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Full information on isolate Taiwan 19F-14 (id:697)

Provenance/primary metadata

Taiwan 19F-14
CP000921; NC_012469; TW31
Reference strain of PMEN global clone Taiwan 19F-14
ZY Shi,
Melissa Jansen van Rensburg, University of Oxford, UK (E-mail:
update history
13 updates show details
date entered

Publications (19)

  • Angiuoli SV, Salzberg SL (2011). Mugsy: fast multiple alignment of closely related whole genomes. Bioinformatics 27:334-42
  • Bidossi A, Mulas L, Decorosi F, Colomba L, Ricci S, Pozzi G, Deutscher J, Viti C, Oggioni MR (2012). A functional genomics approach to establish the complement of carbohydrate transporters in Streptococcus pneumoniae. PLoS One 7:e33320
  • Crisafulli G, Guidotti S, Muzzi A, Torricelli G, Moschioni M, Masignani V, Censini S, Donati C (2013). An extended multi-locus molecular typing schema for Streptococcus pneumoniae demonstrates that a limited number of capsular switch events is responsible for serotype heterogeneity of closely related strains from different countries. Infect Genet Evol 13:151-61
  • Croucher NJ, Chewapreecha C, Hanage WP, Harris SR, McGee L, van der Linden M, Song JH, Ko KS, de Lencastre H, Turner C, Yang F, Sá-Leão R, Beall B, Klugman KP, Parkhill J, Turner P, Bentley SD (2014). Evidence for soft selective sweeps in the evolution of pneumococcal multidrug resistance and vaccine escape. Genome Biol Evol 6:1589-602
  • Croucher NJ, Vernikos GS, Parkhill J, Bentley SD (2011). Identification, variation and transcription of pneumococcal repeat sequences. BMC Genomics 12:120
  • Donati C, Hiller NL, Tettelin H, Muzzi A, Croucher NJ, Angiuoli SV, Oggioni M, Dunning Hotopp JC, Hu FZ, Riley DR, Covacci A, Mitchell TJ, Bentley SD, Kilian M, Ehrlich GD, Rappuoli R, Moxon ER, Masignani V (2010). Structure and dynamics of the pan-genome of Streptococcus pneumoniae and closely related species. Genome Biol 11:R107
  • Hiller NL, Eutsey RA, Powell E, Earl JP, Janto B, Martin DP, Dawid S, Ahmed A, Longwell MJ, Dahlgren ME, Ezzo S, Tettelin H, Daugherty SC, Mitchell TJ, Hillman TA, Buchinsky FJ, Tomasz A, de Lencastre H, Sá-Leão R, Post JC, Hu FZ, Ehrlich GD (2011). Differences in genotype and virulence among four multidrug-resistant Streptococcus pneumoniae isolates belonging to the PMEN1 clone. PLoS One 6:e28850
  • Karlsson R, Gonzales-Siles L, Gomila M, Busquets A, Salvà-Serra F, Jaén-Luchoro D, Jakobsson HE, Karlsson A, Boulund F, Kristiansson E, Moore ERB (2018). Proteotyping bacteria: Characterization, differentiation and identification of pneumococcus and other species within the Mitis Group of the genus Streptococcus by tandem mass spectrometry proteomics. PLoS One 13:e0208804
  • Kilian M, Riley DR, Jensen A, Brüggemann H, Tettelin H (2014). Parallel evolution of Streptococcus pneumoniae and Streptococcus mitis to pathogenic and mutualistic lifestyles. MBio 5:e01490-14
  • Li G, Hu FZ, Yang X, Cui Y, Yang J, Qu F, Gao GF, Zhang JR (2012). Complete genome sequence of Streptococcus pneumoniae strain ST556, a multidrug-resistant isolate from an otitis media patient. J Bacteriol 194:3294-5
  • Lin IH, Hsu MT, Chang CH (2012). Protein domain repetition is enriched in Streptococcal cell-surface proteins. Genomics 100:370-9
  • Muzzi A, Moschioni M, Covacci A, Rappuoli R, Donati C (2008). Pilus operon evolution in Streptococcus pneumoniae is driven by positive selection and recombination. PLoS One 3:e3660
  • Ohkoshi Y, Sato T, Wada T, Fukushima Y, Murabayashi H, Takakuwa Y, Nishiyama K, Honda H, Shiraishi T, Kuronuma K, Takahashi H, Nakajima C, Suzuki Y, Yokota SI (2018). Whole genome analysis of a multidrug-resistant Streptococcus pneumoniae isolate from a patient with invasive pneumococcal infection developing disseminated intravascular coagulation. J Infect Chemother 24:674-681
  • Sanguinetti L, Toti S, Reguzzi V, Bagnoli F, Donati C (2012). A novel computational method identifies intra- and inter-species recombination events in Staphylococcus aureus and Streptococcus pneumoniae. PLoS Comput Biol 8:e1002668
  • Swetha RG, Sekar DK, Devi ED, Ahmed ZZ, Ramaiah S, Anbarasu A, Sekar K (2014). Streptococcus pneumoniae Genome Database (SPGDB): a database for strain specific comparative analysis of Streptococcus pneumoniae genes and proteins. Genomics 104:582-6
  • Valentino MD, McGuire AM, Rosch JW, Bispo PJ, Burnham C, Sanfilippo CM, Carter RA, Zegans ME, Beall B, Earl AM, Tuomanen EI, Morris TW, Haas W, Gilmore MS (2014). Unencapsulated Streptococcus pneumoniae from conjunctivitis encode variant traits and belong to a distinct phylogenetic cluster. Nat Commun 5:5411
  • Williams TM, Loman NJ, Ebruke C, Musher DM, Adegbola RA, Pallen MJ, Weinstock GM, Antonio M (2012). Genome analysis of a highly virulent serotype 1 strain of Streptococcus pneumoniae from West Africa. PLoS One 7:e26742
  • Zhao Y, Sun C, Zhao D, Zhang Y, You Y, Jia X, Yang J, Wang L, Wang J, Fu H, Kang Y, Chen F, Yu J, Wu J, Xiao J (2018). PGAP-X: extension on pan-genome analysis pipeline. BMC Genomics 19:36
  • de Alvarenga Mudadu M, Carvalho V, Leclercq SY (2015). Nonclassically secreted proteins as possible antigens for vaccine development: a reverse vaccinology approach. Appl Biochem Biotechnol 175:3360-70

Sequence bin

2112148 bp
loci tagged
detailed breakdown

Similar isolates (determined by classification schemes)

Experimental schemes are subject to change and are not a stable part of the nomenclature.

Classification schemeUnderlying schemeClustering methodMismatch thresholdStatusGroup
Sp_cgc_1000cgMLSTSingle-linkage1000experimentalgroup: 7 (4508 isolates)
Sp_cgc_500cgMLSTSingle-linkage500experimentalgroup: 1 (718 isolates)
Sp_cgc_400cgMLSTSingle-linkage400experimentalgroup: 1 (718 isolates)
Sp_cgc_300cgMLSTSingle-linkage300experimentalgroup: 1 (717 isolates)
Sp_cgc_200cgMLSTSingle-linkage200experimentalgroup: 1 (717 isolates)
Sp_cgc_100cgMLSTSingle-linkage100experimentalgroup: 238 (337 isolates)
Sp_cgc_50cgMLSTSingle-linkage50experimentalgroup: 307 (37 isolates)
Sp_cgc_25cgMLSTSingle-linkage25experimentalgroup: 1 (2 isolates)

Schemes and loci

Navigate and select schemes within tree to display allele designations