Strain identifier

BacDive ID: 8505

Type strain: Yes

Species: Mycobacterium poriferae

Strain Designation: 14149 0001, MC 47A, 14 149 0001

Strain history: CIP <- 1998, V. Vincent, Inst. Pasteur, Paris, France: strain 14 149 0001 <- ATCC <- P.J. Padgitt and S.E. Moshier: strain MC 47A

NCBI tax ID(s): 39694 (species)

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General

@ref: 11900

BacDive-ID: 8505

DSM-Number: 44585

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic

description: Mycobacterium poriferae 14149 0001 is an obligate aerobe, mesophilic bacterium that was isolated from marine sponge.

NCBI tax id

  • NCBI tax id: 39694
  • Matching level: species

strain history

@refhistory
11900<- CIP <- V. Vincent, Inst. Pasteur; 14149 0001 <- ATCC <- P. J. Padgitt and S. E. Moshier; MC 47A
67770NCIMB 12538 <-- ATCC 35087 <-- P. J. Padgitt and S. E. Moshier MC 47 A.
121946CIP <- 1998, V. Vincent, Inst. Pasteur, Paris, France: strain 14 149 0001 <- ATCC <- P.J. Padgitt and S.E. Moshier: strain MC 47A

doi: 10.13145/bacdive8505.20230509.8.1

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 poriferae
  • full scientific name: Mycobacterium poriferae Padgitt and Moshier 1987

  • synonyms

    • @ref: 20215
    • synonym: Mycolicibacterium poriferae

@ref: 11900

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Mycobacteriaceae

genus: Mycobacterium

species: Mycobacterium poriferae

full scientific name: Mycobacterium poriferae Padgitt and Moshier 1987

strain designation: 14149 0001, MC 47A, 14 149 0001

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no91.981
69480100positive
121946norod-shaped

colony morphology

@refcolony colorincubation periodmedium used
19869Deep orange10-14 days5006
19869Deep orange10-14 daysMB7H10
19869Deep orange10-14 daysMB7H11

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11900MIDDLEBROOK 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
19869MB7H10yesName: 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
19869MB7H11yesName: 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
198695006yesMedium: 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
36314MEDIUM 55 - for Mycobacteriumyes
121946CIP Medium 55yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=55

culture temp

@refgrowthtypetemperaturerange
19869positiveoptimum37mesophilic
11900positivegrowth37mesophilic
36314positivegrowth37mesophilic
67770positivegrowth28mesophilic
121946positivegrowth25-37mesophilic
121946nogrowth10psychrophilic
121946nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 121946
  • oxygen tolerance: obligate aerobe

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 99.847

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
121946606565hippurate-hydrolysis
12194617632nitrate-reduction
12194616301nitrite-reduction
12194617632nitrate-respiration
6837917632nitrate-reduction
683794853esculin-hydrolysis
6837916199urea+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: 121946
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
68379gelatinase-
68379urease+3.5.1.5
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
68379pyrazinamidase+3.5.1.B15
121946oxidase-
121946beta-galactosidase-3.2.1.23
121946gelatinase-
121946amylase-
121946DNase-
121946caseinase-3.4.21.50
121946catalase+1.11.1.6
121946tween esterase-
121946gamma-glutamyltransferase-2.3.2.2
121946lecithinase-
121946lipase-
121946urease+3.5.1.5
68382alkaline phosphatase-3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
19869-+----+--+---------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
19869-++-++---+----++---
121946-++-+-----+---+-----

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
121946-+-------------------+-----------+---------------+----------+-----------+--+--+++---+---+------++--

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinenthost species
11900marine spongePanacea, Halichondria bowerankiFinlandFINEurope
67770Marine sponge (Halichondria bowerbanki)Halichondria bowerbanki
121946Animal, Marine sponge, Halichondria bowerbankiPanacea, FloridaUnited States of AmericaUSANorth America

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Host#Invertebrates (Other)#Porifera (Sponges)

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
119001Risk group (German classification)
198691Risk group (German classification)
1219461Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Mycobacterium poriferae 16S ribosomal RNA gene, partial sequenceAF4805891450ena39694
20218Mycobacterium poriferae strain CIP 105394 16S ribosomal RNA gene, partial sequenceAF547959542ena39694

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Mycolicibacterium poriferae JCM 12603GCA_010728325completencbi39694
66792Mycolicibacterium poriferae strain JCM 1260339694.8wgspatric39694
66792Mycolicibacterium poriferae DSM 44585GCA_025822745scaffoldncbi39694

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno72no
motileno92.612no
flagellatedno97.705no
gram-positiveyes91.064no
anaerobicno99.193no
aerobicyes88.871no
halophileno88.377no
spore-formingno86.178no
glucose-utilyes86.292no
thermophileno99.376no
glucose-fermentno90.495yes

External links

@ref: 11900

culture collection no.: DSM 44585, ATCC 35087, CIP 105394, NCIB 12538, JCM 12603, NCIMB 12538

straininfo link

  • @ref: 77896
  • straininfo: 40864

literature

  • topic: Metabolism
  • Pubmed-ID: 16461697
  • title: Degradation of 2,3-diethyl-5-methylpyrazine by a newly discovered bacterium, Mycobacterium sp. strain DM-11.
  • authors: Rappert S, Botsch KC, Nagorny S, Francke W, Muller R
  • journal: Appl Environ Microbiol
  • DOI: 10.1128/AEM.72.2.1437-1444.2006
  • year: 2006
  • mesh: Biodegradation, Environmental, Biotransformation, Carbon/metabolism, Culture Media, Food Industry, Gases/metabolism, Industrial Waste, Molecular Sequence Data, Mycobacterium/genetics/growth & development/isolation & purification/*metabolism, Nitrogen/metabolism, Pyrazines/chemistry/*metabolism, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics
  • topic2: Cultivation

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
11900Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44585)https://www.dsmz.de/collection/catalogue/details/culture/DSM-44585
19869Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM44585.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
36314Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/17408
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
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)
77896Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID40864.1StrainInfo: A central database for resolving microbial strain identifiers
121946Curators of the CIPCollection of Institut Pasteur (CIP 105394)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105394