Strain identifier

BacDive ID: 8482

Type strain: Yes

Species: Mycobacterium septicum

Strain Designation: Australia 9330, W4964

Strain history: CIP <- 2000, J.M. Brown, CDC, Atlanta, Georgia, USA: strain W4964 <- G.G. Hogg, Australia

NCBI tax ID(s): 1341646 (strain), 98668 (species)

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General

@ref: 11717

BacDive-ID: 8482

DSM-Number: 44393

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, rod-shaped

description: Mycobacterium septicum Australia 9330 is an aerobe, mesophilic, rod-shaped bacterium that was isolated from catheter tip of centrally located Hickman catheter.

NCBI tax id

NCBI tax idMatching level
98668species
1341646strain

strain history

@refhistory
11717<- J. M. Brown, CDC, Atlanta; W4964 <- G. G. Hogg; Australia 9330
67770CIP 106642 <-- J. M. Brown W4964 <-- G. G. Hogg.
122566CIP <- 2000, J.M. Brown, CDC, Atlanta, Georgia, USA: strain W4964 <- G.G. Hogg, Australia

doi: 10.13145/bacdive8482.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Mycobacteriales
  • family: Mycobacteriaceae
  • genus: Mycobacterium
  • species: Mycobacterium septicum
  • full scientific name: Mycobacterium septicum Schinsky et al. 2000

  • synonyms

    • @ref: 20215
    • synonym: Mycolicibacterium septicum

@ref: 11717

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Mycobacteriaceae

genus: Mycobacterium

species: Mycobacterium septicum

full scientific name: Mycobacterium septicum Schinsky et al. 2000 emend. Nouioui et al. 2018

strain designation: Australia 9330, W4964

type strain: yes

Morphology

cell morphology

  • @ref: 122566
  • cell shape: rod-shaped
  • motility: no

colony morphology

@refcolony colorincubation periodmedium used
19860Ivory10-14 days5006
19860Ivory10-14 daysMB7H10
19860Ivory10-14 daysMB7H11
559464 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11717MIDDLEBROOK MEDIUM (DSMZ Medium 645)yeshttps://mediadive.dsmz.de/medium/645Name: MIDDLEBROOK MEDIUM (DSMZ Medium 645) Composition: Bacto Middlebrook 7H10 agar 20.9945 g/l Glycerol Distilled water
19860MB7H10yesName: Middlebrook 7H10 (MB7H10) Broth Base Composition: amount in percent Middlebrook 7H10 Agar 1.9% Glycerol 0.5% OADC-Enrichment in ml (NL5633) 10ml Comments: Add broth base and glycerol to ddh2O. Adjust volumes. Autoclave. Cool to 42°C. Add OADC-stock. Sterilisation: 20 minutes Temperature:121°C PH before: PH after: Biological details Culture type: suitable for: Mycobacteria OADC stock solution old broth-name: OADC-Stock Composition: Bovine Serum Albumin, fraction V 5 % 1% Oleic Acid in 0.2N NaOH 5ml Glucose 2 % NaCl 0.85 % Comments: Melt 1% Oleic Acid in 65°C water bath. Dissolve all ingredients in 700ml of ddH2O. Adjust volume to 1L. Filter sterilize and store at 4°C. -To make 1% Oleic Acid in 0.2N NaOH: Dissolve 5g oleic acid (ampule) in 500ml 0.2N NaOH (300ml ddH2O + 20ml NaOH + adjust volume to 500ml). Heat solution to 55°C for oleic acid to melt. Store at -20°C in 50ml aliquots. There is no need to sterilize this. Sterilisation: 20 minutes Temperature:121°C PH before: PH after: Biological details Culture type: suitable for: Mycobacteria
19860MB7H11yesName: Middlebrook 7H11 (MB7H11) Broth Base Composition: Middlebrook 7H11 Agar 2% Glycerol 0.5% OADC-Enrichment 10ml Comments: Add broth base and glycerol to ddH2O. Adjust volumes. Autoclave. Cool to 42°C. Add OADC-Stock. Sterilisation: 20 minutes Temperature:121°C PH before: PH after: Biological details Culture type: suitable for: Mycobacteria OADC stock solution old broth-name: OADC-Stock Composition: Bovine Serum Albumin, fraction V 5 % 1% Oleic Acid in 0.2N NaOH 5ml Glucose 2 % NaCl 0.85 % Comments: Melt 1% Oleic Acid in 65°C water bath. Dissolve all ingredients in 700ml of ddH2O. Adjust volume to 1L. Filter sterilize and store at 4°C. -To make 1% Oleic Acid in 0.2N NaOH: Dissolve 5g oleic acid (ampule) in 500ml 0.2N NaOH (300ml ddH2O + 20ml NaOH + adjust volume to 500ml). Heat solution to 55°C for oleic acid to melt. Store at -20°C in 50ml aliquots. There is no need to sterilize this. Sterilisation: 20 minutes Temperature:121°C PH before: PH after: Biological details Culture type: suitable for: Mycobacteria
198605006yesMedium: 5006 Name: Composition (g/l) Sucrose 3,0 Dextrin 15,0 Meat extract 1,0 Yeast extract 2,0 Tryptone soy broth (Oxoid) 5,0 NaCl 0,5 K2HPO4 0,5 MgSO4 x 7 H2O 0,5 FeSO4 x 7 H2O 0,01 Agar 20,0 Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7,3 Usage: Maintenance Organisms: All Actinomycetes
36370MEDIUM 55 - for Mycobacteriumyes
122566CIP Medium 55yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=55

culture temp

@refgrowthtypetemperaturerange
19860positiveoptimum37mesophilic
11717positivegrowth37mesophilic
36370positivegrowth30mesophilic
55946positivegrowth37mesophilic
67770positivegrowth28mesophilic
122566positivegrowth22-30
122566nogrowth10psychrophilic
122566nogrowth37mesophilic
122566nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
55946aerobe
122566obligate aerobe

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
122566606565hippurate-hydrolysis
12256617632nitrate+reduction
12256616301nitrite-reduction
12256617632nitrate-respiration
6837917632nitrate-reduction
683794853esculin+hydrolysis
683795291gelatin-hydrolysis
6837917634D-glucose-fermentation
6837916988D-ribose-fermentation
6837965327D-xylose-fermentation
6837916899D-mannitol-fermentation
6837917306maltose-fermentation
6837917716lactose-fermentation
6837917992sucrose-fermentation
6837928087glycogen-fermentation

metabolite production

  • @ref: 122566
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
68379gelatinase-
68379beta-glucosidase+3.2.1.21
68379N-acetyl-beta-glucosaminidase-3.2.1.52
68379alpha-glucosidase-3.2.1.20
68379beta-galactosidase-3.2.1.23
68379beta-glucuronidase-3.2.1.31
68379alkaline phosphatase-3.1.3.1
68379pyrrolidonyl arylamidase-3.4.19.3
122566oxidase-
122566beta-galactosidase-3.2.1.23
122566gelatinase-
122566amylase-
122566DNase-
122566caseinase-3.4.21.50
122566catalase+1.11.1.6
122566tween esterase+
122566gamma-glutamyltransferase+2.3.2.2
122566lecithinase-
122566lipase-
122566protease-
122566urease-3.5.1.5
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)+
68382leucine arylamidase+3.4.11.1
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-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-fucosidase-3.2.1.51

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    55946C12:00.412
    55946C14:011.314
    55946C15:00.415
    55946C16:031.416
    55946C18:0218
    55946C16:0 anteiso0.415.717
    55946C16:1 ω7c2.315.819
    55946C16:1 ω7c/C15:0 ISO 2OH9.915.85
    55946C16:1 ω9c0.815.774
    55946C17:1 ω8c0.416.792
    55946C18:1 ω9c32.617.769
    55946C18:2 ω6,9c/C18:0 ANTE517.724
    55946TBSA 10Me18:0318.392
    55946Unidentified0.313.767
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
19860-+/-------++/----------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
19860+++++++--++-+--+-+-
122566-++++----++----+----

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
122566-+------------------------------++---------------+----------+-----------++-+---++--++---+---+++-+--

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitudeisolation date
11717catheter tip of centrally located Hickman catheterMelbourneAustraliaAUSAustralia and Oceania-37.8082144.958
55946Catheter tip of centrally located Hickman catheterMelbourneAustraliaAUSAustralia and Oceania
67770Catheter tip of centrally located Hickman catheterMelbourneAustraliaAUSAustralia and Oceania
122566Catheter tip of centrally located HickmanMelbourneAustraliaAUSAustralia and Oceania1990

isolation source categories

Cat1Cat2Cat3
#Infection#Medical device
#Infection#Medical device#Catheter

taxonmaps

  • @ref: 69479
  • File name: preview.99_515.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_115;97_219;98_419;99_515&stattab=map
  • Last taxonomy: Mycolicibacterium
  • 16S sequence: NR_042916
  • Sequence Identity:
  • Total samples: 496
  • soil counts: 45
  • aquatic counts: 64
  • animal counts: 50
  • plant counts: 337

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
117172Risk group (German classification)
198602Risk group (German classification)
1225661Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Mycobacterium septicum strain DSM 44393 16S ribosomal RNA gene, partial sequenceAY4570701483ena98668
20218Mycobacterium septicum strain ATCC 700731 16S ribosomal RNA gene, partial sequenceJQ899228642ena1341646
20218Mycobacterium septicum strain ATCC 700731 16S ribosomal RNA gene, partial sequenceJQ899250643ena1341646
20218Mycobacterium septicum strain CIP 106642 16S ribosomal RNA gene, partial sequenceAF547964540ena1341646
20218Mycobacterium septicum 16S ribosomal RNA gene, partial sequenceAF1118091491ena1341646
11717Mycolicibacterium septicum DSM 44393 16S ribosomal RNA, partial sequenceNR_0429161483nuccore1341646

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Mycobacterium septicum DSM 443931341646.3wgspatric1341646
66792Mycolicibacterium septicum DSM 44393 strain ATCC 7007311341646.5wgspatric1341646
66792Mycolicibacterium septicum DSM 443932551306423draftimg1341646
67770Mycolicibacterium septicum DSM 44393 type strain: DSM 44393GCA_000455325scaffoldncbi1341646
67770Mycolicibacterium septicum DSM 44393 ATCC 700731GCA_012396425contigncbi1341646

GC content

@refGC-contentmethod
1171764
6777066.7genome sequence analysis
6777064thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno94.633no
gram-positiveyes90.213no
anaerobicno99.337yes
halophileno93.658no
spore-formingno84.356no
thermophileno99.531yes
glucose-utilyes88.46no
aerobicyes86.658no
flagellatedno98.061no
glucose-fermentno91.369yes

External links

@ref: 11717

culture collection no.: DSM 44393, ATCC 700731, CCUG 43574, JCM 14743, CIP 106642

straininfo link

  • @ref: 77876
  • straininfo: 44108

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny10758863Mycobacterium septicum sp. nov., a new rapidly growing species associated with catheter-related bacteraemia.Schinsky MF, McNeil MM, Whitney AM, Steigerwalt AG, Lasker BA, Floyd MM, Hogg GG, Brenner DJ, Brown JMInt J Syst Evol Microbiol10.1099/00207713-50-2-5752000Bacteremia/*microbiology, Base Composition, *Catheterization, Central Venous, Catheters, Indwelling/*microbiology, Chromatography, High Pressure Liquid, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Genes, rRNA, Genotype, Humans, Molecular Sequence Data, Mycobacterium/*classification/*isolation & purification/physiology, Mycobacterium Infections/*microbiology, Mycolic Acids/analysis, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAGenetics
Phylogeny16364605Isolation of Mycobacterium septicum from the sputum of a patient suffering from hemoptoic pneumonia.Adekambi T, Drancourt MRes Microbiol10.1016/j.resmic.2005.10.0062005Aged, Anti-Bacterial Agents/pharmacology, Antitubercular Agents/pharmacology, Bacterial Proteins/genetics, DNA-Directed RNA Polymerases, Drug Resistance, Multiple, Bacterial, Female, Genes, Bacterial/genetics, Humans, Microbial Sensitivity Tests, Molecular Sequence Data, Mycobacterium/classification/*drug effects/genetics/*isolation & purification, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Homology, Nucleic Acid, Species Specificity, Sputum/*microbiology, Tuberculosis, Pulmonary/*microbiologyPathogenicity
Genetics23950116Noncontiguous Genome Sequence of Mycobacterium septicum Strain DSM 44393T.Sassi M, Robert C, Raoult D, Drancourt MGenome Announc10.1128/genomeA.00574-132013

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
11717Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44393)https://www.dsmz.de/collection/catalogue/details/culture/DSM-44393
19860Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM44393.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
36370Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18795
55946Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 43574)https://www.ccug.se/strain?id=43574
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68379Automatically annotated from API Coryne
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
77876Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID44108.1StrainInfo: A central database for resolving microbial strain identifiers
122566Curators of the CIPCollection of Institut Pasteur (CIP 106642)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106642