Institute of Biological and Chemical Systems - Biological Information Processing

Publications 2019


  1. Gene duplication and functional divergence of the zebrafish otospiralin genes.
    Baanannou, A.; Rastegar, S.; Bouzid, A.; Takamiya, M.; Gerber, V.; Souissi, A.; Beil, T.; Jrad, O.; Strähle, U.; Masmoudi, S.
    2019. Development genes and evolution. doi:10.1007/s00427-019-00642-8
  2. A cautionary note: Toxicity of polyethylene glycol 200 injected intraperitoneally into mice [in press].
    Thiele, W.; Kyjacova, L.; Köhler, A.; Sleeman, J. P.
    2019. Laboratory animals, 002367721987368. doi:10.1177/0023677219873684
  3. Access to Photoreactive Core‐Shell Nanomaterials by Photoinitiated Polymerization‐Induced Self‐Assembly.
    Molle, E.; Le, D.; Norizadeh Abbariki, T.; Akdemir, M. S.; Takamiya, M.; Miceli, E.; Kassel, O.; Delaittre, G.
    2019. ChemPhotoChem, 3 (11), 1084–1089. doi:10.1002/cptc.201900216
  4. Editorial series: cancer care in low- and middle-income countries.
    Haier, J.; Sleeman, J.; Schäfers, J.
    2019. Clinical & experimental metastasis, 36 (6), 477–480. doi:10.1007/s10585-019-10003-4
  5. The contribution of platelets to intravascular arrest, extravasation, and outgrowth of disseminated tumor cells [in press].
    Foss, A.; Muñoz-Sagredo, L.; Sleeman, J.; Thiele, W.
    2019. Clinical & experimental metastasis. doi:10.1007/s10585-019-10009-y
  6. Spatiotemporally controlled induction of gene expression in vivo allows tracking the fate of tumor cells that traffic through the lymphatics.
    Grau, N.; Scherer, S. D.; Rothley, M.; Roßwag, S.; Thiele, W.; Stoecklein, N. H.; Cremers, N.; Thaler, S.; Garvalov, B. K.; Sleeman, J. P.
    2019. International journal of cancer, 147 (4), 1190–1198. doi:10.1002/ijc.32766
  7. Supreme activity of gramicidin S against resistant, persistent and biofilm cells of staphylococci and enterococci.
    Berditsch, M.; Afonin, S.; Reuster, J.; Lux, H.; Schkolin, K.; Babii, O.; Radchenko, D. S.; Abdullah, I.; William, N.; Middel, V.; Strähle, U.; Nelson, A.; Valko, K.; Ulrich, A. S.
    2019. Scientific reports, 9 (1), 17938. doi:10.1038/s41598-019-54212-zFull textFull text of the publication as PDF document
  8. Inductively coupled magic angle spinning microresonators benchmarked for high-resolution single embryo metabolomic profiling.
    Adhikari, S. S.; Zhao, L.; Dickmeis, T.; Korvink, J. G.; Badilita, V.
    2019. The analyst, 144 (24), 7192–7199. doi:10.1039/C9AN01634AFull textFull text of the publication as PDF document
  9. PROTEOSTASIS: A European Network to Break Barriers and Integrate Science on Protein Homeostasis.
    Dissmeyer, N.; Coux, O.; Rodriguez, M. S.; Barrio, R.; Ballar, P.; Barrio, R.; Blattner, C.; Bomont, P.; Carracedo, A.; Clague, M. J.; Coux, O.; Dantuma, N.; Dissmeyer, N.; Farràs, R.; Girao, H.; Glickman, M.; Holmberg, C. I.; Jupin, I.
    2019. Trends in biochemical sciences, 44 (5), 383–387. doi:10.1016/j.tibs.2019.01.007Full textFull text of the publication as PDF document
  10. Lef1 regulates caveolin expression and caveolin dependent endocytosis, a process necessary for Wnt5a/Ror2 signaling during Xenopus gastrulation.
    Puzik, K.; Tonnier, V.; Opper, I.; Eckert, A.; Zhou, L.; Kratzer, M.-C.; Noble, F.; Nienhaus, G. U.; Gradl, D.
    2019. Scientific reports, 9 (1), Article No.15645. doi:10.1038/s41598-019-52218-1Full textFull text of the publication as PDF document
  11. Histone H3K27 acetylation precedes active transcription during zebrafish zygotic genome activation as revealed by live-cell analysis.
    Sato, Y.; Hilbert, L.; Oda, H.; Wan, Y.; Heddleston, J. M.; Chew, T.-L.; Zaburdaev, V.; Keller, P.; Lionnet, T.; Vastenhouw, N.; Kimura, H.
    2019. Development <Cambridge>, 146 (19), Article: dev179127. doi:10.1242/dev.179127Full textFull text of the publication as PDF document
  12. Super-resolution imaging of densely packed DNA in nuclei of zebrafish embryos using stimulated emission double depletion microscopy.
    Zhang, W.; Noa, A.; Nienhaus, K.; Hilbert, L.; Nienhaus, G. U.
    2019. Journal of physics / D, 52 (41), Art. Nr.: 414001. doi:10.1088/1361-6463/ab3200
  13. Spreading of perturbations in myosin group kinetics along actin filaments.
    Balassy, Z.; Lauzon, A.-M.; Hilbert, L.
    2019. Proceedings of the National Academy of Sciences of the United States of America, 116 (35), 17336–17344. doi:10.1073/pnas.1904164116Full textFull text of the publication as PDF document
  14. Recent advances in synthesizing metal nanocluster-based nanocomposites for application in sensing, imaging and catalysis [in press].
    Shang, L.; Xu, J.; Nienhaus, G. U.
    2019. Nano today, Art.-Nr.: 100767. doi:10.1016/j.nantod.2019.100767
  15. Agglomeration state of titanium-di-oxide (TiO₂) nanomaterials influences the toxicity/biological responses in human bronchial epithelial cells at the air-liquid interface.
    Murugadoss, S.; Diabaté, S.; Mülhopt, S.; Paur, H.-R.; Brassinne, F.; Mast, J.; Godderis, L.; Weiss, C.; Hoet, P.
    2019. Toxicology letters, 314 (S1), 207 
  16. Mechanism of toxicity of amorphous silica nanoparticles in lung epithelial cells and macrophages.
    Diabaté, S.; Fritsch-Decker, S.; Marquardt, C.; Leibe, R.; Weiss, C.
    2019. Toxicology letters, 314 (S1), 200. doi:10.1016/j.toxlet.2019.09.002
  17. High - throughput /-content - screening of nanomaterials as a versatile tool for hazard assessment.
    Weiss, C.
    2019. Toxicology letters, 314 (S1), 34 
  18. Nicotinic acetylcholine receptor at vertebrate motor endplates: Endocytosis, recycling, and degradation.
    Rudolf, R.; Straka, T.
    2019. Neuroscience letters, 711, Article: 134434. doi:10.1016/j.neulet.2019.134434Full textFull text of the publication as PDF document
  19. Silica Nanoparticles Provoke Cell Death Independent of p53 and BAX in Human Colon Cancer Cells.
    Fritsch-Decker, S.; An, Z.; Yan, J.; Hansjosten, I.; Al-Rawi, M.; Peravali, R.; Diabaté, S.; Weiss, C.
    2019. Nanomaterials, 9 (8), 1172. doi:10.3390/nano9081172Full textFull text of the publication as PDF document
  20. Delay in development and behavioural abnormalities in the absence of p53 in zebrafish.
    Elabd, S.; Jabeen, N. A.; Gerber, V.; Peravali, R.; Bourdon, J.-C.; Kancherla, S.; Vallone, D.; Blattner, C.
    2019. PLOS ONE, 14 (7), Art.-Nr.: e0220069. doi:10.1371/journal.pone.0220069Full textFull text of the publication as PDF document
  21. Differential circadian and light-driven rhythmicity of clock gene expression and behaviour in the turbot, Scophthalmus maximus.
    Ceinos, R. M.; Chivite, M.; López-Patiño, M. A.; Naderi, F.; Soengas, J. L.; Foulkes, N. S.; Míguez, J. M.
    2019. PLOS ONE, 14 (7), e0219153. doi:10.1371/journal.pone.0219153Full textFull text of the publication as PDF document
  22. mTORC1 and PKB/Akt control the muscle response to denervation by regulating autophagy and HDAC4.
    Castets, P.; Rion, N.; Théodore, M.; Falcetta, D.; Lin, S.; Reischl, M.; Wild, F.; Guérard, L.; Eickhorst, C.; Brockhoff, M.; Guridi, M.; Ibebunjo, C.; Cruz, J.; Sinnreich, M.; Rudolf, R.; Glass, D. J.; Rüegg, M. A.
    2019. Nature Communications, 10 (1), 3187. doi:10.1038/s41467-019-11227-4Full textFull text of the publication as PDF document
  23. Loss of ASAP1 in mice impairs adipogenic and osteogenic differentiation of mesenchymal progenitor cells through dysregulation of FAK/Src and AKT signaling.
    Schreiber, C.; Saraswati, S.; Harkins, S.; Gruber, A.; Cremers, N.; Thiele, W.; Rothley, M.; Plaumann, D.; Korn, C.; Armant, O.; Augustin, H. G.; Sleeman, J. P.
    2019. (G. S. Barsh, Ed.)PLoS Genetics, 15 (6), Art.Nr.: e1008216. doi:10.1371/journal.pgen.1008216Full textFull text of the publication as PDF document
  24. Fam83F induces p53 stabilisation and promotes its activity.
    Salama, M.; Benitez-Riquelme, D.; Elabd, S.; Munoz, L.; Zhang, P.; Glanemann, M.; Mione, M. C.; Goldin, R.; Soussi, T.; Davidson, G.; Blattner, C.
    2019. Cell death and differentiation, 26, 2125–2138. doi:10.1038/s41418-019-0281-1
  25. Functions of thioredoxin1 in brain development and in response to environmental chemicals in zebrafish embryos.
    Yang, L.; Zeng, C.; Zhang, Y.; Wang, F.; Takamiya, M.; Strähle, U.
    2019. Toxicology letters, 314, 43–52. doi:10.1016/j.toxlet.2019.07.009
  26. Tspan8 is expressed in breast cancer and regulates E-cadherin/catenin signalling and metastasis accompanied by increased circulating extracellular vesicles.
    Voglstaetter, M.; Thomsen, A. R.; Nouvel, J.; Koch, A.; Jank, P.; Navarro, E. G.; Gainey-Schleicher, T.; Khanduri, R.; Groß, A.; Rossner, F.; Blaue, C.; Franz, C. M.; Veil, M.; Puetz, G.; Hippe, A.; Dindorf, J.; Kashef, J.; Thiele, W.; Homey, B.; Greco, C.; Boucheix, C.; Baur, A.; Erbes, T.; Waller, C. F.; Follo, M.; Hossein, G.; Sers, C.; Sleeman, J.; Nazarenko, I.
    2019. The journal of pathology, 248 (4), 421–437. doi:10.1002/path.5281Full textFull text of the publication as PDF document
  27. YB-1 recruitment to stress granules in zebrafish cells reveals a differential adaptive response to stress.
    Guarino, A. M.; Mauro, G. D.; Ruggiero, G.; Geyer, N.; Delicato, A.; Foulkes, N. S.; Vallone, D.; Calabrò, V.
    2019. Scientific reports, 9 (1), Article no: 9059. doi:10.1038/s41598-019-45468-6Full textFull text of the publication as PDF document
  28. Motor Endplate—Anatomical, Functional, and Molecular Concepts in the Historical Perspective.
    Rudolf, R.; Khan, M. M.; Witzemann, V.
    2019. Cells, 8 (5), 387. doi:10.3390/cells8050387Full textFull text of the publication as PDF document
  29. The protein corona suppresses the cytotoxic and pro-inflammatory response in lung epithelial cells and macrophages upon exposure to nanosilica.
    Leibe, R.; Hsiao, I.-L.; Fritsch-Decker, S.; Kielmeier, U.; Wagbo, A. M.; Voss, B.; Schmidt, A.; Hessman, S. D.; Duschl, A.; Oostingh, G. J.; Diabaté, S.; Weiss, C.
    2019. Archives of toxicology, 93 (4), 871–885. doi:10.1007/s00204-019-02422-9
  30. Regulation of the pleiotropic effects of tissue-resident mast cells.
    Huber, M.; Cato, A. C. B.; Ainooson, G. K.; Freichel, M.; Tsvilovskyy, V.; Jessberger, R.; Riedlinger, E.; Sommerhoff, C. P.; Bischoff, S. C.
    2019. The journal of allergy and clinical immunology, 144 (4, SI), S31-S45. doi:10.1016/j.jaci.2019.02.004Full textFull text of the publication as PDF document
  31. SiRA: A Silicon Rhodamine-Binding Aptamer for Live-Cell Super-Resolution RNA Imaging.
    Wirth, R.; Gao, P.; Nienhaus, G. U.; Sunbul, M.; Jäschke, A.
    2019. Journal of the American Chemical Society, 141 (18), 7562–7571. doi:10.1021/jacs.9b02697
  32. Formation of a Monolayer Protein Corona around Polystyrene Nanoparticles and Implications for Nanoparticle Agglomeration.
    Wang, H.; Ma, R.; Nienhaus, K.; Nienhaus, G. U.
    2019. Small, 15 (22), Art. Nr.: 1900974. doi:10.1002/smll.201900974
  33. Highly Efficient One-Dimensional Triplet Exciton Transport in a Palladium-Porphyrin-Based Surface-Anchored Metal-Organic Framework.
    Adams, M.; Kozlowska, M.; Baroni, N.; Oldenburg, M.; Ma, R.; Busko, D.; Turshatov, A.; Emandi, G.; Senge, M. O.; Haldar, R.; Wöll, C.; Nienhaus, G. U.; Richards, B. S.; Howard, I. A.
    2019. ACS applied materials & interfaces, 11 (17), 15688–15697. doi:10.1021/acsami.9b03079
  34. Nano-Sampling and Reporter Tools to Study Metabolic Regulation in Zebrafish.
    Dickmeis, T.; Feng, Y.; Mione, M. C.; Ninov, N.; Santoro, M.; Spaink, H. P.; Gut, P.
    2019. Frontiers in cell and developmental biology, 7, 15. doi:10.3389/fcell.2019.00015Full textFull text of the publication as PDF document
  35. Expression of adiponectin receptors in the brain of adult zebrafish and mouse: Links with neurogenic niches and brain repair.
    Rastegar, S.; Parimisetty, A.; Cassam Sulliman, N.; Narra, S. S.; Weber, S.; Rastegar, M.; Viranaicken, W.; Couret, D.; Planesse, C.; Strähle, U.; Meilhac, O.; Lefebvre d’Hellencourt, C.; Diotel, N.
    2019. The journal of comparative neurology, 527 (14), 2317–2333. doi:10.1002/cne.24669
  36. Amniotic Fluid Cells, Stem Cells, and p53: Can We Stereotype p53 Functions?.
    Rodrigues, M.; Blattner, C.; Stuppia, L.
    2019. International journal of molecular sciences, 20 (9), Article: 2236. doi:10.3390/ijms20092236Full textFull text of the publication as PDF document
  37. DIY Automated Feeding and Motion Recording System for the Analysis of Fish behaviour.
    Pylatiuk, C.; Zhao, H.; Gursky, E.; Reischl, M.; Peravali, R.; Foulkes, N.; Loosli, F.
    2019. SLAS technology, 24 (4), 394–398. doi:10.1177/2472630319841412
  38. BAG1L: a promising therapeutic target for androgen receptor-dependent prostate cancer.
    Lee, I. I.; Kuznik, N. C.; Rottenberg, J. T.; Brown, M.; Cato, A. C. B.
    2019. Journal of molecular endocrinology, 62 (4), R289–R299. doi:10.1530/JME-19-0034
  39. Straightforward access to biocompatible poly(2-oxazoline)-coated nanomaterials by polymerization-induced self-assembly.
    Le, D.; Wagner, F.; Takamiya, M.; Hsiao, I.-L.; Gil Alvaradejo, G.; Strähle, U.; Weiss, C.; Delaittre, G.
    2019. Chemical communications, 55 (26), 3741–3744. doi:10.1039/c9cc00407fFull textFull text of the publication as PDF document
  40. Automated Classification of Fertilized Zebrafish Embryos.
    Neukum, A.; Bartschat, A.; Breitwieser, H.; Strähle, U.; Dickmeis, T.; Pylatiuk, C.
    2019. Zebrafish, 16 (3), 326–328. doi:10.1089/zeb.2019.1728
  41. Molecules in metastasis.
    Sleeman, J. P.
    2019. Clinical & experimental metastasis, 36 (2), 69. doi:10.1007/s10585-019-09962-5
  42. The HMG box transcription factors Sox1a and Sox1b specify a new class of glycinergic interneuron in the spinal cord of zebrafish embryos.
    Gerber, V.; Yang, L.; Takamiya, M.; Ribes, V.; Gourain, V.; Peravali, R.; Stegmaier, J.; Mikut, R.; Reischl, M.; Ferg, M.; Rastegar, S.; Strähle, U.
    2019. Development <Cambridge>, 146 (4), dev172510. doi:10.1242/dev.172510
  43. A Novel Optical Tissue Clearing Protocol for Mouse Skeletal Muscle to Visualize Endplates in Their Tissue Context.
    Williams, M. P. I.; Rigon, M.; Straka, T.; Hörner, S. J.; Thiel, M.; Gretz, N.; Hafner, M.; Reischl, M.; Rudolf, R.
    2019. Frontiers in cellular neuroscience, 13, Article No.49. doi:10.3389/fncel.2019.00049Full textFull text of the publication as PDF document
  44. ARv7 Represses Tumor-Suppressor Genes in Castration-Resistant Prostate Cancer.
    Cato, L.; de Tribolet-Hardy, J.; Lee, I.; Rottenberg, J. T.; Coleman, I.; Melchers, D.; Houtman, R.; Xiao, T.; Li, W.; Uo, T.; Sun, S.; Kuznik, N. C.; Göppert, B.; Ozgun, F.; van Royen, M. E.; Houtsmuller, A. B.; Vadhi, R.; Rao, P. K.; Li, L.; Balk, S. P.; Den, R. B.; Trock, B. J.; Karnes, R. J.; Jenkins, R. B.; Klein, E. A.; Davicioni, E.; Gruhl, F. J.; Long, H. W.; Liu, X. S.; Cato, A. C. B.; Lack, N. A.; Nelson, P. S.; Plymate, S. R.; Groner, A. C.; Brown, M.
    2019. Cancer cell, 35 (3), 401–413.e6. doi:10.1016/j.ccell.2019.01.008
  45. Abrogation of Stem Loop Binding Protein (Slbp) function leads to a failure of cells to transition from proliferation to differentiation, retinal coloboma and midline axon guidance deficits.
    Turner, K. J.; Hoyle, J.; Valdivia, L. E.; Cerveny, K. L.; Hart, W.; Mangoli, M.; Geisler, R.; Rees, M.; Houart, C.; Poole, R. J.; Wilson, S. W.; Gestri, G.
    2019. (C. Moens, Ed.)PLOS ONE, 14 (1), Article: e0211073. doi:10.1371/journal.pone.0211073Full textFull text of the publication as PDF document
  46. Biocompatibility of Amine‐Functionalized Silica Nanoparticles: The Role of Surface Coverage.
    Hsiao, I.; Fritsch‐Decker, S.; Leidner, A.; Al‐Rawi, M.; Hug, V.; Diabaté, S.; Grage, S. L.; Meffert, M.; Stoeger, T.; Gerthsen, D.; Ulrich, A. S.; Niemeyer, C. M.; Weiss, C.
    2019. Small, 15 (10), 1805400. doi:10.1002/smll.201805400
  47. Ultra-Fast Synthesis of Multivalent Radical Nanoparticles by Ring-Opening Metathesis Polymerization-Induced Self-Assembly.
    Le, D.; Dilger, M.; Pertici, V.; Diabaté, S.; Gigmes, D.; Weiss, C.; Delaittre, G.
    2019. Angewandte Chemie / International edition, 58 (14), 4725–4731. doi:10.1002/anie.201813434
  48. SIL1 deficiency causes degenerative changes of peripheral nerves and neuromuscular junctions in fish, mice and human.
    Phan, V.; Cox, D.; Cipriani, S.; Spendiff, S.; Buchkremer, S.; O’Connor, E.; Horvath, R.; Goebel, H. H.; Hathazi, D.; Lochmüller, H.; Straka, T.; Rudolf, R.; Weis, J.; Roos, A.
    2019. Neurobiology of disease, 124, 218–229. doi:10.1016/j.nbd.2018.11.019
  49. The transient production of anti-TNF-α antibody Adalimumab and a comparison of its characterization to the biosimilar Cinorra.
    Tabasinezhad, M.; Mahboudi, F.; Wenzel, W.; Rahimi, H.; Walther, T. H.; Blattner, C.; Omidinia, E.
    2019. Protein expression and purification, 155, 59–65. doi:10.1016/j.pep.2018.11.006
  50. Oriented immobilization of a delicate glucose-sensing protein on silica nanoparticles.
    Leidner, A.; Bauer, J.; Ebrahimi Khonachah, M.; Takamiya, M.; Strähle, U.; Dickmeis, T.; Rabe, K. S.; Niemeyer, C. M.
    2019. Biomaterials, 190-191, 76–85. doi:10.1016/j.biomaterials.2018.10.035