Strain identifier

BacDive ID: 7834

Type strain: Yes

Species: Actinoplanes palleronii

Strain Designation: LA 83

Strain history: M. Goodfellow LA83.

NCBI tax ID(s): 113570 (species)

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General

@ref: 11390

BacDive-ID: 7834

DSM-Number: 43940

keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic

description: Actinoplanes palleronii LA 83 is a spore-forming, mesophilic bacterium that was isolated from sediment.

NCBI tax id

  • NCBI tax id: 113570
  • Matching level: species

strain history

@refhistory
11390<- NCIMB <- M. Goodfellow, LA 83 <- L.J. Stanton
67770M. Goodfellow LA83.

doi: 10.13145/bacdive7834.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micromonosporales
  • family: Micromonosporaceae
  • genus: Actinoplanes
  • species: Actinoplanes palleronii
  • full scientific name: Actinoplanes palleronii Goodfellow et al. 1990

@ref: 11390

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Micromonosporaceae

genus: Actinoplanes

species: Actinoplanes palleronii

full scientific name: Actinoplanes palleronii Goodfellow et al. 1990

strain designation: LA 83

type strain: yes

Morphology

colony morphology

@refcolony colorincubation periodmedium used
19988Yellow orange (2000)10-14 daysISP 2
19988Colorless10-14 daysISP 3
19988Pastel yellow (1034)10-14 daysISP 4
19988Colorless10-14 daysISP 5
19988Colorless10-14 daysISP 6
19988Colorless10-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium name
19988noISP 2
19988noISP 3
19988noISP 4
19988noISP 5
19988noISP 6
19988noISP 7

multimedia

@refmultimedia contentintellectual property rightscaption
11390https://www.dsmz.de/microorganisms/photos/DSM_43940-1.jpg© Leibniz-Institut DSMZ
11390https://www.dsmz.de/microorganisms/photos/DSM_43940.jpg© Leibniz-Institut DSMZMedium 214 28°C

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11390N-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
11390GYM+S MEDIUM (DSMZ Medium 214)yeshttps://mediadive.dsmz.de/medium/214Name: GYM+S MEDIUM (DSMZ Medium 214) Composition: Starch 20.0 g/l Agar 12.0 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
19988ISP 2yesName: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
19988ISP 3yesName: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
19988ISP 4yesName: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
19988ISP 5yesName: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
19988ISP 6yesName: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
19988ISP 7yesName: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes
11390BENNETT'S MODIFIED MEDIUM (P. AGRAWAL, UNPUBLISHED) (DSMZ Medium 894)yeshttps://mediadive.dsmz.de/medium/894Name: BENNETT'S MODIFIED MEDIUM (P. AGRAWAL, UNPUBLISHED) (DSMZ Medium 894) Composition: Agar 15.0 g/l Lab-Lemco beef extract 10.0 g/l Glucose 10.0 g/l Tryptose 2.0 g/l Yeast extract 2.0 g/l CaCO3 0.1 g/l Starch 0.1 g/l CoCl2 Ferric ammonium citrate Distilled water

culture temp

@refgrowthtypetemperaturerange
19988positiveoptimum28mesophilic
11390positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

  • @ref: 19988
  • spore description: Formation of sporangia, spore surface smooth
  • spore formation: yes

halophily

  • @ref: 19988
  • salt: NaCl
  • growth: positive
  • tested relation: maximum
  • concentration: 2.5 %

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1998817234glucose+
1998822599arabinose-
1998817992sucrose+
1998818222xylose-
1998817268myo-inositol-
1998829864mannitol+
1998828757fructose+
1998826546rhamnose+
1998816634raffinose-
1998862968cellulose-
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea-hydrolysis
6836816947citrate-assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
6836815688acetoin+
6836835581indole-

enzymes

@refvalueactivityec
68368gelatinase+
68368tryptophan deaminase-4.1.99.1
68368urease-3.5.1.5
68368ornithine decarboxylase-4.1.1.17
68368lysine decarboxylase-4.1.1.18
68368arginine dihydrolase-3.5.3.6
68368beta-galactosidase-3.2.1.23
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

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
19988+++-+----+-++-+++--

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
19988---------++

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
11390sedimentDerwent riverUnited KingdomGBREurope
67770River sediment

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Sediment
#Environmental#Terrestrial#Sediment

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
113901Risk group (German classification)
199881German classification

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Actinoplanes palleronii gene for 16S rRNA, complete sequenceAB0370091471ena113570
20218Actinoplanes palleronii partial 16S rRNA gene, strain IMSNU 20038TAJ2775731508ena113570
20218Actinoplanes palleronii gene for 16S ribosomal RNA, partial sequenceAB0482161439ena113570

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Actinoplanes palleronii NBRC 14916GCA_016862315contigncbi113570
66792Actinoplanes palleronii strain NBRC 14916113570.3wgspatric113570

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes57.327no
flagellatedno90.253no
gram-positiveyes87.419no
anaerobicno98.92no
aerobicyes92.921no
halophileno94.674no
spore-formingyes90.308yes
glucose-utilyes88.764yes
thermophileno99.489yes
glucose-fermentno89.783no

External links

@ref: 11390

culture collection no.: DSM 43940, ATCC 49797, BCC 55025, IFO 14916, NBRC 14916, NCIMB 20021, TBRC 2208, JCM 7626, BCRC 16347, IMSNU 20038, KCTC 9257, NRRL B-16691

straininfo link

  • @ref: 77273
  • straininfo: 42692

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny24566827Actinoplanes lutulentus sp. nov., isolated from mucky soil in China.Gao R, Liu C, Zhao J, Jia F, Li C, Xing J, Wang X, Xiang WInt J Syst Evol Microbiol10.1099/ijs.0.057802-02014Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Micromonosporaceae/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/chemistryGenetics
Phylogeny26311536Actinoplanes luteus sp. nov., isolated from soil.Suriyachadkun C, Ngaemthao W, Chunhametha S, Sanglier JJInt J Syst Evol Microbiol10.1099/ijsem.0.0005622015Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, *Forests, Micromonosporaceae/*classification/genetics/isolation & purification, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Thailand, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
11390Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43940)https://www.dsmz.de/collection/catalogue/details/culture/DSM-43940
19988Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM43940.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
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/
68368Automatically annotated from API 20E
68382Automatically annotated from API zym
77273Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID42692.1StrainInfo: A central database for resolving microbial strain identifiers