Genomics and Genetics of

Overview

Journal Microbiol Spectr

Specialty Microbiology

Date 2019 May 22

PMID 31111814

Citations 11

Authors

Francesco Santoro

Francesco Iannelli

Gianni Pozzi

Affiliations

Soon will be listed here.

Abstract

Ninety years after the discovery of pneumococcal Transformation, and 74 years after the work of Avery and colleagues that identified DNA as the genetic material, is still one of the most important model organism to understand Bacterial Genetics and Genomics. In this Chapter special emphasis has been given to Genomics and to Mobile Genetic Elements (the Mobilome) which greatly contribute to the dynamic variation of pneumococcal genomes by horizontal gene transfer. Other topics include molecular mechanisms of Genetic Transformation, Restriction/Modification Systems, Mismatch DNA Repair, and techniques for construction of genetically engineered pneumococcal strains.

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References

Donati C, Hiller N, Tettelin H, Muzzi A, Croucher N, Angiuoli S . Structure and dynamics of the pan-genome of Streptococcus pneumoniae and closely related species. Genome Biol. 2010; 11(10):R107. PMC: 3218663. DOI: 10.1186/gb-2010-11-10-r107. View

Campbell E, Choi S, Masure H . A competence regulon in Streptococcus pneumoniae revealed by genomic analysis. Mol Microbiol. 1998; 27(5):929-39. DOI: 10.1046/j.1365-2958.1998.00737.x. View

Donner J, Bunk B, Schober I, Sproer C, Bergmann S, Jarek M . Complete Genome Sequences of Three Multidrug-Resistant Clinical Isolates of Serotype 19A with Different Susceptibilities to the Myxobacterial Metabolite Carolacton. Genome Announc. 2017; 5(7). PMC: 5313624. DOI: 10.1128/genomeA.01641-16. View

Ayoubi P, Kilic A, Vijayakumar M . Tn5253, the pneumococcal omega (cat tet) BM6001 element, is a composite structure of two conjugative transposons, Tn5251 and Tn5252. J Bacteriol. 1991; 173(5):1617-22. PMC: 207310. DOI: 10.1128/jb.173.5.1617-1622.1991. View

Del Grosso M, Camilli R, Iannelli F, Pozzi G, Pantosti A . The mef(E)-carrying genetic element (mega) of Streptococcus pneumoniae: insertion sites and association with other genetic elements. Antimicrob Agents Chemother. 2006; 50(10):3361-6. PMC: 1610078. DOI: 10.1128/AAC.00277-06. View

Morrison D, Lacks S, Guild W, Hageman J . Isolation and characterization of three new classes of transformation-deficient mutants of Streptococcus pneumoniae that are defective in DNA transport and genetic recombination. J Bacteriol. 1983; 156(1):281-90. PMC: 215081. DOI: 10.1128/jb.156.1.281-290.1983. View

Eutsey R, Powell E, Dordel J, Salter S, Clark T, Korlach J . Genetic Stabilization of the Drug-Resistant PMEN1 Pneumococcus Lineage by Its Distinctive DpnIII Restriction-Modification System. mBio. 2015; 6(3):e00173. PMC: 4471560. DOI: 10.1128/mBio.00173-15. View

Blomberg C, Dagerhamn J, Dahlberg S, Browall S, Fernebro J, Albiger B . Pattern of accessory regions and invasive disease potential in Streptococcus pneumoniae. J Infect Dis. 2009; 199(7):1032-42. DOI: 10.1086/597205. View

RIMINI R, Jansson B, Feger G, Roberts T, De Francesco M, Gozzi A . Global analysis of transcription kinetics during competence development in Streptococcus pneumoniae using high density DNA arrays. Mol Microbiol. 2000; 36(6):1279-92. DOI: 10.1046/j.1365-2958.2000.01931.x. View

10.

Ronda C, Garcia J, Lopez R . Infection of Streptococcus oralis NCTC 11427 by pneumococcal phages. FEMS Microbiol Lett. 1989; 53(1-2):187-92. DOI: 10.1016/0378-1097(89)90389-3. View

11.

Lefrancois J, Gasc A, Sicard M . Electrotransformation of Streptococcus pneumoniae: evidence for restriction of the DNA on entry. Microb Drug Resist. 1997; 3(1):101-4. DOI: 10.1089/mdr.1997.3.101. View

12.

Hollingshead S, Becker R, Briles D . Diversity of PspA: mosaic genes and evidence for past recombination in Streptococcus pneumoniae. Infect Immun. 2000; 68(10):5889-900. PMC: 101551. DOI: 10.1128/IAI.68.10.5889-5900.2000. View

13.

Chiba N, Murayama S, Morozumi M, Iwata S, Ubukata K . Genome Evolution to Penicillin Resistance in Serotype 3 Streptococcus pneumoniae by Capsular Switching. Antimicrob Agents Chemother. 2017; 61(9). PMC: 5571339. DOI: 10.1128/AAC.00478-17. View

14.

Herbert J, Mitchell A, Ritchie R, Ma J, Ross-Hutchinson K, Mitchell T . Expression of the lux genes in Streptococcus pneumoniae modulates pilus expression and virulence. PLoS One. 2018; 13(1):e0189426. PMC: 5771582. DOI: 10.1371/journal.pone.0189426. View

15.

Prudhomme M, Attaiech L, Sanchez G, Martin B, Claverys J . Antibiotic stress induces genetic transformability in the human pathogen Streptococcus pneumoniae. Science. 2006; 313(5783):89-92. DOI: 10.1126/science.1127912. View

16.

ENGEL H, Soedirman N, Rost J, van Leeuwen W, van Embden J . Transferability of macrolide, lincomycin, and streptogramin resistances between group A, B, and D streptococci, Streptococcus pneumoniae, and Staphylococcus aureus. J Bacteriol. 1980; 142(2):407-13. PMC: 293990. DOI: 10.1128/jb.142.2.407-413.1980. View

17.

Croucher N, Harris S, Barquist L, Parkhill J, Bentley S . A high-resolution view of genome-wide pneumococcal transformation. PLoS Pathog. 2012; 8(6):e1002745. PMC: 3375284. DOI: 10.1371/journal.ppat.1002745. View

18.

Havarstein L, Coomaraswamy G, Morrison D . An unmodified heptadecapeptide pheromone induces competence for genetic transformation in Streptococcus pneumoniae. Proc Natl Acad Sci U S A. 1995; 92(24):11140-4. PMC: 40587. DOI: 10.1073/pnas.92.24.11140. View

19.

Palmieri C, Mingoia M, Massidda O, Giovanetti E, Varaldo P . Streptococcus pneumoniae transposon Tn1545/Tn6003 changes to Tn6002 due to spontaneous excision in circular form of the erm(B)- and aphA3-containing macrolide-aminoglycoside-streptothricin (MAS) element. Antimicrob Agents Chemother. 2012; 56(11):5994-7. PMC: 3486530. DOI: 10.1128/AAC.01487-12. View

20.

Shoemaker N, Smith M, Guild W . Organization and transfer of heterologous chloramphenicol and tetracycline resistance genes in pneumococcus. J Bacteriol. 1979; 139(2):432-41. PMC: 216887. DOI: 10.1128/jb.139.2.432-441.1979. View