Allen Buskirk

2024

B. subtilis MutS2 splits stalled ribosomes into subunits without mRNA cleavage

Park, E. N., Mackens-Kiani, T., Berhane, R., Esser, H., Erdenebat, C., Burroughs, A. M., Berninghausen, O., Aravind, L., Beckmann, R., Green, R. & Buskirk, A. R., Feb 15 2024, In: EMBO Journal. 43, 4, p. 484-506 23 p.

Research output: Contribution to journal › Article › peer-review

Open Access

Riboformer: a deep learning framework for predicting context-dependent translation dynamics

Shao, B., Yan, J., Zhang, J., Liu, L., Chen, Y. & Buskirk, A. R., Dec 2024, In: Nature communications. 15, 1, 2011.

Research output: Contribution to journal › Article › peer-review

Open Access

2023

Elongation Factor P Is Important for Sporulation Initiation

Feaga, H. A., Hong, H. R., Prince, C. R., Rankin, A., Buskirk, A. R. & Dworkin, J., Feb 2023, In: Journal of bacteriology. 205, 2

Research output: Contribution to journal › Article › peer-review

RNF14-dependent atypical ubiquitylation promotes translation-coupled resolution of RNA-protein crosslinks

Zhao, S., Cordes, J., Caban, K. M., Götz, M. J., Mackens-Kiani, T., Veltri, A. J., Sinha, N. K., Weickert, P., Kaya, S., Hewitt, G., Nedialkova, D. D., Fröhlich, T., Beckmann, R., Buskirk, A. R., Green, R. & Stingele, J., Dec 7 2023, In: Molecular cell. 83, 23, p. 4290-4303.e9

Research output: Contribution to journal › Article › peer-review

Open Access

2022

Identifying Small Open Reading Frames in Prokaryotes with Ribosome Profiling

Vazquez-Laslop, N., Sharma, C. M., Mankin, A. & Buskirk, A. R., Jan 2022, In: Journal of bacteriology. 204, 1, e00294-21.

Research output: Contribution to journal › Article › peer-review

Open Access

Ribosome collisions induce mRNA cleavage and ribosome rescue in bacteria

Saito, K., Kratzat, H., Campbell, A., Buschauer, R., Burroughs, A. M., Berninghausen, O., Aravind, L., Green, R., Beckmann, R. & Buskirk, A. R., Mar 17 2022, In: Nature. 603, 7901, p. 503-508 6 p.

Research output: Contribution to journal › Article › peer-review

Open Access

2021

Loss of n¹-methylation of g37 in trna induces ribosome stalling and reprograms gene expression

Masuda, I., Hwang, J. Y., Christian, T., Maharjan, S., Mohammad, F., Gamper, H., Buskirk, A. R. & Hou, Y. M., Aug 2021, In: eLife. 10, e70619.

Research output: Contribution to journal › Article › peer-review

Open Access

Ribosome profiling in archaea reveals leaderless translation, novel translational initiation sites, and ribosome pausing at single codon resolution

Gelsinger, D. R., Dallon, E., Reddy, R., Mohammad, F., Buskirk, A. R. & DiRuggiero, J., 2021, In: Nucleic acids research. 48, 10, p. 5201-5216 16 p.

Research output: Contribution to journal › Article › peer-review

Open Access

5 Scopus citations

2020

Molecular mechanism of translational stalling by inhibitory codon combinations and poly(A) tracts

Tesina, P., Lessen, L. N., Buschauer, R., Cheng, J., Wu, C. C. C., Berninghausen, O., Buskirk, A. R., Becker, T., Beckmann, R. & Green, R., Feb 3 2020, In: EMBO Journal. 39, 3, e103365.

Research output: Contribution to journal › Article › peer-review

Open Access

29 Scopus citations

Ribosome recycling is not critical for translational coupling in E. Coli

Saito, K., Green, R. & Buskirk, A. R., Sep 2020, In: eLife. 9, p. 1-37 37 p., e59974.

Research output: Contribution to journal › Article › peer-review

Open Access

4 Scopus citations

Translational initiation in E. Coli occurs at the correct sites genome-wide in the absence of mrna-rrna base-pairing

Saito, K., Green, R. & Buskirk, A. R., Feb 2020, In: eLife. 9, e55002.

Research output: Contribution to journal › Article › peer-review

Open Access

12 Scopus citations

2019

A systematically-revised ribosome profiling method for bacteria reveals pauses at single-codon resolution

Mohammad, F., Green, R. & Buskirk, A. R., Feb 2019, In: eLife. 8, e42591.

Research output: Contribution to journal › Article › peer-review

Open Access

35 Scopus citations

Identifying small proteins by ribosome profiling with stalled initiation complexes

Weaver, J., Mohammad, F., Buskirk, A. R. & Storz, G., Mar 1 2019, In: mBio. 10, 2, e02819-18.

Research output: Contribution to journal › Article › peer-review

Open Access

41 Scopus citations

Protocol for Ribosome Profiling in Bacteria

Mohammad, F. & Buskirk, A. R., Dec 20 2019, In: Bio-protocol. 9, 24, e3468.

Research output: Contribution to journal › Article › peer-review

Open Access

2018

Toxins that Trash Translation

Buskirk, A. R., Jun 7 2018, In: Molecular cell. 70, 5, p. 759-760 2 p.

Research output: Contribution to journal › Short survey › peer-review

Open Access

1 Scopus citations

2017

A ribosome profiling study of mRNA cleavage by the endonuclease RelE

Hwang, J. Y. & Buskirk, A. R., Jan 9 2017, In: Nucleic acids research. 45, 1, p. D327-D336

Research output: Contribution to journal › Article › peer-review

Open Access

22 Scopus citations

eIF5A Functions Globally in Translation Elongation and Termination

Schuller, A. P., Wu, C. C. C., Dever, T. E., Buskirk, A. R. & Green, R., Apr 20 2017, In: Molecular cell. 66, 2, p. 194-205.e5

Research output: Contribution to journal › Article › peer-review

Open Access

142 Scopus citations

Ribosome pausing, arrest and rescue in bacteria and eukaryotes

Buskirk, A. R. & Green, R., Mar 19 2017, In: Philosophical Transactions of the Royal Society B: Biological Sciences. 372, 1716, 20160183.

Research output: Contribution to journal › Review article › peer-review

Open Access

65 Scopus citations

2016

Clarifying the Translational Pausing Landscape in Bacteria by Ribosome Profiling

Mohammad, F., Woolstenhulme, C. J., Green, R. & Buskirk, A. R., Feb 2 2016, In: Cell Reports. 14, 4, p. 686-694 9 p.

Research output: Contribution to journal › Article › peer-review

Open Access

99 Scopus citations

2015

High-Precision analysis of translational pausing by ribosome profiling in bacteria lacking EFP

Woolstenhulme, C. J., Guydosh, N. R., Green, R. & Buskirk, A. R., Apr 7 2015, In: Cell Reports. 11, 1, p. 13-21 9 p.

Research output: Contribution to journal › Article › peer-review

Open Access

128 Scopus citations

2014

A conserved proline triplet in Val-tRNA synthetase and the origin of elongation factor P

Starosta, A. L., Lassak, J., Peil, L., Atkinson, G. C., Woolstenhulme, C. J., Virumäe, K., Buskirk, A., Tenson, T., Remme, J., Jung, K. & Wilson, D. N., 2014, In: Cell Reports. 9, 2, p. 476-483 8 p.

Research output: Contribution to journal › Article › peer-review

Open Access

20 Scopus citations

An unusual mechanism for EF-Tu activation during tmRNA-mediated ribosome rescue

Miller, M. R. & Buskirk, A. R., Feb 2014, In: RNA. 20, 2, p. 228-235 8 p.

Research output: Contribution to journal › Article › peer-review

Open Access

14 Scopus citations

Isolation of ribosome stalling motifs from random libraries

Woolstenhulme, C. J. & Buskirk, A. R., Apr 1 2014, Regulatory Nascent Polypeptides. Springer Japan, p. 225-240 16 p.

Research output: Chapter in Book/Report/Conference proceeding › Chapter

Rejection of tmRNA SmpB after GTP hydrolysis by EF-Tu on ribosomes stalled on intact mRNA

Kurita, D., Miller, M. R., Muto, A., Buskirk, A. R. & Himeno, H., Nov 1 2014, In: RNA. 20, 11, p. 1706-1714 9 p.

Research output: Contribution to journal › Article › peer-review

Open Access

8 Scopus citations

The SmpB C-terminal tail helps tmRNA to recognize and: Enter stalled ribosomes

Miller, M. R. & Buskirk, A. R., 2014, In: Frontiers in Microbiology. 5, SEP, 462.

Research output: Contribution to journal › Review article › peer-review

Open Access

6 Scopus citations

2013

eif5A promotes translation of polyproline motifs

Gutierrez, E., Shin, B. S., Woolstenhulme, C. J., Kim, J. R., Saini, P., Buskirk, A. R. & Dever, T. E., Jul 11 2013, In: Molecular cell. 51, 1, p. 35-45 11 p.

Research output: Contribution to journal › Article › peer-review

Open Access

244 Scopus citations

Getting past polyproline pauses

Buskirk, A. R. & Green, R., Jan 4 2013, In: Science. 339, 6115, p. 38-39 2 p.

Research output: Contribution to journal › Review article › peer-review

12 Scopus citations

Nascent peptides that block protein synthesis in bacteria

Woolstenhulme, C. J., Parajuli, S., Healey, D. W., Valverde, D. P., Petersen, E. N., Starosta, A. L., Guydosh, N. R., Johnson, W. E., Wilson, D. N. & Buskirk, A. R., Mar 5 2013, In: Proceedings of the National Academy of Sciences of the United States of America. 110, 10, p. E878-E887

Research output: Contribution to journal › Article › peer-review

Open Access

99 Scopus citations

2011

The role of SmpB and the ribosomal decoding center in licensing tmRNA entry into stalled ribosomes

Miller, M. R., Liu, Z., Cazier, D. J., Gebhard, G. M., Herron, S. R., Zaher, H. S., Green, R. & Buskirk, A. R., Sep 2011, In: RNA. 17, 9, p. 1727-1736 10 p.

Research output: Contribution to journal › Article › peer-review

Open Access

21 Scopus citations

2010

rRNA mutations that inhibit transfer-messenger RNA activity on stalled ribosomes

Crandall, J., Rodriguez-Lopez, M., Pfeiffer, M., Mortensen, B. & Buskirk, A., Jan 2010, In: Journal of bacteriology. 192, 2, p. 553-559 7 p.

Research output: Contribution to journal › Article › peer-review

6 Scopus citations

2009

Can reaction mechanisms be proven?

Buskirk, A. & Baradaran, H., May 2009, In: Journal of Chemical Education. 86, 5, p. 551-559 9 p.

Research output: Contribution to journal › Article › peer-review

Open Access

12 Scopus citations

Genetic identification of nascent peptides that induce ribosome stalling

Tanner, D. R., Cariello, D. A., Woolstenhulme, C. J., Broadbent, M. A. & Buskirk, A. R., Dec 11 2009, In: Journal of Biological Chemistry. 284, 50, p. 34809-34818 10 p.

Research output: Contribution to journal › Article › peer-review

Open Access