[{"citation":{"chicago":"Navarro, Arcadio, and Nicholas H Barton. “Chromosomal Speciation and Molecular Divergence -- Accelerated Evolution in Rearranged Chromosomes.” Science. American Association for the Advancement of Science, 2003. https://doi.org/10.1126/science.1080600 .","short":"A. Navarro, N.H. Barton, Science 300 (2003) 321–324.","mla":"Navarro, Arcadio, and Nicholas H. Barton. “Chromosomal Speciation and Molecular Divergence -- Accelerated Evolution in Rearranged Chromosomes.” Science, vol. 300, no. 5617, American Association for the Advancement of Science, 2003, pp. 321–24, doi:10.1126/science.1080600 .","apa":"Navarro, A., & Barton, N. H. (2003). Chromosomal speciation and molecular divergence -- Accelerated evolution in rearranged chromosomes. Science. American Association for the Advancement of Science. https://doi.org/10.1126/science.1080600 ","ieee":"A. Navarro and N. H. Barton, “Chromosomal speciation and molecular divergence -- Accelerated evolution in rearranged chromosomes,” Science, vol. 300, no. 5617. American Association for the Advancement of Science, pp. 321–324, 2003.","ista":"Navarro A, Barton NH. 2003. Chromosomal speciation and molecular divergence -- Accelerated evolution in rearranged chromosomes. Science. 300(5617), 321–324.","ama":"Navarro A, Barton NH. Chromosomal speciation and molecular divergence -- Accelerated evolution in rearranged chromosomes. Science. 2003;300(5617):321-324. doi:10.1126/science.1080600 "},"publication":"Science","page":"321 - 324","article_type":"original","date_published":"2003-04-11T00:00:00Z","scopus_import":"1","article_processing_charge":"No","day":"11","user_id":"ea97e931-d5af-11eb-85d4-e6957dddbf17","_id":"4255","intvolume":" 300","status":"public","title":"Chromosomal speciation and molecular divergence -- Accelerated evolution in rearranged chromosomes","oa_version":"None","type":"journal_article","issue":"5617","abstract":[{"text":"Humans and their closest evolutionary relatives, the chimpanzees, differ in ∼1.24% of their genomic DNA sequences. The fraction of these changes accumulated during the speciation processes that have separated the two lineages may be of special relevance in understanding the basis of their differences. We analyzed human and chimpanzee sequence data to search for the patterns of divergence and polymorphism predicted by a theoretical model of speciation. According to the model, positively selected changes should accumulate in chromosomes that present fixed structural differences, such as inversions, between the two species. Protein evolution was more than 2.2 times faster in chromosomes that had undergone structural rearrangements compared with colinear chromosomes. Also, nucleotide variability is slightly lower in rearranged chromosomes. These patterns of divergence and polymorphism may be, at least in part, the molecular footprint of speciation events in the human and chimpanzee lineages. ","lang":"eng"}],"external_id":{"pmid":[" 12690198"]},"quality_controlled":"1","doi":"10.1126/science.1080600 ","language":[{"iso":"eng"}],"publication_identifier":{"issn":["0036-8075"]},"month":"04","pmid":1,"year":"2003","publisher":"American Association for the Advancement of Science","publication_status":"published","author":[{"full_name":"Navarro, Arcadio","first_name":"Arcadio","last_name":"Navarro"},{"full_name":"Barton, Nicholas H","orcid":"0000-0002-8548-5240","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","last_name":"Barton","first_name":"Nicholas H"}],"volume":300,"date_created":"2018-12-11T12:07:53Z","date_updated":"2024-02-26T13:37:51Z","publist_id":"1841","extern":"1"},{"publication_identifier":{"issn":["1011-6370"]},"month":"11","doi":"10.1242/dev.00758","language":[{"iso":"eng"}],"main_file_link":[{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1414802/","open_access":"1"}],"oa":1,"external_id":{"pmid":[" PMC1414802"]},"quality_controlled":"1","publist_id":"1975","extern":"1","author":[{"last_name":"Ulrich","first_name":"Florian","full_name":"Ulrich, Florian"},{"first_name":"Miguel","last_name":"Concha","full_name":"Concha, Miguel"},{"last_name":"Heid","first_name":"Paul","full_name":"Heid, Paul"},{"full_name":"Voss, Ed","last_name":"Voss","first_name":"Ed"},{"first_name":"Sabine","last_name":"Witzel","full_name":"Witzel, Sabine"},{"full_name":"Roehl, Henry","first_name":"Henry","last_name":"Roehl"},{"full_name":"Tada, Masazumi","last_name":"Tada","first_name":"Masazumi"},{"first_name":"Stephen","last_name":"Wilson","full_name":"Wilson, Stephen"},{"full_name":"Adams, Richard","first_name":"Richard","last_name":"Adams"},{"last_name":"Soll","first_name":"David","full_name":"Soll, David"},{"orcid":"0000-0002-0912-4566","id":"39427864-F248-11E8-B48F-1D18A9856A87","last_name":"Heisenberg","first_name":"Carl-Philipp J","full_name":"Heisenberg, Carl-Philipp J"}],"volume":130,"date_updated":"2024-02-27T10:14:21Z","date_created":"2018-12-11T12:07:13Z","pmid":1,"acknowledgement":"We thank Jennifer Geiger, Mathias Köppen, Christian Dahmann and Marcos Gonzalez-Gaitan for helpful comments on earlier versions of this manuscript,Beate Kilian for technical assistance, Ugur Yalcin, Katrin Anczok and Viktor Schnabel for help with the image analysis, Vinzenz Link for programming Excel Macros and Harald Brush-Janovjak for extensive reviews of the statistics part of this work. We are grateful to Kurt Anderson and Jan Peychl for help with the confocal microscopy. P.J.H., E.V. and D.R.S. are supported by NIH grant HD-18577, The W.M Keck Foundation and the Developmental Studies Hybridoma Bank(DSHB), P.J.H. by The American Cancer Society (grant # PF-01-110-01-CSM),M.L.C. and S.W.W. by the Wellcome Trust, M.T. by an MRC Career Development Award, and F.U. and C.P.H. by an Emmy-Noether-Fellowship from the DFG.","year":"2003","publisher":"Company of Biologists","publication_status":"published","article_processing_charge":"No","day":"15","scopus_import":"1","date_published":"2003-11-15T00:00:00Z","citation":{"short":"F. Ulrich, M. Concha, P. Heid, E. Voss, S. Witzel, H. Roehl, M. Tada, S. Wilson, R. Adams, D. Soll, C.-P.J. Heisenberg, Development 130 (2003) 5375–5384.","mla":"Ulrich, Florian, et al. “Slb/Wnt11 Controls Hypoblast Cell Migration and Morphogenesis at the Onset of Zebrafish Gastrulation.” Development, vol. 130, no. 22, Company of Biologists, 2003, pp. 5375–84, doi:10.1242/dev.00758.","chicago":"Ulrich, Florian, Miguel Concha, Paul Heid, Ed Voss, Sabine Witzel, Henry Roehl, Masazumi Tada, et al. “Slb/Wnt11 Controls Hypoblast Cell Migration and Morphogenesis at the Onset of Zebrafish Gastrulation.” Development. Company of Biologists, 2003. https://doi.org/10.1242/dev.00758.","ama":"Ulrich F, Concha M, Heid P, et al. Slb/Wnt11 controls hypoblast cell migration and morphogenesis at the onset of zebrafish gastrulation. Development. 2003;130(22):5375-5384. doi:10.1242/dev.00758","apa":"Ulrich, F., Concha, M., Heid, P., Voss, E., Witzel, S., Roehl, H., … Heisenberg, C.-P. J. (2003). Slb/Wnt11 controls hypoblast cell migration and morphogenesis at the onset of zebrafish gastrulation. Development. Company of Biologists. https://doi.org/10.1242/dev.00758","ieee":"F. Ulrich et al., “Slb/Wnt11 controls hypoblast cell migration and morphogenesis at the onset of zebrafish gastrulation,” Development, vol. 130, no. 22. Company of Biologists, pp. 5375–5384, 2003.","ista":"Ulrich F, Concha M, Heid P, Voss E, Witzel S, Roehl H, Tada M, Wilson S, Adams R, Soll D, Heisenberg C-PJ. 2003. Slb/Wnt11 controls hypoblast cell migration and morphogenesis at the onset of zebrafish gastrulation. Development. 130(22), 5375–5384."},"publication":"Development","page":"5375 - 5384","article_type":"original","issue":"22","abstract":[{"text":"During vertebrate gastrulation, highly coordinated cellular rearrangements lead to the formation of the three germ layers, ectoderm, mesoderm and endoderm. In zebrafish, silberblick (slb)/wnt11 regulates normal gastrulation movements by activating a signalling pathway similar to the Frizzled-signalling pathway, which establishes epithelial planar cell polarity (PCP) in Drosophila. However, the cellular mechanisms by which slb/wnt11 functions during zebrafish gastrulation are still unclear. Using high-resolution two-photon confocal imaging followed by computer-assisted reconstruction and motion analysis, we have analysed the movement and morphology of individual cells in three dimensions during the course of gastrulation. We show that in slb-mutant embryos, hypoblast cells within the forming germ ring have slower, less directed migratory movements at the onset of gastrulation. These aberrant cell movements are accompanied by defects in the orientation of cellular processes along the individual movement directions of these cells. We conclude that slb/wnt11-mediated orientation of cellular processes plays a role in facilitating and stabilising movements of hypoblast cells in the germ ring, thereby pointing at a novel function of the slb/wnt11 signalling pathway for the regulation of migratory cell movements at early stages of gastrulation.","lang":"eng"}],"type":"journal_article","oa_version":"None","_id":"4146","user_id":"ea97e931-d5af-11eb-85d4-e6957dddbf17","intvolume":" 130","title":"Slb/Wnt11 controls hypoblast cell migration and morphogenesis at the onset of zebrafish gastrulation","status":"public"},{"issue":"15","abstract":[{"lang":"eng","text":"Background: During vertebrate gastrulation, cell polarization and migration are core components in the cellular rearrangements that lead to the formation of the three germ layers, ectoderm, mesoderm, and endoderm. Previous studies have implicated the Wnt/planar cell polarity (PCP) signaling pathway in controlling cell morphology and movement during gastrulation. However, cell polarization and directed cell migration are reduced but not completely abolished in the absence of Wnt/PCP signals; this observation indicates that other signaling pathways must be involved. Results: We show that Phosphoinositide 3-Kinases (PI3Ks) are required at the onset of zebrafish gastrulation in mesendodermal cells for process formation and cell polarization. Platelet Derived Growth Factor (PDGF) functions upstream of PI3K, while Protein Kinase B (PKB), a downstream effector of PI3K activity, localizes to the leading edge of migrating mesendodermal cells. In the absence of PI3K activity, PKB localization and cell polarization are strongly reduced in mesendodermal cells and are followed by slower but still highly coordinated and directed movements of these cells. Conclusions: We have identified a novel role of a signaling pathway comprised of PDGF, PI3K, and PKB in the control of morphogenetic cell movements during gastrulation. Furthermore, our findings provide insight into the relationship between cell polarization and directed cell migration at the onset of zebrafish gastrulation."}],"type":"journal_article","oa_version":"None","user_id":"ea97e931-d5af-11eb-85d4-e6957dddbf17","_id":"4169","intvolume":" 13","title":"Phosphoinositide 3-kinase is required for process outgrowth and cell polarization of gastrulating mesendodermal cells","status":"public","article_processing_charge":"No","day":"05","scopus_import":"1","date_published":"2003-08-05T00:00:00Z","citation":{"ista":"Montero J, Kilian B, Chan J, Bayliss P, Heisenberg C-PJ. 2003. Phosphoinositide 3-kinase is required for process outgrowth and cell polarization of gastrulating mesendodermal cells. Current Biology. 13(15), 1279–1289.","apa":"Montero, J., Kilian, B., Chan, J., Bayliss, P., & Heisenberg, C.-P. J. (2003). Phosphoinositide 3-kinase is required for process outgrowth and cell polarization of gastrulating mesendodermal cells. Current Biology. Cell Press. https://doi.org/10.1016/S0960-9822(03)00505-0","ieee":"J. Montero, B. Kilian, J. Chan, P. Bayliss, and C.-P. J. Heisenberg, “Phosphoinositide 3-kinase is required for process outgrowth and cell polarization of gastrulating mesendodermal cells,” Current Biology, vol. 13, no. 15. Cell Press, pp. 1279–1289, 2003.","ama":"Montero J, Kilian B, Chan J, Bayliss P, Heisenberg C-PJ. Phosphoinositide 3-kinase is required for process outgrowth and cell polarization of gastrulating mesendodermal cells. Current Biology. 2003;13(15):1279-1289. doi:10.1016/S0960-9822(03)00505-0","chicago":"Montero, Juan, Beate Kilian, Joanne Chan, Peter Bayliss, and Carl-Philipp J Heisenberg. “Phosphoinositide 3-Kinase Is Required for Process Outgrowth and Cell Polarization of Gastrulating Mesendodermal Cells.” Current Biology. Cell Press, 2003. https://doi.org/10.1016/S0960-9822(03)00505-0.","mla":"Montero, Juan, et al. “Phosphoinositide 3-Kinase Is Required for Process Outgrowth and Cell Polarization of Gastrulating Mesendodermal Cells.” Current Biology, vol. 13, no. 15, Cell Press, 2003, pp. 1279–89, doi:10.1016/S0960-9822(03)00505-0.","short":"J. Montero, B. Kilian, J. Chan, P. Bayliss, C.-P.J. Heisenberg, Current Biology 13 (2003) 1279–1289."},"publication":"Current Biology","page":"1279 - 1289","article_type":"original","publist_id":"1950","extern":"1","author":[{"first_name":"Juan","last_name":"Montero","full_name":"Montero, Juan"},{"last_name":"Kilian","first_name":"Beate","full_name":"Kilian, Beate"},{"first_name":"Joanne","last_name":"Chan","full_name":"Chan, Joanne"},{"last_name":"Bayliss","first_name":"Peter","full_name":"Bayliss, Peter"},{"full_name":"Heisenberg, Carl-Philipp J","first_name":"Carl-Philipp J","last_name":"Heisenberg","id":"39427864-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0912-4566"}],"volume":13,"date_updated":"2024-02-27T10:03:37Z","date_created":"2018-12-11T12:07:22Z","pmid":1,"year":"2003","acknowledgement":"We would like to thank Jennifer Geiger, Juan Hurl& Hannu Mansu-koski, Florian Raible, Marino Zerial, Steve Wilson, and Kurt Anderson for critical reading of earlier versions of this manuscript. We thank Erez Raz, Bart Vanhaesebroeck, and Lukas Roth for sending us the pCS2-PH-GFP-nos, the p1IOCAAX, and the pCS2-actin-GFP constructs, respectively. We are grateful to Marino Zerial and his lab for encouraging us to start this work and providing us with the dnP13K construct and to Florian Ulrich and Franziska Friedrich for help with the confocal microscope and artwork, respectively. We thank Gunter Junghanns and Evelyn Lehmann for excellent fish care. C.-P.H. is supported by an Emmy-Noother-Fellowship from the Deutsche Forschungsgemeinschaft. ","publisher":"Cell Press","publication_status":"published","publication_identifier":{"issn":["0960-9822"],"eissn":["1879-0445"]},"month":"08","doi":"10.1016/S0960-9822(03)00505-0","language":[{"iso":"eng"}],"external_id":{"pmid":[" 12906787"]},"quality_controlled":"1"},{"_id":"4185","user_id":"ea97e931-d5af-11eb-85d4-e6957dddbf17","status":"public","title":"The role of Ppt/Wnt5 in regulating cell shape and movement during zebrafish gastrulation","intvolume":" 120","oa_version":"None","type":"journal_article","abstract":[{"lang":"eng","text":"Wnt genes play important roles in regulating patterning and morphogenesis during vertebrate gastrulation. In zebrafish, slb/wnt11 is required for convergence and extension movements, but not cell fate specification during gastrulation. To determine if other Wnt genes functionally interact with slb/wnt11, we analysed the role of ppt/wnt5 during zebrafish gastrulation. ppt/wnt5 is maternally provided and zygotically expressed at all stages during gastrulation. The analysis of ppt mutant embryos reveals that Ppt/Wnt5 regulates cell elongation and convergent extension movements in posterior regions of the gastrula, while its function in more anterior regions is largely redundant to that of Slb/Wnt11. Frizzled-2 functions downstream of ppt/wnt5, indicating that it might act as a receptor for Ppt/Wnt5 in this process. The characterisation of the role of Ppt/Wnt5 provides insight into the functional diversity of Wnt genes in regulating vertebrate gastrulation movements. (C) 2003 Elsevier Science Ireland Ltd. All rights reserved."}],"issue":"4","publication":"Mechanisms of Development","citation":{"chicago":"Kilian, Beate, Hannu Mansukoski, Filipa Barbosa, Florian Ulrich, Masazumi Tada, and Carl-Philipp J Heisenberg. “The Role of Ppt/Wnt5 in Regulating Cell Shape and Movement during Zebrafish Gastrulation.” Mechanisms of Development. Elsevier, 2003. https://doi.org/10.1016/S0925-4773(03)00004-2.","mla":"Kilian, Beate, et al. “The Role of Ppt/Wnt5 in Regulating Cell Shape and Movement during Zebrafish Gastrulation.” Mechanisms of Development, vol. 120, no. 4, Elsevier, 2003, pp. 467–76, doi:10.1016/S0925-4773(03)00004-2.","short":"B. Kilian, H. Mansukoski, F. Barbosa, F. Ulrich, M. Tada, C.-P.J. Heisenberg, Mechanisms of Development 120 (2003) 467–476.","ista":"Kilian B, Mansukoski H, Barbosa F, Ulrich F, Tada M, Heisenberg C-PJ. 2003. The role of Ppt/Wnt5 in regulating cell shape and movement during zebrafish gastrulation. Mechanisms of Development. 120(4), 467–476.","apa":"Kilian, B., Mansukoski, H., Barbosa, F., Ulrich, F., Tada, M., & Heisenberg, C.-P. J. (2003). The role of Ppt/Wnt5 in regulating cell shape and movement during zebrafish gastrulation. Mechanisms of Development. Elsevier. https://doi.org/10.1016/S0925-4773(03)00004-2","ieee":"B. Kilian, H. Mansukoski, F. Barbosa, F. Ulrich, M. Tada, and C.-P. J. Heisenberg, “The role of Ppt/Wnt5 in regulating cell shape and movement during zebrafish gastrulation,” Mechanisms of Development, vol. 120, no. 4. Elsevier, pp. 467–476, 2003.","ama":"Kilian B, Mansukoski H, Barbosa F, Ulrich F, Tada M, Heisenberg C-PJ. The role of Ppt/Wnt5 in regulating cell shape and movement during zebrafish gastrulation. Mechanisms of Development. 2003;120(4):467-476. doi:10.1016/S0925-4773(03)00004-2"},"article_type":"original","page":"467 - 476","date_published":"2003-04-01T00:00:00Z","scopus_import":"1","day":"01","article_processing_charge":"No","acknowledgement":"We thank Michael Brand, Florian Raible, Gerlinde Reim, Tobias Langenberg, Jennifer Geiger and Kate Poole for helpful comments on earlier versions of this manuscript. We are grateful to Henry Roehl and Christiane Nüsslein Volhard for sending us the ppt mutant stock. M.T. was supported by a Career Development Fellowship from the MRC. B.K., H.M. and C.P.H. are supported by an Emmy Noether-Fellowship from the DFG.","year":"2003","pmid":1,"publication_status":"published","publisher":"Elsevier","author":[{"full_name":"Kilian, Beate","first_name":"Beate","last_name":"Kilian"},{"full_name":"Mansukoski, Hannu","last_name":"Mansukoski","first_name":"Hannu"},{"first_name":"Filipa","last_name":"Barbosa","full_name":"Barbosa, Filipa"},{"last_name":"Ulrich","first_name":"Florian","full_name":"Ulrich, Florian"},{"first_name":"Masazumi","last_name":"Tada","full_name":"Tada, Masazumi"},{"full_name":"Heisenberg, Carl-Philipp J","last_name":"Heisenberg","first_name":"Carl-Philipp J","orcid":"0000-0002-0912-4566","id":"39427864-F248-11E8-B48F-1D18A9856A87"}],"date_created":"2018-12-11T12:07:27Z","date_updated":"2024-02-27T09:46:39Z","volume":120,"publist_id":"1934","extern":"1","external_id":{"pmid":["12676324 "]},"quality_controlled":"1","doi":"10.1016/S0925-4773(03)00004-2","language":[{"iso":"eng"}],"month":"04","publication_identifier":{"issn":["0925-4773"]}},{"oa_version":"Published Version","status":"public","title":"The weighted-volume derivative of a space-filling diagram","intvolume":" 100","user_id":"ea97e931-d5af-11eb-85d4-e6957dddbf17","_id":"3992","abstract":[{"text":"Computing the volume occupied by individual atoms in macromolecular structures has been the subject of research for several decades. This interest has grown in the recent years, because weighted volumes are widely used in implicit solvent models. Applications of the latter in molecular mechanics simulations require that the derivatives of these weighted volumes be known. In this article, we give a formula for the volume derivative of a molecule modeled as a space-filling diagram made up of balls in motion. The formula is given in terms of the weights, radii, and distances between the centers as well as the sizes of the facets of the power diagram restricted to the space-filling diagram. Special attention is given to the detection and treatment of singularities as well as discontinuities of the derivative.","lang":"eng"}],"issue":"5","type":"journal_article","date_published":"2003-03-04T00:00:00Z","article_type":"original","page":"2203 - 2208","publication":"PNAS","citation":{"chicago":"Edelsbrunner, Herbert, and Patrice Koehl. “The Weighted-Volume Derivative of a Space-Filling Diagram.” PNAS. National Academy of Sciences, 2003. https://doi.org/10.1073/pnas.0537830100.","short":"H. Edelsbrunner, P. Koehl, PNAS 100 (2003) 2203–2208.","mla":"Edelsbrunner, Herbert, and Patrice Koehl. “The Weighted-Volume Derivative of a Space-Filling Diagram.” PNAS, vol. 100, no. 5, National Academy of Sciences, 2003, pp. 2203–08, doi:10.1073/pnas.0537830100.","apa":"Edelsbrunner, H., & Koehl, P. (2003). The weighted-volume derivative of a space-filling diagram. PNAS. National Academy of Sciences. https://doi.org/10.1073/pnas.0537830100","ieee":"H. Edelsbrunner and P. Koehl, “The weighted-volume derivative of a space-filling diagram,” PNAS, vol. 100, no. 5. National Academy of Sciences, pp. 2203–2208, 2003.","ista":"Edelsbrunner H, Koehl P. 2003. The weighted-volume derivative of a space-filling diagram. PNAS. 100(5), 2203–2208.","ama":"Edelsbrunner H, Koehl P. The weighted-volume derivative of a space-filling diagram. PNAS. 2003;100(5):2203-2208. doi:10.1073/pnas.0537830100"},"day":"04","article_processing_charge":"No","scopus_import":"1","date_updated":"2024-02-27T12:31:59Z","date_created":"2018-12-11T12:06:19Z","volume":100,"author":[{"full_name":"Edelsbrunner, Herbert","last_name":"Edelsbrunner","first_name":"Herbert","orcid":"0000-0002-9823-6833","id":"3FB178DA-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Koehl, Patrice","last_name":"Koehl","first_name":"Patrice"}],"publication_status":"published","publisher":"National Academy of Sciences","year":"2003","pmid":1,"extern":"1","publist_id":"2133","language":[{"iso":"eng"}],"doi":"10.1073/pnas.0537830100","quality_controlled":"1","external_id":{"pmid":["12601153"]},"oa":1,"main_file_link":[{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC151318/","open_access":"1"}],"month":"03","publication_identifier":{"issn":["0027-8424"]}}]