2024

45. Enhanced Golden Gate Assembly: evaluating overhang strength for improved ligation efficiency

Patryk Strzelecki*, Nicolas Joly*, Pascal Hébraud, Elise Hoffmann, Grzegorz M Cech, Anna Kloska, Florent Busi, Wilfried Grange. (*co-first author)

Nucleic Acids Research, 2024;  https://doi-org.insb.bib.cnrs.fr/10.1093/nar/gkae809

44. Microtubule-binding domains in Katanin p80 subunit are essential for severing activity in C. elegans.

Beaumale E, Van Hove L, Pintard L, Joly N.

J Cell Biol. 2024 Apr 1;223(4):e202308023. doi: 10.1083/jcb.202308023. Epub 2024 Feb 8. PMID: 38329452

2022

43. Cortical microtubule pulling forces contribute to the union of the parental genomes in the C. elegans zygote.

Griselda Velez-Aguilera, Batool Ossareh-Nazari, Lucie Van Hove, Nicolas Joly, Lionel Pintard 

Elife. 2022 Mar 8;11:e75382. doi: 10.7554/eLife.75382

2021

42. A survey of the kinome pharmacopeia reveals multiple scaffolds and targets for the development of novel anthelmintics.

Knox J, Joly N, Linossi EM, Carmona-Negrón JA, Jura N, Pintard L, Zuercher W, Roy PJ.

Sci Rep. 2021 Apr 28;11(1):9161. doi: 10.1038/s41598-021-88150-6. PMID: 33911106

41. Bora phosphorylation substitutes in trans for T-loop phosphorylation in Aurora A to promote mitotic entry.

Tavernier N, Thomas Y, Vigneron S, Maisonneuve P, Orlicky S, Mader P, Regmi SG, Van Hove L, Levinson NM, Gasmi-Seabrook G, Joly N, Poteau M, Velez-Aguilera G, Gavet O, Castro A, Dasso M, Lorca T, Sicheri F, Pintard L. 

Nat Commun. 2021 Mar 26;12(1):1899. doi: 10.1038/s41467-021-21922-w. PMID: 33771996

2020

40.PLK-1 promotes the merger of the parental genome into a single nucleus by triggering lamina disassembly.

Velez-Aguilera G, Nkombo Nkoula S, Ossareh-Nazari B, Link J, Paouneskou D, Van Hove L, Joly N, Tavernier N, Verbavatz JM, Jantsch V, Pintard L.

Elife. 2020 Oct 8;9:e59510. doi: 10.7554/eLife.59510. PMID: 33030429

39.Phosphorylation of the microtubule-severing AAA+ enzyme Katanin regulates C. elegans embryo development.

Joly N, Beaumale E, Van Hove L, Martino L, Pintard L.

J Cell Biol. 2020 Jun 1;219(6):e201912037. doi: 10.1083/jcb.201912037.PMID: 32412594

2017

38. Channel Nucleoporins Recruit PLK-1 to Nuclear Pore Complexes to Direct Nuclear Envelope Breakdown in C. elegans.

Martino L, Morchoisne-Bolhy S, Cheerambathur DK, Van Hove L, Dumont J, Joly N, Desai A, Doye V, Pintard L.

Dev Cell. 2017 Oct 23;43(2):157-171.e7. doi: 10.1016/j.devcel.2017.09.019. PMID: 29065307

37. Guanine glycation repair by DJ-1/Park7 and its bacterial homologs.

Richarme G, Liu C, Mihoub M, Abdallah J, Leger T, Joly N, Liebart JC, Jurkunas UV, Nadal M, Bouloc P, Dairou J, Lamouri A.

Science. 2017 Jun 8. pii: eaag1095. doi: 10.1126/science.aag1095. [Epub ahead of print] PMID: 28596309

2016

36. Microtubule-severing activity of AAA-ATPase Katanin is essential for female meiotic spindle assembly.

Joly N, Martino L, Gigant E, Dumont J, Pintard L.

Development. 2016 Oct 1;143(19):3604-3614. PMID: 27578779 DOI: 10.1242/dev.140830

35. Cdk1 Phosphorylates SPAT-1/Bora to Promote Plk1 Activation in C. elegans and Human Cells.

Thomas Y, Cirillo L, Panbianco C, Martino L, Tavernier N, Schwager F, Van Hove L, Joly N, Santamaria A, Pintard L, Gotta M.

Cell Rep. 2016 Apr 5. pii: S2211-1247(16)30320-5. doi: 10.1016/j.celrep.2016.03.049.

2015

34. In vitro and in vivo methodologies for studying the sigma 54-dependent transcription.

Buck M, Engl C, Joly N, Jovanovic G, Jovanovic M, Lawton E, McDonald C, Schumacher J, Waite C, Zhang N.

Methods Mol Biol. 2015;1276:53-79.

2014

33. Molecular basis of nucleotide-dependent substrate engagement and remodeling by an AAA+ activator.

Darbari VC, Lawton E, Lu D, Burrows PC, Wiesler S, Joly N, Zhang N, Zhang X, Buck M.

Nucleic Acids Res. 2014 Jul 25.

32. Determination of the self-association residues within a Homomeric and a Heteromeric AAA+Enhancer Binding Protein.

Lawton E, Jovanovic M, Joly N, Waite C, Zhang N, Wang B, Burrows P, Buck M.

J Mol Biol. 2014 Apr 17;426(8):1692-710.

31. Subunit Dynamics and Nucleotide-Dependent Asymmetry of an AAA+ Transcription Complex.

Zhang N, Gordiyenko Y, Joly N, Lawton E, Robinson CV, Buck M.

J Mol Biol. 2014 Jan 9;426(1):71-83. 

2013

30. Mfd as a central partner of transcription coupled repair.

Monnet J, Grange W, Strick TR, Joly N.

Transcription. 2013. 4(3).

29. A key hydrophobic patch identified in an AAA⁺ protein essential for its in trans inhibitory regulation.

Zhang N, Simpson T, Lawton E, Uzdavinys P, Joly N, Burrows P, Buck M.

J. Mol. Biol. 2013 425(15):2656-69.

2012

28. Initiation of transcription-coupled repair characterized at single-molecule resolution.

Howan K, Smith AJ, Westblade LF, Joly N, Grange W, Zorman S, Darst SA, Savery NJ, Strick TR.

Nature. 2012 Sep 9. doi: 10.1038/nature11430. 

27. ATPase Site Architecture Is Required for Self-Assembly and Remodeling Activity of a Hexameric AAA+ Transcriptional Activator. 

Joly N, Zhang N, Buck M.

Mol Cell. 2012 Jul 10. 

26. A common feature from different subunits of a homomeric AAA+ protein contacts three spatially distinct transcription elements.

Zhang N, Joly N, Buck M.

Nucleic Acids Res. 2012 Jul 5.

25. The ABC transporter MalFGK(2) sequesters the MalT transcription factor at the membrane in the absence of cognate substrate.

Richet E, Davidson AL, Joly N.

Mol Microbiol. 2012 Jun 20. doi: 10.1111/j.1365-2958.2012.08137.x. 

2011

24. Engineering modular and orthogonal genetic logic gates for robust digital-like synthetic biology.

Wang B, Kitney RI, Joly N, Buck M.

Nat Commun. 2011 Oct 18;2:508. doi: 10.1038/ncomms1516. PMID: 22009040 

23. Coupling AAA protein function to regulated gene expression.

Joly N, Zhang N, Buck M, Zhang X.

Biochim Biophys Acta. 2011 Aug 31.

22. Single chain forms of the enhancer binding protein PspF provide insights into geometric requirements for gene activation.

Joly N, Buck M.

J Biol Chem. 2011 Apr 8;286(14):12734-42.

2010

21. Managing membrane stress: the phage shock protein (Psp) response, from molecular mechanisms to physiology.

Joly N, Engl C, Jovanovic G, Huvet M, Toni T, Sheng X, Stumpf MP, Buck M.

FEMS Microbiol Rev. 2010 Sep;34(5):797-827. Review.

20. A prehydrolysis state of an AAA+ ATPase supports transcription activation of an enhancer-dependent RNA polymerase.

Burrows PC, Joly N, Buck M.

Proc Natl Acad Sci U S A. 2010 May 18;107(20):9376-81. Epub 2010 May 3.

19. Engineered interfaces of an AAA+ ATPase reveal a new nucleotide-dependent coordination mechanism.

Joly N, Buck M.

J Biol Chem. 2010 May 14;285(20):15178-86.

2009

18. A lower-order oligomer form of phage shock protein A (PspA) stably associates with the hexameric AAA(+) transcription activator protein PspF for negative regulation.

Joly N, Burrows PC, Engl C, Jovanovic G, Buck M.

J Mol Biol. 2009 Dec 11;394(4):764-75.

17. The role of the conserved phenylalanine in the sigma54-interacting GAFTGA motif of bacterial enhancer binding proteins.

Zhang N, Joly N, Burrows PC, Jovanovic M, Wigneshweraraj SR, Buck M.

Nucleic Acids Res. 2009 Oct;37(18):5981-92.

16. Comparative analysis of activator-Esigma54 complexes formed with nucleotide-metal fluoride analogues.

Burrows PC, Joly N, Nixon BT, Buck M.

Nucleic Acids Res. 2009 Aug;37(15):5138-50.

15. Coupling sigma factor conformation to RNA polymerase reorganisation for DNA melting.

Burrows PC, Joly N, Cannon WV, Cámara BP, Rappas M, Zhang X, Dawes K, Nixon BT, Wigneshweraraj SR, Buck M.

J Mol Biol. 2009 Mar 27;387(2):306-19.

2008

14. Visualizing the organization and reorganization of transcription complexes for gene expression.

Burrows PC, Wigneshweraraj S, Bose D, Joly N, Schumacher J, Rappas M, Pape T, Stockley PG, Zhang X, Buck M.

Biochem Soc Trans. 2008 Aug;36(Pt 4):776-9.

13. Mechanism of homotropic control to coordinate hydrolysis in a hexameric AAA+ ring ATPase.

Schumacher J, Joly N, Claeys-Bouuaert IL, Aziz SA, Rappas M, Zhang X, Buck M.

J Mol Biol. 2008 Aug 1;381(1):1-12.

12. Modus operandi of the bacterial RNA polymerase containing the sigma54 promoter-specificity factor.

Wigneshweraraj S, Bose D, Burrows PC, Joly N, Schumacher J, Rappas M, Pape T, Zhang X, Stockley P, Severinov K, Buck M.

Mol Microbiol. 2008 May;68(3):538-46. Review.

11. An intramolecular route for coupling ATPase activity in AAA+ proteins for transcription activation.

Joly N, Burrows PC, Buck M.

J Biol Chem. 2008 May 16;283(20):13725-35.

10. Dissecting the ATP hydrolysis pathway of bacterial enhancer-binding proteins.

Bose D, Joly N, Pape T, Rappas M, Schumacher J, Buck M, Zhang X.

Biochem Soc Trans. 2008 Feb;36(Pt 1):83-8. Review.

9. Trapping of a transcription complex using a new nucleotide analogue: AMP aluminium fluoride.

Joly N, Rappas M, Buck M, Zhang X.

J Mol Biol. 2008 Feb 1;375(5):1206-11.

2007

8. Coupling nucleotide hydrolysis to transcription activation performance in a bacterial enhancer binding protein.

Joly N, Rappas M, Wigneshweraraj SR, Zhang X, Buck M.

Mol Microbiol. 2007 Nov;66(3):583-95.

7. Sensor I threonine of the AAA+ ATPase transcriptional activator PspF is involved in coupling nucleotide triphosphate hydrolysis to the restructuring of sigma 54-RNA polymerase.

Schumacher J, Joly N, Rappas M, Bradley D, Wigneshweraraj SR, Zhang X, Buck M.

J Biol Chem. 2007 Mar 30;282(13):9825-33.

2006

6. A second paradigm for gene activation in bacteria.

Buck M, Bose D, Burrows P, Cannon W, Joly N, Pape T, Rappas M, Schumacher J, Wigneshweraraj S, Zhang X.

Biochem Soc Trans. 2006 Dec;34(Pt 6):1067-71.

5. Heterogeneous nucleotide occupancy stimulates functionality of phage shock protein F, an AAA+ transcriptional activator.

Joly N, Schumacher J, Buck M.

J Biol Chem. 2006 Nov 17;281(46):34997-5007.

4. Structures and organisation of AAA+ enhancer binding proteins in transcriptional activation.

Schumacher J, Joly N, Rappas M, Zhang X, Buck M.

J Struct Biol. 2006 Oct;156(1):190-9. Review.

2005

3. Two domains of MalT, the activator of the Escherichia coli maltose regulon, bear determinants essential for anti-activation by MalK.

Richet E, Joly N, Danot O.

J Mol Biol. 2005 Mar 18;347(1):1-10. 

2004

2. MalK, the ATP-binding cassette component of the Escherichia coli maltodextrin transporter, inhibits the transcriptional activator malt by antagonizing inducer binding.

Joly N, Böhm A, Boos W, Richet E.

J Biol Chem. 2004 Aug 6;279(32):33123-30. Erratum in: J Biol Chem. 2004 Oct 15;279(42):44229. 

2002

1. The Aes protein directly controls the activity of MalT, the central transcriptional activator of the Escherichia coli maltose regulon.

Joly N, Danot O, Schlegel A, Boos W, Richet E.

J Biol Chem. 2002 May 10;277(19):16606-13.

Book chapter

The mechanism basis of nif gene activation.

Wigneshweraraj S, Burrows PC, Bose D, Cannon W, Joly N, Rappas M, Schumacher J, Zhang X and Buck M.

Book. F.D. Dakora et al. (eds.), Biological Nitrogen Fixation: Towards Poverty Alleviation through Sustainable Agriculture. Springer Science + Business Media B.V.(2008)