Paola Oliveri

Summary

Affiliation: University College London
Country: UK

Publications

  1. pmc Global regulatory logic for specification of an embryonic cell lineage
    Paola Oliveri
    Division of Biology, California Institute of Technology, Pasadena, CA 91125, USA
    Proc Natl Acad Sci U S A 105:5955-62. 2008
  2. doi request reprint The Cryptochrome/Photolyase Family in aquatic organisms
    Paola Oliveri
    Research Department of Genetics, Evolution and Environment, University College London, Gower Street, London WC1E 6BT, UK Electronic address
    Mar Genomics 14:23-37. 2014
  3. ncbi request reprint A provisional regulatory gene network for specification of endomesoderm in the sea urchin embryo
    Eric H Davidson
    Division of Biology, California Institute of Technology, Pasadena 91125, USA
    Dev Biol 246:162-90. 2002
  4. ncbi request reprint Activation of pmar1 controls specification of micromeres in the sea urchin embryo
    Paola Oliveri
    Division of Biology, 156 29, California Institute of Technology, Pasadena, CA 91125, USA
    Dev Biol 258:32-43. 2003
  5. ncbi request reprint Repression of mesodermal fate by foxa, a key endoderm regulator of the sea urchin embryo
    Paola Oliveri
    Division of Biology, 156 29, California Institute of Technology, Pasadena, CA 91125, USA
    Development 133:4173-81. 2006
  6. ncbi request reprint Sea urchin Forkhead gene family: phylogeny and embryonic expression
    Qiang Tu
    Division of Biology 156 29, California Institute of Technology, Pasadena, CA 91125, USA
    Dev Biol 300:49-62. 2006
  7. pmc A missing link in the sea urchin embryo gene regulatory network: hesC and the double-negative specification of micromeres
    Roger Revilla-i-Domingo
    Division of Biology 156 29, California Institute of Technology, Pasadena, CA 91125, USA
    Proc Natl Acad Sci U S A 104:12383-8. 2007
  8. ncbi request reprint Gene regulatory network controlling embryonic specification in the sea urchin
    Paola Oliveri
    Division of Biology 156 29, California Institute of Technology, Pasadena, California 91125, USA
    Curr Opin Genet Dev 14:351-60. 2004
  9. ncbi request reprint Gene regulatory network analysis in sea urchin embryos
    Paola Oliveri
    Division of Biology, California Institute of Technology, Pasadena, California 91125, USA
    Methods Cell Biol 74:775-94. 2004
  10. doi request reprint A protocol for unraveling gene regulatory networks
    Stefan C Materna
    Division of Biology, California Institute of Technology, Pasadena, California 91125, USA
    Nat Protoc 3:1876-87. 2008

Collaborators

Detail Information

Publications23

  1. pmc Global regulatory logic for specification of an embryonic cell lineage
    Paola Oliveri
    Division of Biology, California Institute of Technology, Pasadena, CA 91125, USA
    Proc Natl Acad Sci U S A 105:5955-62. 2008
    ..The GRN precisely predicts gene expression responses and provides a coherent explanation of the biology of specification...
  2. doi request reprint The Cryptochrome/Photolyase Family in aquatic organisms
    Paola Oliveri
    Research Department of Genetics, Evolution and Environment, University College London, Gower Street, London WC1E 6BT, UK Electronic address
    Mar Genomics 14:23-37. 2014
    ..Our analyses reconstruct the molecular evolution of the CPF family in eukaryotes and provide a solid foundation for a systematic characterization of novel light activated proteins in aquatic environments. ..
  3. ncbi request reprint A provisional regulatory gene network for specification of endomesoderm in the sea urchin embryo
    Eric H Davidson
    Division of Biology, California Institute of Technology, Pasadena 91125, USA
    Dev Biol 246:162-90. 2002
    ..Each of the temporal-spatial phases of specification is represented in a subelement of the network model, that treats regulatory events within the relevant embryonic nuclei at particular stages...
  4. ncbi request reprint Activation of pmar1 controls specification of micromeres in the sea urchin embryo
    Paola Oliveri
    Division of Biology, 156 29, California Institute of Technology, Pasadena, CA 91125, USA
    Dev Biol 258:32-43. 2003
    ..Each of the tests we describe supports the placement and function of Pmar1 in the endomesoderm GRN model...
  5. ncbi request reprint Repression of mesodermal fate by foxa, a key endoderm regulator of the sea urchin embryo
    Paola Oliveri
    Division of Biology, 156 29, California Institute of Technology, Pasadena, CA 91125, USA
    Development 133:4173-81. 2006
    ..These experiments show that the foxa gene is a component of three distinct embryonic gene regulatory networks...
  6. ncbi request reprint Sea urchin Forkhead gene family: phylogeny and embryonic expression
    Qiang Tu
    Division of Biology 156 29, California Institute of Technology, Pasadena, CA 91125, USA
    Dev Biol 300:49-62. 2006
    ..The sea urchin fox genes clearly execute many different regulatory functions, and almost all of them participate in the process of embryonic development...
  7. pmc A missing link in the sea urchin embryo gene regulatory network: hesC and the double-negative specification of micromeres
    Roger Revilla-i-Domingo
    Division of Biology 156 29, California Institute of Technology, Pasadena, CA 91125, USA
    Proc Natl Acad Sci U S A 104:12383-8. 2007
    ..As logically required, blockade of hesC mRNA translation and global overexpression of pmar1 mRNA have the same effect, which is to cause all of the cells of the embryo to express micromere-specific genes...
  8. ncbi request reprint Gene regulatory network controlling embryonic specification in the sea urchin
    Paola Oliveri
    Division of Biology 156 29, California Institute of Technology, Pasadena, California 91125, USA
    Curr Opin Genet Dev 14:351-60. 2004
    ..The network includes almost 50 genes, and these are organized in subcircuits, each of which executes a particular regulatory function...
  9. ncbi request reprint Gene regulatory network analysis in sea urchin embryos
    Paola Oliveri
    Division of Biology, California Institute of Technology, Pasadena, California 91125, USA
    Methods Cell Biol 74:775-94. 2004
    ..As the results crystallize together, we can begin to see how far this powerful combination of methods and ideas is going to carry us...
  10. doi request reprint A protocol for unraveling gene regulatory networks
    Stefan C Materna
    Division of Biology, California Institute of Technology, Pasadena, California 91125, USA
    Nat Protoc 3:1876-87. 2008
    ..Unraveling the GRN for a whole tissue or organ is a challenging undertaking and, depending on the complexity, may take anywhere from months to years to complete...
  11. pmc High regulatory gene use in sea urchin embryogenesis: Implications for bilaterian development and evolution
    Meredith Howard-Ashby
    Division of Biology, California Institute of Technology, Pasadena, CA 91125, USA
    Dev Biol 300:27-34. 2006
    ..An evolutionary implication is that animal complexity at the stage when the regulome first evolved was far simpler than even the last common bilaterian ancestor, and is thus of deep antiquity...
  12. ncbi request reprint Development. Built to run, not fail
    Paola Oliveri
    Division of Biology, California Institute of Technology, Pasadena, CA 91125, USA
    Science 315:1510-1. 2007
  13. pmc Expression of skeletogenic genes during arm regeneration in the brittle star Amphiura filiformis
    Anna Czarkwiani
    Research Department of Genetics, Evolution and Environment, UCL, Gower Street, London WC1E 6BT, UK
    Gene Expr Patterns 13:464-72. 2013
    ..In situ hybridization results have been confirmed with a new strategy for quantitative PCR (QPCR), using a subdivision of the three stages of regeneration into proximal (differentiated) and distal (undifferentiated) arm segments. ..
  14. ncbi request reprint A genomic regulatory network for development
    Eric H Davidson
    Division of Biology, California Institute of Technology, Pasadena, CA 91125, USA
    Science 295:1669-78. 2002
    ..Its architecture reveals specific and general aspects of development, such as how given cells generate their ordained fates in the embryo and why the process moves inexorably forward in developmental time...
  15. ncbi request reprint cis-Regulatory activity of randomly chosen genomic fragments from the sea urchin
    R Andrew Cameron
    Division of Biology 156 29, California Institute of Technology, 1200 E California Blvd, Pasadena, CA 91125, USA
    Gene Expr Patterns 4:205-13. 2004
    ..On further analysis one isolate was shown to contain a gut specific element as well as one that controls expression in the secondary mesenchyme cells...
  16. ncbi request reprint A regulatory gene network that directs micromere specification in the sea urchin embryo
    Paola Oliveri
    Division of Biology 156 29, California Institute of Technology, Pasadena 91125, USA
    Dev Biol 246:209-28. 2002
    ..More generally, the regulatory network subelement emerging from this work shows how the specificity of micromere function depends on continuing global regulatory interactions, as well as on early localized inputs...
  17. pmc Large-scale gene expression study in the ophiuroid Amphiura filiformis provides insights into evolution of gene regulatory networks
    David Viktor Dylus
    Research Department of Genetics, Evolution and Environment, University College London, Room 426, Darwin Building, Gower Street, London, WC1E 6BT UK CoMPLEX SysBio, UCL, Gower Street, London, WC1E 6BT UK Department of Ecology and Evolution, University of Lausanne, 1015 Lausanne, Switzerland
    Evodevo 7:2. 2016
    ..Here, we characterize for the first time the development of the larval skeleton in the ophiuroid Amphiura filiformis and compare it systematically with its counterpart in sea urchin...
  18. pmc Quantitative imaging of cis-regulatory reporters in living embryos
    Ivan J Dmochowski
    Divisions of Biology and Geological and Planetary Sciences, California Institute of Technology, Pasadena, CA 91125, USA
    Proc Natl Acad Sci U S A 99:12895-900. 2002
    ..Confocal laser scanning microscopy data collection from a single sea urchin blastula required less than 2 min, thereby allowing gene expression in dozens of embryos to be monitored in parallel with high spatial and temporal resolution...
  19. pmc Phylogenomic analysis of echinoderm class relationships supports Asterozoa
    Maximilian J Telford
    Department of Genetics, Evolution and Environment, University College London, Darwin Building, Gower Street, London WC1E 6BT, UK
    Proc Biol Sci 281:. 2014
    ..Our large and taxonomically complete dataset finds no support for the cryptosyringid hypothesis; in showing strong support for the Asterozoa, our preferred topology leaves the question of homology of pluteus larvae open. ..
  20. pmc Skeletal regeneration in the brittle star Amphiura filiformis
    Anna Czarkwiani
    Department of Genetics, Evolution and Environment, University College London, London, UK
    Front Zool 13:18. 2016
    ..Here, we present the results of an in-depth microscopic analysis of skeletal morphogenesis during regeneration, using calcein staining, EdU labeling and in situ hybridization...
  21. pmc The genome of the sea urchin Strongylocentrotus purpuratus
    Erica Sodergren
    Science 314:941-52. 2006
    ..This echinoderm genome provides an evolutionary outgroup for the chordates and yields insights into the evolution of deuterostomes...
  22. pmc Vasa protein expression is restricted to the small micromeres of the sea urchin, but is inducible in other lineages early in development
    Ekaterina Voronina
    Providence Institute of Molecular Oogenesis, Department of Molecular Biology, Cell Biology and Biochemistry, 185 Meeting Street, Box G, Brown University, Providence, RI 02912, USA
    Dev Biol 314:276-86. 2008
    ....
  23. ncbi request reprint Alx1, a member of the Cart1/Alx3/Alx4 subfamily of Paired-class homeodomain proteins, is an essential component of the gene network controlling skeletogenic fate specification in the sea urchin embryo
    Charles A Ettensohn
    Department of Biological Sciences, Carnegie Mellon University, 4400 Fifth Avenue, Pittsburgh, PA 15213, USA
    Development 130:2917-28. 2003
    ..Our findings suggest that the ancestral deuterostome had a population of biomineral-forming mesenchyme cells that expressed an Alx1-like protein...