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Elements in the λ immunity region regulate phage development: beyond the 'Genetic Switch'.

Thomason LC, Morrill K, Murray G, Court C, Shafer B, Schneider TD, Court DL.

Mol Microbiol. 2019 Dec;112(6):1798-1813. doi: 10.1111/mmi.14394. Epub 2019 Oct 8.


Escherichia coli transcription factor NusG binds to 70S ribosomes.

Saxena S, Myka KK, Washburn R, Costantino N, Court DL, Gottesman ME.

Mol Microbiol. 2018 Jun;108(5):495-504. doi: 10.1111/mmi.13953. Epub 2018 Apr 6.


A Cre Transcription Fidelity Reporter Identifies GreA as a Major RNA Proofreading Factor in Escherichia coli.

Bubunenko MG, Court CB, Rattray AJ, Gotte DR, Kireeva ML, Irizarry-Caro JA, Li X, Jin DJ, Court DL, Strathern JN, Kashlev M.

Genetics. 2017 May;206(1):179-187. doi: 10.1534/genetics.116.198960. Epub 2017 Mar 24.


tCRISPRi: tunable and reversible, one-step control of gene expression.

Li XT, Jun Y, Erickstad MJ, Brown SD, Parks A, Court DL, Jun S.

Sci Rep. 2016 Dec 20;6:39076. doi: 10.1038/srep39076.


Examining a DNA Replication Requirement for Bacteriophage λ Red- and Rac Prophage RecET-Promoted Recombination in Escherichia coli.

Thomason LC, Costantino N, Court DL.

mBio. 2016 Sep 13;7(5). pii: e01443-16. doi: 10.1128/mBio.01443-16.


Transcript degradation and noise of small RNA-controlled genes in a switch activated network in Escherichia coli.

Arbel-Goren R, Tal A, Parasar B, Dym A, Costantino N, Muñoz-García J, Court DL, Stavans J.

Nucleic Acids Res. 2016 Aug 19;44(14):6707-20. doi: 10.1093/nar/gkw273. Epub 2016 Apr 16.


SuhB Associates with Nus Factors To Facilitate 30S Ribosome Biogenesis in Escherichia coli.

Singh N, Bubunenko M, Smith C, Abbott DM, Stringer AM, Shi R, Court DL, Wade JT.

mBio. 2016 Mar 15;7(2):e00114. doi: 10.1128/mBio.00114-16.


Evidence that bacteriophage λ lysogens may induce in response to the proton motive force uncoupler CCCP.

Thomason LC, Court DL.

FEMS Microbiol Lett. 2016 Feb;363(3). pii: fnv244. doi: 10.1093/femsle/fnv244. Epub 2015 Dec 23.


Erratum to: Visualizing translocation dynamics and nascent transcript errors in paused RNA polymerases in vivo.

Imashimizu M, Takahashi H, Oshima T, McIntosh C, Bubunenko M, Court DL, Kashlev M.

Genome Biol. 2015 Dec 2;16:270. doi: 10.1186/s13059-015-0845-4. No abstract available.


Visualizing translocation dynamics and nascent transcript errors in paused RNA polymerases in vivo.

Imashimizu M, Takahashi H, Oshima T, McIntosh C, Bubunenko M, Court DL, Kashlev M.

Genome Biol. 2015 May 15;16:98. doi: 10.1186/s13059-015-0666-5. Erratum in: Genome Biol. 2015;16:270.


Location of the unique integration site on an Escherichia coli chromosome by bacteriophage lambda DNA in vivo.

Tal A, Arbel-Goren R, Costantino N, Court DL, Stavans J.

Proc Natl Acad Sci U S A. 2014 May 20;111(20):7308-12. doi: 10.1073/pnas.1324066111. Epub 2014 May 5.


Recombineering: genetic engineering in bacteria using homologous recombination.

Thomason LC, Sawitzke JA, Li X, Costantino N, Court DL.

Curr Protoc Mol Biol. 2014 Apr 14;106:1.16.1-39. doi: 10.1002/0471142727.mb0116s106. Review.


Bacteriophage λ N protein inhibits transcription slippage by Escherichia coli RNA polymerase.

Parks AR, Court C, Lubkowska L, Jin DJ, Kashlev M, Court DL.

Nucleic Acids Res. 2014 May;42(9):5823-9. doi: 10.1093/nar/gku203. Epub 2014 Apr 7.


The Kil peptide of bacteriophage λ blocks Escherichia coli cytokinesis via ZipA-dependent inhibition of FtsZ assembly.

Haeusser DP, Hoashi M, Weaver A, Brown N, Pan J, Sawitzke JA, Thomason LC, Court DL, Margolin W.

PLoS Genet. 2014 Mar 20;10(3):e1004217. doi: 10.1371/journal.pgen.1004217. eCollection 2014 Mar.


RNase III: Genetics and function; structure and mechanism.

Court DL, Gan J, Liang YH, Shaw GX, Tropea JE, Costantino N, Waugh DS, Ji X.

Annu Rev Genet. 2013;47:405-31. doi: 10.1146/annurev-genet-110711-155618. Review.


Positive and negative selection using the tetA-sacB cassette: recombineering and P1 transduction in Escherichia coli.

Li XT, Thomason LC, Sawitzke JA, Costantino N, Court DL.

Nucleic Acids Res. 2013 Dec;41(22):e204. doi: 10.1093/nar/gkt1075. Epub 2013 Nov 6.


Recombineering: highly efficient in vivo genetic engineering using single-strand oligos.

Sawitzke JA, Thomason LC, Bubunenko M, Li X, Costantino N, Court DL.

Methods Enzymol. 2013;533:157-77. doi: 10.1016/B978-0-12-420067-8.00010-6.


Recombineering: using drug cassettes to knock out genes in vivo.

Sawitzke JA, Thomason LC, Bubunenko M, Li X, Costantino N, Court DL.

Methods Enzymol. 2013;533:79-102. doi: 10.1016/B978-0-12-420067-8.00007-6.


Bacterial DNA polymerases participate in oligonucleotide recombination.

Li XT, Thomason LC, Sawitzke JA, Costantino N, Court DL.

Mol Microbiol. 2013 Jun;88(5):906-20. doi: 10.1111/mmi.12231. Epub 2013 May 2.


Effects of post-transcriptional regulation on phenotypic noise in Escherichia coli.

Arbel-Goren R, Tal A, Friedlander T, Meshner S, Costantino N, Court DL, Stavans J.

Nucleic Acids Res. 2013 May;41(9):4825-34. doi: 10.1093/nar/gkt184. Epub 2013 Mar 21.


A coordinated proteomic approach for identifying proteins that interact with the E. coli ribosomal protein S12.

Strader MB, Hervey WJ 4th, Costantino N, Fujigaki S, Chen CY, Akal-Strader A, Ihunnah CA, Makusky AJ, Court DL, Markey SP, Kowalak JA.

J Proteome Res. 2013 Mar 1;12(3):1289-99. doi: 10.1021/pr3009435. Epub 2013 Feb 1.


Isolation and characterization of RNA polymerase rpoB mutations that alter transcription slippage during elongation in Escherichia coli.

Zhou YN, Lubkowska L, Hui M, Court C, Chen S, Court DL, Strathern J, Jin DJ, Kashlev M.

J Biol Chem. 2013 Jan 25;288(4):2700-10. doi: 10.1074/jbc.M112.429464. Epub 2012 Dec 5.


Nus transcription elongation factors and RNase III modulate small ribosome subunit biogenesis in Escherichia coli.

Bubunenko M, Court DL, Al Refaii A, Saxena S, Korepanov A, Friedman DI, Gottesman ME, Alix JH.

Mol Microbiol. 2013 Jan;87(2):382-93. doi: 10.1111/mmi.12105. Epub 2012 Dec 10.


Isolation and characterization of transcription fidelity mutants.

Strathern JN, Jin DJ, Court DL, Kashlev M.

Biochim Biophys Acta. 2012 Jul;1819(7):694-9. doi: 10.1016/j.bbagrm.2012.02.005. Epub 2012 Feb 16. Review.


Structural basis for RNA recognition by NusB and NusE in the initiation of transcription antitermination.

Stagno JR, Altieri AS, Bubunenko M, Tarasov SG, Li J, Court DL, Byrd RA, Ji X.

Nucleic Acids Res. 2011 Sep 1;39(17):7803-15. doi: 10.1093/nar/gkr418. Epub 2011 Jun 7.


The Era GTPase recognizes the GAUCACCUCC sequence and binds helix 45 near the 3' end of 16S rRNA.

Tu C, Zhou X, Tarasov SG, Tropea JE, Austin BP, Waugh DS, Court DL, Ji X.

Proc Natl Acad Sci U S A. 2011 Jun 21;108(25):10156-61. doi: 10.1073/pnas.1017679108. Epub 2011 Jun 6.


Probing cellular processes with oligo-mediated recombination and using the knowledge gained to optimize recombineering.

Sawitzke JA, Costantino N, Li XT, Thomason LC, Bubunenko M, Court C, Court DL.

J Mol Biol. 2011 Mar 18;407(1):45-59. doi: 10.1016/j.jmb.2011.01.030. Epub 2011 Jan 19.


A proteomic and transcriptomic approach reveals new insight into beta-methylthiolation of Escherichia coli ribosomal protein S12.

Strader MB, Costantino N, Elkins CA, Chen CY, Patel I, Makusky AJ, Choy JS, Court DL, Markey SP, Kowalak JA.

Mol Cell Proteomics. 2011 Mar;10(3):M110.005199. doi: 10.1074/mcp.M110.005199. Epub 2010 Dec 17.


Oligonucleotide recombination in Gram-negative bacteria.

Swingle B, Markel E, Costantino N, Bubunenko MG, Cartinhour S, Court DL.

Mol Microbiol. 2010 Jan;75(1):138-48. doi: 10.1111/j.1365-2958.2009.06976.x. Epub 2009 Nov 25.


Structure of ERA in complex with the 3' end of 16S rRNA: implications for ribosome biogenesis.

Tu C, Zhou X, Tropea JE, Austin BP, Waugh DS, Court DL, Ji X.

Proc Natl Acad Sci U S A. 2009 Sep 1;106(35):14843-8. doi: 10.1073/pnas.0904032106. Epub 2009 Aug 17.


Structural basis for binding of RNA and cofactor by a KsgA methyltransferase.

Tu C, Tropea JE, Austin BP, Court DL, Waugh DS, Ji X.

Structure. 2009 Mar 11;17(3):374-85. doi: 10.1016/j.str.2009.01.010.


Recombineering: a homologous recombination-based method of genetic engineering.

Sharan SK, Thomason LC, Kuznetsov SG, Court DL.

Nat Protoc. 2009;4(2):206-23. doi: 10.1038/nprot.2008.227.


Structural and functional analysis of the E. coli NusB-S10 transcription antitermination complex.

Luo X, Hsiao HH, Bubunenko M, Weber G, Court DL, Gottesman ME, Urlaub H, Wahl MC.

Mol Cell. 2008 Dec 26;32(6):791-802. doi: 10.1016/j.molcel.2008.10.028.


Modifying bacteriophage lambda with recombineering.

Thomason LC, Oppenheim AB, Court DL.

Methods Mol Biol. 2009;501:239-51. doi: 10.1007/978-1-60327-164-6_21.


Host responses influence on the induction of lambda prophage.

Rokney A, Kobiler O, Amir A, Court DL, Stavans J, Adhya S, Oppenheim AB.

Mol Microbiol. 2008 Apr;68(1):29-36. doi: 10.1111/j.1365-2958.2008.06119.x. Epub 2008 Feb 20.


E. coli genome manipulation by P1 transduction.

Thomason LC, Costantino N, Court DL.

Curr Protoc Mol Biol. 2007 Jul;Chapter 1:Unit 1.17. doi: 10.1002/0471142727.mb0117s79.


Recombineering: genetic engineering in bacteria using homologous recombination.

Thomason L, Court DL, Bubunenko M, Costantino N, Wilson H, Datta S, Oppenheim A.

Curr Protoc Mol Biol. 2007 Apr;Chapter 1:Unit 1.16. doi: 10.1002/0471142727.mb0116s78. Review.


Amos Oppenheim (31 October 1934 to 24 September 2006).

Adhya SL, Court DL, Friedman DI, Gottesman ME.

Mol Microbiol. 2008 Feb;67(4):685-6. doi: 10.1111/j.1365-2958.2007.06097.x. No abstract available.


Identification and analysis of recombineering functions from Gram-negative and Gram-positive bacteria and their phages.

Datta S, Costantino N, Zhou X, Court DL.

Proc Natl Acad Sci U S A. 2008 Feb 5;105(5):1626-31. doi: 10.1073/pnas.0709089105. Epub 2008 Jan 29.


A stepwise model for double-stranded RNA processing by ribonuclease III.

Gan J, Shaw G, Tropea JE, Waugh DS, Court DL, Ji X.

Mol Microbiol. 2008 Jan;67(1):143-54. Epub 2007 Nov 27.


The structure of the R184A mutant of the inositol monophosphatase encoded by suhB and implications for its functional interactions in Escherichia coli.

Wang Y, Stieglitz KA, Bubunenko M, Court DL, Stec B, Roberts MF.

J Biol Chem. 2007 Sep 14;282(37):26989-96. Epub 2007 Jul 25.


Multicopy plasmid modification with phage lambda Red recombineering.

Thomason LC, Costantino N, Shaw DV, Court DL.

Plasmid. 2007 Sep;58(2):148-58. Epub 2007 Apr 16.


A recombineering based approach for high-throughput conditional knockout targeting vector construction.

Chan W, Costantino N, Li R, Lee SC, Su Q, Melvin D, Court DL, Liu P.

Nucleic Acids Res. 2007;35(8):e64. Epub 2007 Apr 10.


Transcription antitermination by translation initiation factor IF1.

Phadtare S, Kazakov T, Bubunenko M, Court DL, Pestova T, Severinov K.

J Bacteriol. 2007 Jun;189(11):4087-93. Epub 2007 Mar 23.


Recombineering: in vivo genetic engineering in E. coli, S. enterica, and beyond.

Sawitzke JA, Thomason LC, Costantino N, Bubunenko M, Datta S, Court DL.

Methods Enzymol. 2007;421:171-99. Review.


Importance of the 5 S rRNA-binding ribosomal proteins for cell viability and translation in Escherichia coli.

Korepanov AP, Gongadze GM, Garber MB, Court DL, Bubunenko MG.

J Mol Biol. 2007 Mar 2;366(4):1199-208. Epub 2006 Dec 15.


A new look at bacteriophage lambda genetic networks.

Court DL, Oppenheim AB, Adhya SL.

J Bacteriol. 2007 Jan;189(2):298-304. Epub 2006 Nov 3. Review. No abstract available.


Role of an RNase III binding site in transcription termination at lambda nutL by HK022 Nun protein.

Washburn RS, Court DL, Gottesman ME.

J Bacteriol. 2006 Oct;188(19):6824-31.


A set of recombineering plasmids for gram-negative bacteria.

Datta S, Costantino N, Court DL.

Gene. 2006 Sep 1;379:109-15. Epub 2006 May 4.


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