Comprehensive and quantitative mapping of RNA–protein interactions across a transcribed eukaryotic genome.

Richard She, Anupam K. Chakravarty, Curtis J. Layton, Lauren M. Chircus, Johan O. L. Andreasson, Nandita Damaraju, Peter L. McMahon, Jason D. Buenrostro, Daniel F. Jarosz, and William J. Greenleaf
PNAS, 2017 10.1073/pnas.1618370114

A common bacterial metabolite elicits prion-based bypass of glucose repression.
David M. Garcia, David Dietrich, Jon Clardy, and Daniel F. Jarosz
eLife, 2016 5:e17978

An Acid Tale of Prion Formation. eLIFE, 2016 5:e22256
Editor’s Choice: Bacteria Stop Fermentation with Lactic Acid. Science Signaling, 2016 9:457
How prions help yeast feast on a wide range of sugars. Stanford Scope Blog, 2016 Dec 1

Intrinsically disordered proteins drive emergence and inheritance of biological traits.
Sohini Chakrabortee*, James S. Byers*, Sandra Jones, David M. Garcia, Bhupinder Bhullar, Amelia Chang, Richard She, Laura Lee, Brayon Fremin, Susan Lindquist, and Daniel F. Jarosz
Cell, 2016 Oct 6 167:369-381

Remembering the Past: A New Form of Protein-Based Inheritance. Cell, 2016 167:302-303
Featured in Stanford Medicine News and in the Stanford Scope Blog. 2016 Oct 2
Revising the meaning of ‘prion.’ Science Daily, 2016 Oct 3

Hsp90: a global regulator of the genotype-to-phenotype map in cancers.
Daniel F. Jarosz
Advances in Cancer Research, 2015 Nov 29;129:225-47.

A conserved, prion-based bet-hedging mechanism switches cells from metabolic specialists to generalists.
Daniel F. Jarosz*, Alex K. Lancaster*, Jessica C.S. Brown, and Susan Lindquist.
Cell, 2014 Aug 28;158(5):1072-82.

Monoculture Breeds Poor Social Skills. Cell, 2014 Aug 28; 158(5):975-7

Interspecies chemical communication drives prion-based alterations of growth and survival strategies.
Daniel F. Jarosz*, Jessica C.S. Brown*, Gordon A. Walker, Manoshi S. Datta, Lloyd W. Ung, Assaf Rotem, David A. Weitz, Linda F. Bisson, and Susan Lindquist.
Cell, 2014 Aug 28;158(5):1083-93.

Pernicious pathogens or expedient elements of inheritance: the significance of yeast prions.
James S. Byers III and Daniel F. Jarosz
PLOS Pathogens DOI: 10.1371/journal.ppat.1003992 (2014)

Cryptic Variation in Morphological Evolution: HSP90 as a Capacitor for the Loss of Eyes in Cavefish.
Nicolas Rohner, Daniel F. Jarosz, Johanna E. Kowalko, Masato Yoshizawa, William R. Jeffery, Richard L. Borowsky, Susan Lindquist, and Clifford J. Tabin
Science, 13 December 2013

Research Highlight.Nature Reviews Genetics, 24 December 2013
How a Fish Unleashed Its Evolutionary Potential and Went Blind National Geographic Science Blog. 13 December 2013

Rebels with a cause: molecular features and physiological consequences of yeast prions.
David M. Garcia and Daniel F. Jarosz
FEMS Yeast Research 1567-1364 (2013)

Prions are a common mechanism of phenotypic inheritance in wild yeasts
Randal Halfmann*, Daniel F. Jarosz*, Sandra K. Jones, Amelia Chang, Alex K. Lancaster, and Susan Lindquist
Nature 482, 363-368 (2012) *Equal authorship

Faculty of 1000 “exceptional”
Research Highlights. Nature Microbiology, April 2012
Yeast find use for misfolded proteins. Science News, 24 March 2012
Propitious prions. The Scientist, 15 Febraury 2012
Prions point to a new style of evolution. New Scientist, 16 February 2012
Prion: pour le pire… et le meilleur. Science & Vie, July 2012

Hsp90 and environmental stress transform the adaptive value of natural genetic variation
Daniel F. Jarosz, and Susan Lindquist
Science 330, 1820-1824 (2010)

Seemingly unimportant mutations can foster disease. Scientific American, 17 July 2013.
Editor’s Choice. Exploiting Variation. Science Signaling, 4 January 2011.
Research Highlights. Evolution. Nature Reviews Genetics, February 2011.

Protein homeostasis and the phenotypic manifestation of genetic diversity: principles and mechanisms
Daniel F. Jarosz*, Mikko Taipale*, and Susan Lindquist
Annual Review of Genetics 44, 189-216 (2010) *Equal authorship

HSP90 at the hub of protein homeostasis: emerging mechanistic insights
Mikko Taipale*, Daniel F. Jarosz*, and Susan Lindquist
Nature Reviews Molecular Cell Biology 11, 515-528 (2010) *Equal authorship

A DinB variant reveals diverse physiological consequences of incomplete TLS extension by a Y-family DNA polymerase
Daniel F. Jarosz, Susan E. Cohen, James C. Delaney, John M. Essigmann, and Graham C. Walker
PNAS 106, 21137-21142 (2010)

UmuD2 and RecA directly modulate the mutagenic potential of the Y-family DNA polymerase DinB
Veronica G. Godoy*, Daniel F. Jarosz*, Sharotka Simon, Alexei Abyzov, Valentin Ilyin, and Graham C. Walker
Molecular Cell 28,1058-1070 (2007) *Equal authorship

Proficient and accurate bypass of persistent DNA lesions by DinB DNA polymerases
Daniel F. Jarosz, Veronica G. Godoy, and Graham C. Walker
Cell Cycle 6, 818-822 (2007)

DNA polymerase V allows bypass of toxic guanine oxidation products in vivo
William L. Neeley, Sarah Delaney, Yuriy O. Alekseyev, Daniel F. Jarosz
Journal of Biological Chemistry 282, 12741-12748 (2007)

Y-family polymerases in Escherichia coli
Daniel F. Jarosz, Penny J. Beuning, Susan E. Cohen, and Graham C. Walker
Trends in Microbiology 15, 70-77 (2007)

Characterization of E. coli translesion polymerases and their accessory factors
Penny J. Beuning, Sharotka M. Simon, Veronica G. Godoy, Daniel F. Jarosz, and Graham C. Walker
Methods in Enzymology 408, 318-339 (2006)

Y-family DNA polymerases respond to DNA damage-independent inhibition of replication fork progression
Veronica G. Godoy, Daniel F. Jarosz, Fabianne L. Walker, Lyle A. Simmons, and Graham C. Walker
EMBO Journal 25, 868-879 (2006)

A single amino acid governs enhanced activity of DNA polymerases on damaged templates
Daniel F. Jarosz*, Veronica G. Godoy*, James C. Delaney, John M. Essigmann, and Graham C. Walker
Nature, 439, 225-228 (2006) *Equal authorship

Faculty of 1000 “must read”
Common enzyme is a key player in DNA repair. HHMI Research News. January 2006.

PATENTS

Prion-based manipulation of yeast fermentation and growth
Daniel F. Jarosz, Jessica C.S. Brown, and Susan Lindquist.
August 1, 2012.

On the lighter side…

Although it began as a joke, a song I co-wrote (SOS – To the Tune of ABBA’s “SOS”) evolved over several years into a peer-reviewed paper in the ASBMB’s Journal of Biochemistry and Molecular Biology Education.