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Our Science – Jin Website

Ding J. Jin, Ph.D.

Selected Publications

1)  Zhou YN, Jin DJ.
The rpoB mutants destabilizing initiation complexes at stringently controlled promoters behave like.
Proc Natl Acad Sci U S A. 95: 2908-13, 1998.
2)  Sukhodolets MV, Cabrera JE, Zhi H, Jin DJ.
RapA, a bacterial homolog of SWI2/SNF2, stimulates RNA polymerase recycling in transcription.
Genes Dev. 15: 3330-41, 2001.
3)  Cabrera JE, Jin DJ.
The distribution of RNA polymerase in Escherichia coli is dynamic and sensitive to environmental cues.
Mol Microbiol. 50: 1493-505, 2003.
4)  Yang ZX, Zhou YN, Yang Y, Jin DJ.
Polyphosphate binds to the principal sigma factor of RNA polymerase during starvation response in Helicobacter pylori.
Mol Microbiol. 77: 618-27, 2010.
5)  Jin DJ, Cagliero C, Zhou YN.
Role of RNA polymerase and transcription in the organization of the bacterial nucleoid.
Chem. Rev. 113: 8662-82, 2013.
6)  Parks AR, Court C, Lubkowska L, Jin DJ, Kashlev M, Court DL.
Bacteriophage ? N protein inhibits transcription slippage by Escherichia coli RNA polymerase.
Nucleic Acids Res. [Epub ahead of print], 2014.
7)  Cagliero C, Jin DJ.
Dissociation and re-association of RNA polymerase with DNA during osmotic stress response in Escherichia coli.
Nucleic Acids Res. 41: 315-26, 2013.
8)  Cagliero C, Grand RS, Jones MB, Jin DJ, O'Sullivan JM.
Genome conformation capture reveals that the Escherichia coli chromosome is organized by replication and transcription.
Nucleic Acids Res. 41: 6058-71, 2013.
9)  Zhou YN, Lubkowska L, Hui M, Court C, Chen S, Court DL, Strathern J, Jin DJ, Kashlev M.
Isolation and characterization of RNA polymerase rpoB mutations that alter transcription slippage during elongation in Escherichia coli.
J. Biol. Chem. 288: 2700-10, 2013.
10)  Strathern J, Malagon F, Irvin J, Gotte D, Shafer B, Kireeva M, Lubkowska L, Jin DJ, Kashlev M.
The fidelity of transcription: RPB1 (RPO21) mutations that increase transcriptional slippage in S. cerevisiae.
J. Biol. Chem. 288: 2689-99, 2013.
11)  Jin DJ, Cagliero C, Zhou YN.
Growth rate regulation in Escherichia coli.
FEMS Microbiol. Rev. 36: 269-87, 2012.
12)  Strathern JN, Jin DJ, Court DL, Kashlev M.
Isolation and characterization of transcription fidelity mutants.
Biochim Biophys Acta. 1819: 694-699, 2012.
13)  Hansen AM, Jin DJ.
SspA up-regulates gene expression of the LEE pathogenicity island by decreasing H-NS levels in enterohemorrhagic Escherichia coli.
BMC Microbiol. 12: 231, 2012.
14)  Jin DJ, Zhou YN, Shaw G, Ji X.
Structure and function of RapA: a bacterial Swi2/Snf2 protein required for RNA polymerase recycling in transcription.
Biochim. Biophys. Acta. 1809: 470-5, 2011.
15)  Cabrera JE, Cagliero C, Quan S, Squires CL, Jin DJ.
Active transcription of rRNA operons condenses the nucleoid in Escherichia coli: examining the effect of transcription on nucleoid structure in the absence of transertion.
J. Bacteriol. 191: 4180-5, 2009.
16)  Zhou YN, Coleman WG, Yang Z, Yang Y, Hodgson N, Chen F, Jin DJ.
Regulation of cell growth during serum starvation and bacterial survival in macrophages by the bifunctional enzyme SpoT in Helicobacter pylori.
J. Bacteriol. 190: 8025-32, 2008.
17)  Shaw G, Gan J, Zhou YN, Zhi H, Subburaman P, Zhang R, Joachimiak A, Jin DJ, Ji X.
Structure of RapA, a Swi2/Snf2 Protein that Recycles RNA Polymerase During Transcription.
Structure. 16: 1417-27, 2008.
18)  Durfee T, Hansen AM, Zhi H, Blattner FR, Jin DJ.
Transcription profiling of the stringent response in Escherichia coli.
J. Bacteriol. 190: 1084-96, 2008.
19)  Norris V, den Blaauwen T, Cabin-Flaman A, Doi RH, Harshey R, Janniere L, Jimenez-Sanchez A, Jin DJ, Levin PA, Mileykovskaya E, Minsky A, Saier M, Skarstad K.
Functional taxonomy of bacterial hyperstructures.
Microbiol. Mol. Biol. Rev. 71: 230-53, 2007.
20)  Norris V, den Blaauwen T, Doi RH, Harshey RM, Janniere L, Jiménez-Sánchez A, Jin DJ, Levin PA, Mileykovskaya E, Minsky A, Misevic G, Ripoll C, Saier M, Skarstad K, Thellier M.
Toward a hyperstructure taxonomy.
Annu. Rev. Microbiol. 61: 309-29, 2007.
21)  Wickstrum JR, Skredenske JM, Kolin A, Jin DJ, Fang J, Egan SM.
Transcription activation by the DNA-binding domain of the AraC family protein RhaS in the absence of its effector-binding domain.
J. Bacteriol. 189: 4984-93, 2007.
22)  Cabrera JE, Jin DJ.
Active transcription of rRNA operons is a driving force for the distribution of RNA polymerase in bacteria: effect of extrachromosomal copies of rrnB on the in vivo localization of RNA polymerase.
J. Bacteriol. 188: 4007-14, 2006.
23)  Jin DJ, Cabrera JE.
Coupling the distribution of RNA polymerase to global gene regulation and the dynamic structure of the bacterial nucleoid in Escherichia coli.
J Struct Biol. 156: 284-91, 2006.
24)  Xu M, Zhou YN, Goldstein BP, Jin DJ.
Cross-resistance of Escherichia coli RNA polymerases conferring rifampin resistance to different antibiotics.
J Bacteriol. 187: 2783-92, 2005.
25)  Liu M, Durfee T, Cabrera JE, Zhao K, Jin DJ, Blattner FR.
Global transcriptional programs reveal a carbon source foraging strategy by Escherichia coli.
J Biol Chem. 280: 15921-7, 2005.
26)  Hansen AM, Qiu Y, Yeh N, Blattner FR, Durfee T, Jin DJ.
SspA is required for acid resistance in stationary phase by downregulation of H-NS in Escherichia coli.
Mol Microbiol. 56: 719-34, 2005.
27)  Hansen AM, Gu Y, Li M, Andrykovitch M, Waugh DS, Jin DJ, Ji X.
Structural basis for the function of stringent starvation protein a as a transcription factor.
J Biol Chem. 280: 17380-91, 2005.
28)  Cabrera JE, Jin DJ.
Construction, purification, and characterization of Escherichia coli RNA polymerases tagged with different fluorescent proteins.
Meth. Enzymol. 370: 3-10, 2003.
29)  Hansen AM, Lehnherr H, Wang X, Mobley V, Jin DJ.
Escherichia coli SspA is a transcription activator for bacteriophage P1 late genes.
Mol Microbiol. 48: 1621-31, 2003.
30)  Zhi H, Wang X, Cabrera JE, Johnson RC, Jin DJ.
Fis stabilizes the interaction between RNA polymerase and the ribosomal promoter rrnB P1, leading to transcriptional activation.
J Biol Chem. 278: 47340-9, 2003.
31)  Cabrera JE, Jin DJ.
Growth phase and growth rate regulation of the rapA gene, encoding the RNA polymerase-associated protein RapA in Escherichia coli.
J. Bacteriol. 183: 6126-34, 2001.
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This page was last updated on 6/19/2014.