Cited by 1,019

The DOI matches its Crossref record; 71 of the 71 references it cites were found in a registry or an index.

The regulation of bacterial transcription initiation

Browning, Douglas F., Busby, Stephen J. W.·2004·Nature Reviews Microbiology

DOI 10.1038/nrmicro787

Open this paper in CoChat — free account

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

Integrity signals

Registry

Crossref · 10.1038/nrmicro787

Cites

71 of 71 references verified0 citation errors · 0 not checkable

Statistics

Claims the paper makes

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

Self-check

Percentages, sums and reported differences re-computed from the paper’s own numbers.

The self-check needs the paper’s full text.

Escherichia coli and Salmonella :cellular and molecular biology
Neidhardt, F. C. (1996) · ASM Press eBooks · Cited by 8,197
Two-Component Signal Transduction
Stock, A. M., Robinson, V. L., & Goudreau, P. N. (2000) · Annual Review of Biochemistry · doi:10.1146/annurev.biochem.69.1.183 · Cited by 3,650
Cold Spring Harbor Symposia on Quantitative Biology.
Berg, H. (1989) · Journal of Electroanalytical Chemistry and Interfacial Electrochemistry · doi:10.1016/0022-0728(89)87283-3 · Cited by 1,144
Factor Stimulating Transcription by RNA Polymerase
BURGESS, R. R., TRAVERS, A. A., DUNN, J. J., & BAUTZ, E. K. F. (1969) · Nature · doi:10.1038/221043a0 · Cited by 1,000
Multiple Sigma Subunits and the Partitioning of Bacterial Transcription Space
Gruber, T. M., & Gross, C. A. (2003) · Annual Review of Microbiology · doi:10.1146/annurev.micro.57.030502.090913 · Cited by 934
Unravelling the biology of macrophage infection by gene expression profiling of intracellular Salmonella enterica
Eriksson, S., Lucchini, S., Thompson, A., Rhen, M., & Hinton, J. C. D. (2003) · Molecular Microbiology · doi:10.1046/j.1365-2958.2003.03313.x · Cited by 846
Crystal Structure of Thermus aquaticus Core RNA Polymerase at 3.3 Å Resolution
Zhang, G., Campbell, E. A., Minakhin, L., Richter, C., Severinov, K., & Darst, S. A. (1999) · Cell · doi:10.1016/s0092-8674(00)81515-9 · Cited by 813
Nucleic Acids and Molecular Biology
(1994) · Nucleic Acids and Molecular Biology · doi:10.1007/978-3-642-78666-2 · Cited by 765
The MerR family of transcriptional regulators
Brown, N. L., Stoyanov, J. V., Kidd, S. P., & Hobman, J. L. (2003) · FEMS Microbiology Reviews · doi:10.1016/s0168-6445(03)00051-2 · Cited by 749
Crystal structure of a bacterial RNA polymerase holoenzyme at 2.6 Å resolution
Vassylyev, D. G., Sekine, S.-I., Laptenko, O., Lee, J., Vassylyeva, M. N., Borukhov, S., & Yokoyama, S. (2002) · Nature · doi:10.1038/nature752 · Cited by 743
Structural Basis of Transcription Initiation: An RNA Polymerase Holoenzyme-DNA Complex
Murakami, K. S., Masuda, S., Campbell, E. A., Muzzin, O., & Darst, S. A. (2002) · Science · doi:10.1126/science.1069595 · Cited by 641
Functional Modulation of Escherichia Coli RNA Polymerase
Ishihama, A. (2000) · Annual Review of Microbiology · doi:10.1146/annurev.micro.54.1.499 · Cited by 599
Structural Basis of Transcription Initiation: RNA Polymerase Holoenzyme at 4 Å Resolution
Murakami, K. S., Masuda, S., & Darst, S. A. (2002) · Science · doi:10.1126/science.1069594 · Cited by 541
Identifying global regulators in transcriptional regulatory networks in bacteria
Martı́nez-Antonio, A., & Collado-Vides, J. (2003) · Current Opinion in Microbiology · doi:10.1016/j.mib.2003.09.002 · Cited by 526
Eubacterial sigma-factors
Wösten, M. (1998) · FEMS Microbiology Reviews · doi:10.1016/s0168-6445(98)00011-4 · Cited by 492
Structure of the Bacterial RNA Polymerase Promoter Specificity σ Subunit
Campbell, E. A., Muzzin, O., Chlenov, M., Sun, J. L., Olson, C. A., Weinman, O., Trester-Zedlitz, M. L., & Darst, S. A. (2002) · Molecular Cell · doi:10.1016/s1097-2765(02)00470-7 · Cited by 491
Twelve Species of the Nucleoid-associated Protein from Escherichia coli
Azam, T. A., & Ishihama, A. (1999) · Journal of Biological Chemistry · doi:10.1074/jbc.274.46.33105 · Cited by 473
Promoter structure, promoter recognition, and transcription activation in prokaryotes
BUSBY, S. (1994) · Cell · doi:10.1016/0092-8674(94)90063-9 · Cited by 437
Self-citation
The Bacterial Enhancer-Dependent ς54(ςN) Transcription Factor
Buck, M., Gallegos, M.-T., Studholme, D. J., Guo, Y., & Gralla, J. D. (2000) · Journal of Bacteriology · doi:10.1128/jb.182.15.4129-4136.2000 · Cited by 417
Regulation of Gene Expression
Epstein, W., & Beckwith, J. R. (1968) · Annual Review of Biochemistry · doi:10.1146/annurev.bi.37.070168.002211 · Cited by 408
A Structural Model of Transcription Elongation
Korzheva, N., Mustaev, A., Kozlov, M., Malhotra, A., Nikiforov, V., Goldfarb, A., & Darst, S. A. (2000) · Science · doi:10.1126/science.289.5479.619 · Cited by 402
In a class of its own — the RNA polymerase sigma factor σ;54 (σN)
Merrick, M. J. (1993) · Molecular Microbiology · doi:10.1111/j.1365-2958.1993.tb00961.x · Cited by 393
Periplasmic Stress and ECF Sigma Factors
Raivio, T. L., & Silhavy, T. J. (2001) · Annual Review of Microbiology · doi:10.1146/annurev.micro.55.1.591 · Cited by 388
Transcription Regulation by Initiating NTP Concentration: rRNA Synthesis in Bacteria
Gaal, T., Bartlett, M. S., Ross, W., Turnbough, C. L., & Gourse, R. L. (1997) · Science · doi:10.1126/science.278.5346.2092 · Cited by 366
Revisiting the stringent response, ppGpp and starvation signaling
Chatterji, D., & Kumar Ojha, A. (2001) · Current Opinion in Microbiology · doi:10.1016/s1369-5274(00)00182-x · Cited by 364
Evolution of transcription factors and the gene regulatory network in Escherichia coli
Madan Babu, M. (2003) · Nucleic Acids Research · doi:10.1093/nar/gkg210 · Cited by 353
Development and maturation of Escherichia coli K‐12 biofilms
Reisner, A., Haagensen, J. A. J., Schembri, M. A., Zechner, E. L., & Molin, S. (2003) · Molecular Microbiology · doi:10.1046/j.1365-2958.2003.03490.x · Cited by 352
Transcription activation at Class I CAP‐dependent promoters
Ebright, R. H. (1993) · Molecular Microbiology · doi:10.1111/j.1365-2958.1993.tb01626.x · Cited by 349
Regulation of ς factor competition by the alarmone ppGpp
Jishage, M., Kvint, K., Shingler, V., & Nyström, T. (2002) · Genes & Development · doi:10.1101/gad.227902 · Cited by 342
THE ANTI-SIGMA FACTORS
Hughes, K. T., & Mathee, K. (1998) · Annual Review of Microbiology · doi:10.1146/annurev.micro.52.1.231 · Cited by 341
Mechanism of regulation of transcription initiation by ppGpp. I. Effects of ppGpp on transcription initiation in vivo and in vitro
Barker, M. M., Gaal, T., Josaitis, C. A., & Gourse, R. L. (2001) · Journal of Molecular Biology · doi:10.1006/jmbi.2000.4327 · Cited by 338
The repertoire of DNA-binding transcriptional regulators in Escherichia coli K-12
Perez-Rueda, E. (2000) · Nucleic Acids Research · doi:10.1093/nar/28.8.1838 · Cited by 309
Competition among seven Escherichia coli sigma subunits: relative binding affinities to the core RNA polymerase
Maeda, H. (2000) · Nucleic Acids Research · doi:10.1093/nar/28.18.3497 · Cited by 298
RNA Polymerase-Promoter Interactions: the Comings and Goings of RNA Polymerase
deHaseth, P. L., Zupancic, M. L., & Record, M. T. (1998) · Journal of Bacteriology · doi:10.1128/jb.180.12.3019-3025.1998 · Cited by 291
RNA Polymerase: Structural Similarities Between Bacterial RNA Polymerase and Eukaryotic RNA Polymerase II
Ebright, R. H. (2000) · Journal of Molecular Biology · doi:10.1006/jmbi.2000.4309 · Cited by 277
UPs and downs in bacterial transcription initiation: the role of the alpha subunit of RNA polymerase in promoter recognition
Gourse, R. L., Ross, W., & Gaal, T. (2000) · Molecular Microbiology · doi:10.1046/j.1365-2958.2000.01972.x · Cited by 270
Crystal structure of the transcription activator BmrR bound to DNA and a drug
Heldwein, E. E. Z., & Brennan, R. G. (2001) · Nature · doi:10.1038/35053138 · Cited by 264
RegulonDB (version 3.2): transcriptional regulation and operon organization in Escherichia coli K-12
Salgado, H. (2001) · Nucleic Acids Research · doi:10.1093/nar/29.1.72 · Cited by 255
Regulation of the heat-shock response
Yura, T., & Nakahigashi, K. (1999) · Current Opinion in Microbiology · doi:10.1016/s1369-5274(99)80027-7 · Cited by 242
Redox signaling and gene control in the Escherichia coli soxRS oxidative stress regulon — a review
Demple, B. (1996) · Gene · doi:10.1016/s0378-1119(96)00329-0 · Cited by 239
Domain organization of RNA polymerase α subunit: C-terminal 85 amino acids constitute a domain capable of dimerization and DNA binding
Blatter, E. E., Ross, W., Tang, H., Gourse, R. L., & Ebright, R. H. (1994) · Cell · doi:10.1016/s0092-8674(94)90682-3 · Cited by 237
Mechanism of regulation of transcription initiation by ppGpp. II. Models for positive control based on properties of RNAP mutants and competition for RNAP
Barker, M. M., Gaal, T., & Gourse, R. L. (2001) · Journal of Molecular Biology · doi:10.1006/jmbi.2000.4328 · Cited by 216
The lac Operon: A Short History of a Genetic Paradigm
Müller-Hill, B. (1996) · De Gruyter eBooks · doi:10.1515/9783110879476 · Cited by 210
Regulation of the Xmyf-5 and XmyoD Expression Pattern during Early Xenopus Development
Takahashi, S., Esumi, E., Nabeshima, Y.-I., & Asashima, M. (1998) · Zoological Science · doi:10.2108/zsj.15.231 · Cited by 205
Anti-sigma factors
Helmann, J. D. (1999) · Current Opinion in Microbiology · doi:10.1016/s1369-5274(99)80024-1 · Cited by 179
Regulation of gene expression in the PTS in Escherichia coli: the role and interactions of Mlc
Plumbridge, J. (2002) · Current Opinion in Microbiology · doi:10.1016/s1369-5274(02)00296-5 · Cited by 167
Transcription activation at Class II CAP‐dependent promoters
Busby, S., & Ebright, R. H. (1997) · Molecular Microbiology · doi:10.1046/j.1365-2958.1997.2771641.x · Cited by 163
Self-citation
Yeast RNA Polymerase II at 5 Å Resolution
Fu, J., Gnatt, A. L., Bushnell, D. A., Jensen, G. J., Thompson, N. E., Burgess, R. R., David, P. R., & Kornberg, R. D. (1999) · Cell · doi:10.1016/s0092-8674(00)81514-7 · Cited by 128
Control of transcription by nucleoid proteins
McLeod, S. M., & Johnson, R. C. (2001) · Current Opinion in Microbiology · doi:10.1016/s1369-5274(00)00181-8 · Cited by 122
Fine structure of E. coli RNA polymerase-promoter interactions: α subunit binding to the UP element minor groovePreprint
Ross, W., Ernst, A., & Gourse, R. L. (2001) · Genes & Development · doi:10.1101/gad.870001 · Cited by 113
A flexible partnership: the CytR anti‐activator and the cAMP–CRP activator protein, comrades in transcription control
Valentin‐Hansen, P., Søgaard‐Andersen, L., & Pedersen, H. (1996) · Molecular Microbiology · doi:10.1046/j.1365-2958.1996.5341056.x · Cited by 109
NTP-sensing by rRNA promoters in Escherichia coli is direct
Schneider, D. A., Gaál, T., & Gourse, R. L. (2002) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.132285199 · Cited by 108
Sequential recognition of two distinct sites in σS by the proteolytic targeting factor RssB and ClpX
Stüdemann, A., Noirclerc‐Savoye, M., Klauck, E., Becker, G., Schneider, D., & Hengge, R. (2003) · The EMBO Journal · doi:10.1093/emboj/cdg411 · Cited by 105
Control of rRNA expression in Escherichia coli
Schneider, D. A., Ross, W., & Gourse, R. L. (2003) · Current Opinion in Microbiology · doi:10.1016/s1369-5274(03)00038-9 · Cited by 100
A new mechanism for coactivation of transcription initiation: Repositioning of an activator triggered by the binding of a second activator
Richet, E., Vidal-Ingigliardi, D., & Raibaud, O. (1991) · Cell · doi:10.1016/0092-8674(91)90041-v · Cited by 98
Complex formation between activator and RNA polymerase as the basis for transcriptional activation by MarA and SoxS in Escherichia coli
Martin, R. G., Gillette, W., Martin, N. I., & Rosner, J. L. (2002) · Molecular Microbiology · doi:10.1046/j.1365-2958.2002.02748.x · Cited by 94
Nucleic Acids and Molecular Biology
(1987) · Nucleic acids and molecular biology · doi:10.1007/978-3-642-46596-3 · Cited by 87
Synergistic Activation of Transcription by Bacteriophage λ cI Protein and E. coli cAMP Receptor Protein
Joung, J. K., Koepp, D. M., & Hochschild, A. (1994) · Science · doi:10.1126/science.8091212 · Cited by 82
Suppression of FNR‐dependent transcription activation at the Escherichia coli nir promoter by Fis, IHF and H‐NS: modulation of transcription initiation by a complex nucleo‐protein assembly
Browning, D. F., Cole, J. A., & Busby, S. J. W. (2000) · Molecular Microbiology · doi:10.1046/j.1365-2958.2000.02087.x · Cited by 81
Self-citation
Cyclic AMP Receptor Protein-Dependent Activation of the Escherichia coli acs P2 Promoter by a Synergistic Class III Mechanism
Beatty, C. M., Browning, D. F., Busby, S. J. W., & Wolfe, A. J. (2003) · Journal of Bacteriology · doi:10.1128/jb.185.17.5148-5157.2003 · Cited by 81
Self-citation
Transcriptional co‐activation at the ansB promoters: involvement of the activating regions of CRP and FNR when bound in tandem
Scott, S. P., Busby, S. J. W., & Beacham, I. R. (1995) · Molecular Microbiology · doi:10.1111/j.1365-2958.1995.mmi_18030521.x · Cited by 80
Self-citation
The C-terminal domains of the RNA polymerase α subunits: contact site with fis and localization during co-activation with CRP at the Escherichia coli proP P2 promoter
McLeod, S. M., Aiyar, S. E., Gourse, R. L., & Johnson, R. C. (2002) · Journal of Molecular Biology · doi:10.1006/jmbi.2001.5391 · Cited by 77
The CAP Modulon
Busby, S. J. W., & Kolb, A. (1996) · Springer eBooks · doi:10.1007/978-1-4684-8601-8_12 · Cited by 71
Self-citation
Activation of the Escherichia coli nitrate reductase (narGHJI) operon by NarL and Fnr requires integration host factor.
Schröder, I., Darie, S., & Gunsalus, R. P. (1993) · Journal of Biological Chemistry · doi:10.1016/s0021-9258(18)53999-5 · Cited by 71
Evidence for “Pre-recruitment” as a New Mechanism of Transcription Activation in Escherichia coli: The Large Excess of SoxS Binding Sites per Cell Relative to the Number of SoxS Molecules per Cell
Griffith, K. L., Shah, I. M., Myers, T. E., O’Neill, M. C., & Wolf, R. E. (2002) · Biochemical and Biophysical Research Communications · doi:10.1006/bbrc.2002.6559 · Cited by 67
Regulation of transcription initiation at the Escherichia coli nir operon promoter: a new mechanism to account for co‐dependence on two transcription factors
Wu, H., Tyson, K. L., Cole, J. A., & Busby, S. J. W. (1998) · Molecular Microbiology · doi:10.1046/j.1365-2958.1998.00699.x · Cited by 63
Self-citation
Independent regulation of the divergent Escherichia coli nrfA and acsP1 promoters by a nucleoprotein assembly at a shared regulatory region
Browning, D. F., Beatty, C. M., Wolfe, A. J., Cole, J. A., & Busby, S. J. W. (2002) · Molecular Microbiology · doi:10.1046/j.1365-2958.2002.02776.x · Cited by 63
Self-citation
Proteolysis in prokaryotes: protein quality control and regulatory principles
Hengge, R., & Bukau, B. (2003) · Molecular Microbiology · doi:10.1046/j.1365-2958.2003.03693.x · Cited by 62
The NAR Modulon Systems: Nitrate and Nitrite Regulation of Anaerobic Gene Expression
Darwin, A. J., & Stewart, V. J. (1996) · Springer eBooks · doi:10.1007/978-1-4684-8601-8_17 · Cited by 54
The Cryptic Adenine Deaminase Gene of Escherichia coli
Petersen, C., Møller, L. B., & Valentin‐Hansen, P. (2002) · Journal of Biological Chemistry · doi:10.1074/jbc.m204268200 · Cited by 39
Repression of deoP2 in Escherichia coli by CytR: conversion of a transcription activator into a repressor
Shin, M., Kang, S.-J., Hyun, S., Fujita, N., Ishihama, A., Valentin‐Hansen, P., & Choy, H. E. (2001) · The EMBO Journal · doi:10.1093/emboj/20.19.5392 · Cited by 33

The Acetate Switch
Wolfe, A. J. (2005) · Microbiology and Molecular Biology Reviews · doi:10.1128/mmbr.69.1.12-50.2005 · Cited by 1,233
Condition-Dependent Transcriptome Reveals High-Level Regulatory Architecture in Bacillus subtilis
Nicolas, P., Mäder, U., Dervyn, E., Rochat, T., Leduc, A., Pigeonneau, N., Bidnenko, E., Marchadier, E., Hoebeke, M., Aymerich, S., et al. (2012) · Science · doi:10.1126/science.1206848 · Cited by 910
Tuning genetic control through promoter engineering
Alper, H., Fischer, C., Nevoigt, E., & Stephanopoulos, G. (2005) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0504604102 · Cited by 893
The Pho regulon: a huge regulatory network in bacteria
Santos-Beneit, F. (2015) · Frontiers in Microbiology · doi:10.3389/fmicb.2015.00402 · Cited by 522
Bacterial Sigma Factors: A Historical, Structural, and Genomic Perspective
Feklístov, A., Sharon, B. D., Darst, S. A., & Gross, C. A. (2014) · Annual Review of Microbiology · doi:10.1146/annurev-micro-092412-155737 · Cited by 473

See all 1,019

Authors: Browning, D. F., & Busby, S. J. W.
Venue: Nature Reviews Microbiology
Publisher: Springer Science and Business Media LLC
Published: 2004-01
Volume: 2
Issue: 1
Pages: 57-65
ISSN: 1740-1526 (ISSN-L)
1740-1534
DOI: 10.1038/nrmicro787
OpenAlex: W2001394772
Cited by: 1,019
References: 71
FWCI: 1.51
Type: journal article
Language: en
Open access: closed

About these checks

Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

Statistics and arithmetic are recomputed, not judged.

Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.

What counts as a claim ›How we measure confidence ›How we check this ›

Are you an author, or do you see a problem with this page? Request a review

Data sources

Bibliographic data: Semantic Scholar, OpenAlex, Crossref.

Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).

Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.

The regulation of bacterial transcription initiation

Overview

Integrity signals

Verification

Claims the paper makes

Self-check

Citations

Cites

Cited by

Metadata

Record

About these checks

Data sources