[{"title":"Finite lifetime of turbulence in shear flows","author":[{"last_name":"Hof","full_name":"Björn Hof","orcid":"0000-0003-2057-2754","first_name":"Björn","id":"3A374330-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Westerweel","full_name":"Westerweel, Jerry","first_name":"Jerry"},{"first_name":"Tobias","last_name":"Schneider","full_name":"Schneider, Tobias M"},{"first_name":"Bruno","full_name":"Eckhardt, Bruno","last_name":"Eckhardt"}],"publist_id":"4098","extern":1,"citation":{"chicago":"Hof, Björn, Jerry Westerweel, Tobias Schneider, and Bruno Eckhardt. “Finite Lifetime of Turbulence in Shear Flows.” Nature. Nature Publishing Group, 2006. https://doi.org/10.1038/nature05089.","ista":"Hof B, Westerweel J, Schneider T, Eckhardt B. 2006. Finite lifetime of turbulence in shear flows. Nature. 443(7107), 59–62.","mla":"Hof, Björn, et al. “Finite Lifetime of Turbulence in Shear Flows.” Nature, vol. 443, no. 7107, Nature Publishing Group, 2006, pp. 59–62, doi:10.1038/nature05089.","ama":"Hof B, Westerweel J, Schneider T, Eckhardt B. Finite lifetime of turbulence in shear flows. Nature. 2006;443(7107):59-62. doi:10.1038/nature05089","apa":"Hof, B., Westerweel, J., Schneider, T., & Eckhardt, B. (2006). Finite lifetime of turbulence in shear flows. Nature. Nature Publishing Group. https://doi.org/10.1038/nature05089","ieee":"B. Hof, J. Westerweel, T. Schneider, and B. Eckhardt, “Finite lifetime of turbulence in shear flows,” Nature, vol. 443, no. 7107. Nature Publishing Group, pp. 59–62, 2006.","short":"B. Hof, J. Westerweel, T. Schneider, B. Eckhardt, Nature 443 (2006) 59–62."},"date_updated":"2021-01-12T06:59:44Z","status":"public","type":"journal_article","_id":"2791","date_created":"2018-12-11T11:59:37Z","date_published":"2006-09-07T00:00:00Z","doi":"10.1038/nature05089","volume":443,"issue":"7107","page":"59 - 62","publication":"Nature","day":"07","publication_status":"published","year":"2006","intvolume":" 443","month":"09","quality_controlled":0,"publisher":"Nature Publishing Group","abstract":[{"text":"Generally, the motion of fluids is smooth and laminar at low speeds but becomes highly disordered and turbulent as the velocity increases. The transition from laminar to turbulent flow can involve a sequence of instabilities in which the system realizes progressively more complicated states, or it can occur suddenly. Once the transition has taken place, it is generally assumed that, under steady conditions, the turbulent state will persist indefinitely. The flow of a fluid down a straight pipe provides a ubiquitous example of a shear flow undergoing a sudden transition from laminar to turbulent motion. Extensive calculations and experimental studies have shown that, at relatively low flow rates, turbulence in pipes is transient, and is characterized by an exponential distribution of lifetimes. They also suggest that for Reynolds numbers exceeding a critical value the lifetime diverges (that is, becomes infinitely large), marking a change from transient to persistent turbulence. Here we present experimental data and numerical calculations covering more than two decades of lifetimes, showing that the lifetime does not in fact diverge but rather increases exponentially with the Reynolds number. This implies that turbulence in pipes is only a transient event (contrary to the commonly accepted view), and that the turbulent and laminar states remain dynamically connected, suggesting avenues for turbulence control.","lang":"eng"}]},{"publication_status":"published","year":"2006","publication":"Fluid Mechanics and its Applications","day":"18","page":"109 - 114","date_created":"2018-12-11T11:59:37Z","volume":78,"doi":"10.1007/1-4020-4159-4_11","date_published":"2006-01-18T00:00:00Z","abstract":[{"text":"Transition to turbulence in pipe flow has posed a riddle in fluid dynamics since the pioneering experiments of Reynolds[1]. Although the laminar flow is linearly stable for all flow rates, practical pipe flows become turbulent at large enough flow speeds. Turbulence arises suddenly and fully without distinct steps and without a clear critical point. The complexity of this problem has puzzled mathematicians, physicists and engineers for more than a century and no satisfactory explanation of this problem has been given. In a very recent theoretical approach it has been suggested that unstable solutions of the Navier Stokes equations may hold the key to understanding this problem. In numerical studies such unstable states have been identified as exact solutions for the idealized case of a pipe with periodic boundary conditions[2, 3]. These solutions have the form of waves extending through the entire pipe and travelling in the streamwise direction at a phase speed close to the bulk velocity of the fluid. With the aid of a recently developed high-speed stereoscopic Particle Image Velocimetry (PIV) system, we were able to observe transients of such unstable solutions in turbulent pipe flow[4].","lang":"eng"}],"quality_controlled":0,"publisher":"Springer","intvolume":" 78","month":"01","citation":{"chicago":"Hof, Björn, Casimir Van Doorne, Jerry Westerweel, and Frans Nieuwstadt. “Observation of Nonlinear Travelling Waves in Turbulent Pipe Flow.” Fluid Mechanics and Its Applications. Springer, 2006. https://doi.org/10.1007/1-4020-4159-4_11.","ista":"Hof B, Van Doorne C, Westerweel J, Nieuwstadt F. 2006. Observation of nonlinear travelling waves in turbulent pipe flow. Fluid Mechanics and its Applications. 78, 109–114.","mla":"Hof, Björn, et al. “Observation of Nonlinear Travelling Waves in Turbulent Pipe Flow.” Fluid Mechanics and Its Applications, vol. 78, Springer, 2006, pp. 109–14, doi:10.1007/1-4020-4159-4_11.","short":"B. Hof, C. Van Doorne, J. Westerweel, F. Nieuwstadt, Fluid Mechanics and Its Applications 78 (2006) 109–114.","ieee":"B. Hof, C. Van Doorne, J. Westerweel, and F. Nieuwstadt, “Observation of nonlinear travelling waves in turbulent pipe flow,” Fluid Mechanics and its Applications, vol. 78. Springer, pp. 109–114, 2006.","apa":"Hof, B., Van Doorne, C., Westerweel, J., & Nieuwstadt, F. (2006). Observation of nonlinear travelling waves in turbulent pipe flow. Fluid Mechanics and Its Applications. Springer. https://doi.org/10.1007/1-4020-4159-4_11","ama":"Hof B, Van Doorne C, Westerweel J, Nieuwstadt F. Observation of nonlinear travelling waves in turbulent pipe flow. Fluid Mechanics and its Applications. 2006;78:109-114. doi:10.1007/1-4020-4159-4_11"},"date_updated":"2021-01-12T06:59:45Z","extern":1,"publist_id":"4097","author":[{"id":"3A374330-F248-11E8-B48F-1D18A9856A87","first_name":"Björn","last_name":"Hof","full_name":"Björn Hof","orcid":"0000-0003-2057-2754"},{"last_name":"Van Doorne","full_name":"van Doorne, Casimir W","first_name":"Casimir"},{"first_name":"Jerry","full_name":"Westerweel, Jerry","last_name":"Westerweel"},{"first_name":"Frans","full_name":"Nieuwstadt, Frans T","last_name":"Nieuwstadt"}],"title":"Observation of nonlinear travelling waves in turbulent pipe flow","_id":"2792","type":"journal_article","status":"public"},{"abstract":[{"lang":"eng","text":"IL-10 is a potent anti-inflammatory and immunomodulatory cytokine, exerting major effects in the degree and quality of the immune response. Using a newly generated IL-10 reporter mouse model, which easily allows the study of IL-10 expression from each allele in a single cell, we report here for the first time that IL-10 is predominantly monoallelic expressed in CD4+ T cells. Furthermore, we have compelling evidence that this expression pattern is not due to parental imprinting, allelic exclusion, or strong allelic bias. Instead, our results support a stochastic regulation mechanism, in which the probability to initiate allelic transcription depends on the strength of TCR signaling and subsequent capacity to overcome restrictions imposed by chromatin hypoacetylation. In vivo Ag-experienced T cells show a higher basal probability to transcribe IL-10 when compared with naive cells, yet still show mostly monoallelic IL-10 expression. Finally, statistical analysis on allelic expression data shows transcriptional independence between both alleles. We conclude that CD4+ T cells have a low probability for IL-10 allelic activation resulting in a predominantly monoallelic expression pattern, and that IL-10 expression appears to be stochastically regulated by controlling the frequency of expressing cells, rather than absolute protein levels per cell."}],"publisher":"American Association of Immunologists","quality_controlled":0,"month":"01","intvolume":" 177","year":"2006","publication_status":"published","day":"01","publication":"Journal of Immunology","page":"5358 - 5364","doi":"10.4049/jimmunol.177.8.5358 ","issue":"8","date_published":"2006-01-01T00:00:00Z","volume":177,"date_created":"2018-12-11T12:00:11Z","_id":"2894","type":"journal_article","status":"public","citation":{"mla":"Calado, Dinis, et al. “Stochastic Monoallelic Expression of IL 10 in T Cells.” Journal of Immunology, vol. 177, no. 8, American Association of Immunologists, 2006, pp. 5358–64, doi:10.4049/jimmunol.177.8.5358 .","ama":"Calado D, Paixao T, Holmberg D, Haury M. Stochastic Monoallelic Expression of IL 10 in T Cells. Journal of Immunology. 2006;177(8):5358-5364. doi:10.4049/jimmunol.177.8.5358 ","apa":"Calado, D., Paixao, T., Holmberg, D., & Haury, M. (2006). Stochastic Monoallelic Expression of IL 10 in T Cells. Journal of Immunology. American Association of Immunologists. https://doi.org/10.4049/jimmunol.177.8.5358 ","short":"D. Calado, T. Paixao, D. Holmberg, M. Haury, Journal of Immunology 177 (2006) 5358–5364.","ieee":"D. Calado, T. Paixao, D. Holmberg, and M. Haury, “Stochastic Monoallelic Expression of IL 10 in T Cells,” Journal of Immunology, vol. 177, no. 8. American Association of Immunologists, pp. 5358–5364, 2006.","chicago":"Calado, Dinis, Tiago Paixao, Dan Holmberg, and Matthias Haury. “Stochastic Monoallelic Expression of IL 10 in T Cells.” Journal of Immunology. American Association of Immunologists, 2006. https://doi.org/10.4049/jimmunol.177.8.5358 .","ista":"Calado D, Paixao T, Holmberg D, Haury M. 2006. Stochastic Monoallelic Expression of IL 10 in T Cells. Journal of Immunology. 177(8), 5358–5364."},"date_updated":"2021-01-12T07:00:32Z","extern":1,"author":[{"first_name":"Dinis","last_name":"Calado","full_name":"Calado, Dinis P"},{"first_name":"Tiago","id":"2C5658E6-F248-11E8-B48F-1D18A9856A87","full_name":"Tiago Paixao","orcid":"0000-0003-2361-3953","last_name":"Paixao"},{"first_name":"Dan","last_name":"Holmberg","full_name":"Holmberg, Dan"},{"full_name":"Haury, Matthias","last_name":"Haury","first_name":"Matthias"}],"publist_id":"3864","title":"Stochastic Monoallelic Expression of IL 10 in T Cells"},{"extern":1,"citation":{"chicago":"Kolmogorov, Vladimir, and Ramin Zabih. “Graph Cut Algorithms for Binocular Stereo with Occlusions.” In Handbook of Mathematical Models in Computer Vision, 423–27. Springer, 2006. https://doi.org/10.1007/0-387-28831-7_26.","ista":"Kolmogorov V, Zabih R. 2006.Graph cut algorithms for binocular stereo with occlusions. In: Handbook of Mathematical Models in Computer Vision. , 423–427.","mla":"Kolmogorov, Vladimir, and Ramin Zabih. “Graph Cut Algorithms for Binocular Stereo with Occlusions.” Handbook of Mathematical Models in Computer Vision, Springer, 2006, pp. 423–27, doi:10.1007/0-387-28831-7_26.","apa":"Kolmogorov, V., & Zabih, R. (2006). Graph cut algorithms for binocular stereo with occlusions. In Handbook of Mathematical Models in Computer Vision (pp. 423–427). Springer. https://doi.org/10.1007/0-387-28831-7_26","ama":"Kolmogorov V, Zabih R. Graph cut algorithms for binocular stereo with occlusions. In: Handbook of Mathematical Models in Computer Vision. Springer; 2006:423-427. doi:10.1007/0-387-28831-7_26","short":"V. Kolmogorov, R. Zabih, in:, Handbook of Mathematical Models in Computer Vision, Springer, 2006, pp. 423–427.","ieee":"V. Kolmogorov and R. Zabih, “Graph cut algorithms for binocular stereo with occlusions,” in Handbook of Mathematical Models in Computer Vision, Springer, 2006, pp. 423–427."},"date_updated":"2021-01-12T07:00:42Z","title":"Graph cut algorithms for binocular stereo with occlusions","author":[{"full_name":"Vladimir Kolmogorov","last_name":"Kolmogorov","id":"3D50B0BA-F248-11E8-B48F-1D18A9856A87","first_name":"Vladimir"},{"first_name":"Ramin","full_name":"Zabih, Ramin","last_name":"Zabih"}],"publist_id":"3816","_id":"2921","status":"public","type":"book_chapter","publication":"Handbook of Mathematical Models in Computer Vision","day":"01","year":"2006","publication_status":"published","date_created":"2018-12-11T12:00:21Z","doi":"10.1007/0-387-28831-7_26","date_published":"2006-01-01T00:00:00Z","page":"423 - 427","abstract":[{"lang":"eng","text":"Most binocular stereo algorithms assume that all scene elements are visible from both cameras. Scene elements that are visible from only one camera, known as occlusions, pose an important challenge for stereo. Occlusions are important for segmentation, because they appear near discontinuities. However, stereo algorithms tend to ignore occlusions because of their difficulty. One reason is that occlusions require the input images to be treated symmetrically, which complicates the problem formulation. Worse, certain depth maps imply physically impossible scene configurations, and must be excluded from the output. In this chapter we approach the problem of binocular stereo with occlusions from an energy minimization viewpoint. We begin by reviewing traditional stereo methods that do not handle occlusions. If occlusions are ignored, it is easy to formulate the stereo problem as a pixel labeling problem, which leads to an energy function that is common in early vision. This kind of energy function can he minimized using graph cuts, which is a combinatorial optimization technique that has proven to be very effective for low-level vision problems. Motivated by this, we have designed two graph cut stereo algorithms that are designed to handle occlusions. These algorithms produce promising experimental results on real data with ground truth."}],"month":"01","publisher":"Springer","quality_controlled":0},{"abstract":[{"lang":"eng","text":"Arabidopsis thaliana is currently the most important model organism for basic molecular plant research. It is also a favourable model for developmental biology, as its embryogenesis follows a nearly invariant pattern of cell divisions and cell type specifications. Study of embryogenesis can involve genetic, physiological or biochemical approaches, but is always limited by the inaccessibility of the embryos which develop deep inside maternal tissue. Thus, for developmental studies, there is an increasing demand for methods which allow embryogenesis under artificial conditions, providing better accessibility to experimental manipulation. In this chapter, we address theoretical aspects of embryo culture, give some thoughts on which embryo culture system is suited best for which application and finally discuss three current methods which have been successfully used in Arabidopsis embryo culture. © 2006 Springer-Verlag Berlin Heidelberg."}],"intvolume":" 2","month":"01","quality_controlled":0,"publisher":"Springer","alternative_title":["Plant Cell Monographs"],"publication":"Somatic Embryogenesis","day":"01","year":"2006","publication_status":"published","date_created":"2018-12-11T12:00:48Z","date_published":"2006-01-01T00:00:00Z","doi":"10.1007/7089_020","volume":2,"page":"343 - 354","_id":"3002","status":"public","type":"book_chapter","extern":1,"date_updated":"2021-01-12T07:40:23Z","citation":{"apa":"Sauer, M., & Friml, J. (2006). In vitro culture of Arabidopsis embryos. In A. Mujib & J. Šamaj (Eds.), Somatic Embryogenesis (Vol. 2, pp. 343–354). Springer. https://doi.org/10.1007/7089_020","ama":"Sauer M, Friml J. In vitro culture of Arabidopsis embryos. In: Mujib A, Šamaj J, eds. Somatic Embryogenesis. Vol 2. Springer; 2006:343-354. doi:10.1007/7089_020","short":"M. Sauer, J. Friml, in:, A. Mujib, J. Šamaj (Eds.), Somatic Embryogenesis, Springer, 2006, pp. 343–354.","ieee":"M. Sauer and J. Friml, “In vitro culture of Arabidopsis embryos,” in Somatic Embryogenesis, vol. 2, A. Mujib and J. Šamaj, Eds. Springer, 2006, pp. 343–354.","mla":"Sauer, Michael, and Jiří Friml. “In Vitro Culture of Arabidopsis Embryos.” Somatic Embryogenesis, edited by Abdul Mujib and Jozef Šamaj, vol. 2, Springer, 2006, pp. 343–54, doi:10.1007/7089_020.","ista":"Sauer M, Friml J. 2006.In vitro culture of Arabidopsis embryos. In: Somatic Embryogenesis. Plant Cell Monographs, vol. 2, 343–354.","chicago":"Sauer, Michael, and Jiří Friml. “In Vitro Culture of Arabidopsis Embryos.” In Somatic Embryogenesis, edited by Abdul Mujib and Jozef Šamaj, 2:343–54. Springer, 2006. https://doi.org/10.1007/7089_020."},"title":"In vitro culture of Arabidopsis embryos","editor":[{"last_name":"Mujib","full_name":"Mujib, Abdul","first_name":"Abdul"},{"full_name":"Šamaj, Jozef","last_name":"Šamaj","first_name":"Jozef"}],"author":[{"first_name":"Michael","full_name":"Sauer, Michael","last_name":"Sauer"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jirí","orcid":"0000-0002-8302-7596","full_name":"Jirí Friml","last_name":"Friml"}],"publist_id":"3699"},{"date_updated":"2021-01-12T07:40:27Z","citation":{"chicago":"Petrášek, Jan, Jozef Mravec, Rodolphe Bouchard, Joshua Blakeslee, Melinda F Abas, Daniela Seifertová, Justyna Wiśniewska, et al. “PIN Proteins Perform a Rate-Limiting Function in Cellular Auxin Efflux.” Science. American Association for the Advancement of Science, 2006. https://doi.org/10.1126/science.1123542.","ista":"Petrášek J, Mravec J, Bouchard R, Blakeslee J, Abas MF, Seifertová D, Wiśniewska J, Tadele Z, Kubeš M, Čovanová M, Dhonukshe P, Skůpa P, Benková E, Perry L, Křeček P, Lee O, Fink G, Geisler M, Murphy A, Luschnig C, Zažímalová E, Friml J. 2006. PIN proteins perform a rate-limiting function in cellular auxin efflux. Science. 312(5775), 914–918.","mla":"Petrášek, Jan, et al. “PIN Proteins Perform a Rate-Limiting Function in Cellular Auxin Efflux.” Science, vol. 312, no. 5775, American Association for the Advancement of Science, 2006, pp. 914–18, doi:10.1126/science.1123542.","ieee":"J. Petrášek et al., “PIN proteins perform a rate-limiting function in cellular auxin efflux,” Science, vol. 312, no. 5775. American Association for the Advancement of Science, pp. 914–918, 2006.","short":"J. Petrášek, J. Mravec, R. Bouchard, J. Blakeslee, M.F. Abas, D. Seifertová, J. Wiśniewska, Z. Tadele, M. Kubeš, M. Čovanová, P. Dhonukshe, P. Skůpa, E. Benková, L. Perry, P. Křeček, O. Lee, G. Fink, M. Geisler, A. Murphy, C. Luschnig, E. Zažímalová, J. Friml, Science 312 (2006) 914–918.","apa":"Petrášek, J., Mravec, J., Bouchard, R., Blakeslee, J., Abas, M. F., Seifertová, D., … Friml, J. (2006). PIN proteins perform a rate-limiting function in cellular auxin efflux. Science. American Association for the Advancement of Science. https://doi.org/10.1126/science.1123542","ama":"Petrášek J, Mravec J, Bouchard R, et al. PIN proteins perform a rate-limiting function in cellular auxin efflux. Science. 2006;312(5775):914-918. doi:10.1126/science.1123542"},"extern":1,"publist_id":"3690","author":[{"first_name":"Jan","last_name":"Petrášek","full_name":"Petrášek, Jan"},{"first_name":"Jozef","last_name":"Mravec","full_name":"Mravec, Jozef"},{"last_name":"Bouchard","full_name":"Bouchard, Rodolphe","first_name":"Rodolphe"},{"first_name":"Joshua","last_name":"Blakeslee","full_name":"Blakeslee, Joshua"},{"last_name":"Abas","full_name":"Melinda Abas","id":"3CFB3B1C-F248-11E8-B48F-1D18A9856A87","first_name":"Melinda F"},{"first_name":"Daniela","last_name":"Seifertová","full_name":"Seifertová, Daniela"},{"first_name":"Justyna","last_name":"Wiśniewska","full_name":"Wiśniewska, Justyna"},{"first_name":"Zerihun","last_name":"Tadele","full_name":"Tadele, Zerihun"},{"full_name":"Kubeš, Martin","last_name":"Kubeš","first_name":"Martin"},{"full_name":"Čovanová, Milada","last_name":"Čovanová","first_name":"Milada"},{"last_name":"Dhonukshe","full_name":"Dhonukshe, Pankaj","first_name":"Pankaj"},{"last_name":"Skůpa","full_name":"Skůpa, Petr","first_name":"Petr"},{"first_name":"Eva","id":"38F4F166-F248-11E8-B48F-1D18A9856A87","last_name":"Benková","full_name":"Eva Benková","orcid":"0000-0002-8510-9739"},{"full_name":"Perry, Lucie","last_name":"Perry","first_name":"Lucie"},{"full_name":"Křeček, Pavel","last_name":"Křeček","first_name":"Pavel"},{"first_name":"Ok","last_name":"Lee","full_name":"Lee, Ok Ran"},{"full_name":"Fink, Gerald R","last_name":"Fink","first_name":"Gerald"},{"first_name":"Markus","last_name":"Geisler","full_name":"Geisler, Markus"},{"full_name":"Murphy, Angus S","last_name":"Murphy","first_name":"Angus"},{"last_name":"Luschnig","full_name":"Luschnig, Christian","first_name":"Christian"},{"full_name":"Zažímalová, Eva","last_name":"Zažímalová","first_name":"Eva"},{"first_name":"Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","full_name":"Jirí Friml","orcid":"0000-0002-8302-7596"}],"title":"PIN proteins perform a rate-limiting function in cellular auxin efflux","_id":"3012","type":"journal_article","status":"public","publication_status":"published","year":"2006","day":"12","publication":"Science","page":"914 - 918","volume":312,"doi":"10.1126/science.1123542","date_published":"2006-05-12T00:00:00Z","issue":"5775","date_created":"2018-12-11T12:00:51Z","abstract":[{"text":"Intercellular flow of the phytohormone auxin underpins multiple developmental processes in plants. Plant-specific pin-formed (PIN) proteins and several phosphoglycoprotein (PGP) transporters are crucial factors in auxin transport-related development, yet the molecular function of PINs remains unknown. Here, we show that PINs mediate auxin efflux from mammalian and yeast cells without needing additional plant-specific factors. Conditional gain-of-function alleles and quantitative measurements of auxin accumulation in Arabidopsis and tobacco cultured cells revealed that the action of PINs in auxin efflux is distinct from PGP, rate-limiting, specific to auxins, and sensitive to auxin transport inhibitors. This suggests a direct involvement of PINs in catalyzing cellular auxin efflux.","lang":"eng"}],"publisher":"American Association for the Advancement of Science","quality_controlled":0,"month":"05","intvolume":" 312"},{"status":"public","type":"journal_article","_id":"3010","title":"Control of leaf vascular patterning by polar auxin transport","author":[{"first_name":"Enrico","last_name":"Scarpella","full_name":"Scarpella, Enrico"},{"last_name":"Marcos","full_name":"Marcos, Danielle","first_name":"Danielle"},{"first_name":"Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","full_name":"Jirí Friml","last_name":"Friml"},{"last_name":"Berleth","full_name":"Berleth, Thomas","first_name":"Thomas"}],"publist_id":"3692","extern":1,"date_updated":"2021-01-12T07:40:26Z","citation":{"chicago":"Scarpella, Enrico, Danielle Marcos, Jiří Friml, and Thomas Berleth. “Control of Leaf Vascular Patterning by Polar Auxin Transport.” Genes and Development. Cold Spring Harbor Laboratory Press, 2006. https://doi.org/10.1101/gad.1402406.","ista":"Scarpella E, Marcos D, Friml J, Berleth T. 2006. Control of leaf vascular patterning by polar auxin transport. Genes and Development. 20(8), 1015–1027.","mla":"Scarpella, Enrico, et al. “Control of Leaf Vascular Patterning by Polar Auxin Transport.” Genes and Development, vol. 20, no. 8, Cold Spring Harbor Laboratory Press, 2006, pp. 1015–27, doi:10.1101/gad.1402406.","short":"E. Scarpella, D. Marcos, J. Friml, T. Berleth, Genes and Development 20 (2006) 1015–1027.","ieee":"E. Scarpella, D. Marcos, J. Friml, and T. Berleth, “Control of leaf vascular patterning by polar auxin transport,” Genes and Development, vol. 20, no. 8. Cold Spring Harbor Laboratory Press, pp. 1015–1027, 2006.","apa":"Scarpella, E., Marcos, D., Friml, J., & Berleth, T. (2006). Control of leaf vascular patterning by polar auxin transport. Genes and Development. Cold Spring Harbor Laboratory Press. https://doi.org/10.1101/gad.1402406","ama":"Scarpella E, Marcos D, Friml J, Berleth T. Control of leaf vascular patterning by polar auxin transport. Genes and Development. 2006;20(8):1015-1027. doi:10.1101/gad.1402406"},"month":"04","intvolume":" 20","publisher":"Cold Spring Harbor Laboratory Press","quality_controlled":0,"abstract":[{"lang":"eng","text":"The formation of the leaf vascular pattern has fascinated biologists for centuries. In the early leaf primordium, complex networks of procambial cells emerge from homogeneous subepidermal tissue. The molecular nature of the underlying positional information is unknown, but various lines of evidence implicate gradually restricted transport routes of the plant hormone auxin in defining sites of procambium formation. Here we show that a crucial member of the AtPIN family of auxin-efflux-associated proteins, AtPIN1, is expressed prior to pre-procambial and procambial cell fate markers in domains that become restricted toward sites of procambium formation. Subcellular AtPIN1 polarity indicates that auxin is directed to distinct "convergence points" in the epidermis, from where it defines the positions of major veins. Integrated polarities in all emerging veins indicate auxin drainage toward pre-existing veins, but veins display divergent polarities as they become connected at both ends. Auxin application and transport inhibition reveal that convergence point positioning and AtPIN1 expression domain dynamics are self-organizing, auxin-transport-dependent processes. We derive a model for self-regulated, reiterative patterning of all vein orders and postulate at its onset a common epidermal auxin-focusing mechanism for major-vein positioning and phyllotactic patterning."}],"date_published":"2006-04-15T00:00:00Z","issue":"8","volume":20,"doi":"10.1101/gad.1402406","date_created":"2018-12-11T12:00:51Z","page":"1015 - 1027","day":"15","publication":"Genes and Development","year":"2006","publication_status":"published"},{"status":"public","type":"journal_article","_id":"3007","title":"Intracellular trafficking and proteolysis of the Arabidopsis auxin-efflux facilitator PIN2 are involved in root gravitropism","publist_id":"3694","author":[{"first_name":"Lindy","full_name":"Abas, Lindy","last_name":"Abas"},{"full_name":"Benjamins, René","last_name":"Benjamins","first_name":"René"},{"first_name":"Nenad","full_name":"Malenica, Nenad","last_name":"Malenica"},{"first_name":"Tomasz","full_name":"Paciorek, Tomasz","last_name":"Paciorek"},{"first_name":"Justyna","last_name":"Wiśniewska","full_name":"Wiśniewska, Justyna"},{"first_name":"Jeanette","last_name":"Moulinier Anzola","full_name":"Moulinier-Anzola, Jeanette C"},{"first_name":"Tobias","last_name":"Sieberer","full_name":"Sieberer, Tobias"},{"full_name":"Jirí Friml","orcid":"0000-0002-8302-7596","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jirí"},{"first_name":"Christian","last_name":"Luschnig","full_name":"Luschnig, Christian"}],"extern":1,"citation":{"short":"L. Abas, R. Benjamins, N. Malenica, T. Paciorek, J. Wiśniewska, J. Moulinier Anzola, T. Sieberer, J. Friml, C. Luschnig, Nature Cell Biology 8 (2006) 249–256.","ieee":"L. Abas et al., “Intracellular trafficking and proteolysis of the Arabidopsis auxin-efflux facilitator PIN2 are involved in root gravitropism,” Nature Cell Biology, vol. 8, no. 3. Nature Publishing Group, pp. 249–256, 2006.","ama":"Abas L, Benjamins R, Malenica N, et al. Intracellular trafficking and proteolysis of the Arabidopsis auxin-efflux facilitator PIN2 are involved in root gravitropism. Nature Cell Biology. 2006;8(3):249-256. doi:10.1038/ncb1369","apa":"Abas, L., Benjamins, R., Malenica, N., Paciorek, T., Wiśniewska, J., Moulinier Anzola, J., … Luschnig, C. (2006). Intracellular trafficking and proteolysis of the Arabidopsis auxin-efflux facilitator PIN2 are involved in root gravitropism. Nature Cell Biology. Nature Publishing Group. https://doi.org/10.1038/ncb1369","mla":"Abas, Lindy, et al. “Intracellular Trafficking and Proteolysis of the Arabidopsis Auxin-Efflux Facilitator PIN2 Are Involved in Root Gravitropism.” Nature Cell Biology, vol. 8, no. 3, Nature Publishing Group, 2006, pp. 249–56, doi:10.1038/ncb1369.","ista":"Abas L, Benjamins R, Malenica N, Paciorek T, Wiśniewska J, Moulinier Anzola J, Sieberer T, Friml J, Luschnig C. 2006. Intracellular trafficking and proteolysis of the Arabidopsis auxin-efflux facilitator PIN2 are involved in root gravitropism. Nature Cell Biology. 8(3), 249–256.","chicago":"Abas, Lindy, René Benjamins, Nenad Malenica, Tomasz Paciorek, Justyna Wiśniewska, Jeanette Moulinier Anzola, Tobias Sieberer, Jiří Friml, and Christian Luschnig. “Intracellular Trafficking and Proteolysis of the Arabidopsis Auxin-Efflux Facilitator PIN2 Are Involved in Root Gravitropism.” Nature Cell Biology. Nature Publishing Group, 2006. https://doi.org/10.1038/ncb1369."},"date_updated":"2021-01-12T07:40:25Z","month":"03","intvolume":" 8","publisher":"Nature Publishing Group","quality_controlled":0,"abstract":[{"lang":"eng","text":"Root gravitropism describes the orientation of root growth along the gravity vector and is mediated by differential cell elongation in the root meristem. This response requires the coordinated, asymmetric distribution of the phytohormone auxin within the root meristem, and depends on the concerted activities of PIN proteins and AUX1 - members of the auxin transport pathway. Here, we show that intracellular trafficking and proteasome activity combine to control PIN2 degradation during root gravitropism. Following gravi-stimulation, proteasome-dependent variations in PIN2 localization and degradation at the upper and lower sides of the root result in asymmetric distribution of PIN2. Ubiquitination of PIN2 occurs in a proteasome-dependent manner, indicating that the proteasome is involved in the control of PIN2 turnover. Stabilization of PIN2 affects its abundance and distribution, and leads to defects in auxin distribution and gravitropic responses. We describe the effects of auxin on PIN2 localization and protein levels, indicating that redistribution of auxin during the gravitropic response may be involved in the regulation of PIN2 protein."}],"volume":8,"doi":"10.1038/ncb1369","issue":"3","date_published":"2006-03-01T00:00:00Z","date_created":"2018-12-11T12:00:50Z","page":"249 - 256","day":"01","publication":"Nature Cell Biology","publication_status":"published","year":"2006"},{"publication":"Developmental Cell","day":"01","year":"2006","publication_status":"published","date_created":"2018-12-11T12:00:49Z","doi":"10.1016/j.devcel.2005.11.015","volume":10,"date_published":"2006-01-01T00:00:00Z","issue":"1","page":"137 - 150","abstract":[{"text":"Dividing plant cells perform a remarkable task of building a new cell wall within the cytoplasm in a few minutes. A long-standing paradigm claims that this primordial cell wall, known as the cell plate, is generated by delivery of newly synthesized material from Golgi apparatus-originated secretory vesicles. Here, we show that, in diverse plant species, cell surface material, including plasma membrane proteins, cell wall components, and exogenously applied endocytic tracers, is rapidly delivered to the forming cell plate. Importantly, this occurs even when de novo protein synthesis is blocked. In addition, cytokinesis-specific syntaxin KNOLLE as well as plasma membrane (PM) resident proteins localize to endosomes that fuse to initiate the cell plate. The rate of endocytosis is strongly enhanced during cell plate formation, and its genetic or pharmacological inhibition leads to cytokinesis defects. Our results reveal that endocytic delivery of cell surface material significantly contributes to cell plate formation during plant cytokinesis. ","lang":"eng"}],"intvolume":" 10","month":"01","publisher":"Cell Press","quality_controlled":0,"extern":1,"citation":{"ama":"Dhonukshe P, Baluška F, Schlicht M, et al. Endocytosis of cell surface material mediates cell plate formation during plant cytokinesis. Developmental Cell. 2006;10(1):137-150. doi:10.1016/j.devcel.2005.11.015","apa":"Dhonukshe, P., Baluška, F., Schlicht, M., Hlavacka, A., Šamaj, J., Friml, J., & Gadella, T. (2006). Endocytosis of cell surface material mediates cell plate formation during plant cytokinesis. Developmental Cell. Cell Press. https://doi.org/10.1016/j.devcel.2005.11.015","ieee":"P. Dhonukshe et al., “Endocytosis of cell surface material mediates cell plate formation during plant cytokinesis,” Developmental Cell, vol. 10, no. 1. Cell Press, pp. 137–150, 2006.","short":"P. Dhonukshe, F. Baluška, M. Schlicht, A. Hlavacka, J. Šamaj, J. Friml, T. Gadella, Developmental Cell 10 (2006) 137–150.","mla":"Dhonukshe, Pankaj, et al. “Endocytosis of Cell Surface Material Mediates Cell Plate Formation during Plant Cytokinesis.” Developmental Cell, vol. 10, no. 1, Cell Press, 2006, pp. 137–50, doi:10.1016/j.devcel.2005.11.015.","ista":"Dhonukshe P, Baluška F, Schlicht M, Hlavacka A, Šamaj J, Friml J, Gadella T. 2006. Endocytosis of cell surface material mediates cell plate formation during plant cytokinesis. Developmental Cell. 10(1), 137–150.","chicago":"Dhonukshe, Pankaj, František Baluška, Markus Schlicht, Andrej Hlavacka, Jozef Šamaj, Jiří Friml, and Theodorus Gadella. “Endocytosis of Cell Surface Material Mediates Cell Plate Formation during Plant Cytokinesis.” Developmental Cell. Cell Press, 2006. https://doi.org/10.1016/j.devcel.2005.11.015."},"date_updated":"2021-01-12T07:40:24Z","title":"Endocytosis of cell surface material mediates cell plate formation during plant cytokinesis","author":[{"last_name":"Dhonukshe","full_name":"Dhonukshe, Pankaj","first_name":"Pankaj"},{"full_name":"Baluška, František","last_name":"Baluška","first_name":"František"},{"first_name":"Markus","last_name":"Schlicht","full_name":"Schlicht, Markus"},{"last_name":"Hlavacka","full_name":"Hlavacka, Andrej","first_name":"Andrej"},{"last_name":"Šamaj","full_name":"Šamaj, Jozef","first_name":"Jozef"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jirí","orcid":"0000-0002-8302-7596","full_name":"Jirí Friml","last_name":"Friml"},{"full_name":"Gadella, Theodorus W","last_name":"Gadella","first_name":"Theodorus"}],"publist_id":"3696","_id":"3006","status":"public","type":"journal_article"},{"abstract":[{"text":"Polar flow of the phytohormone auxin requires plasma membrane‐associated PIN proteins and underlies multiple developmental processes in plants. Here we address the importance of the polarity of subcellular PIN localization for the directionality of auxin transport in Arabidopsis thaliana. Expression of different PINs in the root epidermis revealed the importance of PIN polar positions for directional auxin flow and root gravitropic growth. Interfering with sequence-embedded polarity signals directly demonstrates that PIN polarity is a primary factor in determining the direction of auxin flow in meristematic tissues. This finding provides a crucial piece in the puzzle of how auxin flow can be redirected via rapid changes in PIN polarity.","lang":"eng"}],"quality_controlled":0,"publisher":"American Association for the Advancement of Science","intvolume":" 312","month":"05","year":"2006","publication_status":"published","publication":"Science","day":"12","date_created":"2018-12-11T12:00:51Z","volume":312,"doi":"10.1126/science.1121356","date_published":"2006-05-12T00:00:00Z","issue":"5775","_id":"3011","type":"journal_article","status":"public","date_updated":"2021-01-12T07:40:27Z","citation":{"mla":"Wiśniewska, Justyna, et al. “Polar PIN Localization Directs Auxin Flow in Plants.” Science, vol. 312, no. 5775, American Association for the Advancement of Science, 2006, doi:10.1126/science.1121356.","ama":"Wiśniewska J, Xu J, Seifertová D, et al. Polar PIN localization directs auxin flow in plants. Science. 2006;312(5775). doi:10.1126/science.1121356","apa":"Wiśniewska, J., Xu, J., Seifertová, D., Brewer, P., Růžička, K., Blilou, I., … Friml, J. (2006). Polar PIN localization directs auxin flow in plants. Science. American Association for the Advancement of Science. https://doi.org/10.1126/science.1121356","short":"J. Wiśniewska, J. Xu, D. Seifertová, P. Brewer, K. Růžička, I. Blilou, D. Rouquié, E. Benková, B. Scheres, J. Friml, Science 312 (2006).","ieee":"J. Wiśniewska et al., “Polar PIN localization directs auxin flow in plants,” Science, vol. 312, no. 5775. American Association for the Advancement of Science, 2006.","chicago":"Wiśniewska, Justyna, Jian Xu, Daniela Seifertová, Philip Brewer, Kamil Růžička, Ikram Blilou, David Rouquié, Eva Benková, Ben Scheres, and Jiří Friml. “Polar PIN Localization Directs Auxin Flow in Plants.” Science. American Association for the Advancement of Science, 2006. https://doi.org/10.1126/science.1121356.","ista":"Wiśniewska J, Xu J, Seifertová D, Brewer P, Růžička K, Blilou I, Rouquié D, Benková E, Scheres B, Friml J. 2006. Polar PIN localization directs auxin flow in plants. Science. 312(5775)."},"extern":1,"publist_id":"3691","author":[{"first_name":"Justyna","full_name":"Wiśniewska, Justyna","last_name":"Wiśniewska"},{"first_name":"Jian","last_name":"Xu","full_name":"Xu, Jian"},{"full_name":"Seifertová, Daniela","last_name":"Seifertová","first_name":"Daniela"},{"first_name":"Philip","last_name":"Brewer","full_name":"Brewer, Philip B"},{"last_name":"Růžička","full_name":"Růžička, Kamil","first_name":"Kamil"},{"full_name":"Blilou, Ikram","last_name":"Blilou","first_name":"Ikram"},{"last_name":"Rouquié","full_name":"Rouquié, David","first_name":"David"},{"last_name":"Benková","full_name":"Eva Benková","orcid":"0000-0002-8510-9739","first_name":"Eva","id":"38F4F166-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Ben","last_name":"Scheres","full_name":"Scheres, Ben"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jirí","full_name":"Jirí Friml","orcid":"0000-0002-8302-7596","last_name":"Friml"}],"title":"Polar PIN localization directs auxin flow in plants"}]