David Booth, PhD
Assistant Professor
Biochemistry and Biophysics
School of Medicine

Education & Training

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• Postdoc Molecular and Cell Biology University of California 02/2020
• PhD Biophysics University of California 09/2014
• BA Biochemistry The Colorado College 05/2007

Interests

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• Evolutionary Cell Biology
• Gene Regulation

Websites

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• Booth Lab Site (biobooth.org)
• Posts on X BioBoothLab (X.com)

Grants and Projects

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• Propelling choanoflagellate genome engineering to discover the origins of animal cell differentiation, Program for Breakthrough Biomedical Research, 2021-2022
• Structural requirements for the nuclear export of HIV RNA, NIH, 2011-2014

Publications (22)

Top publication keywords:
DNA Transposable ElementsChromatinResponse ElementsRhodophytaChoanoflagellataPolysaccharidesCell PolarityIronSeptinsrev Gene Products, Human Immunodeficiency VirusReverse GeneticsPorphyraran GTP-Binding ProteinKaryopherinsHistones

• Chromatin profiling identifies putative dual roles for H3K27me3 in regulating cell type-specific genes and transposable elements in choanoflagellates.
  Nature communications 2025 Gahan JM, Helfrich LW, Wetzel LA, Bhanu NV, Yuan ZF, Garcia BA, Klose RJ, de Mendoza A, Booth DS
• A red algal polysaccharide influences the multicellular development of the choanoflagellate Salpingoeca rosetta.
  Current biology : CB 2025 Perotti ON, Viramontes-Esparza G, Booth DS
• Cell differentiation controls iron assimilation in the choanoflagellate Salpingoeca rosetta.
  mSphere 2025 Leon F, Espinoza-Esparza JM, Deng V, Coyle MC, Espinoza S, Booth DS
• Cell differentiation controls iron assimilation in a choanoflagellate.
  bioRxiv : the preprint server for biology 2024 Leon F, Espinoza-Esparza JM, Deng V, Coyle MC, Espinoza S, Booth DS
• Chromatin profiling identifies putative dual roles for H3K27me3 in regulating transposons and cell type-specific genes in choanoflagellates.
  bioRxiv : the preprint server for biology 2024 Gahan JM, Helfrich LW, Wetzel LA, Bhanu NV, Yuan ZF, Garcia BA, Klose R, Booth DS

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• A red algal polysaccharide influences the multicellular development of the choanoflagellate Salpingoeca rosetta.
  bioRxiv : the preprint server for biology 2024 Perotti O, Esparza GV, Booth DS
• An RFX transcription factor regulates ciliogenesis in the closest living relatives of animals.
  Current biology : CB 2023 Coyle MC, Tajima AM, Leon F, Choksi SP, Yang A, Espinoza S, Hughes TR, Reiter JF, Booth DS, King N
• Cell polarity in the protist-to-animal transition.
  Current topics in developmental biology 2023 Brunet T, Booth DS
• The history of Salpingoeca rosetta as a model for reconstructing animal origins.
  Current topics in developmental biology 2022 Booth DS, King N
• Rapid deployment of SARS-CoV-2 testing: The CLIAHUB.
  PLoS pathogens 2020 Crawford ED, Acosta I, Ahyong V, Anderson EC, Arevalo S, Asarnow D, Axelrod S, Ayscue P, Azimi CS, Azumaya CM, Bachl S, Bachmutsky I, Bhaduri A, Brown JB, Batson J, Behnert A, Boileau RM, Bollam SR, …
• Genome editing enables reverse genetics of multicellular development in the choanoflagellate Salpingoeca rosetta.
  eLife 2020 Booth DS, King N
• Genetic tool development in marine protists: emerging model organisms for experimental cell biology.
  Nature methods 2020 Faktorová D, Nisbet RER, Fernández Robledo JA, Casacuberta E, Sudek L, Allen AE, Ares M, Aresté C, Balestreri C, Barbrook AC, Beardslee P, Bender S, Booth DS, Bouget FY, Bowler C, Breglia SA, Brownlee…
• Predicted glycosyltransferases promote development and prevent spurious cell clumping in the choanoflagellate S. rosetta.
  eLife 2018 Wetzel LA, Levin TC, Hulett RE, Chan D, King GA, Aldayafleh R, Booth DS, Sigg MA, King N
• Transfection of choanoflagellates illuminates their cell biology and the ancestry of animal septins.
  Molecular biology of the cell 2018 Booth DS, Szmidt-Middleton H, King N
• Evolution: Gene regulation in transition.
  Nature 2016 Booth DS, King N
• A structurally plastic ribonucleoprotein complex mediates post-transcriptional gene regulation in HIV-1.
  Wiley interdisciplinary reviews. RNA 2016 Fernandes JD, Booth DS, Frankel AD
• The export receptor Crm1 forms a dimer to promote nuclear export of HIV RNA.
  eLife 2014 Booth DS, Cheng Y, Frankel AD
• Transition step during assembly of HIV Tat:P-TEFb transcription complexes and transfer to TAR RNA.
  Molecular and cellular biology 2012 D'Orso I, Jang GM, Pastuszak AW, Faust TB, Quezada E, Booth DS, Frankel AD
• Fabs enable single particle cryoEM studies of small proteins.
  Structure (London, England : 1993) 2012 Wu S, Avila-Sakar A, Kim J, Booth DS, Greenberg CH, Rossi A, Liao M, Li X, Alian A, Griner SL, Juge N, Yu Y, Mergel CM, Chaparro-Riggers J, Strop P, Tampé R, Edwards RH, Stroud RM, Craik CS, Cheng Y
• Visualizing proteins and macromolecular complexes by negative stain EM: from grid preparation to image acquisition.
  Journal of visualized experiments : JoVE 2011 Booth DS, Avila-Sakar A, Cheng Y
• HIV Rev response element (RRE) directs assembly of the Rev homooligomer into discrete asymmetric complexes.
  Proceedings of the National Academy of Sciences of the United States of America 2010 Daugherty MD, Booth DS, Jayaraman B, Cheng Y, Frankel AD
• Signal sequences activate the catalytic switch of SRP RNA.
  Science (New York, N.Y.) 2009 Bradshaw N, Neher SB, Booth DS, Walter P