Genome-wide high-throughput screening to investigate essential genes involved in methicillin-resistant staphylococcus aureus sequence type 398 survival

PLoS ONE

Volumn 9, Issue 2, 2014, Pages

  Christiansen, Mette T ^a,c   Kaas, Rolf S ^a   Chaudhuri, Roy R ^b,d   Holmes, Mark A ^b   Hasman, Henrik ^a   Aarestrup, Frank M ^a  

^a TECHNICAL UNIVERSITY OF DENMARK   (Denmark)

^b UNIVERSITY OF CAMBRIDGE   (United Kingdom)

^c UNIVERSITY COLLEGE LONDON   (United Kingdom)

^d UNIVERSITY OF SHEFFIELD   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BACTERIAL COUNT; BACTERIAL GENOME; BACTERIAL GROWTH; BACTERIAL SURVIVAL; BACTERIUM IDENTIFICATION; BACTERIUM ISOLATE; BACTERIUM MUTANT; CONTROLLED STUDY; ESSENTIAL GENE; GENE IDENTIFICATION; GENE MUTATION; GENETIC SCREENING; HIGH THROUGHPUT SCREENING; METHICILLIN RESISTANT STAPHYLOCOCCUS AUREUS; NONHUMAN; NUCLEOTIDE SEQUENCE; TRANSPOSON;

ANIMALS; ANTI-BACTERIAL AGENTS; DNA TRANSPOSABLE ELEMENTS; GENE LIBRARY; GENES, ESSENTIAL; GENOME; GENOTYPE; HIGH-THROUGHPUT SCREENING ASSAYS; HUMANS; HYDROGEN-ION CONCENTRATION; METHICILLIN-RESISTANT STAPHYLOCOCCUS AUREUS; MUTATION; PLASMIDS; SEQUENCE ANALYSIS, DNA; STAPHYLOCOCCAL INFECTIONS; SWINE; VIRULENCE FACTORS;

EID: 84895771109     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0089018     Document Type: Article

References (50)

1. Fraser CM, Gocayne JD, White O, Adams MD, Rebecca A, et al. (2013) The Minimal Gene Complement Mycoplasma genitalium of. Science 270: 397-403.
2. Schneiker S, Perlova O, Kaiser O, Gerth K, Alici A, et al. (2007) Complete genome sequence of the myxobacterium Sorangium cellulosum. Nature biotechnology 25: 1281-1289. (Pubitemid 350076516)
3. Hall N (2007) Advanced sequencing technologies and their wider impact in microbiology. The Journal of experimental biology 210: 1518-1525.
4. Salama N, Shepherd B, Falkow S (2004) Global transposon mutagenesis and essential gene analysis of Helicobacter pylori. Journal of bacteriology 186: 7926-7935. (Pubitemid 39552503)
5. Liberati NT, Urbach JM, Miyata S, Lee DG, Drenkard E, et al. (2006) An ordered, nonredundant library of Pseudomonas aeruginosa strain PA14 transposon insertion mutants. Proceedings of the National Academy of Sciences of the United States of America 103: 2833-2838.
6. Bae T, Banger AK, Wallace A, Glass EM, Aslund F, et al. (2004) Staphylococcus aureus virulence genes identified by bursa aurealis mutagenesis and nematode killing. Proceedings of the National Academy of Sciences of the United States of America 101: 12312-12317. (Pubitemid 39145440)
7. Sassetti CM, Boyd DH, Rubin EJ (2003) Genes required for mycobacterial growth defined by high density mutagenesis. Molecular microbiology 48: 77-84. (Pubitemid 36411469)
8. Chaudhuri RR, Allen AG, Owen PJ, Shalom G, Stone K, et al. (2009) Comprehensive identification of essential Staphylococcus aureus genes using Transposon-Mediated Differential Hybridisation (TMDH). BMC genomics 10: 291.
9. Langridge GC, Phan M, Turner DJ, Perkins TT, Parts L, et al. (2009) Simultaneous assay of every Salmonella Typhi gene using one million transposon mutants. Genome research 19: 2308-2316. doi:10.1101/gr.097097.109
10. Khatiwara A, Jiang T, Sung S-S, Dawoud T, Kim JN, et al. (2012) Genome scanning for conditionally essential genes in Salmonella enterica Serotype Typhimurium. Applied and environmental microbiology 78: 3098-3107.
11. Pickard D, Kingsley RA, Hale C, Turner K, Sivaraman K, et al. (2013) A Genomewide Mutagenesis Screen Identifies Multiple Genes Contributing to Vi Capsular Expression in Salmonella enterica Serovar Typhi. Journal of bacteriology 195: 1320-1326.
12. Fey PD, Endres JL, Yajjala VK, Yajjala K, Widhelm TJ, et al. (2013) A Genetic Resource for Rapid and Comprehensive Phenotype. MBio 4: e00537-12. doi:10.1128/mBio.00537-12.Editor
13. Chaudhuri RR, Morgan E, Peters SE, Pleasance SJ, Hudson DL, et al. (2013) Comprehensive Assignment of Roles for Salmonella Typhimurium Genes in Intestinal Colonization of Food-Producing Animals. PLoS Genetics 9: e1003456.
14. Plata K, Rosato AE, Wegrzyn G (2009) Staphylococcus aureus as an infectious agent: overview of biochemistry and molecular genetics of its pathogenicity. Acta biochimica Polonica 56: 597-612.
15. Hasman H, Moodley A, Guardabassi L, Stegger M, Skov RL, et al. (2010) Spa type distribution in Staphylococcus aureus originating from pigs, cattle and poultry. Veterinary microbiology 141: 326-331.
16. Sung JM-L, Lloyd DH, Lindsay JA (2008) Staphylococcus aureus host specificity: comparative genomics of human versus animal isolates by multi-strain microarray. Microbiology (Reading, England) 154: 1949-1959.
17. Price L, Stegger M, Hasman H, Aziz M (2012) Staphylococcus aureus CC398: host adaptation and emergence of methicillin resistance in livestock. MBio 3: e00305-11.
18. Uhlemann A, Porcella S, Trivedi S (2012) Identification of a highly transmissible animal-independent Staphylococcus aureus ST398 clone with distinct genomic and cell adhesion properties. MBio 3: e00027-12.
19. Van Duijkeren E, Ikawaty R, Broekhuizen-Stins MJ, Jansen MD, Spalburg EC, et al. (2008) Transmission of methicillin-resistant Staphylococcus aureus strains between different kinds of pig farms. Veterinary microbiology 126: 383-389. (Pubitemid 350192090)
20. Cuny C, Friedrich A, Kozytska S, Layer F, Nübel U, et al. (2010) Emergence of methicillin-resistant Staphylococcus aureus (MRSA) in different animal species. International journal of medical microbiology: IJMM 300: 109-117.
21. Schijffelen MJ, Boel CHE, van Strijp JAG, Fluit AC (2010) Whole genome analysis of a livestock-associated methicillin-resistant Staphylococcus aureus ST398 isolate from a case of human endocarditis. BMC genomics 11: 376.
22. Martin M (2011) Cutadapt removes adapter sequences from high-throughput sequencing reads. EMBnet journal 17: 10-12.
23. Langmead B, Salzberg SL (2012) Fast gapped-read alignment with Bowtie 2. Nature methods 9: 357-359.
24. Krzywinski M, Schein J, Birol I, Connors J, Gascoyne R, et al. (2009) Circos: an information aesthetic for comparative genomics. Genome research 19: 1639-1645.
25. Anders S, Huber W (2010) Differential expression analysis for sequence count data. Genome biology 11: R106.
26. Anders S, Huber W (2012) Differential expression of RNA-Seq data at the gene level - the DESeq package. Heidelberg, Germany: European Molecular Biology Laboratory (EMBL).
27. Tatusov RL (1997) A Genomic Perspective on Protein Families. Science 278: 631-637.
28. Tatusov RL, Galperin MY, Natale DA, Koonin EV (2000) The COG database: a tool for genome-scale analysis of protein functions and evolution. Nucleic acids research 28: 33-36. (Pubitemid 30047708)
29. Devriese L, Van Damme R, Fameree L (1972) Methicillin (cloxacillin)-resistant Staphylocoocus aureus strains isolated from bovine mastitis cases. Vet Med 19: 598-605.
30. Verkade E, Kluytmans J (2013) Livestock-associated Staphylococcus aureus CC398: Animal reservoirs and human infections. Infection, genetics and evolution.
31. Smith TC, Pearson N (2011) The emergence of Staphylococcus aureus ST398. Vector borne and zoonotic diseases (Larchmont, NY) 11: 327-339.
32. Sun F, Cho H, Jeong D-W, Li C, He C, et al. (2010) Aureusimines in Staphylococcus aureus are not involved in virulence. PloS one 5: e15703.
33. Saunders NA, Holmes A (2007) Multilocus Sequence Typing (MLST) of Staphylococcus aureus. Methods in molecular biology (Clifton, NJ) 391: 71-85. (Pubitemid 350190017)
34. Siboo I, Chambers H, Sullam P (2005) Role of SraP, a serine-rich surface protein of Staphylococcus aureus, in binding to human platelets. Infection and immunity 73: 2273-2280. (Pubitemid 40470828)
35. Fluit AC (2012) Livestock-associated Staphylococcus aureus. Clinical Microbiology and Infection 18: 735-744.
36. Koprivnjak T, Zhang D, Ernst CM, Peschel A, Nauseef WM, et al. (2011) Characterization of Staphylococcus aureus cardiolipin synthases 1 and 2 and their contribution to accumulation of cardiolipin in stationary phase and within phagocytes. Journal of bacteriology 193: 4134-4142.
37. Henze U, Sidow T, Wecke J, Labischinski H, Berger-Bächi B (1993) Influence of femB on methicillin resistance and peptidoglycan metabolism in Staphylococcus aureus. Journal of bacteriology 175: 1612-1620. (Pubitemid 23084122)
38. Maidhof H, Reinicke B, Blümel P, Berger-Bächi B, Labischinski H (1991) femA, which encodes a factor essential for expression of methicillin resistance, affects glycine content of peptidoglycan in methicillin-resistant and methicillin-susceptible Staphylococcus aureus strains. Journal of bacteriology 173: 3507-3513.
39. Rohrer S, Ehlert K, Tschierske M, Labischinski H, Berger-Bächi B (1999) The essential Staphylococcus aureus gene fmhB is involved in the first step of peptidoglycan pentaglycine interpeptide formation. Proceedings of the National Academy of Sciences of the United States of America 96: 9351-9356. (Pubitemid 29374758)
40. Hughes JD, Macdonald VW, Hess JR (2007) Warm storage of whole blood for 72 hours. Transfusion 47: 2050-2056. (Pubitemid 47623975)
41. Somerville G, Morgan C (2002) Staphylococcus aureus aconitase inactivation unexpectedly inhibits post-exponential-phase growth and enhances stationary-phase survival. Infection and immunity 70: 6373-6382. (Pubitemid 35192730)
42. Prasad UV, Vasu D, Kumar YN, Kumar PS, Yeswanth S, et al. (2013) Cloning, Expression and Characterization of NADP-Dependent Isocitrate Dehydrogenase from Staphylococcus aureus. Applied biochemistry and biotechnology 169: 862-869.
43. Rigby KM, DeLeo FR (2012) Neutrophils in innate host defense against Staphylococcus aureus infections. Seminars in immunopathology 34: 237-259.
44. Anderson K, Roux C (2010) Characterizing the effects of inorganic acid and alkaline shock on the Staphylococcus aureus transcriptome and messenger RNA turnover. FEMS Immunol Med Microbiol 60: 208-250.
45. Pané-Farré J, Jonas B, Förstner K, Engelmann S, Hecker M (2006) The sigmaB regulon in Staphylococcus aureus and its regulation. International journal of medical microbiology: IJMM 296: 237-258. (Pubitemid 44016170)
46. Somerville GA, Cockayne A, Dürr M, Peschel A, Otto M, et al. (2003) Synthesis and deformylation of Staphylococcus aureus delta-toxin are linked to tricarboxylic acid cycle activity. Journal of bacteriology 185: 6686-6694. (Pubitemid 37385889)
47. Wakeman CA, Hammer ND, Stauff DL, Attia AS, Anzaldi LL, et al. (2012) Menaquinone biosynthesis potentiates haem toxicity in Staphylococcus aureus. Molecular microbiology 86: 1376-1392.
48. Den Reijer PM, Lemmens-den Toom N, Kant S, Snijders SV, Boelens H, et al. (2013) Characterization of the humoral immune response during Staphylococcus aureus bacteremia and global gene expression by Staphylococcus aureus in human blood. PloS one 8: e53391.
49. Malachowa N, Whitney AR, Kobayashi SD, Sturdevant DE, Kennedy AD, et al. (2011) Global changes in Staphylococcus aureus gene expression in human blood. PloS one 6: e18617.
50. Mei JM, Nourbakhsh F, Ford CW, Holden DW (1997) Identification of Staphylococcus aureus virulence genes in a murine model of bacteraemia using signature-tagged mutagenesis. Molecular microbiology 26: 399-407. (Pubitemid 27483687)