The Mycobacterium tuberculosis transcriptional landscape under genotoxic stress
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T. Tønjum | A. Namouchi | Seetha V. Balasingham | S. Frye | Torbjørn Rognes | M. Gómez-Muñoz | L. V. Moen
[1] L. Bi,et al. An automated approach for global identification of sRNA-encoding regions in RNA-Seq data from Mycobacterium tuberculosis. , 2016, Acta biochimica et biophysica Sinica.
[2] B. Ueberheide,et al. Separable roles for Mycobacterium tuberculosis ESX-3 effectors in iron acquisition and virulence , 2016, Proceedings of the National Academy of Sciences.
[3] R. Brosch,et al. ESX/type VII secretion systems of mycobacteria: Insights into evolution, pathogenicity and protection. , 2015, Tuberculosis.
[4] M. Voskuil,et al. Toward Resolving the Paradox of the Critical Role of the DosR Regulon in Mycobacterium tuberculosis Persistence and Active Disease. , 2015, American journal of respiratory and critical care medicine.
[5] A. Kierzek,et al. Lipid metabolism and Type VII secretion systems dominate the genome scale virulence profile of Mycobacterium tuberculosis in human dendritic cells , 2015, BMC Genomics.
[6] Michael J E Sternberg,et al. The Phyre2 web portal for protein modeling, prediction and analysis , 2015, Nature Protocols.
[7] D. Schnappinger,et al. Mycobacterial genes essential for the pathogen's survival in the host , 2015, Immunological reviews.
[8] M. Niederweis,et al. Mycobacteria, metals, and the macrophage , 2015, Immunological reviews.
[9] M. Jarek,et al. FurA contributes to the oxidative stress response regulation of Mycobacterium avium ssp. paratuberculosis , 2015, Front. Microbiol..
[10] Raphael Gottardo,et al. Orchestrating high-throughput genomic analysis with Bioconductor , 2015, Nature Methods.
[11] B. Tjaden,et al. De novo assembly of bacterial transcriptomes from RNA-seq data , 2015, Genome Biology.
[12] Nathan D. Price,et al. The DNA-binding network of Mycobacterium tuberculosis , 2015, Nature Communications.
[13] Michael Y. Galperin,et al. Expanded microbial genome coverage and improved protein family annotation in the COG database , 2014, Nucleic Acids Res..
[14] W. Huber,et al. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2 , 2014, Genome Biology.
[15] Paul Theodor Pyl,et al. HTSeq—a Python framework to work with high-throughput sequencing data , 2014, bioRxiv.
[16] Wilbert Bitter,et al. Take five - Type VII secretion systems of Mycobacteria. , 2014, Biochimica et biophysica acta.
[17] Lydia M. Contreras,et al. Small RNAs in mycobacteria: an unfolding story , 2014, Front. Cell. Infect. Microbiol..
[18] Peter F. Stadler,et al. Lacking alignments? The next-generation sequencing mapper segemehl revisited , 2014, Bioinform..
[19] Rolf Backofen,et al. CopraRNA and IntaRNA: predicting small RNA targets, networks and interaction domains , 2014, Nucleic Acids Res..
[20] D. Young,et al. Noncoding RNA in Mycobacteria , 2014, Microbiology spectrum.
[21] Bruno Dupuy,et al. COV2HTML: a visualization and analysis tool of bacterial next generation sequencing (NGS) data for postgenomics life scientists. , 2014, Omics : a journal of integrative biology.
[22] B. Tjaden,et al. Computational analysis of bacterial RNA-Seq data , 2013, Nucleic acids research.
[23] Ruifu Yang,et al. Regulation of pathogenicity by noncoding RNAs in bacteria. , 2013, Future microbiology.
[24] M. Niederweis,et al. Discovery of a Siderophore Export System Essential for Virulence of Mycobacterium tuberculosis , 2013, PLoS pathogens.
[25] Diogo F. Veiga,et al. Genome-Wide Discovery of Small RNAs in Mycobacterium tuberculosis , 2012, PloS one.
[26] K. Poole. Bacterial stress responses as determinants of antimicrobial resistance. , 2012, The Journal of antimicrobial chemotherapy.
[27] D. Young,et al. Non-coding RNA and its potential role in Mycobacterium tuberculosis pathogenesis , 2012, RNA biology.
[28] T. Dick,et al. How Mycobacterium tuberculosis goes to sleep: the dormancy survival regulator DosR a decade later. , 2012, Future microbiology.
[29] G. Storz,et al. Regulation by small RNAs in bacteria: expanding frontiers. , 2011, Molecular cell.
[30] G. Lamichhane. Mycobacterium Tuberculosis Response to Stress from Reactive Oxygen and Nitrogen Species , 2011, Front. Microbio..
[31] P. Andersen,et al. The ada operon of Mycobacterium tuberculosis encodes two DNA methyltransferases for inducible repair of DNA alkylation damage. , 2011, DNA repair.
[32] Gary K. Schoolnik,et al. The Response of Mycobacterium Tuberculosis to Reactive Oxygen and Nitrogen Species , 2011, Front. Microbio..
[33] I. Kawamura,et al. Expression of the Mycobacterium tuberculosis PPE37 protein in Mycobacterium smegmatis induces low tumour necrosis factor alpha and interleukin 6 production in murine macrophages. , 2011, Journal of medical microbiology.
[34] M. Glickman,et al. Mycobacteria exploit three genetically distinct DNA double‐strand break repair pathways , 2011, Molecular microbiology.
[35] M. Braunstein,et al. Protein export systems of Mycobacterium tuberculosis: novel targets for drug development? , 2010, Future microbiology.
[36] J. Vogel,et al. Regulatory RNA in bacterial pathogens. , 2010, Cell host & microbe.
[37] Rolf Backofen,et al. Freiburg RNA Tools: a web server integrating IntaRNA, ExpaRNA and LocARNA , 2010, Nucleic Acids Res..
[38] Peter F. Stadler,et al. Fast Mapping of Short Sequences with Mismatches, Insertions and Deletions Using Index Structures , 2009, PLoS Comput. Biol..
[39] G. Palù,et al. Characterization of a Mycobacterium tuberculosis ESX-3 Conditional Mutant: Essentiality and Rescue by Iron and Zinc , 2009, Journal of bacteriology.
[40] D. Young,et al. Identification of small RNAs in Mycobacterium tuberculosis , 2009, Molecular microbiology.
[41] J. Vogel,et al. Deep sequencing of Salmonella RNA associated with heterologous Hfq proteins in vivo reveals small RNAs as a major target class and identifies RNA processing phenotypes , 2009, RNA biology.
[42] E. Rødland,et al. Characterization of the major formamidopyrimidine–DNA glycosylase homolog in Mycobacterium tuberculosis and its linkage to variable tandem repeats , 2009, FEMS immunology and medical microbiology.
[43] Yanmin Hu,et al. Acute and Persistent Mycobacterium tuberculosis Infections Depend on the Thiol Peroxidase TPX , 2009, PloS one.
[44] G. Storz,et al. Regulatory RNAs in Bacteria , 2009, Cell.
[45] F. Repoila,et al. Small regulatory non‐coding RNAs in bacteria: physiology and mechanistic aspects , 2009, Biology of the cell.
[46] Rolf Backofen,et al. IntaRNA: efficient prediction of bacterial sRNA targets incorporating target site accessibility and seed regions , 2008, Bioinform..
[47] W. Bishai,et al. Roles of SigB and SigF in the Mycobacterium tuberculosis Sigma Factor Network , 2007, Journal of bacteriology.
[48] Wilbert Bitter,et al. Type VII secretion — mycobacteria show the way , 2007, Nature Reviews Microbiology.
[49] John D. Hunter,et al. Matplotlib: A 2D Graphics Environment , 2007, Computing in Science & Engineering.
[50] Alain L. Gervais,et al. Identification of Mycobacterial σ Factor Binding Sites by Chromatin Immunoprecipitation Assays , 2006 .
[51] David C. Young,et al. Mycobacterium tuberculosis SigM Positively Regulates Esx Secreted Protein and Nonribosomal Peptide Synthetase Genes and Down Regulates Virulence-Associated Surface Lipid Synthesis , 2006, Journal of bacteriology.
[52] A. Tyagi,et al. Mycobacterial transcriptional signals: requirements for recognition by RNA polymerase and optimal transcriptional activity , 2006, Nucleic acids research.
[53] P. Miller,et al. Formation and Repair of Interstrand Cross‐Links in DNA , 2006 .
[54] N. S. Dosanjh,et al. Thiol specific oxidative stress response in Mycobacteria. , 2005, FEMS microbiology letters.
[55] D. Chatterji,et al. Stress Responses in Mycobacteria , 2005, IUBMB life.
[56] Shin-Il Kim,et al. Mycobacterial granulomas: keys to a long-lasting host-pathogen relationship. , 2004, Clinical immunology.
[57] Sahadevan Raman,et al. Transcription Regulation by the Mycobacterium tuberculosis Alternative Sigma Factor SigD and Its Role in Virulence , 2004, Journal of bacteriology.
[58] W. Bishai,et al. The Mycobacterium tuberculosis SigD sigma factor controls the expression of ribosome‐associated gene products in stationary phase and is required for full virulence , 2004, Cellular microbiology.
[59] Jean YH Yang,et al. Bioconductor: open software development for computational biology and bioinformatics , 2004, Genome Biology.
[60] S. Krishna,et al. Metal ion transport and regulation in Mycobacterium tuberculosis. , 2004, Frontiers in bioscience : a journal and virtual library.
[61] D. Saini,et al. DevR-DevS is a bona fide two-component system of Mycobacterium tuberculosis that is hypoxia-responsive in the absence of the DNA-binding domain of DevR. , 2004, Microbiology.
[62] J. Hinds,et al. The majority of inducible DNA repair genes in Mycobacterium tuberculosis are induced independently of RecA , 2003, Molecular microbiology.
[63] Claudia Sala,et al. Mycobacterium tuberculosis FurA Autoregulates Its Own Expression , 2003, Journal of bacteriology.
[64] Dirk Schnappinger,et al. Inhibition of Respiration by Nitric Oxide Induces a Mycobacterium tuberculosis Dormancy Program , 2003, The Journal of experimental medicine.
[65] Yang Liu,et al. Transcriptional Adaptation of Mycobacterium tuberculosis within Macrophages , 2003, The Journal of experimental medicine.
[66] S. Andrews,et al. Bacterial iron homeostasis. , 2003, FEMS microbiology reviews.
[67] Martin Tompa,et al. Rv3133c/dosR is a transcription factor that mediates the hypoxic response of Mycobacterium tuberculosis , 2003, Molecular microbiology.
[68] E. Rubin,et al. Genes required for mycobacterial growth defined by high density mutagenesis , 2003, Molecular microbiology.
[69] L. Riley,et al. Reactive Nitrogen Intermediates Have a Bacteriostatic Effect on Mycobacterium tuberculosis In Vitro , 2002, Journal of Clinical Microbiology.
[70] Gary K. Schoolnik,et al. ideR, an Essential Gene in Mycobacterium tuberculosis: Role of IdeR in Iron-Dependent Gene Expression, Iron Metabolism, and Oxidative Stress Response , 2002, Infection and Immunity.
[71] L. Rand,et al. Definition of the Mycobacterial SOS Box and Use To Identify LexA-Regulated Genes in Mycobacterium tuberculosis , 2002, Journal of bacteriology.
[72] C. Sala,et al. Transcriptional Regulation of furAand katG upon Oxidative Stress inMycobacterium smegmatis , 2001, Journal of bacteriology.
[73] John Chan,et al. Tuberculosis: Latency and Reactivation , 2001, Infection and Immunity.
[74] J. Courcelle,et al. Comparative gene expression profiles following UV exposure in wild-type and SOS-deficient Escherichia coli. , 2001, Genetics.
[75] C. Nathan,et al. Reactive oxygen and nitrogen intermediates in the relationship between mammalian hosts and microbial pathogens. , 2000, Proceedings of the National Academy of Sciences of the United States of America.
[76] H. Su,et al. The salicylate-derived mycobactin siderophores of Mycobacterium tuberculosis are essential for growth in macrophages. , 2000, Proceedings of the National Academy of Sciences of the United States of America.
[77] C. Barry,et al. Iron Acquisition and Metabolism by Mycobacteria , 1999, Journal of bacteriology.
[78] V. Abratt,et al. Involvement of the N- and C-terminal domains of Mycobacterium tuberculosis KatG in the protection of mutant Escherichia coli against DNA-damaging agents. , 1999, Microbiology.
[79] C. Walsh,et al. Identification of a Mycobacterium tuberculosis gene cluster encoding the biosynthetic enzymes for assembly of the virulence-conferring siderophore mycobactin. , 1998, Chemistry & biology.
[80] V. Deretic,et al. Oxidative Stress Response and Characterization of theoxyR-ahpC and furA-katG Loci inMycobacterium marinum , 1998, Journal of bacteriology.
[81] J. W. Little. Mechanism of specific LexA cleavage: autodigestion and the role of RecA coprotease. , 1991, Biochimie.
[82] Qian-zhong Li,et al. Non-coding RNA identification based on topology secondary structure and reading frame in organelle genome level. , 2016, Genomics.
[83] M. Sternberg,et al. Protein structure prediction on the Web: a case study using the Phyre server , 2009, Nature Protocols.
[84] Dimitrios Galaris,et al. Oxidative stress and iron homeostasis: mechanistic and health aspects. , 2008, Critical reviews in clinical laboratory sciences.
[85] R.,et al. Involvement of the Nand C-terminal domains of Mycobacterium tuberculosis KatG in the protection of mutant Escherichia coli against DNA-damaging agents , 2008 .
[86] Alain L. Gervais,et al. Identification of mycobacterial sigma factor binding sites by chromatin immunoprecipitation assays. , 2007, Journal of bacteriology.
[87] G. Schoolnik,et al. Regulation of the Mycobacterium tuberculosis PE/PPE genes. , 2004, Tuberculosis.
[88] M. Dinauer,et al. Comparison of the roles of reactive oxygen and nitrogen intermediates in the host response to Mycobacterium tuberculosis using transgenic mice. , 1997, Tubercle and lung disease : the official journal of the International Union against Tuberculosis and Lung Disease.