Strain identifier

BacDive ID: 13503

Type strain: Yes

Species: Actinomycetospora corticicola

Strain Designation: 014-5

Strain history: KACC 14253 <-- NBRC 103689 <-- T. Tamura 014-5.

NCBI tax ID(s): 663602 (species)

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General

@ref: 18186

BacDive-ID: 13503

DSM-Number: 45772

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

description: Actinomycetospora corticicola 014-5 is an aerobe, mesophilic bacterium that was isolated from bark of mangrove tree, Kandelia candel.

NCBI tax id

  • NCBI tax id: 663602
  • Matching level: species

strain history

@refhistory
18186<- S.-W. Kwon, KACC; KACC 14253 <- T. Tamura; 014-5
67770KACC 14253 <-- NBRC 103689 <-- T. Tamura 014-5.

doi: 10.13145/bacdive13503.20250331.9.3

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Pseudonocardiales
  • family: Pseudonocardiaceae
  • genus: Actinomycetospora
  • species: Actinomycetospora corticicola
  • full scientific name: Actinomycetospora corticicola Tamura et al. 2011

@ref: 18186

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Pseudonocardiaceae

genus: Actinomycetospora

species: Actinomycetospora corticicola

full scientific name: Actinomycetospora corticicola Tamura et al. 2011

strain designation: 014-5

type strain: yes

Morphology

cell morphology

  • @ref: 125439
  • gram stain: positive
  • confidence: 99.5

colony morphology

@refcolony colormedium used
69431Golden yellow (1004)suter with tyrosine
69431Daffodil yellow (1007)ISP 4
69431Rape yellow (1021)ISP 7
69431Signal yellow (1003)ISP 2
69431Signal yellow (1003)ISP 3
69431Traffic yellow (1023)ISP 5
69431Traffic yellow (1023)ISP 6
69431Traffic yellow (1023)suter without tyrosine

multicellular morphology

@refforms multicellular complexcomplex namemedium name
69431noAerial myceliumISP 2
69431noAerial myceliumISP 3
69431noAerial myceliumISP 4
69431noAerial myceliumISP 5
69431noAerial myceliumISP 6
69431noAerial myceliumISP 7
69431noAerial myceliumsuter with tyrosine
69431noAerial myceliumsuter without tyrosine

pigmentation

@refproductionnamecolor
69431yesMelanin
69431yessoluble pigmentSand yellow (1002)

multimedia

@refmultimedia contentcaptionintellectual property rights
69431DSM_45772_image3.jpegPlates (65, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH
69431DSM_45772_image4.jpegPlates (65, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH

Culture and growth conditions

culture medium

  • @ref: 18186
  • name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/65
  • composition: Name: 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

culture temp

@refgrowthtypetemperature
18186positivegrowth28
67770positivegrowth28

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
125438aerobe91.514
125439obligate aerobe96.5

halophily

  • @ref: 69431
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-7.5 %

observation

  • @ref: 67770
  • observation: quinones: MK-8(H4)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6943122599arabinose+/-growth
6837928087glycogen-fermentation
6837917306maltose-fermentation
6837917716lactose-fermentation
6837916899D-mannitol-fermentation
6837965327D-xylose-fermentation
6837916988D-ribose-fermentation
6837917634D-glucose-fermentation
683794853esculin-hydrolysis
6837917632nitrate-reduction
6943162968cellulose+/-growth
6943128757fructose+growth
6943117234glucose+growth
6943117268inositol+/-growth
6943137684mannose+growth
6943116634raffinose+/-growth
6943126546rhamnose+/-growth
6943117992sucrose+growth
6943118222xylose+/-growth
6837917992sucrose-fermentation
683795291gelatin-hydrolysis
6837916199urea-hydrolysis

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382cystine arylamidase-3.4.11.3
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382alkaline phosphatase-3.1.3.1
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
68379gelatinase-
68379urease-3.5.1.5
68379alkaline phosphatase-3.1.3.1
68379pyrrolidonyl arylamidase-3.4.19.3
68379pyrazinamidase-3.5.1.B15

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
69431-------------------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
69431-+/-+-++/----+/-+/----+----

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinenthost species
18186bark of mangrove tree, Kandelia candelIriomote Isalnd, OkinawaJapanJPNAsia
67770Bark of a mangrove tree, Kandelia candelIriomote Island, Okinawa Pref.JapanJPNAsiaKandelia candel

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Mangrove
#Host#Plants#Tree
#Host Body-Site#Plant#Bark

taxonmaps

  • @ref: 69479
  • File name: preview.99_108855.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_289;97_319;98_354;99_108855&stattab=map
  • Last taxonomy: Actinomycetospora
  • 16S sequence: AB514513
  • Sequence Identity:
  • Total samples: 207
  • soil counts: 61
  • aquatic counts: 22
  • animal counts: 100
  • plant counts: 24

Safety information

risk assessment

  • @ref: 18186
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 18186
  • description: Actinomycetospora corticicola gene for 16S rRNA, partial sequence, strain: 014-5
  • accession: AB514513
  • length: 1485
  • database: nuccore
  • NCBI tax ID: 663602

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Actinomycetospora corticicola strain DSM 45772663602.3wgspatric663602
66792Actinomycetospora corticicola DSM 457722844856562draftimg663602
67770Actinomycetospora corticicola DSM 45772GCA_013409505contigncbi663602

GC content

@refGC-contentmethod
1818674
6777074high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingyes88.85no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no97.319no
125438spore-formingspore-formingAbility to form endo- or exosporesyes69.728no
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes91.514no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno94.5yes
125438motile2+flagellatedAbility to perform flagellated movementno84.062no
125439BacteriaNetspore_formationAbility to form endo- or exosporesyes52.4
125439BacteriaNetmotilityAbility to perform movementno77.2
125439BacteriaNetgram_stainReaction to gram-stainingpositive99.5
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthobligate aerobe96.5

External links

@ref: 18186

culture collection no.: DSM 45772, KACC 14253, NBRC 103689, JCM 17981, TBRC 8065

straininfo link

  • @ref: 82695
  • straininfo: 400305

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny20622052Description of Actinomycetospora chibensis sp. nov., Actinomycetospora chlora sp. nov., Actinomycetospora cinnamomea sp. nov., Actinomycetospora corticicola sp. nov., Actinomycetospora lutea sp. nov., Actinomycetospora straminea sp. nov. and Actinomycetospora succinea sp. nov. and emended description of the genus Actinomycetospora.Tamura T, Ishida Y, Hamada M, Otoguro M, Yamamura H, Hayakawa M, Suzuki KIInt J Syst Evol Microbiol10.1099/ijs.0.024166-02010Actinomycetales/chemistry/*classification/genetics/*isolation & purification, Amino Acids/analysis, Base Composition, Carbohydrates/analysis, Cell Wall/chemistry, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Japan, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAGenetics
Phylogeny21148678Actinomycetospora rishiriensis sp. nov., isolated from a lichen.Yamamura H, Ashizawa H, Nakagawa Y, Hamada M, Ishida Y, Otoguro M, Tamura T, Hayakawa MInt J Syst Evol Microbiol10.1099/ijs.0.028753-02010Actinomycetales/*classification/genetics/*isolation & purification/metabolism, Base Composition, DNA, Bacterial/genetics, Fatty Acids/metabolism, Japan, Lichens/*microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Sodium Chloride/metabolismMetabolism
Phylogeny24573328Actinomycetospora atypica sp. nov., a novel soil actinomycete and emended description of the genus Actinomycetospora.Zhang Y, Liu C, Zhang J, Shen Y, Li C, He H, Wang X, Xiang WAntonie Van Leeuwenhoek10.1007/s10482-014-0143-22014Actinomycetales/*classification/genetics/*isolation & purification/physiology, Bacterial Typing Techniques, China, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Microscopy, Electron, Scanning, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil MicrobiologyGenetics
Phylogeny35851075Actinomycetospora soli sp. nov., isolated from the rhizosphere soil of Averrhoa carambola L.Chantavorakit T, Duangmal KInt J Syst Evol Microbiol10.1099/ijsem.0.0052772022*Actinomycetales, *Averrhoa, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Rhizosphere, Sequence Analysis, DNA, Soil, Soil Microbiology, ThailandTranscriptome

Reference

@idauthorscataloguedoi/urltitle
18186Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45772)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45772
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
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
69431Wink, J.https://cdn.dsmz.de/wink/DSM%2045772.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
82695Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID400305.1StrainInfo: A central database for resolving microbial strain identifiers
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann10.1101/2024.08.12.607695Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardyhttps://github.com/GenomeNet/deepGdeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1