Literature DB >> 29366716

Spotiton: New features and applications.

Venkata P Dandey1, Hui Wei1, Zhening Zhang1, Yong Zi Tan2, Priyamvada Acharya3, Edward T Eng1, William J Rice1, Peter A Kahn4, Clinton S Potter2, Bridget Carragher5.   

Abstract

We present an update describing new features and applications of Spotiton, a novel instrument for vitrifying samples for cryoEM. We have used Spotiton to prepare several test specimens that can be reconstructed using routine single particle analysis to ∼3 Å resolution, indicating that the process has no apparent deleterious effect on the sample integrity. The system is now in routine and continuous use in our lab and has been used to successfully vitrify a wide variety of samples.
Copyright © 2018 Elsevier Inc. All rights reserved.

Entities:  

Keywords:  cryoEM vitrification; nanowire grids; piezo dispensing

Mesh：

Year:  2018        PMID： 29366716      PMCID： PMC6317895          DOI： 10.1016/j.jsb.2018.01.002

Source DB:  PubMed          Journal:  J Struct Biol        ISSN： 1047-8477            Impact factor:   2.867


  19 in total

1.  Shear free and blotless cryo-TEM imaging: a new method for probing early evolution of nanostructures.

Authors:  Jinkee Lee; Amitesh Saha; Sabrina Montero Pancera; Andreas Kempter; Jens Rieger; Arijit Bose; Anubhav Tripathi
Journal:  Langmuir       Date:  2012-02-22       Impact factor: 3.882

Review 2.  Retrospective on the early development of cryoelectron microscopy of macromolecules and a prospective on opportunities for the future.

Authors:  Kenneth A Taylor; Robert M Glaeser
Journal:  J Struct Biol       Date:  2008-06-19       Impact factor: 2.867

3.  A clustering approach to multireference alignment of single-particle projections in electron microscopy.

Authors:  C O S Sorzano; J R Bilbao-Castro; Y Shkolnisky; M Alcorlo; R Melero; G Caffarena-Fernández; M Li; G Xu; R Marabini; J M Carazo
Journal:  J Struct Biol       Date:  2010-03-31       Impact factor: 2.867

4.  Structural basis for the assembly and gate closure mechanisms of the Mycobacterium tuberculosis 20S proteasome.

Authors:  Dongyang Li; Hua Li; Tao Wang; Hong Pan; Gang Lin; Huilin Li
Journal:  EMBO J       Date:  2010-05-11       Impact factor: 11.598

5.  Appion: an integrated, database-driven pipeline to facilitate EM image processing.

Authors:  Gabriel C Lander; Scott M Stagg; Neil R Voss; Anchi Cheng; Denis Fellmann; James Pulokas; Craig Yoshioka; Christopher Irving; Anke Mulder; Pick-Wei Lau; Dmitry Lyumkis; Clinton S Potter; Bridget Carragher
Journal:  J Struct Biol       Date:  2009-04       Impact factor: 2.867

6.  Directed self-assembly of monodisperse phospholipid bilayer Nanodiscs with controlled size.

Authors:  I G Denisov; Y V Grinkova; A A Lazarides; S G Sligar
Journal:  J Am Chem Soc       Date:  2004-03-24       Impact factor: 15.419

7.  Addressing preferred specimen orientation in single-particle cryo-EM through tilting.

Authors:  Yong Zi Tan; Philip R Baldwin; Joseph H Davis; James R Williamson; Clinton S Potter; Bridget Carragher; Dmitry Lyumkis
Journal:  Nat Methods       Date:  2017-07-03       Impact factor: 28.547

8.  A Fast and Effective Microfluidic Spraying-Plunging Method for High-Resolution Single-Particle Cryo-EM.

Authors:  Xiangsong Feng; Ziao Fu; Sandip Kaledhonkar; Yuan Jia; Binita Shah; Amy Jin; Zheng Liu; Ming Sun; Bo Chen; Robert A Grassucci; Yukun Ren; Hongyuan Jiang; Joachim Frank; Qiao Lin
Journal:  Structure       Date:  2017-03-09       Impact factor: 5.006

9.  CTFFIND4: Fast and accurate defocus estimation from electron micrographs.

Authors:  Alexis Rohou; Nikolaus Grigorieff
Journal:  J Struct Biol       Date:  2015-08-13       Impact factor: 2.867

Review 10.  Opinion: hazards faced by macromolecules when confined to thin aqueous films.

Authors:  Robert M Glaeser; Bong-Gyoon Han
Journal:  Biophys Rep       Date:  2016-07-22
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  47 in total

1.  Structure of the Centromere Binding Factor 3 Complex from Kluyveromyces lactis.

Authors:  Phong D Lee; Hui Wei; Dongyan Tan; Stephen C Harrison
Journal:  J Mol Biol       Date:  2019-08-17       Impact factor: 5.469

2.  Current outcomes when optimizing 'standard' sample preparation for single-particle cryo-EM.

Authors:  B Carragher; Y Cheng; A Frost; R M Glaeser; G C Lander; E Nogales; H-W Wang
Journal:  J Microsc       Date:  2019-10-07       Impact factor: 1.758

3.  Cryo_fit: Democratization of flexible fitting for cryo-EM.

Authors:  Doo Nam Kim; Nigel W Moriarty; Serdal Kirmizialtin; Pavel V Afonine; Billy Poon; Oleg V Sobolev; Paul D Adams; Karissa Sanbonmatsu
Journal:  J Struct Biol       Date:  2019-07-03       Impact factor: 2.867

Review 4.  Present and Emerging Methodologies in Cryo-EM Single-Particle Analysis.

Authors:  Mengyu Wu; Gabriel C Lander
Journal:  Biophys J       Date:  2020-09-01       Impact factor: 4.033

5.  3.1 Å structure of yeast RNA polymerase II elongation complex stalled at a cyclobutane pyrimidine dimer lesion solved using streptavidin affinity grids.

Authors:  Indrajit Lahiri; Jun Xu; Bong Gyoon Han; Juntaek Oh; Dong Wang; Frank DiMaio; Andres E Leschziner
Journal:  J Struct Biol       Date:  2019-06-11       Impact factor: 2.867

6.  Cryo-EM: Ice Is Nice, but Good Ice Can Be Hard to Find.

Authors:  Edward H Egelman
Journal:  Biophys J       Date:  2020-02-01       Impact factor: 4.033

7.  Filling Adeno-Associated Virus Capsids: Estimating Success by Cryo-Electron Microscopy.

Authors:  Suriyasri Subramanian; Anna C Maurer; Carol M Bator; Alexander M Makhov; James F Conway; Kevin B Turner; James H Marden; Luk H Vandenberghe; Susan L Hafenstein
Journal:  Hum Gene Ther       Date:  2019-11-14       Impact factor: 5.695

8.  Cryo-EM Structures and Regulation of Arabinofuranosyltransferase AftD from Mycobacteria.

Authors:  Yong Zi Tan; Lei Zhang; José Rodrigues; Ruixiang Blake Zheng; Sabrina I Giacometti; Ana L Rosário; Brian Kloss; Venkata P Dandey; Hui Wei; Richard Brunton; Ashleigh M Raczkowski; Diogo Athayde; Maria João Catalão; Madalena Pimentel; Oliver B Clarke; Todd L Lowary; Margarida Archer; Michael Niederweis; Clinton S Potter; Bridget Carragher; Filippo Mancia
Journal:  Mol Cell       Date:  2020-05-07       Impact factor: 17.970

9.  Antibody Lineages with Vaccine-Induced Antigen-Binding Hotspots Develop Broad HIV Neutralization.

Authors:  Rui Kong; Hongying Duan; Zizhang Sheng; Kai Xu; Priyamvada Acharya; Xuejun Chen; Cheng Cheng; Adam S Dingens; Jason Gorman; Mallika Sastry; Chen-Hsiang Shen; Baoshan Zhang; Tongqing Zhou; Gwo-Yu Chuang; Cara W Chao; Ying Gu; Alexander J Jafari; Mark K Louder; Sijy O'Dell; Ariana P Rowshan; Elise G Viox; Yiran Wang; Chang W Choi; Martin M Corcoran; Angela R Corrigan; Venkata P Dandey; Edward T Eng; Hui Geng; Kathryn E Foulds; Yicheng Guo; Young D Kwon; Bob Lin; Kevin Liu; Rosemarie D Mason; Martha C Nason; Tiffany Y Ohr; Li Ou; Reda Rawi; Edward K Sarfo; Arne Schön; John P Todd; Shuishu Wang; Hui Wei; Winston Wu; James C Mullikin; Robert T Bailer; Nicole A Doria-Rose; Gunilla B Karlsson Hedestam; Diana G Scorpio; Julie Overbaugh; Jesse D Bloom; Bridget Carragher; Clinton S Potter; Lawrence Shapiro; Peter D Kwong; John R Mascola
Journal:  Cell       Date:  2019-07-25       Impact factor: 41.582

10.  Routine determination of ice thickness for cryo-EM grids.

Authors:  William J Rice; Anchi Cheng; Alex J Noble; Edward T Eng; Laura Y Kim; Bridget Carragher; Clinton S Potter
Journal:  J Struct Biol       Date:  2018-07-04       Impact factor: 2.867
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