Strain identifier

BacDive ID: 16987

Type strain: Yes

Species: Actinomadura glauciflava

Strain Designation: 80-60

Strain history: CIP <- 2003, JCM <- 1987, G. Zhang: strain 80-60

NCBI tax ID(s): 1449332 (strain), 96101 (species)

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General

@ref: 12075

BacDive-ID: 16987

DSM-Number: 44770

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

description: Actinomadura glauciflava 80-60 is an obligate aerobe, mesophilic, Gram-positive bacterium that builds an aerial mycelium and was isolated from soil.

NCBI tax id

NCBI tax idMatching level
96101species
1449332strain

strain history

@refhistory
12075<- CGMCC <- G. Zhang
67770G. Zhang 80-56.
119639CIP <- 2003, JCM <- 1987, G. Zhang: strain 80-60

doi: 10.13145/bacdive16987.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Streptosporangiales
  • family: Thermomonosporaceae
  • genus: Actinomadura
  • species: Actinomadura glauciflava
  • full scientific name: Actinomadura glauciflava Lu et al. 2003

@ref: 12075

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Thermomonosporaceae

genus: Actinomadura

species: Actinomadura glauciflava

full scientific name: Actinomadura glauciflava Lu et al. 2003

strain designation: 80-60

type strain: yes

Morphology

cell morphology

  • @ref: 119639
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: no

colony morphology

@refcolony colormedium used
69361Beige red (3012)ISP 4
69361Lemon yellow (1012)ISP 6
69361Light ivory (1015), zinc yellow (1018), beige red (3012)ISP 5
69361Rape yellow (1021), salmon pink (3022)ISP 2
69361Sun yellow (1037), bright red orange (2008)ISP 3
69361Zinc yellow (1018)ISP 7
69361Zinc yellow (1018)suter with tyrosine
69361Zinc yellow (1018)suter without tyrosine

multicellular morphology

@refforms multicellular complexcomplex namemedium namecomplex color
69361noAerial myceliumISP 2
69361yesAerial myceliumISP 3Green beige (1000), light ivory (1015)
69361yesAerial myceliumISP 4
69361noAerial myceliumISP 5
69361yesAerial myceliumISP 6
69361noAerial myceliumISP 7
69361noAerial myceliumsuter with tyrosine
69361noAerial myceliumsuter without tyrosine

pigmentation

@refproductionnamecolor
69361yesMelanin
69361yessoluble pigmentSand yellow (1002)

multimedia

@refmultimedia contentcaptionintellectual property rights
69361DSM_44770_image3.jpegPlates (65, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH
69361DSM_44770_image4.jpegPlates (65, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
12075GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)yeshttps://mediadive.dsmz.de/medium/65Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water
12075ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://mediadive.dsmz.de/medium/84Name: ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84) Composition: Agar 20.0 g/l Rolled oats 20.0 g/l ZnSO4 x 7 H2O 0.001 g/l MnCl2 x 4 H2O 0.001 g/l FeSO4 x 7 H2O 0.001 g/l Distilled water
12075Glucose Asparagine Agar (DSMZ Medium 1763)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium1763.pdf
32689MEDIUM 275 - for Actinomadura rugatobispora and Actinomadura verrucososporayesDistilled water make up to (1000.000 ml);Sodium chloride (1.000 g);Magnesium sulphate heptahydrate (1.000 g);Agar (20.000 g);Ammonium sulphate (2.000 g);Starch maize (10.000 g);Calcium carbonate (2.000 g);Trace salt solution - M00447 (1.000 ml)
119639CIP Medium 275yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=275

culture temp

@refgrowthtypetemperaturerange
12075positivegrowth28mesophilic
32689positivegrowth30mesophilic
67770positivegrowth28mesophilic
119639positivegrowth22-41
119639nogrowth5psychrophilic
119639nogrowth15psychrophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 119639
  • oxygen tolerance: obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
69361NaClpositivegrowth0-2.5 %
119639NaClpositivegrowth0-2 %
119639NaClnogrowth4 %
119639NaClnogrowth6 %
119639NaClnogrowth8 %
119639NaClnogrowth10 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H6), MK-9(H8), MK-9(H4)

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
68371salicin-builds acid from17814
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol-builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
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
68371L-xylose-builds acid from65328
68371D-ribose-builds acid from16988
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol-builds acid from17754
69361arabinose+growth22599
69361cellulose+/-growth62968
69361fructose+growth28757
69361glucose+growth17234
69361inositol+growth17268
69361mannose+growth37684
69361raffinose+/-growth16634
69361rhamnose+growth26546
69361sucrose+growth17992
69361xylose+growth18222
119639esculin+hydrolysis4853
119639nitrate+reduction17632
119639nitrite-reduction16301
119639nitrate-respiration17632
68379nitrate+reduction17632
68379esculin-hydrolysis4853
68379urea-hydrolysis16199
68379gelatin+hydrolysis5291
68379D-glucose-fermentation17634
68379D-ribose-fermentation16988
68379D-xylose-fermentation65327
68379D-mannitol-fermentation16899
68379maltose-fermentation17306
68379lactose-fermentation17716
68379sucrose-fermentation17992
68379glycogen-fermentation28087

antibiotic resistance

  • @ref: 119639
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 119639
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11963915688acetoin-
11963917234glucose-

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
68379pyrrolidonyl arylamidase-3.4.19.3
68379pyrazinamidase-3.5.1.B15
119639oxidase-
119639beta-galactosidase-3.2.1.23
119639alcohol dehydrogenase-1.1.1.1
119639gelatinase+
119639amylase-
119639DNase-
119639caseinase+3.4.21.50
119639catalase+1.11.1.6
119639tween esterase-
119639gamma-glutamyltransferase-2.3.2.2
119639lecithinase-
119639lipase+
119639lysine decarboxylase-4.1.1.18
119639ornithine decarboxylase-4.1.1.17
119639phenylalanine ammonia-lyase-4.3.1.24
119639protease+
119639tryptophan deaminase-
119639urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
68382acid phosphatase+3.1.3.2
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
69361+--+/-------+--------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
69361++/-+/--+++/-+/-+/-++/---------
119639++++++---++----++---

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
119639-----+/--+/---+---+/-------+/---+/--+/----------------------+/-

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
119639+--+-----+-----+--++++-+---------+---+------------+--------++------------+----+---------+---------+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
12075soilYunnan ProvinceChinaCHNAsia
67770Soil at the Institute of Tropical PlantsXishuang Bana, Yunnan ProvinceChinaCHNAsia
119639Environment, Soil at the InsXishuang Banna, YunnanChinaCHNAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_52132.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_239;96_1053;97_1231;98_2893;99_52132&stattab=map
  • Last taxonomy: Actinomadura
  • 16S sequence: AB184612
  • Sequence Identity:
  • Total samples: 677
  • soil counts: 533
  • aquatic counts: 47
  • animal counts: 22
  • plant counts: 75

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
120751Risk group (German classification)
1196391Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Actinomadura glucoflavus 16S ribosomal RNA, partial sequenceAF1538811463ena96101
20218Actinomadura glauciflava gene for 16S ribosomal RNA, partial sequenceAB0061551472ena96101
20218Actinomadura glauciflava gene for 16S rRNA, partial sequence, strain: NBRC 14668AB1846121475ena96101

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Actinomadura glauciflava DSM 447702571042017draftimg1449332
66792Actinomadura glauciflava DSM 44770GCA_024648845scaffoldncbi96101

GC content

@refGC-contentmethod
1207572
6777072.1high performance liquid chromatography (HPLC)
6777069-71.37thermal denaturation, midpoint method (Tm)
6777072thermal denaturation, midpoint method (Tm)

External links

@ref: 12075

culture collection no.: DSM 44770, AS 4.1202, CIP 107902, DSM 43891, IFO 14668, JCM 6161, NBRC 14668, VKM Ac-1273, CGMCC 4.1202

straininfo link

  • @ref: 85990
  • straininfo: 50446

literature

  • topic: Phylogeny
  • Pubmed-ID: 12656165
  • title: Actinomadura catellatispora sp. nov. and Actinomadura glauciflava sp. nov., from a sewage ditch and soil in southern China.
  • authors: Lu Z, Wang L, Zhang Y, Shi Y, Liu Z, Quintana ET, Goodfellow M
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.02243-0
  • year: 2003
  • mesh: Actinomycetales/*classification/genetics/*isolation & purification/metabolism, China, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Microscopy, Electron, Scanning, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sewage/microbiology, Soil Microbiology
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
12075Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44770)https://www.dsmz.de/collection/catalogue/details/culture/DSM-44770
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
32689Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5465
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/
68371Automatically annotated from API 50CH acid
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
69361Wink, J.https://cdn.dsmz.de/wink/DSM%2044770.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
85990Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID50446.1StrainInfo: A central database for resolving microbial strain identifiers
119639Curators of the CIPCollection of Institut Pasteur (CIP 107902)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107902