Strain identifier

BacDive ID: 14234

Type strain: Yes

Species: Sphingomonas faeni

Strain Designation: MA-olki

Strain history: CIP <- 2004, P. Kämpfer, Giessen Univ., Giessen, Germany <- M. Andersson: strain MA-olki

NCBI tax ID(s): 185950 (species)

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General

@ref: 5442

BacDive-ID: 14234

DSM-Number: 14747

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

description: Sphingomonas faeni MA-olki is an obligate aerobe, psychrophilic, Gram-negative bacterium that was isolated from indoor dusts in animal sheds.

NCBI tax id

  • NCBI tax id: 185950
  • Matching level: species

strain history

@refhistory
5442<- H.-J. Busse; MA-olki <- M. Andersson
119271CIP <- 2004, P. Kämpfer, Giessen Univ., Giessen, Germany <- M. Andersson: strain MA-olki

doi: 10.13145/bacdive14234.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Sphingomonadales
  • family: Sphingomonadaceae
  • genus: Sphingomonas
  • species: Sphingomonas faeni
  • full scientific name: Sphingomonas faeni Busse et al. 2003

@ref: 5442

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Sphingomonadales

family: Sphingomonadaceae

genus: Sphingomonas

species: Sphingomonas faeni

full scientific name: Sphingomonas faeni Busse et al. 2003

strain designation: MA-olki

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480negative99.961
119271negativerod-shapedyes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5442NUTRIENT AGAR (DSMZ Medium 1)yeshttps://mediadive.dsmz.de/medium/1Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
5442YEAST-PEPTONE-SUCCINATE MEDIUM (DSMZ Medium 988)yeshttps://mediadive.dsmz.de/medium/988Name: YEAST-PEPTONE-SUCCINATE MEDIUM (DSMZ Medium 988) Composition: Agar 15.0 g/l Peptone 3.0 g/l Yeast extract 3.0 g/l Sodium succinate 2.3 g/l Distilled water
33958MEDIUM 566- Reasoner's 2A agar for Flavobacterium micromatiyesDistilled water make up to (1000.000 ml);R2A agar (18.200 g)
119271CIP Medium 566yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=566

culture temp

@refgrowthtypetemperaturerange
5442positivegrowth22psychrophilic
33958positivegrowth22psychrophilic
119271positivegrowth10-25psychrophilic
119271nogrowth5psychrophilic
119271nogrowth30mesophilic
119271nogrowth37mesophilic
119271nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 119271
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.943

halophily

@refsaltgrowthtested relationconcentration
119271NaClpositivegrowth0-2 %
119271NaClnogrowth4 %
119271NaClnogrowth6 %
119271NaClnogrowth8 %
119271NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1192714853esculin+hydrolysis
11927117632nitrate-reduction
11927116301nitrite-reduction

antibiotic resistance

  • @ref: 119271
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 119271
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
119271oxidase-
119271beta-galactosidase+3.2.1.23
119271alcohol dehydrogenase-1.1.1.1
119271gelatinase-
119271amylase-
119271DNase-
119271catalase+1.11.1.6
119271lecithinase-
119271lipase-
119271lysine decarboxylase-4.1.1.18
119271ornithine decarboxylase-4.1.1.17
119271protease-
119271tryptophan deaminase-
119271urease-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
119271-+++-++---++-+-++---

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
5442indoor dusts in animal shedsFinlandFINEurope
58158Whirled-up dust in a cow barnFinlandFINEurope
119271Environment, Indoor dusts in animal shedsFinlandFINEurope

isolation source categories

Cat1Cat2Cat3
#Engineered#Agriculture#Livestock (Husbandry)
#Engineered#Built environment#Indoor
#Engineered#Waste#Dust (Ash)

taxonmaps

  • @ref: 69479
  • File name: preview.99_1517.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_20;96_868;97_1016;98_1199;99_1517&stattab=map
  • Last taxonomy: Sphingomonas
  • 16S sequence: AJ429239
  • Sequence Identity:
  • Total samples: 35341
  • soil counts: 6757
  • aquatic counts: 7018
  • animal counts: 12267
  • plant counts: 9299

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
54421Risk group (German classification)
1192711Risk group (French classification)

Sequence information

16S sequences

  • @ref: 5442
  • description: Sphingomonas faenia partial 16S rRNA gene, strain MA-olki
  • accession: AJ429239
  • length: 1457
  • database: ena
  • NCBI tax ID: 185950

Genome sequences

  • @ref: 66792
  • description: Sphingomonas faeni MA-olki
  • accession: GCA_003053745
  • assembly level: scaffold
  • database: ncbi
  • NCBI tax ID: 185950

GC content

  • @ref: 5442
  • GC-content: 63.1

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno92.261no
gram-positiveno97.53no
anaerobicno98.987no
halophileno94.943no
spore-formingno93.916no
thermophileno99.476no
glucose-utilyes90.264no
aerobicyes93.166no
motileyes75.227no
glucose-fermentno89.83no

External links

@ref: 5442

culture collection no.: DSM 14747, LMG 21379, CCUG 48436, CIP 108370

straininfo link

  • @ref: 83393
  • straininfo: 86185

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny13130003Sphingomonas aurantiaca sp. nov., Sphingomonas aerolata sp. nov. and Sphingomonas faeni sp. nov., air- and dustborne and Antarctic, orange-pigmented, psychrotolerant bacteria, and emended description of the genus Sphingomonas.Busse HJ, Denner EBM, Buczolits S, Salkinoja-Salonen M, Bennasar A, Kampfer PInt J Syst Evol Microbiol10.1099/ijs.0.02461-02003Air Microbiology, Antarctic Regions, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Dust, Fatty Acids/analysis, Molecular Sequence Data, Phylogeny, Pigmentation, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Species Specificity, Sphingomonas/*classification/genetics/isolation & purification/metabolismGenetics
Phylogeny17625188Sphingomonas kaistensis sp. nov., a novel alphaproteobacterium containing pufLM genes.Kim MK, Schubert K, Im WT, Kim KH, Lee ST, Overmann JInt J Syst Evol Microbiol10.1099/ijs.0.64579-02007Bacterial Proteins/analysis/*genetics, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Genes, rRNA, Korea, Light-Harvesting Protein Complexes/*genetics, Molecular Sequence Data, Photosynthetic Reaction Center Complex Proteins/*genetics, Phylogeny, Pigments, Biological/biosynthesis, Quinones/analysis, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, *Soil Microbiology, Sphingomonas/chemistry/*classification/*genetics/isolation & purificationGenetics
Phylogeny23564163Sphingomonas ginsenosidivorax sp. nov., with the ability to transform ginsenosides.Jin XF, Kim JK, Liu QM, Kang MS, He D, Jin FX, Kim SC, Im WTAntonie Van Leeuwenhoek10.1007/s10482-013-9916-22013Bacterial Typing Techniques, Base Composition, Base Sequence, DNA, Bacterial/genetics, Fatty Acids, Fresh Water/*microbiology, Genes, rRNA, Geologic Sediments/*microbiology, Ginsenosides/metabolism, Molecular Sequence Data, Phylogeny, Polyamines/metabolism, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Soil Microbiology, Sphingomonas/*classification/genetics/isolation & purification/*metabolismMetabolism
Phylogeny28792375Sphingomonas olei sp. nov., with the ability to degrade aliphatic hydrocarbons, isolated from oil-contaminated soil.Chaudhary DK, Kim JInt J Syst Evol Microbiol10.1099/ijsem.0.0020102017Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Hydrocarbons/metabolism, Nepal, Nucleic Acid Hybridization, *Petroleum Pollution, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Soil Pollutants, Sphingomonas/*classification/genetics/isolation & purification, Ubiquinone/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitle
5442Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14747)https://www.dsmz.de/collection/catalogue/details/culture/DSM-14747
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
33958Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5985
58158Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 48436)https://www.ccug.se/strain?id=48436
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)
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
83393Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID86185.1StrainInfo: A central database for resolving microbial strain identifiers
119271Curators of the CIPCollection of Institut Pasteur (CIP 108370)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108370