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Paul Babitzke

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Alexander V Yakhnin; Helen Yakhnin; Carol S Baker; Igor Berezin; Tony Romeo; Christopher A Vakulskas; Paul Babitzke
CsrA activates flhDC expression by protecting flhDC mRNA from RNase E-mediated cleavage.
Tony Romeo; Christopher A Vakulskas; Paul Babitzke
Post-transcriptional regulation on a global scale: form and function of Csr/Rsm systems.
Sampriti Mukherjee; Paul Babitzke; Daniel B Kearns
FliW and FliS function independently to control cytoplasmic flagellin levels in Bacillus subtilis.

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All Publications

2013: Alexander V Yakhnin; Helen Yakhnin; Carol S Baker; Igor Berezin; Tony Romeo; Christopher A Vakulskas; Paul Babitzke
CsrA activates flhDC expression by protecting flhDC mRNA from RNase E-mediated cleavage.
Molecular microbiology 2013;87(4):851-66.
2013: Tony Romeo; Christopher A Vakulskas; Paul Babitzke
Post-transcriptional regulation on a global scale: form and function of Csr/Rsm systems.
Environmental microbiology 2013;15(2):313-24.
2013: Sampriti Mukherjee; Paul Babitzke; Daniel B Kearns
FliW and FliS function independently to control cytoplasmic flagellin levels in Bacillus subtilis.
Journal of bacteriology 2013;195(2):297-306.
2012: Alexander V Yakhnin; Helen Yakhnin; Paul Babitzke
Gel mobility shift assays to detect protein-RNA interactions.
Methods in molecular biology (Clifton, N.J.) 2012;905():201-11.
2011: Helen Yakhnin; Carol S Baker; Igor Berezin; Michael A Evangelista; Alisa Rassin; Tony Romeo; Paul Babitzke
CsrA represses translation of sdiA, which encodes the N-acylhomoserine-L-lactone receptor of Escherichia coli, by binding exclusively within the coding region of sdiA mRNA.
Journal of bacteriology 2011;193(22):6162-70.
2011: Sampriti Mukherjee; Josh Sokoloski; Helen Yakhnin; Paul Babitzke; Dave Kysela; Daniel B Kearns
CsrA-FliW interaction governs flagellin homeostasis and a checkpoint on flagellar morphogenesis in Bacillus subtilis.
Molecular microbiology 2011;82(2):447-61.
2011: Helen Yakhnin; Carol S Baker; Igor Berezin; Tony Romeo; Elena Sineva; Alexander V Yakhnin; Paul Babitzke
Complex regulation of the global regulatory gene csrA: CsrA-mediated translational repression, transcription from five promoters by Eσ⁷⁰ and Eσ(S), and indirect transcriptional activation by CsrA.
Molecular microbiology 2011;81(3):689-704.
2011: Luary C Martínez; José Luis Puente; Helen Yakhnin; Paul Babitzke; Martha I Camacho; Dimitris Georgellis; Víctor H Bustamante
Integration of a complex regulatory cascade involving the SirA/BarA and Csr global regulatory systems that controls expression of the Salmonella SPI-1 and SPI-2 virulence regulons through HilD.
Molecular microbiology 2011;80(6):1637-56.
2011: Adrianne N Edwards; Joshua A Fields; Dimitris Georgellis; Jeffrey Mercante; Laura M Patterson-Fortin; Katarzyna Potrykus; Paul Babitzke; Martha I Camacho; Michael Cashel; Stuart A Thompson; Christopher A Vakulskas; Daniel Vinella; Tony Romeo
Circuitry linking the Csr and stringent response global regulatory systems.
Molecular microbiology 2011;80(6):1561-80.
2010: Alexander V Yakhnin; Paul Babitzke
Mechanism of NusG-stimulated pausing, hairpin-dependent pause site selection and intrinsic termination at overlapping pause and termination sites in the Bacillus subtilis trp leader.
Molecular microbiology 2010;76(3):690-705.
2009: Jeffrey Mercante; Adrianne N Edwards; Ashok K Dubey; Paul Babitzke; Tony Romeo
Molecular geometry of CsrA (RsmA) binding to RNA and its implications for regulated expression.
Journal of molecular biology 2009;392(2):511-28.
2009: Nataly Perez; Jeanette Treviño; Zhuyun Liu; Siu Chun Michael Ho; Paul Babitzke; Paul Sumby
A genome-wide analysis of small regulatory RNAs in the human pathogen group A Streptococcus.
PloS one 2009;4(11):e7668.
2009: Paul Babitzke; Carol S Baker; Tony Romeo
Regulation of translation initiation by RNA binding proteins.
Annual review of microbiology 2009;63():27-44.
2008: Alexander V Yakhnin; Helen Yakhnin; Paul Babitzke
Function of the Bacillus subtilis transcription elongation factor NusG in hairpin-dependent RNA polymerase pausing in the trp leader.
Proceedings of the National Academy of Sciences of the United States of America 2008;105(42):16131-6.
2007: Adam P McGraw; Philip C Bevilacqua; Paul Babitzke
TRAP-5' stem loop interaction increases the efficiency of transcription termination in the Bacillus subtilis trpEDCFBA operon leader region.
RNA (New York, N.Y.) 2007;13(11):2020-33.
2007: Karine Lapouge; Elena Sineva; Magnus Lindell; Katja Starke; Carol S Baker; Paul Babitzke; Dieter Haas
Mechanism of hcnA mRNA recognition in the Gac/Rsm signal transduction pathway of Pseudomonas fluorescens.
Molecular microbiology 2007;66(2):341-56.
2007: Carol S Baker; Lél A Eöry; Helen Yakhnin; Jeffrey Mercante; Tony Romeo; Paul Babitzke
CsrA inhibits translation initiation of Escherichia coli hfq by binding to a single site overlapping the Shine-Dalgarno sequence.
Journal of bacteriology 2007;189(15):5472-81.
2007: Helen Yakhnin; Pallavi Pandit; Tom Petty; Carol S Baker; Tony Romeo; Paul Babitzke
CsrA of Bacillus subtilis regulates translation initiation of the gene encoding the flagellin protein (hag) by blocking ribosome binding.
Molecular microbiology 2007;64(6):1605-20.
2007: Paul Babitzke; Tony Romeo
CsrB sRNA family: sequestration of RNA-binding regulatory proteins.
Current opinion in microbiology 2007;10(2):156-63.
2007: Helen Yakhnin; Alexander V Yakhnin; Paul Babitzke
Translation control of trpG from transcripts originating from the folate operon promoter of Bacillus subtilis is influenced by translation-mediated displacement of bound TRAP, while translation control of transcripts originating from a newly identified trpG promoter is not.
Journal of bacteriology 2007;189(3):872-9.
2006: Alexander V Yakhnin; Helen Yakhnin; Paul Babitzke
RNA polymerase pausing regulates translation initiation by providing additional time for TRAP-RNA interaction.
Molecular cell 2006;24(4):547-57.
2006: Jeffrey Mercante; Kazushi Suzuki; Xiaodong Cheng; Paul Babitzke; Tony Romeo
Comprehensive alanine-scanning mutagenesis of Escherichia coli CsrA defines two subdomains of critical functional importance.
The Journal of biological chemistry 2006;281(42):31832-42.
2006: Kazushi Suzuki; Paul Babitzke; Sidney R Kushner; Tony Romeo
Identification of a novel regulatory protein (CsrD) that targets the global regulatory RNAs CsrB and CsrC for degradation by RNase E.
Genes & development 2006;20(18):2605-17.
2006: Helen Yakhnin; Alexander V Yakhnin; Paul Babitzke
The trp RNA-binding attenuation protein (TRAP) of Bacillus subtilis regulates translation initiation of ycbK, a gene encoding a putative efflux protein, by blocking ribosome binding.
Molecular microbiology 2006;61(5):1252-66.
2005: Ashok K Dubey; Carol S Baker; Tony Romeo; Paul Babitzke
RNA sequence and secondary structure participate in high-affinity CsrA-RNA interaction.
RNA (New York, N.Y.) 2005;11(10):1579-87.
2005: Xin Wang; Ashok K Dubey; Kazushi Suzuki; Carol S Baker; Paul Babitzke; Tony Romeo
CsrA post-transcriptionally represses pgaABCD, responsible for synthesis of a biofilm polysaccharide adhesin of Escherichia coli.
Molecular microbiology 2005;56(6):1648-63.
2005: Paul Gollnick; Paul Babitzke; Alfred A Antson; Charles Yanofsky
Complexity in regulation of tryptophan biosynthesis in Bacillus subtilis.
Annual review of genetics 2005;39():47-68.
2004: Paul Babitzke
Regulation of transcription attenuation and translation initiation by allosteric control of an RNA-binding protein: the Bacillus subtilis TRAP protein.
Current opinion in microbiology 2004;7(2):132-9.
2004: Helen Yakhnin; Paul Babitzke
Gene replacement method for determining conditions in which Bacillus subtilis genes are essential or dispensable for cell viability.
Applied microbiology and biotechnology 2004;64(3):382-6.
2004: Gintaras Deikus; Paul Babitzke; David H Bechhofer
Recycling of a regulatory protein by degradation of the RNA to which it binds.
Proceedings of the National Academy of Sciences of the United States of America 2004;101(9):2747-51.
2004: Helen Yakhnin; Hong Zhang; Alexander V Yakhnin; Paul Babitzke
The trp RNA-binding attenuation protein of Bacillus subtilis regulates translation of the tryptophan transport gene trpP (yhaG) by blocking ribosome binding.
Journal of bacteriology 2004;186(2):278-86.
2003: Janell E Schaak; Paul Babitzke; Philip C Bevilacqua
Phylogenetic conservation of RNA secondary and tertiary structure in the trpEDCFBA operon leader transcript in Bacillus.
RNA (New York, N.Y.) 2003;9(12):1502-15.
2003: Janell E Schaak; Helen Yakhnin; Philip C Bevilacqua; Paul Babitzke
A Mg2+-dependent RNA tertiary structure forms in the Bacillus subtilis trp operon leader transcript and appears to interfere with trpE translation control by inhibiting TRAP binding.
Journal of molecular biology 2003;332(3):555-74.
2003: Ashok K Dubey; Carol S Baker; Kazushi Suzuki; A Daniel Jones; Pallavi Pandit; Tony Romeo; Paul Babitzke
CsrA regulates translation of the Escherichia coli carbon starvation gene, cstA, by blocking ribosome access to the cstA transcript.
Journal of bacteriology 2003;185(15):4450-60.
2003: Thomas Weilbacher; Kazushi Suzuki; Ashok K Dubey; Xin Wang; Seshigirao Gudapaty; Igor Morozov; Carol S Baker; Dimitris Georgellis; Paul Babitzke; Tony Romeo
A novel sRNA component of the carbon storage regulatory system of Escherichia coli.
Molecular microbiology 2003;48(3):657-70.
2003: Paul Babitzke; Janell E Schaak; Alexander V Yakhnin; Philip C Bevilacqua
Role of RNA structure in transcription attenuation in Bacillus subtilis: the trpEDCFBA operon as a model system.
Methods in enzymology 2003;371():392-404.
2002: Paul Gollnick; Paul Babitzke
Transcription attenuation.
Biochimica et biophysica acta 2002;1577(2):240-50.
2002: Kazushi Suzuki; Xin Wang; Thomas Weilbacher; Anna-Karin Pernestig; ojar melefors; Dimitris Georgellis; Paul Babitzke; Tony Romeo
Regulatory circuitry of the CsrA/CsrB and BarA/UvrY systems of Escherichia coli.
Journal of bacteriology 2002;184(18):5130-40.
2002: Alexander V Yakhnin; Paul Babitzke
NusA-stimulated RNA polymerase pausing and termination participates in the Bacillus subtilis trp operon attenuation mechanism invitro.
Proceedings of the National Academy of Sciences of the United States of America 2002;99(17):11067-72.
2002: Carol S Baker; Igor Morozov; Kazushi Suzuki; Tony Romeo; Paul Babitzke
CsrA regulates glycogen biosynthesis by preventing translation of glgC in Escherichia coli.
Molecular microbiology 2002;44(6):1599-610.
2002: Angela Valbuzzi; Paul Gollnick; Paul Babitzke; Charles Yanofsky
The anti-trp RNA-binding attenuation protein (Anti-TRAP), AT, recognizes the tryptophan-activated RNA binding domain of the TRAP regulatory protein.
The Journal of biological chemistry 2002;277(12):10608-13.
2001: S Gudapaty; Kazushi Suzuki; Xin Wang; Paul Babitzke; Tony Romeo
Regulatory interactions of Csr components: the RNA binding protein CsrA activates csrB transcription in Escherichia coli.
Journal of bacteriology 2001;183(20):6017-27.
2001: Helen Yakhnin; J E Babiarz; Alexander V Yakhnin; Paul Babitzke
Expression of the Bacillus subtilis trpEDCFBA operon is influenced by translational coupling and Rho termination factor.
Journal of bacteriology 2001;183(20):5918-26.
2001: Paul Babitzke; Paul Gollnick
Posttranscription initiation control of tryptophan metabolism in Bacillus subtilis by the trp RNA-binding attenuation protein (TRAP), anti-TRAP, and RNA structure.
Journal of bacteriology 2001;183(20):5795-802.
2001: B L Wei; Anne-Marie Brun-Zinkernagel; Jerry Simecka; B M Prüss; Paul Babitzke; Tony Romeo
Positive regulation of motility and flhDC expression by the RNA-binding protein CsrA of Escherichia coli.
Molecular microbiology 2001;40(1):245-56.
2000: H Du; Alexander V Yakhnin; S Dharmaraj; Paul Babitzke
trp RNA-binding attenuation protein-5' stem-loop RNA interaction is required for proper transcription attenuation control of the Bacillus subtilis trpEDCFBA operon.
Journal of bacteriology 2000;182(7):1819-27.
2000: Alexander V Yakhnin; John J Trimble; C R Chiaro; Paul Babitzke
Effects of mutations in the L-tryptophan binding pocket of the Trp RNA-binding attenuation protein of Bacillus subtilis.
The Journal of biological chemistry 2000;275(6):4519-24.
1999: S Sudershana; H Du; M Mahalanabis; Paul Babitzke
A 5' RNA stem-loop participates in the transcription attenuation mechanism that controls expression of the Bacillus subtilis trpEDCFBA operon.
Journal of bacteriology 1999;181(18):5742-9.
1998: H Du; Paul Babitzke
trp RNA-binding attenuation protein-mediated long distance RNA refolding regulates translation of trpE in Bacillus subtilis.
The Journal of biological chemistry 1998;273(32):20494-503.
1998: L L Granger; E B O'Hara; Rongfu Wang; F V Meffen; K Armstrong; S D Yancey; Paul Babitzke; Sidney R Kushner
The Escherichia coli mrsC gene is required for cell growth and mRNA decay.
Journal of bacteriology 1998;180(7):1920-8.
1997: Paul Babitzke
Regulation of tryptophan biosynthesis: Trp-ing the TRAP or how Bacillus subtilis reinvented the wheel.
Molecular microbiology 1997;26(1):1-9.
1997: H Du; R Tarpey; Paul Babitzke
The trp RNA-binding attenuation protein regulates TrpG synthesis by binding to the trpG ribosome binding site of Bacillus subtilis.
Journal of bacteriology 1997;179(8):2582-6.
1996: Paul Babitzke; J Yealy; D Campanelli
Interaction of the trp RNA-Binding attenuation protein (TRAP) of Bacillus subtilis with RNA: effects of the number of GAG repeats, the nucleotides separating adjacent repeats, and RNA secondary structure.
Journal of bacteriology 1996;178(17):5159-63.