Chalmers:Publications

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2013

Claeys Bouuaert C, Chalmers R. Hsmar1 Transposition Is Sensitive to the Topology of the Transposon Donor and the Target. PLoS ONE. 2013 Jan 14;8(1): e53690.

2011

Liu D, Haniford DB, Chalmers RM. H-NS mediates the dissociation of a refractory protein-DNA complex during Tn10/IS10 transposition. Nucleic Acids Res. 2011 May 11 [Epub ahead of print].

Siddique A, Buisine N, Chalmers R. The transposon-like correia elements encode numerous strong promoters and provide a potential new mechanism for phase variation in the meningococcus. PLoS Genet. 2011 Jan 20;7(1):e1001277.

Claeys Bouuaert C, Liu D, Chalmers R. A simple topological filter in a eukaryotic transposon as a mechanism to suppress genome instability. Mol Cell Biol. 2011 Jan;31(2):317-27.

2010

Atkinson H, Chalmers R. Delivering the goods: viral and non-viral gene therapy systems and the inherent limits on cargo DNA and internal sequences. Genetica. 2010 May;138(5):485-98.

Claeys Bouuaert C, Chalmers RM. Gene therapy vectors: the prospects and potentials of the cut-and-paste transposons. Genetica. 2010 May;138(5):473-84.

Claeys Bouuaert C, Chalmers R. Transposition of the human Hsmar1 transposon: rate-limiting steps and the importance of the flanking TA dinucleotide in second strand cleavage. Nucleic Acids Res. 2010 Jan;38(1):190-202.

2009

Bischerour J, Lu C, Roth DB, Chalmers R. Base flipping in V(D)J recombination: insights into the mechanism of hairpin formation, the 12/23 rule, and the coordination of double-strand breaks. Mol Cell Biol. 2009 Nov;29(21):5889-99.

Bischerour J, Chalmers R. Base flipping in tn10 transposition: an active flip and capture mechanism. PLoS One. 2009 Jul 10;4(7):e6201.

2008

Munoz-Lopez M, Siddique A, Bischerour J, Lorite P, Chalmers R, Palomeque T. Transposition of Mboumar-9: identification of a new naturally active mariner-family transposon. J Mol Biol. 2008 Oct 10;382(3):567-72.

2007

Liu D, Bischerour J, Siddique A, Buisine N, Bigot Y, Chalmers R. The human SETMAR protein preserves most of the activities of the ancestral Hsmar1 transposase. Mol Cell Biol. 2007 Feb;27(3):1125-32.

Bischerour J, Chalmers R. Base-flipping dynamics in a DNA hairpin processing reaction. Nucleic Acids Res. 2007;35(8):2584-95.

2006

Liu D, Sewitz S, Crellin P, Chalmers R. Functional coupling between the two active sites during Tn 10 transposition buffers the mutation of sequences critical for DNA hairpin processing. Mol Microbiol. 2006 Dec;62(6):1522-33.

2005

Liu D, Crellin P, Chalmers R. Cyclic changes in the affinity of protein-DNA interactions drive the progression and regulate the outcome of the Tn10 transposition reaction. Nucleic Acids Res. 2005 Apr 6;33(6):1982-92.

2004

Buisine N, Chalmers R. yBlast, a graphical front end for the standalone BLAST suite. Biotechniques. 2004 Dec;37(6):987-9.

Lipkow K, Buisine N, Chalmers R. Promiscuous target interactions in the mariner transposon Himar1. J Biol Chem. 2004 Nov 19;279(47):48569-75.

Wright JC, Hood DW, Randle GA, Makepeace K, Cox AD, Li J, Chalmers R, Richards JC, Moxon ER. lpt6, a gene required for addition of phosphoethanolamine to inner-core lipopolysaccharide of Neisseria meningitidis and Haemophilus influenzae. J Bacteriol. 2004 Oct;186(20):6970-82.

Lipkow K, Buisine N, Lampe DJ, Chalmers R. Early intermediates of mariner transposition: catalysis without synapsis of the transposon ends suggests a novel architecture of the synaptic complex. Mol Cell Biol. 2004 Sep;24(18):8301-11.

Crellin P, Sewitz S, Chalmers R. DNA looping and catalysis; the IHF-folded arm of Tn10 promotes conformational changes and hairpin resolution. Mol Cell. 2004 Feb 27;13(4):537-47.

2003

Sewitz S, Crellin P, Chalmers R. The positive and negative regulation of Tn10 transposition by IHF is mediated by structurally asymmetric transposon arms. Nucleic Acids Res. 2003 Oct 15;31(20):5868-76.

2002

Buisine N, Tang CM, Chalmers R. Transposon-like Correia elements: structure, distribution and genetic exchange between pathogenic Neisseria sp. FEBS Lett. 2002 Jul 3;522(1-3):52-8.

Tang CM, Stroud D, Mackinnon F, Makepeace K, Plested J, Moxon ER, Chalmers R. Genetic linkage analysis to identify a gene required for the addition of phosphoethanolamine to meningococcal lipopolysaccharide. Gene. 2002 Feb 6;284(1-2):133-40.

Mackinnon FG, Cox AD, Plested JS, Tang CM, Makepeace K, Coull PA, Wright JC, Chalmers R, Hood DW, Richards JC, Moxon ER. Identification of a gene (lpt-3) required for the addition of phosphoethanolamine to the lipopolysaccharide inner core of Neisseria meningitidis and its role in mediating susceptibility to bactericidal killing and opsonophagocytosis. Mol Microbiol. 2002 Feb;43(4):931-43.

2001

Crellin P, Chalmers R. Protein-DNA contacts and conformational changes in the Tn10 transpososome during assembly and activation for cleavage. EMBO J. 2001 Jul 16;20(14):3882-91.

2000

Sun YH, Bakshi S, Chalmers R, Tang CM. Functional genomics of Neisseria meningitidis pathogenesis. Nat Med. 2000 Nov;6(11):1269-73.

Chalmers R, Sewitz S, Lipkow K, Crellin P. Complete nucleotide sequence of Tn10. J Bacteriol. 2000 May;182(10):2970-2.

1998

Chalmers R, Guhathakurta A, Benjamin H, Kleckner N. IHF modulation of Tn10 transposition: sensory transduction of supercoiling status via a proposed protein/DNA molecular spring. Cell. 1998 May 29;93(5):897-908.

1996

Chalmers RM, Kleckner N. IS10/Tn10 transposition efficiently accommodates diverse transposon end configurations. EMBO J. 1996 Sep 16;15(18):5112-22.

Kleckner N, Chalmers RM, Kwon D, Sakai J, Bolland S. Tn10 and IS10 transposition and chromosome rearrangements: mechanism and regulation in vivo and in vitro. Curr Top Microbiol Immunol. 1996;204:49-82.

1995

Sakai J, Chalmers RM, Kleckner N. Identification and characterization of a pre-cleavage synaptic complex that is an early intermediate in Tn10 transposition. EMBO J. 1995 Sep 1;14(17):4374-83.

Kwon D, Chalmers RM, Kleckner N. Structural domains of IS10 transposase and reconstitution of transposition activity from proteolytic fragments lacking an interdomain linker. Proc Natl Acad Sci U S A. 1995 Aug 29;92(18):8234-8.

1994

Chalmers RM, Kleckner N. Tn10/IS10 transposase purification, activation, and in vitro reaction. J Biol Chem. 1994 Mar 18;269(11):8029-35.

1993

Fewson CA, Baker DP, Chalmers RM, Keen JN, Hamilton ID, Scott AJ, Yasin M. Relationships amongst some bacterial and yeast lactate and mandelate dehydrogenases. J Gen Microbiol. 1993 Jun;139 Pt 6:1345-52.

1991

Chalmers RM, Keen JN, Fewson CA. Comparison of benzyl alcohol dehydrogenases and benzaldehyde dehydrogenases from the benzyl alcohol and mandelate pathways in Acinetobacter calcoaceticus and from the TOL-plasmid-encoded toluene pathway in Pseudomonas putida. N-terminal amino acid sequences, amino acid compositions and immunological cross-reactions. Biochem J. 1991 Jan 1;273(Pt 1):99-107.

1990

Chalmers RM, Fewson CA. Purification and characterization of benzaldehyde dehydrogenase I from Acinetobacter calcoaceticus. Biochem J. 1989 Nov 1;263(3):913-9. Erratum in: Biochem J 1990 Feb 1;265(6):931.

1989

Chalmers RM, Fewson CA. The evolution of metabolic pathways: an immunological approach to the evolution of aromatic alcohol and aldehyde dehydrogenases. Prog Clin Biol Res. 1989;290:193-207.