Publications

Publications for Daniela Nicastro, Ph.D.

2019

  • Trötschel C, Hamzeh H, Alvarez L, Pascal R, Lavryk F, Bönigk W, Körschen HG, Müller A, Poetsch A, Rennhack A, Gui L, Nicastro D, Strünker T, Seifert R, Kaupp UB (2019) Absolute proteomic quantification reveals design principles of flagellar chemosensation. EMBO J. doi: 10.15252/embj.2019102723. PMID: 31880004
  • Song K, Shang Z, Fu X, Lou X, Grigorieff N, Nicastro D (2019) In situ structure determination at nanometer resolution using TYGRESS. Nature Methods doi:10.1038/s41592-019-0651-0. PMID: 31768058
  • Fu G, Zhao L, Dymek E, Hou Y, Song K, Phan N, Shang Z, Smith EF, Witman GB, Nicastro D. (2019) Structural organization of the C1a-e-c supercomplex within the ciliary central apparatus. J Cell Biol. doi: 10.1083/jcb.201906006. PMID: 31672705
  • Gui L, Song K, Tritschler D, Bower R, Yan S, Dai A, Augspurger K, Sakizadeh J, Grzemska M, Ni T, Porter ME, Nicastro D. (2019) Scaffold subunits support associated subunit assembly in the Chlamydomonas ciliary nexin-dynein regulatory complex. Proc Natl Acad Sci U S A. 116(46):23152-23162. PMID: 31659045
  • Lin J*, Le TV*, Augspurger K, Tritschler D, Bower R, Fu G, Perrone C, O'Toole ET, Mills KV, Dymek E, Smith E, Nicastro D, Porter ME. (2019) FAP57/WDR65 targets assembly of a subset of inner arm dyneins and connects to regulatory hubs in cilia. Mol Biol Cell. 30(21):2659-2680. PMID: 31483737
  • Dymek EE, Lin J, Fu G, Porter M, Nicastro D, Smith EF. (2019) PACRG and FAP20 form the inner junction of axonemal doublet microtubules and regulate ciliary motility. Mol Biol Cell. PMID: 31116684
  • Shah V, Zhao X, Lundeen RA, Ingalls AE, Nicastro D, Morris RM. (2019) Morphological Plasticity in a Sulfur-Oxidizing Marine Bacterium from the SUP05 Clade Enhances Dark Carbon Fixation. Mbio. PMID: 31064824
  • Spietz RL, Lundeen RA, Zhao X, Nicastro D, Ingalls AE, Morris RM. (2019) Heterotrophic carbon metabolism and energy acquisition in Candidatus Thioglobus singularis strain PS1, a member of the SUP05 clade of marine Gammaproteobacteria. Environ Microbiol.PMID: 30951247
  • Quade B, Camacho M, Zhao X, Orlando M, Trimbuch T, Xu J, Li W, Nicastro D, Rosenmund C, Rizo J. (2019) Membrane bridging by Munc13-1 is crucial for neurotransmitter release. Elife. PMID: 30816091
  • Hariri H, Speer N, Bowerman J, Rogers S, Fu G, Reetz E, Datta S, Feathers JR, Ugrankar R, Nicastro D, Henne WM. (2019) Mdm1 maintains endoplasmic reticulum homeostasis by spatially regulating lipid droplet biogenesisJ Cell Biol.PMID: 30808705
  • Budelli G, Ni L, Berciu C, van Giesen L, Knecht ZA, Chang EC, Kaminski B, Silbering AF, Samuel A, Klein M, Benton R, Nicastro D, Garrity PA. (2019) Ionotropic Receptors Specify the Morphogenesis of Phasic Sensors Controlling Rapid Thermal Preference in Drosophila.Neuron. PMID: 30654923

2018

  • Song K, Shang Z, Fu X, Lou X, Grigorieff N, Nicastro D (2018) Structure of the ciliary axoneme at nanometer resolution reconstructed by TYGRESS. BioRxiv DOI: https://doi.org/10.1101/363317
  • Stoddard D, Zhao Y, Bayless BA, Gui L, Louka P, Dave D, Suryawanshi S, Tomasi RF, Dupius-Williams P, Baround CN, Gaertig J, Winey M, Nicastro D (2018) Tetrahymena RIB72A and RIB72B are microtubule inner proteins in the ciliary doublet microtubules. Mol Biol Cell. PMID: 30133348
  • Lin J, Nicastro D (2018) Asymmetric distribution and spatial switching of dynein activity generates ciliary motility. Science 360(6387). PMID: 29700238
  • Urbanska P, Joachimiak E, Bazan R, Fu G, Poprzeczko M, Fabczal H, Nicastro D, Wloga D (2018) Ciliary protein Fap43 and Fap44 interact with each other and are essential for proper cilia and flagella beating. Cell Mol Life Sci. PMID: 29687140
  • Fu G, Wang Q, Phan N, Urbanska P, Joachimiak E, Lin J, Wloga D, Nicastro D (2018) The I1 dynein-associated tether and tether head complex is a conserved regulator of ciliary motility. Mol Biol Cell. 29(9):1048-1059.
  • Hunter EL, Lechtreck K, Fu G, Hwang J, Lin H, Gokhale A, Alford LM, Lewis B, Yamamoto R, Kamiya R, Yang F, Nicastro D, Dutcher SK, Wirschell M, Sale WS (2018) The IDA3 adapter, required for intraflagellar transport of I1 dynein, is regulated by ciliary length. Mol Biol Cell. 29(8):886-896.
  • Zhou J, Du X, Berciu C, Del Signore SJ, Chen X, Yamagata N, Rodal AA, Nicastro D, Xu B (2018) Cellular Uptake of A Taurine-Modified, Ester Bond-Decorated D-Peptide Derivative via Dynamin-Based Endocytosis and Macropinocytosis. Mol Ther. 26(2):648-658.
  • Bower R, Tritschler D, Mills KV, Heuser T, Nicastro D, Porter ME (2018) DRC2/CCDC65 is central hub for assembly of the nexin-dynein regulatory complex and other regulators of ciliary and flagellar motility. Mol Biol Cell. 29(2):137-153.

2017

  • Nechipurenko I, Berciu C, Sengupta P, Nicastro D (2017) Centriolar remodeling underlies basal body maturation during ciliogenesis in Caenorhabditis elegans. eLife 6:e25686.
  • Zhao X, Schwartz C, Pierson J, Giovannoni SJ, McIntosh JR, Nicastro D (2017) Three-dimensional structure of the ultraoligotrophic marine bacterium “Candidatus Pelagibacter ubique” Appl Environ Microbiol 83:e02807-16.

2016

  • Alford LM, Stoddard D, Li JH, Hunter EL, Tritschler D, Bower R, Nicastro D, Porter ME, Sale WS (2016) The nexin link and B-tubule glutamylation maintain the alignment of outer doublets in the ciliary axoneme. Cytoskeleton (Hoboken) 73: 331-40.
  • Zhou J, Du X, Berciu C, He H, Shi J, Nicastro D, Xu B (2016) Enzyme-instructed self-assembly for spatiotemporal profiling of the activities of alkaline phosphatases on live cells. Chem 1:246-63.

2015

  • Kelley CF, Messelaar EM, Eskin TL, Wang S, Song K, Vishnia K, Becalska AN, Shupliakov O, Hagan MF, Danino D, Sokolova OS, Nicastro D, Rodal AA (2015) Membrane charge directs the outcome of F-BAR domain lipid binding and autoregulation. Cell Rep. 13: 2597-609.
  • Chen D, Heymann M, Fraden S, Nicastro D, Dogic Z (2015) ATP Consumption of eukaryotic flagella measured at a single-cell level. Biophys J. 109: 2562-73.
  • Kelley CF, Becalska AN, Berciu C, Nicastro D, Rodal AA (2015) Assembly of actin filaments and microtubules in Nwk F-BAR-induced membrane deformations. Commun Integr Biol. 8: E1000703.
  • Awata J*, Song K*, Lin J, King SM, Sanderson MJ, Nicastro D, Witman GB (2015) DRC3 connects the N-DRC to dynein g to regulate flagellar waveform. Mol Biol Cell. 26: 2788-800.
  • Urbanska P*, Song K*, Joachimiak E, Krzemien-Ojak L, Koprowski P, Hennessey T, Jerka-Dziadosz M, Fabczak H, Gaertig J, Nicastro D, Wloga D (2015) The CSC proteins FAP61 and FAP251 build the basal substructures of radial spoke 3 in cilia. Mol Biol Cell. 26: 1463-75.
  • Song K, Awata J, Tritschler D, Bower R, Witman GB, Porter ME, Nicastro D (2015) In situ localization of N and C termini of subunits of the flagellar nexin-dynein regulatory complex (N-DRC) using SNAP tag and cryo-electron tomography. J Biol Chem. 290: 5341-53.
  • Vasudevan KK*, Song K*, Alford LM, Sale WS, Dymek EE, Smith EF, Hennessey T, Joachimiak E, Urbanska P, Wloga D, Dentler W, Nicastro D, Gaertig J (2015) FAP206 is a microtubule-docking adapter for ciliary radial spoke 2 and dynein c. Mol Biol Cell. 26: 696-710.

2014

  • Lin J, Yin W, Smith MC, Song K, Leigh MW, Zariwala MA, Knowles MR, Ostrowski LE, Nicastro D  (2014 ) Cryo-electron tomography reveals ciliary defects underlying human RSPH1 primary ciliary dyskinesia. Nature Commun. 5: 5727
  • Abdelhakim AH, Salgado EN, Fu X, Pasham M, Nicastro D, Kirchhausen T, (2014) Structural correlates of rotavirus cell entry. PLoS Pathog. 10: E1004355.
  • Eisele DM, Arias DH, Fu X, Bloesma EA, Steiner CP, Jensen RA, Rebentrost P, Eisele H, Tokmakoff A, Lloyd S, Nelson KA, Nicastro D, Knoester J, Bawendi MG (2014) Robust excitons inhabit soft supramolecular nanotubes. PNAS 111: E3367-75.
  • Bigalke J.M., Heuser T, Nicastro D, Heldwein K.K. (2014) Membrane deformation and scission by the HSV-1 nuclear egress complex. Nature Commun. 5: 4131.
  • Linck RW, Fu X, Lin J, Ouch C, Schefter A, Steffen W, Warren P, Nicastro D (2014) Insights into the structure and function of ciliary and flagellar doublet microtubules: tektins, Ca2+-binding proteins and stable protofilaments. J Biol Chem. 289: 17427-44.
  • Lin J, Okada K, Raytchev M, Smith MC, Nicastro D (2014) Structural mechanism of the dynein powerstroke. Nature Cell Biol. 16:479-485.
  • Doroquez DB*, Berciu C*, Anderson JR, Sengupta P, Nicastro D (2014) A high-resolution morphological and ultrastructural map of anterior sensory cilia and glia in C. elegans. eLife 3:e01948.
  • Rosado M*, Barber CF*, Berciu C, Feldman S, Birren S, Nicastro D, Goode BL (2014) Critical roles for multiple formins during cardiac myofibril development and repair. Mol Biol Cell. 25: 811-27.

2013

  • Gao Y, Kuang Y, Berciu C, Nicastro D, Xu B (2013) Probing nanoscale self-assembly of nonfluorescent small molecules inside live mammalian cells. ACS Nano 7: 9055-63.
  • Becalska AN, Kelley CF, Berciu C, Stanishneva-Konovalova TB, Fu X, Wang S, Sokolova OS, Nicastro D, Rodal AA (2013) Formation of membrane ridges and scallops by the F-BAR protein Nervous Wreck. Mol Biol Cell. 24: 2406-48.
  • Yamamoto R*, Song K*, Yanagisawa H, Fox L, Yagi T, Wirschell M, Hirono M, Kamiya R, Nicastro D, Sale W (2013) The MIA complex is a conserved and novel dynein regulator essential for normal ciliary motility. J Cell Biol. 201: 263-78. 
  • Carbajal-González BI*, Heuser T*, Fu X, Lin J, Smith BW, Mitchell DR, Nicastro D (2013) Conserved structural motifs in the central pair complex of eukaryotic flagella. Cytoskeleton (Hoboken) 70: 101-20.

2012

  • Lin J, Heuser T, Song K, Fu X, Nicastro D (2012) One of the nine doublet microtubules of eukaryotic flagella exhibits unique and partially conserved structures. PloS one 7: e46494.
  • Heuser T, Dymek EE, Lin J, Smith EF, Nicastro D (2012) The CSC connects three major axonemal complexes involved in dynein regulation. Mol Biol Cell 23: 3143-55.
  • Heuser T*, Barber CF*, Lin J, Krell J, Porter ME, Nicastro D (2012) Cryo-electron tomography reveals novel interactions and doublet-specific structures in the I1 dynein. PNAS 109: E2067-76.
  • Lin J, Heuser T, Carbajal-González B, Song K, Nicastro D (2012) The structural heterogeneity of radial spokes in cilia and flagella is conserved. Cytoskeleton (Hoboken) 69: 88-100.
  • Barber CF*, Heuser T*, Carbajal-Gonzalez B, Botchkarev V, Nicastro D (2012) Three-dimensional structure of the radial spokes reveals heterogeneity and interactions with dyneins in Chlamydomonas flagella. Mol Biol Cell. 23: 111-20.
  • Gibaud T, Barry E, Zakhary M, Ward A, Berciu C, Oldenbourg R, Nicastro D, Meyer R, Dogic Z (2012) Reconfigurable self-assembly through chiral control of interfacial tension. Nature 481: 348-51.

2011

  • Nicastro D, Fu X, Heuser T, Tso A, Porter ME, Linck R (2011) Cryo-electron tomography reveals conserved features of doublet microtubules in flagella. PNAS 108: E845-853.
  • Lin J, Tritschler D, Song K, Cobb JS, Porter ME, Nicastro D (2011) Building blocks of the nexin-dynein regulatory complex in Chlamydomonas flagella. J Biol Chem. 286: 29175-29191.
  • Sanchez T, Welch D, Nicastro D, Dogic Z. (2011) Cilia-like beating of active microtubule bundles. Science 333: 456-459.
  • Gopalakrishnan J, Mennella V, Blachon S, Zhai B, Smith A, Megraw T, Nicastro D, Gygi S, Agard D, Avidor-Reiss T (2011) SAS4 scaffolds cytoplasmic complexes and tethers them in a centrosome. Nature Comm. 2: 359.
  • Dymek EE, Heuser T, Nicastro D, Smith EF (2011) The CSC is required for complete radial spoke assembly and wild-type ciliary motility. Mol Biol Cell. 22: 2520-2531.

2010

  • Daum B, Nicastro D, Austin II J, McIntosh JR, Kühlbrandt W (2010) Arrangement of photosystem II and ATP synthase in chloroplast membranes of spinach and pea. The Plant Cell. 22: 1299-1312.

2009

  • Heuser T, Raytchev M, Krell J, Porter ME, Nicastro D (2009) The dynein regulatory complex is the nexin link and a major regulatory node in cilia and flagella. J Cell Biol. 187: 921-933.
  • Nicastro D (2009) Cryo-electron microscope tomography to study axonemal organization. Methods in Cell Biology 91: 1-39. Chapter 1 in: “Cilia: Structure and Motility”; edited by Stephen M. King and Gregory J. Pazour, Academic Press.

2008

  • Grissom PM, TA, Grishchuk EL, Nicastro D, West RR, McIntosh JR (2008) Kinesin-8 from fission yeast: a heterodimeric, plus end-directed motor that can couple microtubule depolymerization to cargo movement. Mol Biol Cell. 20: 963-72.
  • Blachon S, Gopalakrishnan J, Omori Y, Polyanovsky A, Church A, Nicastro D, Malicki J, Avidor-Reiss T (2008) Drosophila asterless and vertebrate Cep152 are orthologs essential for centriole duplication. Genetics 180: 2081-94.
  • Wirschell M, Nicastro D, Porter ME and Sale WS (2008) Structural basis for regulation of flagellar motility: organization of the “dynein regulatory complex”, inter-dynein linkers and a network of axonemal kinases and phosphatases. In The Chlamydomonas Sourcebook, Vol. 3. ed., G.B. Witman.
  • Rouiller I, Xu X-P, Amann KJ, Egile C, Nickell S, Nicastro D, Li R, Pollard T, Volkmann N, Hanein D (2008) The structural basis of actin filament branching by Arp2/3 complex. J Cell Biol. 180: 887-95.

2007

  • Bostina M, Bubeck D, Schwartz C, Nicastro D, Filman DJ, Hogle JM (2007) Single particle cryoelectron tomography characterization of the structure and structural variability of poliovirus-receptor-membrane complex at 30วบ resolution. J Struct Biol. 160: 200-210.
  • Schwartz CL, Sarbash VI, Ataullakhanov FI, McIntosh JR, Nicastro D (2007) Cryo-fluorescence microscopy facilitates correlations between light and cryo-electron microscopy and reduces the rate of photobleaching. J Microsc. 227: 98-109.
  • Hoenger A and Nicastro D (2007) Electron Microscopy of Microtubule-Based Cytoskeletal Machinery. Methods in Cell Biology 79: 437-62. Chapter 17 in: “Cellular Electron Microscopy”; edited by J.R McIntosh, Academic Press.

2006

  • Nicastro D, Schwartz C, Pierson J, Gaudette R, Porter M, McIntosh JR (2006) The molecular architecture of axonemes revealed by cryoelectron tomography. Science 313: 944-8.