Publications

Journal Article (48)

1.
Journal Article
Gąsiorowski, L.; Dittmann, I. L.; Brand, J. N.; Ruhwedel, T.; Möbius, W.; Egger, B.; Rink, J. C.: Convergent evolution of the sensory pits in and within flatworms. BMC Biology 21 (1), 266 (2023)
2.
Journal Article
Drees, L.; Schneider, S.; Riedel, D.; Schuh, R.; Behr, M.: The proteolysis of ZP proteins is essential to control cell membrane structure and integrity of developing tracheal tubes in Drosophila. eLife 12, e91079 (2023)
3.
Journal Article
Vila Farré, M.; Rozanski, A.; Ivanković, M.; Cleland, J. P.; Brand, J. N.; Thalen, F.; Grohme, M. A.; von Kannen, S.; Grosbusch, A. L.; Vu, H. T. K. et al.; Prieto, C. E.; Carbayo, F.; Egger, B.; Bleidorn, C.; Rasko, J. E. J.; Rink, J. C.: Evolutionary dynamics of whole-body regeneration across planarian flatworms. Nature Ecology & Evolution 7, pp. 2108 - 2124 (2023)
4.
Journal Article
Brand, J. N.: Support for a radiation of free-living flatworms in the African Great Lakes region and the description of five new Macrostomum species. Frontiers in Zoology 20, 31 (2023)
5.
Journal Article
Boothe, T.; Ivanković, M.; Grohme, M. A.; Markus, M. A.; Dullin, C.; Xu, X.; Rink, J. C.: Content aware image restoration improves spatiotemporal resolution in luminescence imaging. Communications Biology 6, 518 (2023)
6.
Journal Article
Gąsiorowski, L.: Phoronida—A small clade with a big role in understanding the evolution of lophophorates. Evolution & Development, in press (2023)
7.
Journal Article
Drees, L.; Rink, J. C.: The planarian flatworm Schmidtea mediterranea. Nature Methods 20, pp. 3 - 5 (2023)
8.
Journal Article
da Silva, M. T.; Santos, A. R.; Koike, T. E.; Nascimento, T. L.; Rozanski, A.; Bosnakovski, D.; Pereira, L. V.; Kumar, A.; Kyba, M.; Miyabara, E. H.: The fibrotic niche impairs satellite cell function and muscle regeneration in mouse models of Marfan syndrome. Acta Physiologica 237 (1), e13889 (2023)
9.
Journal Article
Mabrouki, Y.; Taybi, A. F.; Vila Farré, M.: First record of the globally invasive planarian Girardia tigrina (Girard, 1850) sensu lato in Morocco. BioInvasions Records 12 (1), pp. 257 - 264 (2023)
10.
Journal Article
Dickmann, J. E. M.; Rink, J. C.; Jülicher, F.: Long-range morphogen gradient formation by cell-to-cell signal propagation. Physical Biology 19 (06), 066001 (2022)
11.
Journal Article
Hall, R. N.; Weill, U.; Drees, L.; Leal-Ortiz, S.; Li, H.; Khariton, M.; Chai, C.; Xue, Y.; Rosental, B.; Quake, S. R. et al.; Alvarado, A. S.; Melosh, N. A.; Fire, A. Z.; Rink, J. C.; Wang, B.: Heterologous reporter expression in the planarian Schmidtea mediterranea through somatic mRNA transfection. Cell Reports: Methods 2 (10), 100298 (2022)
12.
Journal Article
Bekkouche, N.; Gasiorowski, L.: Careful amendment of morphological data sets improves phylogenetic frameworks: re-evaluating placement of the fossil Amiskwia sagittiformis. Journal of Systematic Palaeontology 20 (1), 2109217 (2022)
13.
Journal Article
Wernström, J. V.; Gąsiorowski, L.; Hejnol, A.: Brachiopod and mollusc biomineralisation is a conserved process that was lost in the phoronid–bryozoan stem lineage. EvoDevo 13 (1), 17 (2022)
14.
Journal Article
Howe, J.; Rink, J. C.; Wang, B.; Griffin, A. S.: Multicellularity in animals: The potential for within-organism conflict. Proceedings of the National Academy of Sciences of the USA 119 (32), e2120457119 (2022)
15.
Journal Article
Leria, L.; Riutort, M.; Romero, R.; Ferrer, X.; Vila-Farré, M.: Microplate tectonics and environmental factors as distribution drivers in Western Mediterranean freshwater planarians. Journal of Biogeography 49 (6), pp. 1124 - 1136 (2022)
16.
Journal Article
Brand, J. N.; Harmon, L. J.; Schaerer, L.: Mating behavior and reproductive morphology predict macroevolution of sex allocation in hermaphroditic flatworms. BMC Biology 20 (1), 35 (2022)
17.
Journal Article
Vasquez-Doorman, C.; Brusa, F.; Reyes, J.; Sluys, R.; Vila Farré, M.; Allende, M. L.: First finds in North and South America of Pentacoelum kazukolinda (Platyhelminthes: Tricladida), a worldwide invasive flatworm. BioInvasions Records: International Journal of Field Research on Biological Invasions 11 (4), pp. 1078 - 1094 (2022)
18.
Journal Article
Basquin, C.; Ershov, D.; Gaudin, N.; Vu, h. T. K.; Louis, B.; Papon, J. F.; Orfila, A. M.; Mansour, S.; Rink, J. C.; Azimzadeh, J.: Emergence of a bilaterally symmetric pattern from chiral components in the planarian epidermis. Developmental Cell 51 (4), pp. 516 - 525.e5 (2019)
19.
Journal Article
Vu, H. T. K.; Mansour, S.; Kücken, M.; Blasse, C.; Basquin, C.; Azimzadeh, J.; Myers, E. W.; Brusch, L.; Rink, J. C.: Dynamic polarization of the multiciliated planarian epidermis between body plan landmarks. Developmental Cell 51 (4), pp. 526 - 542 (2019)
20.
Journal Article
Leria, L.; Vila Farre, M.; Solà, E.; Riutort, M.: Outstanding intraindividual genetic diversity in fissiparous planarians (Dugesia, Platyhelminthes) with facultative sex. BMC Evolutionary Biology 19, 130 (2019)
21.
Journal Article
Rozanski, A.; Moon, H.; Brandl, H.; Martin-Duran, J. M.; Grohme, M. A.; Hüttner, K.; Bartscherer, K.; Henry, I.; Rink, J. C.: PlanMine 3.0improvements to a mineable resource of flatworm biology and biodiversity. Nucleic Acids Research 47 (D1), pp. D812 - D820 (2019)
22.
Journal Article
Thommen, A.; Werner, S.; Frank, O.; Philipp, J.; Knittelfelder, O.; Quek, Y.; Fahmy, K.; Shevchenko, A.; Friedrich, B. M.; Jülicher, F. et al.; Rink, J. C.: Body size-dependent energy storage causes Kleiber's law scaling of the metabolic rate in planarians. eLife 8, e38187 (2019)
23.
Journal Article
Ivankovic, M.; Haneckova, R.; Thommen, A.; Grohme, M. A.; Vila-Farre, M.; Werner, S.; Rink, J. C.: Model systems for regeneration: Planarians. Development 146 (17), dev167684 (2019)
24.
Journal Article
Simion, P.; Belkhir, K.; Francois, C.; Veyssier, J.; Rink, J. C.; Manuel, M.; Philippe, H.; Telford, M. J.: A software tool 'CroCo' detects pervasive cross-species contamination in next generation sequencing data. BMC Biology 16, 28 (2018)
25.
Journal Article
Grohme, M. A.; Schloissnig, S.; Rozanski, A.; Pippel, M.; Young, G. R.; Winkler, S.; Brandl, H.; Dahl, A.; Powell, S.; Hiller, M. et al.; Myers, E.; Rink, J. C.: The genome of Schmidtea mediterranea and the evolution of core cellular mechanisms. Nature 554 (7690), pp. 56 - 61 (2018)
26.
Journal Article
Sluys, R.; Vila Farre, M.; Rink, J. C.; Rasko, J. E. J.: An intriguing, new planarian species from Tasmania, with a discussion on protandry in triclad flatworms (Platyhelminthes, Tricladida). Acta Zoologica 99 (4), pp. 404 - 414 (2018)
27.
Journal Article
Weigert, M.; Schmidt, U.; Boothe, T.; Müller, A.; Dibrov, A.; Jain, A.; Wilhelm, B.; Schmidt, D.; Broaddus, C.; Culley, S. et al.; Rocha-Martins, M.; Segovia-Miranda, F.; Norden, C.; Henriques, R.; Zerial, M.; Solimena, M.; Rink, J. C.; Tomancak, P.; Royer, L.; Jug, F.; Myers, E. W.: Content-aware image restoration: Pushing the limits of fluorescence microscopy. Nature Methods 15 (12), pp. 1090 - 1097 (2018)
28.
Journal Article
Boothe, T.; Hilbert, L.; Heide, M.; Berninger, L.; Huttner, W. B.; Zaburdaev, V.; Vastenhouw, N. L.; Myers, E. W.; Drechsel, D. N.; Rink, J. C.: A tunable refractive index matching medium for live imaging cells, tissues and model organisms. eLife 6, e27240 (2017)
29.
Journal Article
Stückemann, T.; Cleland, J. P.; Werner, S.; Vu, H. T. K.; Bayersdorf, R.; Liu, S. Y.; Friedrich, B.; Jülicher, F.; Rink, J. C.: Antagonistic self-organizing patterning systems control maintenance and regeneration of the anteroposterior axis in planarians. Developmental Cell 40 (3), pp. 248 - 263.e4 (2017)
30.
Journal Article
Werner, S.; Vu, H. T. K.; Rink, J. C.: Self-organization in development, regeneration and organoids. Current Opinion in Cell Biology 44, pp. 102 - 109 (2017)
31.
Journal Article
Hoffmann, K. B.; Voss-Böhme, A.; Rink, J. C.; Brusch, L.: A dynamically diluted alignment model reveals the impact of cell turnover on the plasticity of tissue polarity patterns. Journal of the Royal Society Interface 14 (135), 20170466 (2017)
32.
Journal Article
Levin, M.; Anavy, L.; Cole, A. G.; Winter, E.; Mostov, N.; Khair, S.; Senderovich, N.; Kovalev, E.; Silver, D. H.; Feder, M. et al.; Fernandez-Valverde, S. L.; Nakanishi, N.; Simmons, D.; Simakov, O.; Larsson, T.; Liu, S. Y.; Jerafi-Vider, A.; Yaniv, K.; Ryan, J. F.; Martindale, M. Q.; Rink, J. C.; Arendt, D.; Degnan, S. M.; Degnan, B. M.; Hashimshony, T.; Yanai, I.: The mid-developmental transition and the evolution of animal body plans. Nature 531 (7596), pp. 637 - 641 (2016)
33.
Journal Article
Brandl, H.; Moon, H.; Vila Farre, M.; Liu, S. Y.; Henry, I.; Rink, J. C.: PlanMine - A mineable resource of planarian biology and biodiversity. Nucleic Acids Research 44 (D1), pp. D764 - D773 (2016)
34.
Journal Article
Vu, H. T. K.; Rink, J. C.; McKinney, S. A.; McClain, M.; Lakshmanaperumal, N.; Alexander, R.; Alvarado, A. S.: Stem cells and fluid flow drive cyst formation in an invertebrate excretory organ. eLife 4, e07405 (2015)
35.
Journal Article
Werner, S.; Stückemann, T.; Amigo, M. B.; Rink, J. C.; Jülicher, F.; Friedrich, B. M.: Scaling and regeneration of self-organized patterns. Physical Review Letters 114 (13), 138101 (2015)
36.
Journal Article
Werner, S.; Rink, J. C.; Riedel-Kruse, I. H.; Friedrich, B. M.: Shape mode analysis exposes movement patterns in biology: Flagella and flatworms as case studies. PLoS One 9 (11), e113083 (2014)
37.
Journal Article
Liu, S. Y.; Selck, C.; Friedrich, B.; Lutz, R.; Vila Farré, M.; Dahl, A.; Brandl, H.; Lakshmanaperumal, N.; Henry, I.; Rink, J. C.: Reactivating head regrowth in a regeneration-deficient planarian species. Nature 500 (7460), pp. 81 - 84 (2013)
38.
Journal Article
Rink, J. C.: Stem cell systems and regeneration in planaria. Development Genes and Evolution 223 (1-2), pp. 67 - 84 (2013)
39.
Journal Article
Vij, S.; Rink, J. C.; Ho, H. K.; Babu, D.; Eitel, M.; Narasimhan, V.; Tiku, V.; Westbrook, J.; Schierwater, B.; Roy, S.: Evolutionarily ancient association of the FoxJ1 transcription factor with the motile ciliogenic program. PLoS Genetics 8 (11), e1003019 (2012)
40.
Journal Article
Rink, J. C.; Vu, H. T. K.; Alvarado, A. S.: The maintenance and regeneration of the planarian excretory system are regulated by EGFR signaling. Development 138 (17), pp. 3769 - 3780 (2011)
41.
Journal Article
Collinet, C.; Stöter, M.; Bradshaw, C. R.; Samusik, N.; Rink, J. C.; Kenski, D.; Habermann, B.; Buchholz, F.; Henschel, R.; Mueller, M. S. et al.; Nagel, W. E.; Fava, E.; Kalaidzidis, Y.; Zerial, M.: Systems survey of endocytosis by multiparametric image analysis. Nature 464 (7286), pp. 243 - 249 (2010)
42.
Journal Article
Pearson, B. J.; Eisenhoffer, G. T.; Gurley, K. A.; Rink, J. C.; Miller, D. E.; Alvarado, A. S.: Formaldehyde-based whole-mount in situ hybridization method for planarians. Developmental Dynamics 238 (2), pp. 443 - 450 (2009)
43.
Journal Article
Rink, J. C.; Gurley, K. A.; Elliott, S. A.; Alvarado, A. S.: Planarian Hh signaling regulates regeneration polarity and links Hh pathway evolution to cilia. Science 326 (5958), pp. 1406 - 1410 (2009)
44.
Journal Article
Gurley, K. A.; Rink, J. C.; Alvarado, A. S.: Beta-catenin defines head versus tail identity during planarian regeneration and homeostasis. Science 319 (5861), pp. 323 - 327 (2008)
45.
Journal Article
Del Conte-Zerial, P.; Brusch, L.; Rink, J. C.; Collinet, C.; Kalaidzidis, Y.; Zerial, M.; Deutsch, A.: Membrane identity and GTPase cascades regulated by toggle and cut-out switches. Molecular Systems Biology 4 (1), 206 (2008)
46.
Journal Article
Rink, J. C.; Ghigo, E.; Kalaidzidis, Y.; Zerial, M.: Rab conversion as a mechanism of progression from early to late endosomes. Cell 122 (5), pp. 735 - 749 (2005)
47.
Journal Article
Johannes, E.; Collings, D. A.; Rink, J. C.; Strömgren Allen, N.: Cytoplasmic pH dynamics in maize pulvinal cells induced induced by gravity vector changes. Plant Physiology 127 (1), pp. 119 - 130 (2001)
48.
Journal Article
Collings, D. A.; Carter, C. N.; Rink, J. C.; Scott, A. C.; Wyatt, S. E.; Strömgren Allen, N.: Plant nuclei can contain extensive grooves and invaginations. The Plant Cell 12 (12), pp. 2425 - 2439 (2000)

Book (1)

49.
Book
Rink, J. C. (Ed.): Planarian Regeneration: Methods and Protocols. Humana, New York, NY (2018), xi, 573 pp.

Book Chapter (7)

50.
Book Chapter
Grohme, M. A.; Frank, O.; Rink, J. C.: Preparing Planarian Cells for High-Content Fluorescence Microscopy Using RNA in Situ Hybridization and Immunocytochemistry. In: Schmidtea Mediterranea: Methods and Protocols, Vol. 2680, pp. 121 - 155 (Ed. Gentile, L.). Springer US, New York, NY (2023)
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