025. PMID 33981708 DOI: 10.3389/fcell.2021.668025 |
0.339 |
|
| 2020 |
Lin CY, Lu MJ, Yue JX, Li KL, Le Pétillon Y, Yong LW, Chen YH, Tsai FY, Lyu YF, Chen CY, Hwang SL, Su YH, Yu JK. Molecular asymmetry in the cephalochordate embryo revealed by single-blastomere transcriptome profiling. Plos Genetics. 16: e1009294. PMID 33382716 DOI: 10.1371/journal.pgen.1009294 |
0.719 |
|
| 2020 |
Lin CY, Yu JK, Su YH. Evidence for BMP-mediated specification of primordial germ cells in an indirect-developing hemichordate. Evolution & Development. e12361. PMID 33283431 DOI: 10.1111/ede.12361 |
0.331 |
|
| 2020 |
Simakov O, Marlétaz 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. PMID 32313176 DOI: 10.1038/S41559-020-1156-Z |
0.718 |
|
| 2019 |
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 : Cb. PMID 31786062 DOI: 10.1016/J.Cub.2019.10.038 |
0.332 |
|
| 2019 |
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. PMID 31189599 DOI: 10.1073/Pnas.1901919116 |
0.401 |
|
| 2019 |
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). PMID 30630825 DOI: 10.1242/Dev.168633 |
0.396 |
|
| 2019 |
Yong LW, Kozmikova I, Yu JK. Using Amphioxus as a Basal Chordate Model to Study BMP Signaling Pathway. Methods in Molecular Biology (Clifton, N.J.). 1891: 91-114. PMID 30414128 DOI: 10.1007/978-1-4939-8904-1_8 |
0.337 |
|
| 2018 |
Marlétaz F, Firbas PN, Maeso I, Tena JJ, Bogdanovic O, Perry M, Wyatt CDR, de la Calle-Mustienes E, Bertrand S, Burguera D, Acemel RD, van Heeringen SJ, Naranjo S, Herrera-Ubeda C, Skvortsova K, ... ... Yu JK, et al. Amphioxus functional genomics and the origins of vertebrate gene regulation. Nature. PMID 30464347 DOI: 10.1038/S41586-018-0734-6 |
0.395 |
|
| 2018 |
Fan TP, Ting HC, Yu JK, Su YH. Reiterative use of FGF signaling in mesoderm development during embryogenesis and metamorphosis in the hemichordate Ptychodera flava. Bmc Evolutionary Biology. 18: 120. PMID 30075704 DOI: 10.1186/S12862-018-1235-9 |
0.33 |
|
| 2018 |
Zieger E, Garbarino G, Robert NSM, Yu JK, Croce JC, Candiani S, Schubert M. Retinoic acid signaling and neurogenic niche regulation in the developing peripheral nervous system of the cephalochordate amphioxus. Cellular and Molecular Life Sciences : Cmls. PMID 29387904 DOI: 10.1007/S00018-017-2734-3 |
0.365 |
|
| 2017 |
Kozmikova I, Yu JK. Dorsal-ventral patterning in amphioxus: current understanding, unresolved issues, and future directions. The International Journal of Developmental Biology. 61: 601-610. PMID 29319109 DOI: 10.1387/Ijdb.170236Ik |
0.409 |
|
| 2017 |
Hu H, Uesaka M, Guo S, Shimai K, Lu TM, Li F, Fujimoto S, Ishikawa M, Liu S, Sasagawa Y, Zhang G, Kuratani S, Yu JK, Kusakabe TG, Khaitovich P, et al. Constrained vertebrate evolution by pleiotropic genes. Nature Ecology & Evolution. PMID 28963548 DOI: 10.1038/S41559-017-0318-0 |
0.469 |
|
| 2017 |
Yong LW, Bertrand S, Yu JK, Escriva H, Holland ND. Conservation of BMP2/4 expression patterns within the clade Branchiostoma (amphioxus): Resolving interspecific discrepancies. Gene Expression Patterns : Gep. PMID 28624368 DOI: 10.1016/J.Gep.2017.06.004 |
0.377 |
|
| 2016 |
Yue JX, Kozmikova I, Ono H, Nossa CW, Kozmik Z, Putnam NH, Yu JK, Holland LZ. Conserved non-coding elements in the most distant genera of cephalochordates: the Goldilocks principle. Genome Biology and Evolution. PMID 27412606 DOI: 10.1093/Gbe/Evw158 |
0.756 |
|
| 2016 |
Yong LW, Yu JK. Tracing the evolutionary origin of vertebrate skeletal tissues: insights from cephalochordate amphioxus. Current Opinion in Genetics & Development. 39: 55-62. PMID 27318694 DOI: 10.1016/J.Gde.2016.05.022 |
0.386 |
|
| 2015 |
Chang YC, Pai CY, Chen YC, Ting HC, Martinez P, Telford MJ, Yu JK, Su YH. Regulatory circuit rewiring and functional divergence of the duplicate admp genes in dorsoventral axial patterning. Developmental Biology. PMID 26719126 DOI: 10.1016/J.Ydbio.2015.12.015 |
0.444 |
|
| 2015 |
Lin CY, Tung CH, Yu JK, Su YH. Reproductive periodicity, spawning induction, and larval metamorphosis of the hemichordate acorn worm Ptychodera flava. Journal of Experimental Zoology. Part B, Molecular and Developmental Evolution. PMID 26663879 DOI: 10.1002/Jez.B.22665 |
0.322 |
|
| 2015 |
Simakov O, Kawashima T, Marlétaz F, Jenkins J, Koyanagi R, Mitros T, Hisata K, Bredeson J, Shoguchi E, Gyoja F, Yue JX, Chen YC, Freeman RM, Sasaki A, Hikosaka-Katayama T, ... ... Yu JK, et al. Hemichordate genomes and deuterostome origins. Nature. PMID 26580012 DOI: 10.1038/Nature16150 |
0.744 |
|
| 2015 |
Yue JX, Li KL, Yu JK. Discovery of germline-related genes in Cephalochordate amphioxus: A genome wide survey using genome annotation and transcriptome data. Marine Genomics. PMID 25847029 DOI: 10.1016/J.Margen.2015.03.010 |
0.761 |
|
| 2015 |
Jandzik D, Garnett AT, Square TA, Cattell MV, Yu JK, Medeiros DM. Evolution of the new vertebrate head by co-option of an ancient chordate skeletal tissue. Nature. 518: 534-7. PMID 25487155 DOI: 10.1038/Nature14000 |
0.388 |
|
| 2014 |
Satoh N, Tagawa K, Lowe CJ, Yu JK, Kawashima T, Takahashi H, Ogasawara M, Kirschner M, Hisata K, Su YH, Gerhart J. On a possible evolutionary link of the stomochord of hemichordates to pharyngeal organs of chordates. Genesis (New York, N.Y. : 2000). 52: 925-34. PMID 25303744 DOI: 10.1002/Dvg.22831 |
0.419 |
|
| 2014 |
Yue JX, Yu JK, Putnam NH, Holland LZ. The transcriptome of an amphioxus, Asymmetron lucayanum, from the Bahamas: a window into chordate evolution. Genome Biology and Evolution. 6: 2681-96. PMID 25240057 DOI: 10.1093/Gbe/Evu212 |
0.765 |
|
| 2014 |
Li KL, Lu TM, Yu JK. 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. PMID 24959341 DOI: 10.1186/2041-9139-5-20 |
0.493 |
|
| 2014 |
Chen SH, Li KL, Lu IH, Wang YB, Tung CH, Ting HC, Lin CY, Lin CY, Su YH, Yu JK. Sequencing and analysis of the transcriptome of the acorn worm Ptychodera flava, an indirect developing hemichordate. Marine Genomics. 15: 35-43. PMID 24823299 DOI: 10.1016/J.Margen.2014.04.010 |
0.428 |
|
| 2014 |
Ono H, Kozmik Z, Yu JK, Wada H. A novel N-terminal motif is responsible for the evolution of neural crest-specific gene-regulatory activity in vertebrate FoxD3. Developmental Biology. 385: 396-404. PMID 24252777 DOI: 10.1016/J.Ydbio.2013.11.010 |
0.417 |
|
| 2013 |
Holland LZ, Carvalho JE, Escriva H, Laudet V, Schubert M, Shimeld SM, Yu JK. Evolution of bilaterian central nervous systems: a single origin? Evodevo. 4: 27. PMID 24098981 DOI: 10.1186/2041-9139-4-27 |
0.654 |
|
| 2013 |
Ikuta T, Chen YC, Annunziata R, Ting HC, Tung CH, Koyanagi R, Tagawa K, Humphreys T, Fujiyama A, Saiga H, Satoh N, Yu JK, Arnone MI, Su YH. Identification of an intact ParaHox cluster with temporal colinearity but altered spatial colinearity in the hemichordate Ptychodera flava. Bmc Evolutionary Biology. 13: 129. PMID 23802544 DOI: 10.1186/1471-2148-13-129 |
0.407 |
|
| 2013 |
Zhang QJ, Luo YJ, Wu HR, Chen YT, Yu JK. Expression of germline markers in three species of amphioxus supports a preformation mechanism of germ cell development in cephalochordates. Evodevo. 4: 17. PMID 23777831 DOI: 10.1186/2041-9139-4-17 |
0.755 |
|
| 2013 |
Lin MD, Lee HT, Wang SC, Li HR, Hsien HL, Cheng KW, Chang YD, Huang ML, Yu JK, Chen YH. Expression of phosphatase of regenerating liver family genes during embryogenesis: an evolutionary developmental analysis among Drosophila, amphioxus, and zebrafish. Bmc Developmental Biology. 13: 18. PMID 23641863 DOI: 10.1186/1471-213X-13-18 |
0.336 |
|
| 2012 |
Lu TM, Luo YJ, Yu JK. BMP and Delta/Notch signaling control the development of amphioxus epidermal sensory neurons: insights into the evolution of the peripheral sensory system. Development (Cambridge, England). 139: 2020-30. PMID 22535413 DOI: 10.1242/Dev.073833 |
0.749 |
|
| 2012 |
Wang YB, Chen SH, Lin CY, Yu JK. EST and transcriptome analysis of cephalochordate amphioxus--past, present and future. Briefings in Functional Genomics. 11: 96-106. PMID 22308056 DOI: 10.1093/Bfgp/Els002 |
0.465 |
|
| 2011 |
Wu HR, Chen YT, Su YH, Luo YJ, Holland LZ, Yu JK. Asymmetric localization of germline markers Vasa and Nanos during early development in the amphioxus Branchiostoma floridae. Developmental Biology. 353: 147-59. PMID 21354126 DOI: 10.1016/J.Ydbio.2011.02.014 |
0.772 |
|
| 2011 |
Onai T, Yu J, Blitz IL, Cho KW, Holland LZ. Corrigendum to “Opposing nodal/Vg1 and BMP signals mediate axial patterning in embryos of the basal chordate amphioxus” [Dev. Biol. 344 (2010) 377–389] Developmental Biology. 352: 179. DOI: 10.1016/J.Ydbio.2011.01.036 |
0.597 |
|
| 2010 |
Onai T, Yu JK, Blitz IL, Cho KW, Holland LZ. Opposing Nodal/Vg1 and BMP signals mediate axial patterning in embryos of the basal chordate amphioxus. Developmental Biology. 344: 377-89. PMID 20488174 DOI: 10.1016/J.Ydbio.2010.05.016 |
0.659 |
|
| 2010 |
Yu JK. The evolutionary origin of the vertebrate neural crest and its developmental gene regulatory network--insights from amphioxus. Zoology (Jena, Germany). 113: 1-9. PMID 19939657 DOI: 10.1016/j.zool.2009.06.001 |
0.328 |
|
| 2009 |
Yu JK, Holland LZ. Extraction of RNA from small amounts of amphioxus embryos for cDNA synthesis by RT-PCR. Cold Spring Harbor Protocols. 2009: pdb.prot5289. PMID 20147274 DOI: 10.1101/Pdb.Prot5289 |
0.489 |
|
| 2009 |
Yu JK, Holland LZ. Extraction of RNA from amphioxus embryos or adult amphioxus tissue. Cold Spring Harbor Protocols. 2009: pdb.prot5288. PMID 20147273 DOI: 10.1101/Pdb.Prot5288 |
0.494 |
|
| 2009 |
Yu JK, Holland LZ. Extraction of DNA from adult amphioxus tissue. Cold Spring Harbor Protocols. 2009: pdb.prot5287. PMID 20147272 DOI: 10.1101/Pdb.Prot5287 |
0.452 |
|
| 2009 |
Yu JK, Holland LZ. Amphioxus whole-mount in situ hybridization. Cold Spring Harbor Protocols. 2009: pdb.prot5286. PMID 20147271 DOI: 10.1101/Pdb.Prot5286 |
0.469 |
|
| 2009 |
Yu JK, Holland LZ. Amphioxus (Branchiostoma floridae) spawning and embryo collection. Cold Spring Harbor Protocols. 2009: pdb.prot5285. PMID 20147270 DOI: 10.1101/Pdb.Prot5285 |
0.55 |
|
| 2009 |
Yu JK, Holland LZ. Cephalochordates (amphioxus or lancelets): a model for understanding the evolution of chordate characters. Cold Spring Harbor Protocols. 2009: pdb.emo130. PMID 20147258 DOI: 10.1101/Pdb.Emo130 |
0.504 |
|
| 2009 |
Bajoghli B, Aghaallaei N, Hess I, Rode I, Netuschil N, Tay BH, Venkatesh B, Yu JK, Kaltenbach SL, Holland ND, Diekhoff D, Happe C, Schorpp M, Boehm T. Evolution of genetic networks underlying the emergence of thymopoiesis in vertebrates. Cell. 138: 186-97. PMID 19559469 DOI: 10.1016/J.Cell.2009.04.017 |
0.396 |
|
| 2009 |
Kaltenbach SL, Yu JK, Holland ND. The origin and migration of the earliest-developing sensory neurons in the peripheral nervous system of amphioxus. Evolution & Development. 11: 142-51. PMID 19245546 DOI: 10.1111/J.1525-142X.2009.00315.X |
0.384 |
|
| 2008 |
Yu JK, Wang MC, Shin-I T, Kohara Y, Holland LZ, Satoh N, Satou Y. A cDNA resource for the cephalochordate amphioxus Branchiostoma floridae. Development Genes and Evolution. 218: 723-7. PMID 18773220 DOI: 10.1007/S00427-008-0228-X |
0.635 |
|
| 2008 |
Yu JK, Mazet F, Chen YT, Huang SW, Jung KC, Shimeld SM. The Fox genes of Branchiostoma floridae. Development Genes and Evolution. 218: 629-38. PMID 18773219 DOI: 10.1007/S00427-008-0229-9 |
0.462 |
|
| 2008 |
Putnam NH, Butts T, Ferrier DE, Furlong RF, Hellsten U, Kawashima T, Robinson-Rechavi M, Shoguchi E, Terry A, Yu JK, Benito-Gutiérrez EL, Dubchak I, Garcia-Fernà ndez J, Gibson-Brown JJ, Grigoriev IV, et al. The amphioxus genome and the evolution of the chordate karyotype. Nature. 453: 1064-71. PMID 18563158 DOI: 10.1038/Nature06967 |
0.735 |
|
| 2008 |
Holland LZ, Albalat R, Azumi K, Benito-Gutiérrez E, Blow MJ, Bronner-Fraser M, Brunet F, Butts T, Candiani S, Dishaw LJ, Ferrier DE, Garcia-Fernà ndez J, Gibson-Brown JJ, Gissi C, Godzik A, ... ... Yu JK, et al. The amphioxus genome illuminates vertebrate origins and cephalochordate biology. Genome Research. 18: 1100-11. PMID 18562680 DOI: 10.1101/Gr.073676.107 |
0.785 |
|
| 2008 |
Yu JK, Meulemans D, McKeown SJ, Bronner-Fraser M. Insights from the amphioxus genome on the origin of vertebrate neural crest. Genome Research. 18: 1127-32. PMID 18562679 DOI: 10.1101/Gr.076208.108 |
0.797 |
|
| 2007 |
Yu JK, Satou Y, Holland ND, Shin-I T, Kohara Y, Satoh N, Bronner-Fraser M, Holland LZ. Axial patterning in cephalochordates and the evolution of the organizer. Nature. 445: 613-7. PMID 17237766 DOI: 10.1038/Nature05472 |
0.635 |
|
| 2005 |
Schubert M, Yu JK, Holland ND, Escriva H, Laudet V, Holland LZ. Retinoic acid signaling acts via Hox1 to establish the posterior limit of the pharynx in the chordate amphioxus. Development (Cambridge, England). 132: 61-73. PMID 15576409 DOI: 10.1242/Dev.01554 |
0.597 |
|
| 2004 |
Holland LZ, Yu JK. Cephalochordate (amphioxus) embryos: procurement, culture, and basic methods. Methods in Cell Biology. 74: 195-215. PMID 15575608 DOI: 10.1016/S0091-679X(04)74009-1 |
0.557 |
|
| 2004 |
Yu JK, Holland ND, Holland LZ. Tissue-specific expression of FoxD reporter constructs in amphioxus embryos. Developmental Biology. 274: 452-61. PMID 15385171 DOI: 10.1016/J.Ydbio.2004.07.010 |
0.679 |
|
| 2003 |
Mazet F, Yu JK, Liberles DA, Holland LZ, Shimeld SM. Phylogenetic relationships of the Fox (Forkhead) gene family in the Bilateria. Gene. 316: 79-89. PMID 14563554 DOI: 10.1016/S0378-1119(03)00741-8 |
0.604 |
|
| 2003 |
Yu JK, Holland ND, Holland LZ. AmphiFoxQ2, a novel winged helix/forkhead gene, exclusively marks the anterior end of the amphioxus embryo. Development Genes and Evolution. 213: 102-5. PMID 12632180 DOI: 10.1007/S00427-003-0302-3 |
0.647 |
|
| 2002 |
Yu JK, Holland LZ, Holland ND. An amphioxus nodal gene (AmphiNodal) with early symmetrical expression in the organizer and mesoderm and later asymmetrical expression associated with left-right axis formation. Evolution & Development. 4: 418-25. PMID 12492142 DOI: 10.1046/J.1525-142X.2002.02030.X |
0.638 |
|
| 2002 |
Yu JK, Holland ND, Holland LZ. An amphioxus winged helix/forkhead gene, AmphiFoxD: insights into vertebrate neural crest evolution. Developmental Dynamics : An Official Publication of the American Association of Anatomists. 225: 289-97. PMID 12412011 DOI: 10.1002/Dvdy.10173 |
0.676 |
|
| 2002 |
Yu JK, Holland LZ, Jamrich M, Blitz IL, Hollan ND. AmphiFoxE4, an amphioxus winged helix/forkhead gene encoding a protein closely related to vertebrate thyroid transcription factor-2: expression during pharyngeal development. Evolution & Development. 4: 9-15. PMID 11868660 DOI: 10.1046/J.1525-142X.2002.01057.X |
0.621 |
|
| 2000 |
Chen CA, Yu J. Universal Primers for Amplification of Mitochondrial Small Subunit Ribosomal RNA-Encoding Gene in Scleractinian Corals. Marine Biotechnology. 2: 146-153. PMID 10811953 DOI: 10.1007/S101269900018 |
0.361 |
|
| 2000 |
Chen CA, Wallace CC, Yu JK, Wei NV. Strategies for amplification by polymerase chain reaction of the complete sequence of the gene encoding nuclear large subunit ribosomal RNA in corals Marine Biotechnology. 2: 558-570. DOI: 10.1007/S101260000040 |
0.382 |
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