• The Birth and Death of Toxins with Distinct Functions: A Case Study in the Sea Anemone Nematostella 

      Sachkova, Maria; Singer, Shir A; Macrander, Jason; Reitzel, Adam M.; Peigneur, Steve; Tytgat, Jan; Moran, Yehu (Journal article; Peer reviewed, 2019-05-27)
      The cnidarian Nematostella vectensis has become an established lab model, providing unique opportunities for venom evolution research. The Nematostella venom system is multimodal: involving both nematocytes and ectodermal ...
    • Calcareous sponge genomes reveal complex evolution of α-carbonic anhydrases and two key biomineralization enzymes 

      Voigt, Oliver; Adamski, Marcin; Sluzek, Kasia; Adamska, Maja (Journal article; Peer reviewed, 2014-11-25)
      Background: Calcium carbonate biominerals form often complex and beautiful skeletal elements, including coral exoskeletons and mollusc shells. Although the ability to generate these carbonate structures was apparently ...
    • A cellular and molecular analysis of SoxB-driven neurogenesis in a cnidarian 

      Chrysostomou, Eleni; Flici, Hakima; Gornik, Sebastian G.; Salinas-Saavedra, Miguel; Gahan, James Michael; McMahon, Emma T.; Thompson, Kerry; Hanley, Shirley; Kilcoyne, Michelle; Schnitzler, Christine E.; Gonzalez, Paul; Baxevanis, Andreas D.; Frank, Uri (Journal article; Peer reviewed, 2022)
      Neurogenesis is the generation of neurons from stem cells, a process that is regulated by SoxB transcription factors (TFs) in many animals. Although the roles of these TFs are well understood in bilaterians, how their ...
    • The cellular and molecular mechanisms of the notochord tubulogenesis in the marine invertebrate Ciona intestinalis 

      Deng, Wei (Doctoral thesis, 2013-01-18)
      The biological tube is the fundamental structural design of most internal organs and body systems. Tubulogenesis involves a series of coordinated cellular processes, failure of any of which can cause severe dysfunctions ...
    • Characterization of Schistosoma mansoni Glutamate-Gated Chloride Channels 

      Lynagh, Timothy (Journal article; Peer reviewed, 2020)
      Electrophysiology is the standard method for characterizing ion channel function. Two-electrode voltage clamp is a robust and relatively simple version which can be applied to the characterization of glutamate-gated chloride ...
    • Choanoflagellates and the ancestry of neurosecretory vesicles 

      Göhde, Ronja Alica Angelika; Naumann, Benjamin; Laundon, Davis; Imig, Cordelia; McDonald, Kent; Cooper, Benjamin H.; Varoqueaux, Frédérique; Fasshauer, Dirk; Burkhardt, Pawel (Journal article; Peer reviewed, 2021)
      Neurosecretory vesicles are highly specialized trafficking organelles that store neurotransmitters that are released at presynaptic nerve endings and are, therefore, important for animal cell–cell signalling. Despite ...
    • Chromatin jets define the properties of cohesin-driven in vivo loop extrusion 

      Guo, Ya; Al-Jibury, Ediem; Garcia-Millan, Rosalba; Ntagiantas, Konstantinos; King, James W.D.; Nash, Alex J.; Galjart, Niels; Lenhard, Boris; Rueckert, Daniel; Fisher, Amanda G.; Pruessner, Gunnar; Merkenschlager, Matthias (Journal article; Peer reviewed, 2022)
      Complex genomes show intricate organization in three-dimensional (3D) nuclear space. Current models posit that cohesin extrudes loops to form self-interacting domains delimited by the DNA binding protein CTCF. Here, we ...
    • Ciliary photoreceptors in the cerebral eyes of a protostome larva 

      Passamaneck, Yale J.; Furchheim, Nina; Hejnol, Andreas; Martindale, Mark Q.; Lüter, Carsten (Peer reviewed; Journal article, 2011-03-01)
      Background: Eyes in bilaterian metazoans have been described as being composed of either ciliary or rhabdomeric photoreceptors. Phylogenetic distribution, as well as distinct morphologies and characteristic deployment of ...
    • Ciona spp. and ascidians as bioindicator organisms for evaluating effects of endocrine disrupting chemicals: A discussion paper 

      Beyer, Jonny; Song, You; Lillicrap, Adam David; Rodríguez-Satizábal, Simón; Chatzigeorgiou, Marios (Journal article; Peer reviewed, 2023)
      In context of testing, screening and monitoring of endocrine-disrupting (ED) type of environmental pollutants, tunicates could possibly represent a particularly interesting group of bioindicator organisms. These primitive ...
    • cis–regulation and mis–regulation – Insights into genomic regulatory mechanisms underlying the control of fgf8a in zebrafish Danio rerio 

      Komisarczuk, Anna Zofia (Doctoral thesis, 2008-06-19)
      Fibroblast growth factor 8 (Fgf8) is a potent vertebrate morphogen that plays decisive roles in multiple developmental processes, such as cellular proliferation, survival, differentiation, growth and migration. Fgf8 ...
    • Cleavage modification did not alter blastomere fates during bryozoan evolution 

      Vellutini, Bruno Cossermelli; Martin Duran, Jose Maria; Hejnol, Andreas (Journal article; Peer reviewed, 2017-04-28)
      Background: Stereotypic cleavage patterns play a crucial role in cell fate determination by precisely positioning early embryonic blastomeres. Although misplaced cell divisions can alter blastomere fates and cause embryonic ...
    • CNEr: A toolkit for exploring extreme noncoding conservation 

      Tan, Ge; Polychronopoulos, Dimitris; Lenhard, Boris (Journal article; Peer reviewed, 2019-08-26)
      Conserved Noncoding Elements (CNEs) are elements exhibiting extreme noncoding conservation in Metazoan genomes. They cluster around developmental genes and act as long-range enhancers, yet nothing that we know about their ...
    • Cnidofest 2022: hot topics in cnidarian research 

      Gahan, James Michael; Cartwright, Paulyn; Nicotra, Matthew L.; Schnitzler, Christine E.; Steinmetz, Patrick; Juliano, Celina E. (Journal article; Peer reviewed, 2023-08-24)
      The second annual Cnidarian Model Systems Meeting, aka “Cnidofest”, took place in Davis, California from 7 to 10th of September, 2022. The meeting brought together scientists using cnidarians to study molecular and cellular ...
    • Comparative Animal Mucomics: Inspiration for Functional Materials from Ubiquitous and Understudied Biopolymers 

      Cerullo, Antonio R.; Lai, Tsoi Ying; Allam, Bassem; Baer, Alexander; Barnes, W. Jon P.; Barrientos, Zaidett; Deheyn, Dimitri D.; Fudge, Douglas S.; Gould, John A.; Harrington, Matthew J.; Holford, Mandë; Hung, Chia-Suei; Jain, Gaurav; Mayer, Georg; Medina, Mónica; Monge-Nájera, Julian; Napolitano, Tanya; Pales Espinosa, Emmanuelle; Schmidt, Stephan; Thompson, Eric; Braunschweig, Adam B. (Journal article; Peer reviewed, 2020)
      The functions of secreted animal mucuses are remarkably diverse and include lubricants, wet adhesives, protective barriers, and mineralizing agents. Although present in all animals, many open questions related to the ...
    • Comprehensive analysis of locomotion dynamics in the protochordate Ciona intestinalis reveals how neuromodulators flexibly shape its behavioral repertoire 

      Athira, Athira; Dondorp, Daniel; Rudolf, Jerneja; Peytral, Olivia; Chatzigeorgiou, Marios (Journal article; Peer reviewed, 2022)
      Vertebrate nervous systems can generate a remarkable diversity of behaviors. However, our understanding of how behaviors may have evolved in the chordate lineage is limited by the lack of neuroethological studies leveraging ...
    • Conservative route to genome compaction in a miniature annelid 

      Martin-Duran, José M.; Vellutini, Bruno Cossermelli; Marletaz, Ferdinand; Cetrangolo, Viviana; Cvetesic, Nevena; Thiel, Daniel; Henriet, Simon; Grau-Bové, Xavier; Carrillo-Baltodano, Allan M.; Gu, Wenjia; Kerbl, Alexandra; Marquez, Yamile; Bekkouche, Nicolas; Chourrout, Daniel; Gómez-Skarmeta, José Luis; Irimia, Manuel; Lenhard, Boris; Worsaae, Katrine; Hejnol, Andreas (Journal article; Peer reviewed, 2021)
      The causes and consequences of genome reduction in animals are unclear because our understanding of this process mostly relies on lineages with often exceptionally high rates of evolution. Here, we decode the compact ...
    • Coordinated spatial and temporal expression of Hox genes during embryogenesis in the acoel Convolutriloba longifissura 

      Hejnol, Andreas; Martindale, Mark Q. (Journal article; Peer reviewed, 2009-10-01)
      Background: Hox genes are critical for patterning the bilaterian anterior-posterior axis. The evolution of their clustered genomic arrangement and ancestral function has been debated since their discovery. As acoels appear ...
    • Cytoskeleton-mediated templating of complex cellulose-scaffolded extracellular structure and its association with oikosins in the urochordate Oikopleura 

      Sagane, Yoshimasa; Hosp, Julia; Zech, Karin; Thompson, Eric M. (Peer reviewed; Journal article, 2010)
      Oriented cellulose deposition is critical to plant patterning and models suggest microtubules constrain cellulose synthase movements through the plasma membrane. Though widespread in plants, urochordates are the only animals ...
    • A deep learning method for replicate-based analysis of chromosome conformation contacts using Siamese neural networks 

      Al-jibury, Ediem; King, James W. D.; Guo, Ya; Lenhard, Boris; Fisher, Amanda G.; Merkenschlager, Matthias; Rueckert, Daniel (Journal article; Peer reviewed, 2023)
      The organisation of the genome in nuclear space is an important frontier of biology. Chromosome conformation capture methods such as Hi-C and Micro-C produce genome-wide chromatin contact maps that provide rich data ...
    • Detailed reconstruction of the musculature in Limnognathia maerski (Micrognathozoa) and comparison with other Gnathifera 

      Bekkouche, Nicolas; Kristensen, Reinhardt M.; Hejnol, Andreas; Sørensen, Martin V.; Worsaae, Katrine (Journal article; Peer reviewed, 2014-10-01)
      Introduction: Limnognathia maerski is the single species of the recently described taxon, Micrognathozoa. The most conspicuous character of this animal is the complex set of jaws, which resembles an even more intricate ...