Strain identifier

BacDive ID: 131070

Type strain: Yes

Species: Microbispora camponoti

Strain Designation: 2C-HV3

Strain history: CGMCC 4.7281 <-- C. Liu; Northeast Agric. Univ., China; 2C-HV3.

NCBI tax ID(s): 1677852 (species)

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General

@ref: 22362

BacDive-ID: 131070

DSM-Number: 100527

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

description: Microbispora camponoti 2C-HV3 is a mesophilic bacterium that builds an aerial mycelium and was isolated from cuticle of the ant Camponotus japonicus Mayr.

NCBI tax id

  • NCBI tax id: 1677852
  • Matching level: species

strain history

@refhistory
22362<- C. Liu, Northeast Agricultural Univ., Harbin, China; 2C-HV3
67770CGMCC 4.7281 <-- C. Liu; Northeast Agric. Univ., China; 2C-HV3.

doi: 10.13145/bacdive131070.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Streptosporangiales
  • family: Streptosporangiaceae
  • genus: Microbispora
  • species: Microbispora camponoti
  • full scientific name: Microbispora camponoti Han et al. 2016

@ref: 22362

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptosporangiaceae

genus: Microbispora

species: Microbispora camponoti

full scientific name: Microbispora camponoti Han et al. 2016

strain designation: 2C-HV3

type strain: yes

Morphology

colony morphology

@refcolony colormedium used
69245Light ivory (1015)suter with tyrosine
69245Olive brown (8008)ISP 6
69245Oyster white (1013)ISP 4
69245Pale brown (8025)ISP 2
69245Sepia brown (8014)ISP 3
69245Signal white (9003)ISP 5
69245Signal white (9003)ISP 7
69245Traffic white (9016)suter without tyrosine

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
69245yesAerial myceliumTelegrey 4 (7047)ISP 2
69245noAerial myceliumISP 3
69245noAerial myceliumISP 4
69245noAerial myceliumISP 5
69245noAerial myceliumISP 6
69245noAerial myceliumISP 7
69245noAerial myceliumsuter with tyrosine
69245noAerial myceliumsuter without tyrosine

pigmentation

@refproductionnamecolor
69245noMelanin
69245yessoluble pigmentOchre yellow (1024)

multimedia

  • @ref: 22362
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_100527.jpg
  • caption: Medium 554 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
22362ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium84.pdf
22362N-Z-AMINE-MEDIUM (DSMZ Medium 554)yeshttps://mediadive.dsmz.de/medium/554Name: N-Z-AMINE-MEDIUM (DSMZ Medium 554) Composition: Starch 20.0 g/l Agar 20.0 g/l Glucose 10.0 g/l N-Z amine 5.0 g/l Yeast extract 5.0 g/l CaCO3 1.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
22362positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

halophily

  • @ref: 69245
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H2), MK-9(H4)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6924522599arabinose+growth
6924562968cellulose+growth
6924528757fructose+growth
6924517234glucose+growth
6924517268inositol-growth
6924537684mannose+growth
6924516634raffinose+growth
6924526546rhamnose+growth
6924517992sucrose+growth
6924518222xylose+growth
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

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
68382alkaline phosphatase+3.1.3.1
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
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
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
69245---+--+------------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
69245++/-+/--+++/-+-++---++/-+--

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
22362cuticle of the ant Camponotus japonicus MayrCamponotus japonicusHeilongjiang province, Harbin, Northeast Agriculture UniversityChinaCHNAsia
67770Cuticle of Camponotus japonicus Mayr from Northeast Agric. Univ.Camponotus japonicusHarbin, HeilongjiangChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Host#Arthropoda#Insecta
#Host Body-Site#Organ#Skin, Nail, Hair

taxonmaps

  • @ref: 69479
  • File name: preview.99_29244.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_239;96_910;97_1060;98_1268;99_29244&stattab=map
  • Last taxonomy: Microbispora
  • 16S sequence: KR261651
  • Sequence Identity:
  • Total samples: 306
  • soil counts: 241
  • aquatic counts: 9
  • animal counts: 13
  • plant counts: 43

Safety information

risk assessment

  • @ref: 22362
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 22362
  • description: Microbispora camponoti strain 2C-HV3 16S ribosomal RNA gene, partial sequence
  • accession: KR261651
  • length: 1513
  • database: ena
  • NCBI tax ID: 1677852

Genome sequences

  • @ref: 66792
  • description: Microbispora camponoti 2C-HV3
  • accession: GCA_014712745
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 1677852

GC content

@refGC-contentmethod
2236269.5thermal denaturation, midpoint method (Tm)
6777069.3-69.7thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno97.958no
gram-positiveyes90.9no
anaerobicno99.178no
aerobicyes91.351no
halophileno92.109yes
spore-formingyes95.423no
glucose-utilyes88.555yes
thermophileno98.594yes
motileno93.623no
glucose-fermentno92.909no

External links

@ref: 22362

culture collection no.: DSM 100527, CGMCC 4.7281, JCM 31773

straininfo link

  • @ref: 89534
  • straininfo: 399554

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny26589683Microbispora camponoti sp. nov., a novel actinomycete isolated from the cuticle of Camponotus japonicus Mayr.Han C, Liu C, Zhao J, Guo L, Lu C, Li J, Jia F, Wang X, Xiang WAntonie Van Leeuwenhoek10.1007/s10482-015-0625-x2015Actinomycetales/classification/genetics/*isolation & purification/metabolism, Animal Structures/*microbiology, Animals, Ants/*microbiology, China, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry/metabolism, Molecular Sequence Data, PhylogenyMetabolism
Phylogeny30247118Microbispora triticiradicis sp. nov., a novel actinomycete isolated from the root of wheat (Triticum aestivum L.).Han C, Tian Y, Zhao J, Yu Z, Jiang S, Guo X, Xiang W, Wang XInt J Syst Evol Microbiol10.1099/ijsem.0.0030402018Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Triticum/*microbiology, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny30739286Microbispora tritici sp. nov., a novel actinomycete isolated from a root of wheat (Triticum aestivum L.).Han C, Zhao J, Yu B, Shi H, Zhang C, Guo X, Xiang W, Wang XAntonie Van Leeuwenhoek10.1007/s10482-019-01246-y2019Actinobacteria/*classification/genetics/*isolation & purification/physiology, Bacterial Typing Techniques, Cell Wall/chemistry, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Glycolipids/analysis, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Triticum/*microbiology, Vitamin K 2/analysisTranscriptome
Phylogeny31622227Microbispora fusca sp. nov., a novel actinomycete isolated from the ear of wheat (Triticum aestivum L.).Zhao J, Yu B, Han C, Cao P, Yu Z, Ju H, Xiang W, Wang XInt J Syst Evol Microbiol10.1099/ijsem.0.0037252020Actinomycetales/*classification/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Triticum/*microbiologyTranscriptome
Phylogeny33047275Microbispora cellulosiformans sp. nov., a novel actinomycete with cellulase activity isolated from soil in the cold region.Gong X, Xiang W, Cao X, Yu Y, Hao Y, Li L, Wang Q, Zou H, Qian CAntonie Van Leeuwenhoek10.1007/s10482-020-01477-42020*Actinobacteria/genetics, Bacterial Typing Techniques, *Cellulases, DNA, Bacterial/genetics, Fatty Acids, Nucleic Acid Hybridization, Phospholipids, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil, Soil MicrobiologyTranscriptome
Phylogeny33095132Microbispora clausenae sp. nov., an endophytic actinobacterium isolated from the surface-sterilized stem of a Thai medicinal plant, Clausena excavala Burm. f.Kaewkla O, Koomsiri W, Thamchaipenet A, Franco CMMInt J Syst Evol Microbiol10.1099/ijsem.0.0045182020Actinobacteria/*classification/isolation & purification, Bacterial Typing Techniques, Base Composition, Clausena/*microbiology, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Plant Stems/microbiology, Plants, Medicinal/microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Thailand, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny33528352Microbispora sitophila sp. nov., a novel actinobacterium isolated from rhizosphere soil of wheat (Triticum aestivum L.).Guo L, Li Z, Xu X, Pang Q, Zhao JInt J Syst Evol Microbiol10.1099/ijsem.0.0046842021

Reference

@idauthorstitledoi/urlcatalogue
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
22362Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-100527Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 100527)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
69245Wink, J.Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweighttps://cdn.dsmz.de/wink/DSM%20100527.pdf
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
89534Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID399554.1