Strain identifier

BacDive ID: 14425

Type strain: Yes

Species: Macrococcus lamae

Strain history: CIP <- 2003, CCM

NCBI tax ID(s): 198484 (species)

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General

@ref: 8072

BacDive-ID: 14425

DSM-Number: 19359

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, Gram-positive

description: Macrococcus lamae DSM 19359 is an obligate aerobe, Gram-positive bacterium that was isolated from llama skin.

NCBI tax id

  • NCBI tax id: 198484
  • Matching level: species

strain history

@refhistory
8072<- CCM, CCM 4815
339002003, CCM
120551CIP <- 2003, CCM

doi: 10.13145/bacdive14425.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Staphylococcaceae
  • genus: Macrococcus
  • species: Macrococcus lamae
  • full scientific name: Macrococcus lamae Mannerová et al. 2003

@ref: 8072

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Staphylococcaceae

genus: Macrococcus

species: Macrococcus lamae

full scientific name: Macrococcus lamae Mannerová et al. 2003

type strain: yes

Morphology

cell morphology

  • @ref: 120551
  • gram stain: positive
  • cell shape: coccus-shaped
  • motility: no

colony morphology

  • @ref: 120551

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8072TRYPTICASE 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
33900MEDIUM 328- for nutrient agaryesDistilled water make up to (1000.000 ml);Agar (15.000 g);Peptone (5.000g);Beef extract (3.000 g)
120551CIP Medium 328yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=328

culture temp

@refgrowthtypetemperature
8072positivegrowth35
33900positivegrowth37
57574positivegrowth22-42
120551positivegrowth22-37
120551nogrowth10
120551nogrowth41
120551nogrowth45

Physiology and metabolism

oxygen tolerance

  • @ref: 120551
  • oxygen tolerance: obligate aerobe

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
120551606565hippurate+hydrolysis
12055117632nitrate-reduction
12055116301nitrite-reduction
6837516199urea-hydrolysis
6837529016arginine-hydrolysis
6837518257ornithine-degradation
683754853esculin-hydrolysis
6837517634D-glucose-fermentation
6837515824D-fructose-fermentation
6837516024D-mannose-fermentation
6837517306maltose-fermentation
6837517716lactose-fermentation
6837527082trehalose-fermentation
6837516899D-mannitol-fermentation
6837516634raffinose-fermentation
6837516988D-ribose-fermentation
6837517057cellobiose-fermentation
6837517632nitrate-reduction
6837517992sucrose-fermentation
6837559640N-acetylglucosamine-fermentation
6837532528turanose-fermentation
6837522599arabinose-fermentation

antibiotic resistance

  • @ref: 68375
  • ChEBI: 28368
  • metabolite: novobiocin
  • is antibiotic: yes
  • is sensitive: yes
  • sensitivity conc.: 1.8 µg

metabolite production

@refChebi-IDmetaboliteproduction
6837515688acetoinno
12055135581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-test
6837515688acetoin-
12055115688acetoin-

enzymes

@refvalueactivityec
68375beta-glucuronidase-3.2.1.31
68375pyrrolidonyl arylamidase-3.4.19.3
68375alkaline phosphatase-3.1.3.1
68375L-arginine arylamidase-
68375beta-galactosidase-3.2.1.23
68375beta-glucosidase-3.2.1.21
68375ornithine decarboxylase-4.1.1.17
68375arginine dihydrolase-3.5.3.6
68375urease-3.5.1.5
120551oxidase+
120551beta-galactosidase-3.2.1.23
120551alcohol dehydrogenase-1.1.1.1
120551gelatinase+/-
120551amylase-
120551DNase-
120551caseinase-3.4.21.50
120551catalase+1.11.1.6
120551coagulase-
120551tween esterase-
120551gamma-glutamyltransferase-2.3.2.2
120551lecithinase-
120551lipase-
120551lysine decarboxylase-4.1.1.18
120551ornithine decarboxylase-4.1.1.17
120551phenylalanine ammonia-lyase-4.3.1.24
120551urease-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
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
120551-++--------+--------

API ID32STA

@refUREADH ArgODCESCGLUFRUMNEMALLACTREMANRAFRIBCELNITVPbeta GALArgAPALPyrANOVOSACNAGTURARAbeta GUR
8072--------------------------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
120551++---------------------------------------------------------------------------------------------+---

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
8072llama skinBrno, Zoological GardenCzech RepublicCZEEurope
57574Llama skin (Lama glama)Brno,Brno ZooCzech RepublicCZEEurope
120551Skin of llama, Lama glamaBrnoCzech RepublicCZEEurope1997

isolation source categories

Cat1Cat2Cat3
#Host#Mammals
#Host Body-Site#Organ#Skin, Nail, Hair

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
80721Risk group (German classification)
1205511Risk group (French classification)

Sequence information

16S sequences

  • @ref: 8072
  • description: Macrococcus lamae 16S ribosomal RNA gene, complete sequence
  • accession: AY119687
  • length: 1549
  • database: nuccore
  • NCBI tax ID: 198484

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Macrococcus lamae CCM4815GCA_004359545contigncbi198484
66792Macrococcus lamae strain CCM4815198484.3wgspatric198484
66792Macrococcus lamae CCM48152895696325draftimg198484

GC content

  • @ref: 8072
  • GC-content: 41

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesno51no
69480gram-positivegram-positivePositive reaction to Gram-stainingyes85.884no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no95.446yes
69480spore-formingspore-formingAbility to form endo- or exosporesno68.781no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes79.891yes
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno94.149yes
69480flagellatedmotile2+Ability to perform flagellated movementno80.979no

External links

@ref: 8072

culture collection no.: DSM 19359, CCM 4815, CCUG 47199, CIP 108165, LMG 21713

straininfo link

  • @ref: 83569
  • straininfo: 87784

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny13130064Macrococcus brunensis sp. nov., Macrococcus hajekii sp. nov. and Macrococcus lamae sp. nov., from the skin of llamas.Mannerova S, Pantucek R, Doskar J, Svec P, Snauwaert C, Vancanneyt M, Swings J, Sedlacek IInt J Syst Evol Microbiol10.1099/ijs.0.02683-02003Animals, Base Composition, Base Sequence, Camelids, New World/*microbiology, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/genetics, Fatty Acids/analysis, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Skin/microbiology, Staphylococcaceae/*classification/genetics/*isolation & purification/metabolismGenetics
Genetics31072882Draft Genome Sequences of the Type Strains of Six Macrococcus Species.Mazhar S, Altermann E, Hill C, McAuliffe OMicrobiol Resour Announc10.1128/MRA.00344-192019

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8072Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19359)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19359
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
33900Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5757
57574Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 47199)https://www.ccug.se/strain?id=47199
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
68375Automatically annotated from API ID32STA
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)
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
83569Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID87784.1StrainInfo: A central database for resolving microbial strain identifiers
120551Curators of the CIPCollection of Institut Pasteur (CIP 108165)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108165