Strain identifier

BacDive ID: 14747

Type strain: No

Species: Streptococcus pneumoniae

Strain history: CIP <- 1994, ATCC <- B.E. Eddy, Diplococcus pneumoniae

NCBI tax ID(s): 1313 (species)

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General

@ref: 5327

BacDive-ID: 14747

DSM-Number: 14377

keywords: genome sequence, 16S sequence, Bacteria, microaerophile, Gram-positive, human pathogen

description: Streptococcus pneumoniae DSM 14377 is a microaerophile, Gram-positive human pathogen of the family Streptococcaceae.

NCBI tax id

  • NCBI tax id: 1313
  • Matching level: species

strain history

@refhistory
5327<- R. Hammann <- ATCC
121896CIP <- 1994, ATCC <- B.E. Eddy, Diplococcus pneumoniae

doi: 10.13145/bacdive14747.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Streptococcaceae
  • genus: Streptococcus
  • species: Streptococcus pneumoniae
  • full scientific name: Streptococcus pneumoniae (Klein 1884) Chester 1901 (Approved Lists 1980)

  • synonyms

    @refsynonym
    20215Staphylococcus pneumoniae
    20215Micrococcus pneumoniae

@ref: 5327

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Streptococcaceae

genus: Streptococcus

species: Streptococcus pneumoniae

full scientific name: Streptococcus pneumoniae (Klein 1884) Chester 1901

type strain: no

Morphology

cell morphology

  • @ref: 121896
  • gram stain: positive
  • cell shape: coccus-shaped
  • motility: no

colony morphology

@reftype of hemolysishemolysis abilityincubation period
5327alpha11-2 days
1218961

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5327COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://mediadive.dsmz.de/medium/693Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
5327TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://mediadive.dsmz.de/medium/92Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water
35161MEDIUM 6 - Columbia agar with 10 % horse bloodyesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml)
121896CIP Medium 6yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=6

culture temp

@refgrowthtypetemperature
5327positivegrowth37
35161positivegrowth37
121896positivegrowth25-41
121896nogrowth5
121896nogrowth10
121896nogrowth45

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
5327microaerophile
121896facultative anaerobe

spore formation

  • @ref: 69481
  • spore formation: no
  • confidence: 93

halophily

  • @ref: 121896
  • salt: NaCl
  • growth: no
  • tested relation: growth
  • concentration: 6.5 %

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 2-ketogluconate-builds acid from
68371gluconate-builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose+builds acid from32528
68371gentiobiose-builds acid from28066
68371xylitol-builds acid from17151
68371glycogen+builds acid from28087
68371starch+builds acid from28017
68371raffinose+builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371trehalose+builds acid from27082
68371sucrose+builds acid from17992
68371melibiose+builds acid from28053
68371lactose+builds acid from17716
68371maltose+builds acid from17306
68371cellobiose+builds acid from17057
68371salicin+builds acid from17814
68371esculin-builds acid from4853
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine+builds acid from59640
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose+builds acid from16024
68371D-fructose+builds acid from15824
68371D-glucose+builds acid from17634
68371D-galactose+builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose-builds acid from65327
68371D-ribose-builds acid from16988
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol-builds acid from17754
121896esculin-hydrolysis4853
121896hippurate-hydrolysis606565
121896nitrate-reduction17632
121896nitrite-reduction16301
68381arginine-hydrolysis29016
68381D-ribose-builds acid from16988
68381D-mannitol-builds acid from16899
68381sorbitol-builds acid from30911
68381lactose+builds acid from17716
68381trehalose+builds acid from27082
68381raffinose+builds acid from16634
68381sucrose+builds acid from17992
68381L-arabinose-builds acid from30849
68381D-arabitol-builds acid from18333
68381alpha-cyclodextrin-builds acid from40585
68381hippurate-hydrolysis606565
68381glycogen-builds acid from28087
68381pullulan+builds acid from27941
68381maltose+builds acid from17306
68381melibiose-builds acid from28053
68381melezitose-builds acid from6731
68381D-tagatose-builds acid from16443
68381urea-hydrolysis16199

antibiotic resistance

  • @ref: 121896
  • ChEBI: 86455
  • metabolite: optochin
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

  • @ref: 68381
  • Chebi-ID: 15688
  • metabolite: acetoin
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-test
6838115688acetoin-
12189615688acetoin-

enzymes

@refvalueactivityec
5327catalase+1.11.1.6
5327cytochrome-c oxidase-1.9.3.1
68381urease-3.5.1.5
68381beta-mannosidase-3.2.1.25
68381glycyl tryptophan arylamidase+
68381N-acetyl-beta-glucosaminidase+3.2.1.52
68381pyrrolidonyl arylamidase+3.4.19.3
68381Alanyl-Phenylalanyl-Proline arylamidase+
68381alkaline phosphatase-3.1.3.1
68381beta-glucuronidase-3.2.1.31
68381arginine dihydrolase-3.5.3.6
121896oxidase+
121896beta-galactosidase+3.2.1.23
121896alcohol dehydrogenase-1.1.1.1
121896catalase-1.11.1.6
121896gamma-glutamyltransferase-2.3.2.2
121896lysine decarboxylase-4.1.1.18
121896ornithine decarboxylase-4.1.1.17
68382alkaline phosphatase-3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase-3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
121896--++-+-----+---+----

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
121896---------++++----+/---+/-+---+++++++--+++--+--------+/-

API rID32STR

@refADH Argbeta GLUbeta GARbeta GURalpha GALPALRIBMANSORLACTRERAFSACLARADARLCDEXVPAPPAbeta GALPyrAbeta NAGGTAHIPGLYGPULMALMELMLZMbeta DGTAGbeta MANURE
5327--+-+/-----++++----+++++--++------
5327--+------++++----++/-+++--++--+/----
5327-+/-+-+----++++----+++++--++------

Isolation, sampling and environmental information

taxonmaps

  • @ref: 69479
  • File name: preview.99_4.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_4;96_4;97_4;98_4;99_4&stattab=map
  • Last taxonomy: Streptococcus
  • 16S sequence: AY281084
  • Sequence Identity:
  • Total samples: 59292
  • soil counts: 819
  • aquatic counts: 1515
  • animal counts: 56551
  • plant counts: 407

Safety information

risk assessment

@refpathogenicity humanpathogenicity animalbiosafety levelbiosafety level comment
5327yesyes2Risk group (German classification)
1218962Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptococcus pneumoniae ATCC 6303 16S ribosomal RNA gene, partial sequenceAY2810841427nuccore1313
20218Streptococcus pneumoniae ATCC 6303 16S rRNA gene, partial sequenceU02920386nuccore1313
124043Streptococcus pneumoniae strain ATCC 6303 16S ribosomal RNA gene, partial sequence.OR394090386nuccore1313

Genome sequences

  • @ref: 66792
  • description: Streptococcus pneumoniae strain MMC_A07
  • accession: 1313.13854
  • assembly level: wgs
  • database: patric
  • NCBI tax ID: 1313

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesno93no
69480gram-positivegram-positivePositive reaction to Gram-stainingyes89.338no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no86.534no
69480spore-formingspore-formingAbility to form endo- or exosporesno85.371no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no98.023yes
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno95.5no
69480flagellatedmotile2+Ability to perform flagellated movementno89.479no

External links

@ref: 5327

culture collection no.: DSM 14377, ATCC 6303, CCUG 33062, CIP 104225

straininfo link

  • @ref: 83864
  • straininfo: 307565

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Enzymology7764190Separation and isolation of viable bacteria by capillary zone electrophoresis.Ebersole RC, McCormick RMBiotechnology (N Y)10.1038/nbt1193-12781993Electrophoresis/methods, Enterococcus faecalis/growth & development/*isolation & purification, Staphylococcus aureus/growth & development/*isolation & purification, Streptococcus/growth & development/*isolation & purification, Streptococcus agalactiae/growth & development/isolation & purification, Streptococcus pneumoniae/growth & development/isolation & purification, Streptococcus pyogenes/growth & development/isolation & purificationPhylogeny
Enzymology8452353Evaluation of the efficacy of ciprofloxacin against Streptococcus pneumoniae by using a mouse protection model.Sullivan MC, Cooper BW, Nightingale CH, Quintiliani R, Lawlor MTAntimicrob Agents Chemother10.1128/AAC.37.2.2341993Animals, Ciprofloxacin/administration & dosage/pharmacokinetics/*therapeutic use, Half-Life, Mice, Microbial Sensitivity Tests, Penicillin G/administration & dosage/therapeutic use, Pneumococcal Infections/microbiology/*prevention & control, Streptococcus pneumoniae/drug effectsPathogenicity
Pathogenicity10456894Resistance to both complement activation and phagocytosis in type 3 pneumococci is mediated by the binding of complement regulatory protein factor H.Neeleman C, Geelen SP, Aerts PC, Daha MR, Mollnes TE, Roord JJ, Posthuma G, van Dijk H, Fleer AInfect Immun10.1128/IAI.67.9.4517-4524.19991999Animals, Binding Sites, Cell Wall, Complement Activation/*immunology, Complement Factor H/*immunology, Humans, Immunoblotting, Male, Mice, Microscopy, Immunoelectron, Phagocytosis/*immunology, Streptococcus pneumoniae/*immunology/isolation & purification/pathogenicity, Trypsin, VirulenceEnzymology
Pathogenicity18697479[Streptococcus pneumoniae growth based on drug resistance genotype].Miyashita KKansenshogaku Zasshi10.11150/kansenshogakuzasshi1970.82.2922008*Genotype, Humans, Penicillin Resistance/*genetics, Penicillins/*pharmacology, Streptococcus pneumoniae/drug effects/*genetics/*growth & development/isolation & purification, Time FactorsGenetics
Metabolism18779351Effect of protein binding on the pharmacological activity of highly bound antibiotics.Schmidt S, Rock K, Sahre M, Burkhardt O, Brunner M, Lobmeyer MT, Derendorf HAntimicrob Agents Chemother10.1128/AAC.00427-082008Animals, Anti-Bacterial Agents/*metabolism/*pharmacology, Blood Proteins/*metabolism, Cattle, Ceftriaxone/metabolism/pharmacology, Drug Discovery, Ertapenem, Escherichia coli/drug effects, Humans, In Vitro Techniques, Models, Biological, Protein Binding, Serum Albumin/metabolism, Serum Albumin, Bovine/metabolism, Streptococcus pneumoniae/drug effects, beta-Lactams/metabolism/pharmacologyPathogenicity
Enzymology19091517Novel biaryl oxazolidinones: in vitro and in vivo activities with pharmacokinetics in an animal model.Barman TK, Pandya M, Mathur T, Bhadauriya T, Rao M, Khan S, Singhal S, Bhateja P, Sood R, Malhotra S, Das B, Paliwal J, Bhatnagar PK, Upadhyay DJInt J Antimicrob Agents10.1016/j.ijantimicag.2008.08.0252008Administration, Oral, Animals, Anti-Bacterial Agents/administration & dosage/*pharmacokinetics/*pharmacology, Gram-Negative Bacteria/drug effects, Gram-Positive Bacteria/drug effects, Half-Life, Mice, Microbial Sensitivity Tests, Oxazolidinones/administration & dosage/*pharmacokinetics/*pharmacology, Pneumonia, Bacterial/drug therapy, Sepsis/drug therapy, Survival AnalysisPathogenicity
Genetics19279169Characterization of protective mucosal and systemic immune responses elicited by pneumococcal surface protein PspA and PspC nasal vaccines against a respiratory pneumococcal challenge in mice.Ferreira DM, Darrieux M, Silva DA, Leite LC, Ferreira JM Jr, Ho PL, Miyaji EN, Oliveira MLClin Vaccine Immunol10.1128/CVI.00395-082009Administration, Intranasal, Animals, Antibodies, Bacterial/immunology, Bacterial Proteins/genetics/*immunology, Cells, Cultured, Cytokines/metabolism, Female, Genetic Vectors, Lactobacillus casei/genetics, Leukocytes, Mononuclear/immunology, Lung/immunology, Mice, Mice, Inbred C57BL, Molecular Sequence Data, Neutrophils/immunology, Pneumococcal Vaccines/*administration & dosage/*immunology, Pneumonia, Pneumococcal/*prevention & control, Sequence Analysis, DNA, Spleen/immunology, Streptococcus pneumoniae/*immunology, Vaccines, Synthetic/genetics, Virulence Factors/immunologyTranscriptome
Pathogenicity19467320Comparison of the pulmonary response against lethal and non-lethal intranasal challenges with two different pneumococcal strains.Ferreira DM, Moreno AT, Cianciarullo AM, Ho PL, Oliveira ML, Miyaji ENMicrob Pathog10.1016/j.micpath.2009.05.0052009Animals, Female, Humans, Interleukin-6/immunology, Lung/*immunology/microbiology, Mice, Mice, Inbred BALB C, Neutrophil Infiltration, Pneumococcal Infections/*immunology/microbiology, Streptococcus pneumoniae/immunology/*pathogenicity, Tumor Necrosis Factor-alpha/immunology
Metabolism21047997Intranasal vaccination with chitosan-DNA nanoparticles expressing pneumococcal surface antigen a protects mice against nasopharyngeal colonization by Streptococcus pneumoniae.Xu J, Dai W, Wang Z, Chen B, Li Z, Fan XClin Vaccine Immunol10.1128/CVI.00263-102010Adhesins, Bacterial/genetics/*immunology/metabolism, Administration, Intranasal, Animals, Cell Line, Chitosan/*administration & dosage/immunology, DNA/*administration & dosage/immunology, Female, Humans, Lipoproteins/genetics/*immunology/metabolism, Mice, Mice, Inbred BALB C, Nanoparticles/*administration & dosage, Nasopharynx/immunology/microbiology, Pneumococcal Infections/immunology/microbiology/*prevention & control, Pneumococcal Vaccines/*administration & dosage/immunology, Streptococcus pneumoniae/immunology/isolation & purification, VaccinationPathogenicity
22931804[Changes of anti-Streptococcus pneumoniae status in rats with simulated weightlessness].Pei SJ, Zhu ML, Yi Y, Zhou JL, Xu BX, Wang PZhonghua Jie He He Hu Xi Za Zhi2012Animals, Male, Pneumonia, Pneumococcal/*etiology, Rats, Rats, Wistar, Streptococcus pneumoniae, *Weightlessness, Weightlessness Simulation
Pathogenicity24550341A novel ketolide, RBx 14255, with activity against multidrug-resistant Streptococcus pneumoniae.Raj VS, Barman TK, Kalia V, Purnapatre K, Dube S, G R, Bhateja P, Mathur T, Chaira T, Upadhyay DJ, Surase YB, Venkataramanan R, Chakrabarti A, Das B, Bhatnagar PKAntimicrob Agents Chemother10.1128/AAC.01589-132014Animals, Anti-Bacterial Agents/chemical synthesis/pharmacokinetics/*pharmacology, Dose-Response Relationship, Drug, Drug Administration Schedule, Drug Resistance, Bacterial, Ketolides/chemical synthesis/pharmacokinetics/*pharmacology, Male, Mice, Microbial Sensitivity Tests, Pneumonia, Bacterial/*drug therapy/microbiology/mortality/pathology, Protein Synthesis Inhibitors/chemical synthesis/pharmacokinetics/*pharmacology, Ribosomes/drug effects/metabolism, Sepsis/*drug therapy/microbiology/mortality/pathology, Streptococcus pneumoniae/*drug effects/pathogenicity/physiology, Survival AnalysisEnzymology
Pathogenicity32100705Evaluation of protective immunity responses against pneumococcal PhtD and its C-terminal in combination with outer-membrane vesicles as adjuvants.Malekan M, Siadat SD, Aghasadeghi M, Shahrokhi N, Afrough P, Behrouzi A, Ahmadi K, Mousavi SFJ Med Microbiol10.1099/jmm.0.0011032020Adjuvants, Immunologic/administration & dosage, Animals, Antibodies, Bacterial/*blood, Antigens, Bacterial/*immunology, Bacterial Proteins/*immunology, Female, Histidine/immunology, Humans, Immunoglobulin G/blood, Mice, Mice, Inbred BALB C, Pneumococcal Infections/immunology/microbiology/*prevention & control, Pneumococcal Vaccines/*immunology, Recombinant Proteins, Streptococcus pneumoniae/*immunology, Vaccination
32545261Impact of Influenza on Pneumococcal Vaccine Effectiveness during Streptococcus pneumoniae Infection in Aged Murine Lung.Jirru E, Lee S, Harris R, Yang J, Cho SJ, Stout-Delgado HVaccines (Basel)10.3390/vaccines80202982020

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
5327Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14377)https://www.dsmz.de/collection/catalogue/details/culture/DSM-14377
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
35161Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16110
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
68371Automatically annotated from API 50CH acid
68381Automatically annotated from API rID32STR
68382Automatically annotated from API zym
69479João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.https://microbeatlas.org/MicrobeAtlas 1.0 beta
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
83864Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID307565.1StrainInfo: A central database for resolving microbial strain identifiers
121896Curators of the CIPCollection of Institut Pasteur (CIP 104225)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104225
124043Dr. Isabel Schober, Dr. Julia KoblitzData extracted from sequence databases, automatically matched based on designation and taxonomy