Strain identifier

BacDive ID: 17822

Type strain: Yes

Species: Jiangella alkaliphila

Strain Designation: D8-87

Strain history: <- SD Lee, Cheju Univ.

NCBI tax ID(s): 419479 (species)

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General

@ref: 12322

BacDive-ID: 17822

DSM-Number: 45079

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

description: Jiangella alkaliphila D8-87 is an aerobe, spore-forming, mesophilic bacterium that builds an aerial mycelium and was isolated from soil inside cave.

NCBI tax id

  • NCBI tax id: 419479
  • Matching level: species

strain history

@refhistory
12322<- S. D. Lee; D8-87
67770KCTC 19222 <-- S. D. Lee D8-87.
67771<- SD Lee, Cheju Univ.

doi: 10.13145/bacdive17822.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Jiangellales
  • family: Jiangellaceae
  • genus: Jiangella
  • species: Jiangella alkaliphila
  • full scientific name: Jiangella alkaliphila Lee 2008

@ref: 12322

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Jiangellaceae

genus: Jiangella

species: Jiangella alkaliphila

full scientific name: Jiangella alkaliphila Lee 2008

strain designation: D8-87

type strain: yes

Morphology

cell morphology

@refgram stainmotilityconfidence
32426positive
67771positive
69480no94.882
69480positive100

colony morphology

@refcolony colorincubation periodmedium used
19912Beige10-14 daysISP 2
19912Cream10-14 daysISP 3
19912Beige10-14 daysISP 4
1991210-14 daysISP 5
1991210-14 daysISP 6
1991210-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium namecomplex namecomplex color
19912noISP 2
19912yesISP 3Aerial MyceliumCream
19912yesISP 4Aerial MyceliumCream
19912noISP 5
19912noISP 6
19912noISP 7

pigmentation

  • @ref: 32426
  • production: yes

multimedia

  • @ref: 12322
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_45079.jpg
  • caption: Medium 65 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
12322GYM 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
19912ISP 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
19912ISP 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:
19912ISP 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
19912ISP 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
19912ISP 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
19912ISP 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
12322TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://mediadive.dsmz.de/medium/535Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
12322GPHF-MEDIUM (DSMZ Medium 553)yeshttps://mediadive.dsmz.de/medium/553Name: GPHF-MEDIUM (DSMZ Medium 553) Composition: Agar 20.0 g/l Glucose 10.0 g/l Beef extract 5.0 g/l Yeast extract 5.0 g/l Casein peptone 5.0 g/l CaCl2 x 2 H2O 0.74 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
12322positivegrowth28mesophilic
19912positiveoptimum28mesophilic
32426positivegrowth20-37
32426positiveoptimum30mesophilic
67770positivegrowth28mesophilic
67771positivegrowth28mesophilic

culture pH

@refabilitytypepHPH range
32426positivegrowth6.1-10.1alkaliphile
32426positiveoptimum9.1

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
32426aerobe
67771aerobe

spore formation

  • @ref: 69481
  • spore formation: yes
  • confidence: 99

halophily

  • @ref: 32426
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: <3 %

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3242615963ribitol+carbon source
3242622599arabinose+carbon source
3242617057cellobiose+carbon source
3242628757fructose+carbon source
3242617234glucose+carbon source
3242617754glycerol+carbon source
3242617716lactose+carbon source
3242617306maltose+carbon source
3242629864mannitol+carbon source
3242637684mannose+carbon source
3242626546rhamnose+carbon source
3242618222xylose+carbon source
324264853esculin+hydrolysis
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
32426catalase+1.11.1.6
32426gelatinase+
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
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 coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
19912++-------+++---+-+-

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
19912+++----+-++---+----

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
12322soil inside caveJejuRepublic of KoreaKORAsia
67770Soil from a natural caveJejuRepublic of KoreaKORAsia
67771From soil inside a caveJejuRepublic of KoreaKORAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Geologic
#Environmental#Terrestrial#Soil

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
123221Risk group (German classification)
199121Risk group (German classification)

Sequence information

16S sequences

  • @ref: 12322
  • description: Jiangella alkaliphila partial 16S rRNA gene, type strain D8-87T
  • accession: AM422451
  • length: 1406
  • database: ena
  • NCBI tax ID: 419479

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Jiangella alkaliphila DSM 45079GCA_900105925chromosomencbi419479
66792Jiangella alkaliphila strain DSM 45079419479.6completepatric419479
66792Jiangella alkaliphila strain KCTC 19222419479.7wgspatric419479
66792Jiangella alkaliphila KCTC 192222639763038draftimg419479
66792Jiangella alkaliphila DSM 450792639762615draftimg419479
67770Jiangella alkaliphila KCTC 19222GCA_001005145scaffoldncbi419479

GC content

@refGC-contentmethod
1232271.5
6777071.5high performance liquid chromatography (HPLC)
6777072.18genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes99no
gram-positiveyes94.031yes
anaerobicno99.211no
halophileno90.765no
spore-formingyes64.682no
glucose-utilyes86.553yes
aerobicyes93.019yes
flagellatedno98.08no
thermophileno97.802yes
motileno87.208no
glucose-fermentno84.23yes

External links

@ref: 12322

culture collection no.: DSM 45079, JBRI 2008, KCTC 19222, JCM 15620

straininfo link

  • @ref: 86813
  • straininfo: 401893

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny18450709Jiangella alkaliphila sp. nov., an actinobacterium isolated from a cave.Lee SDInt J Syst Evol Microbiol10.1099/ijs.0.65479-02008Actinomycetales/*classification/genetics/isolation & purification/physiology, Bacterial Typing Techniques, Base Composition, DNA, Ribosomal/analysis, Fatty Acids/analysis, Genes, rRNA, Korea, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Species SpecificityGenetics
Phylogeny19605701Jiangella alba sp. nov., an endophytic actinomycete isolated from the stem of Maytenus austroyunnanensis.Qin S, Zhao GZ, Li J, Zhu WY, Xu LH, Li WJInt J Syst Evol Microbiol10.1099/ijs.0.009001-02009Actinomycetales/chemistry/*classification/genetics/*isolation & purification, Base Composition, Cell Wall/chemistry, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Maytenus/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/analysis, Phylogeny, Plant Stems/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analysisGenetics
Phylogeny20173006Jiangella muralis sp. nov., from an indoor environment.Kampfer P, Schafer J, Lodders N, Martin KInt J Syst Evol Microbiol10.1099/ijs.0.022277-02010Actinomycetales/chemistry/*classification/genetics/*isolation & purification, Cell Wall/chemistry, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, *Environmental Microbiology, Fatty Acids/analysis, Glucose/analysis, Molecular Sequence Data, Mycolic Acids/analysis, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Rhamnose/analysis, Sequence Analysis, DNAGenetics
Phylogeny25948618Jiangella mangrovi sp. nov., isolated from mangrove soil.Suksaard P, Duangmal K, Srivibool R, Xie Q, Hong K, Pathom-Aree WInt J Syst Evol Microbiol10.1099/ijs.0.0003032015Actinomycetales/*classification/genetics/isolation & purification, Avicennia/*microbiology, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Thailand, Vitamin K 2/analogs & derivatives/chemistryGenetics
Genetics26139721Draft Genome Sequence of Jiangella alkaliphila KCTC 19222T, Isolated from Cave Soil in Jeju, Republic of Korea.Jiao JY, Liu L, Park DJ, Kim CJ, Xiao M, Chen J, Li L, Zhong JM, Zhao J, Li WJGenome Announc10.1128/genomeA.00721-152015Phylogeny
Phylogeny30801239Jiangella rhizosphaerae sp. nov., an actinomycete isolated from the rhizosphere soil of wheat (Triticum aestivum L.).Han C, Zhao J, Shi H, Tian Y, Zhang C, Guo X, Xiang W, Wang XInt J Syst Evol Microbiol10.1099/ijsem.0.0033142019Actinobacteria/*classification/isolation & purification, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Triticum/*microbiology, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
12322Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45079)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45079
19912Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM45079.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
32426Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2864928776041
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/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
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
86813Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID401893.1StrainInfo: A central database for resolving microbial strain identifiers