The essential genome of Streptococcus agalactiae

BMC Genomics

Volumn 17, Issue 1, 2016, Pages

  Hooven, Thomas A ^a   Catomeris, Andrew J ^b   Akabas, Leor H ^a   Randis, Tara M ^b   Maskell, Duncan J ^c   Peters, Sarah E ^c   Ott, Sandra ^d   Santana Cruz, Ivette ^d   Tallon, Luke J ^d   Tettelin, Hervé ^d   Ratner, Adam J ^b  

^a Och Spine at New York Presbyterian Hospitals   (United States)

^b NEW YORK UNIVERSITY SCHOOL OF MEDICINE   (United States)

^c UNIVERSITY OF CAMBRIDGE   (United Kingdom)

^d UNIVERSITY OF MARYLAND SCHOOL OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

TRANSFER RNA; TRANSPOSON;

ARTICLE; BACTERIAL GENE; BACTERIAL GENOME; CELL FUNCTION; COMPARATIVE STUDY; CONTROLLED STUDY; CYLE GENE; GENE IDENTIFICATION; GLYCOLYSIS; MOLECULAR INTERACTION; NONHUMAN; NUCLEOTIDE METABOLISM; PHENOTYPE; REPRODUCIBILITY; RNA SYNTHESIS; SEQUENCE ALIGNMENT; SIGNAL TRANSDUCTION; STREPTOCOCCUS AGALACTIAE; STREPTOCOCCUS PYOGENES; TRANSPOSON; GENE EXPRESSION REGULATION; GENE LIBRARY; GENE VECTOR; GENETICS; GENOMICS; METABOLISM; MICROBIOLOGY; PROCEDURES; STREPTOCOCCUS INFECTION;

DNA TRANSPOSABLE ELEMENTS; GENE LIBRARY; GENETIC VECTORS; GENOME, BACTERIAL; GENOMICS; MUTAGENESIS, INSERTIONAL; SIGNAL TRANSDUCTION; STREPTOCOCCAL INFECTIONS; STREPTOCOCCUS AGALACTIAE;

EID: 84969945318     PISSN: None     EISSN: 14712164     Source Type: Journal    
DOI: 10.1186/s12864-016-2741-z     Document Type: Article

References (52)

1. Land M, Hauser L, Jun S-R, Nookaew I, Leuze MR, Ahn T-H, Karpinets T, Lund O, Kora G, Wassenaar T, Poudel S, Ussery DW. Insights from 20years of bacterial genome sequencing. Funct Integr Genomics. 2015;15:141-61.
2. van Opijnen T, Bodi KL, Camilli A. Tn-seq: high-throughput parallel sequencing for fitness and genetic interaction studies in microorganisms. Nat Methods. 2009;6:767-72.
3. van Opijnen T, Lazinski DW, Camilli A. Genome-Wide Fitness and Genetic Interactions Determined by Tn-seq, a High-Throughput Massively Parallel Sequencing Method for Microorganisms. Curr Protoc Mol Biol. 2014;106:7.16.1-7.16.24.
4. Gibbs RS, Schrag S, Schuchat A. Perinatal infections due to group B streptococci. Obstet Gynecol. 2004;104:1062-76.
5. Campbell JR, Hillier SL, Krohn MA, Ferrieri P, Zaleznik DF, Baker CJ. Group B streptococcal colonization and serotype-specific immunity in pregnant women at delivery. Obstet Gynecol. 2000;96:498-503.
6. Jones DE, Kanarek KS, Lim DV. Group B streptococcal colonization patterns in mothers and their infants. J Clin Microbiol. 1984;20:438-40.
7. Pass MA, Gray BM, Khare S, Dillon HC. Prospective studies of group B streptococcal infections in infants. J Pediatr. 1979;95:437-43.
8. Lamagni TL, Keshishian C, Efstratiou A, Guy R, Henderson KL, Broughton K, Sheridan E. Emerging trends in the epidemiology of invasive group B streptococcal disease in England and Wales, 1991-2010. Clin Infect Dis. 2013;57:682-8.
9. Skoff TH, Farley MM, Petit S, Craig AS, Schaffner W, Gershman K, Harrison LH, Lynfield R, Mohle Boetani J, Zansky S, Albanese BA, Stefonek K, Zell ER, Jackson D, Thompson T, Schrag SJ. Increasing burden of invasive group B streptococcal disease in nonpregnant adults, 1990-2007. Clin Infect Dis. 2009;49:85-92.
10. Reingold A, Watt JP. Group B streptococcus infections of soft tissue and bone in California adults, 1995-2012. Epidemiol Infect. 2015;143:3343-50.
11. Committee on Infectious Diseases, Committee on Fetus and Newborn: Policy statement-Recommendations for the prevention of perinatal group B streptococcal (GBS) disease. Pediatrics 2011:611-616
12. Centers for Disease Control and Prevention (CDC). Perinatal group B streptococcal disease after universal screening recommendations--United States, 2003-2005. MMWR Morb Mortal Wkly Rep. 2007;56:701-5.
13. Pulver LS, Hopfenbeck MM, Young PC, Stoddard GJ, Korgenski K, Daly J, Byington CL. Continued early onset group B streptococcal infections in the era of intrapartum prophylaxis. J Perinatol. 2009;29:20-5.
14. Liu GY, Doran KS, Lawrence T, Turkson N, Puliti M, Tissi L, Nizet V. Sword and shield: linked group B streptococcal beta-hemolysin/cytolysin and carotenoid pigment function to subvert host phagocyte defense. Proc Natl Acad Sci U S A. 2004;101:14491-6.
15. Faralla C, Metruccio MM, De Chiara M, Mu R, Patras KA, Muzzi A, Grandi G, Margarit I, Doran KS, Janulczyk R. Analysis of Two-Component Systems in Group B Streptococcus Shows That RgfAC and the Novel FspSR Modulate Virulence and Bacterial Fitness. MBio. 2014;5:e00870-14.
16. Doran KS, Engelson EJ, Khosravi A, Maisey HC, Fedtke I, Equils O, Michelsen KS, Arditi M, Peschel A, Nizet V. Blood-brain barrier invasion by group B Streptococcus depends upon proper cell-surface anchoring of lipoteichoic acid. J Clin Invest. 2005;115:2499-507.
17. Whidbey C, Harrell MI, Burnside K, Ngo L, Becraft AK, Iyer LM, Aravind L, Hitti J, Waldorf KMA, Rajagopal L. A hemolytic pigment of Group B Streptococcus allows bacterial penetration of human placenta. J Exp Med. 2013;210:1265-81.
18. Schubert A, Zakikhany K, Schreiner M, Frank R, Spellerberg B, Eikmanns BJ, Reinscheid DJ. A fibrinogen receptor from group B Streptococcus interacts with fibrinogen by repetitive units with novel ligand binding sites. Mol Microbiol. 2002;46:557-69.
19. Lamy M-C, Zouine M, Fert J, Vergassola M, Couve E, Pellegrini E, Glaser P, Kunst F, Msadek T, Trieu-Cuot P, Poyart C. CovS/CovR of group B streptococcus: a two-component global regulatory system involved in virulence. Mol Microbiol. 2004;54:1250-68.
20. May JP, Walker CA, Maskell DJ, Slater JD. Development of an in vivo Himar1 transposon mutagenesis system for use in Streptococcus equi subsp. equi. FEMS Microbiol Lett. 2004;238:401-9.
21. Forquin M-P, Tazi A, Rosa-Fraile M, Poyart C, Trieu-Cuot P, Dramsi S. The putative glycosyltransferase-encoding gene cylJ and the group B Streptococcus (GBS)-specific gene cylK modulate hemolysin production and virulence of GBS. Infect Immun. 2007;75:2063-6.
22. de la Rosa M, Perez M, Carazo C, Pareja L, Peis JI, Hernandez F. New Granada Medium for detection and identification of group B streptococci. J Clin Microbiol. 1992;30:1019-21.
23. Le Breton Y, Belew AT, Valdes KM, Islam E, Curry P, Tettelin H, Shirtliff ME, El-Sayed NM, McIver KS. Essential Genes in the Core Genome of the Human Pathogen Streptococcus pyogenes. Sci Rep. 2015;5:9838.
24. Skurnik D, Roux D, Aschard H, Cattoir V, Yoder-Himes D, Lory S, Pier GB. A Comprehensive Analysis of In Vitro and In Vivo Genetic Fitness of Pseudomonas aeruginosa Using High-Throughput Sequencing of Transposon Libraries. PLoS Pathog. 2013;9:e1003582-16.
25. Zomer A, Burghout P, Bootsma HJ, Hermans PWM, van Hijum SAFT. ESSENTIALS: software for rapid analysis of high throughput transposon insertion sequencing data. PLoS One. 2012;7:e43012.
26. DeJesus MA, Zhang YJ, Sassetti CM, Rubin EJ, Sacchettini JC, Ioerger TR. Bayesian analysis of gene essentiality based on sequencing of transposon insertion libraries. Bioinformatics. 2013;29:695-703.
27. Baerends RJS, Smits WK, de Jong A, Hamoen LW, Kok J, Kuipers OP. Genome2D: a visualization tool for the rapid analysis of bacterial transcriptome data. Genome Biol. 2004;5:R37.
28. Novichkov PS, Kazakov AE, Ravcheev DA, Leyn SA, Kovaleva GY, Sutormin RA, Kazanov MD, Riehl W, Arkin AP, Dubchak I, Rodionov DA. RegPrecise 3.0--a resource for genome-scale exploration of transcriptional regulation in bacteria. BMC Genomics. 2013;14:745.
29. Barakat M, Ortet P, Jourlin-Castelli C, Ansaldi M, Méjean V, Whitworth DE. P2CS: a two-component system resource for prokaryotic signal transduction research. BMC Genomics. 2009;10:315.
30. Hughes MJG, Moore JC, Lane JD, Wilson R, Pribul PK, Younes ZN, Dobson RJ, Everst P, Reason AJ, Redfern JM, Greer FM, Paxton T, Panico M, Morris HR, Feldman RG, Santangelo JD. Identification of Major Outer Surface Proteins of Streptococcus agalactiae. Infect Immun. 2002;70:1254-9.
31. Faustoferri RC, Hubbard CJ, Santiago B, Buckley AA, Seifert TB, Quivey RG. Regulation of fatty acid biosynthesis by the global regulator CcpA and the local regulator FabT in Streptococcus mutans. Mol Oral Microbiol. 2015;30:128-46.
32. Almengor AC, Kinkel TL, Day SJ, McIver KS. The catabolite control protein CcpA binds to Pmga and influences expression of the virulence regulator Mga in the Group A streptococcus. J Bacteriol. 2007;189:8405-16.
33. Caymaris S, Bootsma HJ, Martin B, Hermans PWM, Prudhomme M, Claverys J-P. The global nutritional regulator CodY is an essential protein in the human pathogen Streptococcus pneumoniae. Mol Microbiol. 2010;78:344-60.
34. Krzywinski M, Schein J, Birol I, Connors J, Gascoyne R, Horsman D, Jones SJ, Marra MA. Circos: an information aesthetic for comparative genomics. Genome Res. 2009;19:1639-45.
35. Juhas M, Reuß DR, Zhu B, Commichau FM. Bacillus subtilis and Escherichia coli essential genes and minimal cell factories after one decade of genome engineering. Microbiology. 2014;160:2341-51.
36. Jones AL, Knoll KM, Rubens CE: Identification of Streptococcus agalactiae virulence genes in the neonatal rat sepsis model using signature-tagged mutagenesis. Mol Microbiol, 37: 1444-1455
37. Valentino MD, Foulston L, Sadaka A, Kos VN, Villet RA, Santa Maria J, Lazinski DW, Camilli A, Walker S, Hooper DC, Gilmore MS. Genes Contributing to Staphylococcus aureus Fitness in Abscess- and Infection-Related Ecologies. MBio. 2014;5:e01729-14.
38. Donders GGG, Halperin SA, Devlieger R, Baker S, Forte P, Wittke F, Slobod KS, Dull PM. Maternal immunization with an investigational trivalent group B streptococcal vaccine. Obstet Gynecol. 2016;2:213-21.
39. Johri AK, Paoletti LC, Glaser P, Dua M, Sharma PK, Grandi G, Rappuoli R. Group B Streptococcus: global incidence and vaccine development. Nat Rev Micro. 2006;4:932-42.
40. Santillan DA, Rai KK, Santillan MK, Krishnamachari Y, Salem AK, Hunter SK. Efficacy of polymeric encapsulated C5a peptidase-based group B streptococcus vaccines in a murine model. Am J Obstet Gynecol. 2011;205:249.e1-8.
41. Paoletti LC, Madoff LC. Vaccines to prevent neonatal GBS infection. Semin Neonatol. 2002;7:315-23.
42. Wexselblatt E, Oppenheimer-Shaanan Y, Kaspy I, London N, Schueler-Furman O, Yavin E, Glaser G, Katzhendler J, Ben-Yehuda S. Relacin, a novel antibacterial agent targeting the Stringent Response. PLoS Pathog. 2012;8:e1002925.
43. Freiberg C, Pohlmann J, Nell PG, Endermann R, Schuhmacher J, Newton B, Otteneder M, Lampe T, Habich D, Ziegelbauer K. Novel bacterial acetyl coenzyme A carboxylase inhibitors with antibiotic efficacy in vivo. Antimicrob Agents Chemother. 2006;50:2707-12.
44. Silvers MA, Robertson GT, Taylor CM, Waldrop GL. Design, Synthesis, and Antibacterial Properties of Dual-Ligand Inhibitors of Acetyl-CoA Carboxylase. J Med Chem. 2014;57:8947-59.
45. Johnson JG, Livny J, DiRita VJ. High-throughput sequencing of Campylobacter jejuni insertion mutant libraries reveals mapA as a fitness factor for chicken colonization. J Bacteriol. 2014;196:1958-67.
46. Wilde AD, Snyder DJ, Putnam NE, Valentino MD, Hammer ND, Lonergan ZR, Hinger SA, Aysanoa EE, Blanchard C, Dunman PM, Wasserman GA, Chen J, Shopsin B, Gilmore MS, Skaar EP, Cassat JE. Bacterial hypoxic responses revealed as critical determinants of the host-pathogen outcome by TnSeq analysis of staphylococcus aureus invasive infection. PLoS Pathog. 2015;11:e1005341.
47. Pritchard JR, Chao MC, Abel S, Davis BM, Baranowski C, Zhang YJ, Rubin EJ, Waldor MK. ARTIST: high-resolution genome-wide assessment of fitness using transposon-insertion sequencing. PLoS Genet. 2014;10:e1004782.
48. Holo H, Nes IF. High-Frequency Transformation, by Electroporation, of Lactococcus-Lactis Subsp Cremoris Grown with Glycine in Osmotically Stabilized Media. Appl Environ Microbiol. 1989;55:3119-23.
49. Le Breton Y, McIver KS. Genetic manipulation of Streptococcus pyogenes (the Group A Streptococcus, GAS). Curr Protoc Microbiol. 2013;30:Unit 9D.3.
50. Solaimanpour S, Sarmiento F, Mrázek J. Tn-seq explorer: a tool for analysis of high-throughput sequencing data of transposon mutant libraries. PLoS One. 2015;10:e0126070.
51. Thorvaldsdóttir H, Robinson JT, Mesirov JP. Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration. Brief Bioinform. 2013;14:178-92.
52. Uchiyama I. MBGD: microbial genome database for comparative analysis. Nucleic Acids Res. 2003;31:58-62.