The Karbstein Lab
The Karbstein Lab - Publications
Publications
- Yang, Y-M. & Karbstein, K. (in revision) The chaperone Tsr2 regulates Rps26 release and reincorporation from mature ribosomes to enable a reversible, ribosome-mediated response to stress. bioRxiv https://doi.org/10.1101/2021.04.05.438496
- Liu, X., Huang, H. & Karbstein, K. (submitted) Blocking a dead-end assembly pathway creates a point of regulation for the DEAD-box ATPase Has1 and prevents platform misassembly. bioRxiv https://doi.org/10.1101/2021.09.06.459192
- Huang, H. & Karbstein, K. (2021) Assembly factors chaperone rRNA folding by isolating helical junctions that are prone to misfolding. Proceedings of the National Academy of Sciences 118(25):e2101164118.
- Rai, J.*, Parker, M.P.*, Huang, H., Choy, S. Ghalei, H., Johnson, M.C., Karbstein, K. & Stroupe, M.E. (2021) An open interface in the pre-80S ribosome coordinated by ribosome assembly factors Tsr1 and Dim1 enables temporal regulation of Fap7. RNA 27(2): 221-233.
- Huang, H., Ghalei, H & Karbstein, K. (2020) Quality control during head assembly ensures scanning competence J Cell Biol. 219(11):e202004161.
- Rai, J.*, Parker, M.P.*, Huang, H., Choy, S., Ghalei, H., Johnson, M.C., Karbstein, K. & Stroupe, M.E. (submitted) Subunit joining exposes nascent pre-40S rRNA for processing and quality control. bioRxiv, doi
- Parker, M.P., Collins, J.C., Korona, B., Ghalei, H & Karbstein, K. (2019) A kinase-dependent checkpoint prevents escape of immature ribosomes into the translating pool. PLoS Biology 17(12):e3000329. PMID:31834877
- Yin, Z., Liu, X., Jin, M, Ariosa, A., Huang, H., Karbstein, K. & Klionsky, D. (2019) Psp2, a novel regulator of autophagy that promotes autophagy-related protein translation. Cell Research; PMID: 31666677
- Karbstein, K. (2019) Mitochondria teach ribosome assembly. Science 365(6458),1077-78. PMID: 31515371
- Khoshnevis, S., Dattolo, M.D. & Karbstein, K. (2019) Rrp5 Establishes a Checkpoint for 60S Assembly During 40S Maturation to Ensure Balanced Levels of Ribosomal Subunits for Translational Control. RNA 25(9)1164-1176. PMID: 31217256.
- Ferretti, M.B. & Karbstein, K. (2019) Does Functional Specialization of Ribosomes Really Exist? RNA 25, 521-538. PMID:30733326
- Karbstein, K. (2018) Responsible Peer Review. ACS Chemical Biology 13(12)3217-18. PMID: 30993984
- Collins, J.C.*, Ghalei, H.*, Doherty, J.R., Culver, R.N. & Karbstein, K. (2018) Quality Control During Small Ribosomal Subunit Maturation: Ltv1 Chaperones Assembly of the Head. J Cell Biol. 217(12): 4141-4154. PMID: 30348748
- Ferretti, M.B., Barre, J.L. & Karbstein, K. (2018) Translational Reprogramming Provides a Blueprint for Cellular Adaptation. Cell Chem. Biol. 25(11)1372-79. PMID: 3017431
- Ferretti, M.B., Ghalei, H., Ward, E.A., Potts, E.L., and Karbstein, K.* (2017). Rps26 directs mRNA-specific translation by recognition of Kozak sequence elements. NSMB in the press
- Ghalei, H., Trepreau, J., Collins, J.C., Bhaskaran, H., Strunk, B.S. and Karbstein, K. (2017) The ATPase Fap7 Tests the Ability to Carry Out Translocation-Like Conformational Changes and Releases Dim1 During 40S Ribosome Maturation. Mol. Cell PMID: 28890337
- Johnson, M.C., Ghalei, H., Doxtader, K.A., Karbstein, K., Stroupe, M.E. (2017) Structural heterogeneity in Pre-40S Ribosomes Structure. 2017 25(2):329-340. PMCID: PMC5314460. [Preview by Hartwick & Wimberly (2017) Structure 25(2)].
- Khoshnevis, S., Askenazy, I., Johnson, M.C., Dattolo, M.D., Young-Erdos, C.L., Stroupe, M.E. & Karbstein, K. The DEAD-box protein Rok1 Orchestrates 40S and 60S Ribosome Assembly by Promoting the Release of Rrp5 from Pre-40S Ribosomes to Allow for 60S Maturation. PLoS Biol. 2016 Jun 9;14(6):e1002480. doi: 10.1371/journal.pbio.1002480. eCollection 2016 Jun. PMCID: PMC4900678
- Karbstein, K.*, What Will the Future Hold? RNP quality Control and Degradation. (2015) RNA 21(4):657-658. PMCID: PMC4371321
- De la Cruz, J.*, Karbstein, K.* and Woolford, J.L.*, Functions of Ribosomal Proteins in Assembly of Eukaryotic Ribosomes In Vivo. (2015) Annual Reviews Biochemistry 84: 93-129 * corresponding authors. PMCID: PMC4772166
- Tyagi R., Shahani N., Gorgen L., Ferretti M., Pryor W., Chen P.Y., Swarnkar S., Worley P.F., Karbstein, K., Snyder, S.H., Subramaniam, S. Rheb Inhibits Protein Synthesis by Activating the PERK-elF2α Signaling Cascade. (2015) Cell Rep orts 10(5) 684-693. PMCID: PMC4524804
- Ghalei, H., Schaub, F.X., Doherty, J.R., Noguchi, Y., Roush, W.R., Cleveland, J.L., Stroupe, M.E. & Karbstein, K. (2015). Hrr25/CK1d-directed release of Ltv1 from pre-40S ribosomes is necessary for ribosome assembly and cell growth. Journal of Cell Biology 208(6):745-59. PMCID: PMC4362465
- Young CL, Khoshnevis S, Karbstein K. (2013) Cofactor-dependent specificity of a DEAD-box protein, Proc Natl Acad Sci USA. PMCID: PMC3718167
- Karbstein, K. (2013) Quality control mechanisms during ribosome maturation, Trends Cell Biol. 23(5): 242-50. PMCID: PMC3640646
- Strunk B.S., Karbstein K. (2012) A translation-like cycle is a quality for control checkpoint for maturing 40S ribosome subunits, Cell 150, 111-121. PMCID: PMC3615461
- Young C.L., Karbstein K. (2012) Analysis of cofactor effects on RNA helicases. Methods in Enzymology 511: 213-37.
- Karbstein K. (2011) Inside the 40S ribosome assembly machinery. Curr Opin Chem Biol. Oct;15(5) 657-63. PMCID: PMC3329787
- Horn DM, Mason SL, Karbstein K. (2011) RCL1, a novel nuclease for 18S rRNA production. J Biol Chem. PMCID: PMC3190816
- Strunk BS, Loucks CR, Su M, Vashisth H, Cheng S, Schilling J, Brooks CL 3rd, Karbstein K, Skiniotis G. (2011) Ribosome Assembly Factors Prevent Premature Translation Initiation by 40S Assembly Intermediates. Science.
- Young, C.L. and Karbstein, K (2011) The Roles of S1 RNA-Binding Domains in Rrp5’s Interactions with pre-rRNA. RNA 17, 512-521. PMCID: PMC3039150
- Campbell, M.G. and Karbstein, K. (2011) Protein - Protein Interactions within Late Pre-40S Ribosomes. PloS ONE 6, e16194
- Woolls, H., Lamanna, A.C. and Karbstein, K. (2010) Roles of DIM2 Ribosome Assembly. J. Biol. Chem. 286, 2578-2586. PMCID: PMC3024753
- Lamanna, A.C. and Karbstein, K. (2011) An RNA Conformational Switch Regulates Pre-18S rRNA Cleavage. J. Mol. Biol. 405, 3-17
- Karbstein, K. (2010) Chaperoning Ribosome Assembly. J. Cell Biol. 181, 11-12.
- Strunk, B.S. and Karbstein, K. (2009) Powering Through Ribosome Assembly. RNA 15, 2083-2104.
- Lamanna, A.C. and Karbstein, K. (2009) Nob1 Binds the Single-Stranded Cleavage Site D at the 3’-end of 18S rRNA with its PIN Domain. Proceedings of the National Academy of Sciences USA 106, 14259-14264. PMCID: PMC3006654
- Karbstein, K. (2009) Eukaryotic Ribosome Assembly. Wiley Encyclopedia of Chemical Biology 4, 222-230.
- Karbstein, K. (2007) GTPases in Ribosome Assembly. Biopolymers 87, 1-11.
- Karbstein, K., Lee, J. and Herschlag, D. (2007) Probing the Role of a Secondary Structure Element at the 5’- and 3’- Splice Sites in Group I Intron Self-Splicing: The Tetrahymena L-16 ScaI Ribozyme Reveals a new Role of the G.UPair in Self-Splicing. Biochemistry 46, 4861-4875.
- Karbstein, K. and Doudna, J.A. (2006) GTP-dependent Formation of a Ribonucleoprotein Subcomplex Required for Ribosome Biogenesis. Journal of Molecular Biology 356, 432-443.
- Karbstein, K., Jonas, S. and Doudna, J.A. (2005) An Essential GTPase Promotes Assembly of Ribosomal Processing Complexes. Molecular Cell 20, 633-643. [Preview by Dutca & Culver Molecular Cell 20, 497livepage.apple.com-499]
- Karbstein, K. and Doudna (2004) RNA: Primed for Packing? Chemistry & Biology 11, 149-151.
- Karbstein, K., Tang, K.H. and Herschlag, D. (2004) A Base Triple in the Tetrahymena Group I Core Affects the Reaction Equilibrium via a Threshold Effect. RNA 10, 1730-1739.
- Karbstein, K. and Herschlag, D. (2003) Extraordinarily Slow Binding of Guanosine to the TetrahymenaGroup I Ribozyme: Imlications for RNA Preorganization and Function. Proceedings of the National Academy of Sciences 100, 2300-2305.
- Karbstein, K., Carroll, K.S. and Herschlag, D. (2002) Probing the Tetrahymena Group I Ribozyme Reaction in Both Directions. Biochemistry 41, 11171-11183.
- Wang, S.L., Karbstein, K., Peracchi, A., Beigelman, L. and Herschlag, D. (1999) Identification of the Hammerhead Ribozyme Metal Ion Bindng Site that Rescues the Deleterious Effect of a cleavage Site Phosphorothioate. Biochemistry 38, 14363-14378.
Announcements
Yan-Zhu Hsieh joins the lab as a rotating graduate student! Welcome Yan-Zhu!
Haina and Xin present their work at the annual RNA Society Meeting. View their talks!
Congratulations: Haina's paper, "Assembly factors chaperone rRNA folding by isolating helical junctions that are prone to misfolding." Has been accepted at the Proceedings of the National Acadamies of Science.
Ebba Blomqvist joins the lab as a technician! Welcome Ebba!
Congratulations: Melissa won the best poster award at the Scripps Research Community Symposium. You can see her poster here.
Congratulations: Haina's paper, “Quality control of 40S ribosome head assembly ensures scanning competence” has been accepted to the Journal of Cell Biology!
Haina and Yoon-Mo present their work at the annual RNA society meeting. View their talks here!
Congratulations: Yoon-Mo Yang wins a NIH F32 Kirschstein Research Award!
Congratulations: Melissa’s paper is accepted!
Congratulations: Haina wins Best Poster at the Scripps Research Fest!
Congratulations: Melissa wins second Place for a talk at the Scripps Research Fest!
Postdoctoral Associate Yoon-Mo Yang joins the lab! Welcome Yoon-Mo!
