Strain identifier

BacDive ID: 5850

Type strain: Yes

Species: Haloglycomyces albus

Strain history: <- S-K Tang, Yunnan Inst., China

NCBI tax ID(s): 1089549 (strain), 526067 (species)

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General

@ref: 15780

BacDive-ID: 5850

DSM-Number: 45210

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

description: Haloglycomyces albus DSM 45210 is an aerobe, Gram-positive, rod-shaped bacterium that was isolated from soil sample from hypersaline habitat.

NCBI tax id

NCBI tax idMatching level
1089549strain
526067species

strain history

@refhistory
15780<- S.-K. Tang, YIM; YIM 92370 <- T.-W. Guan and S.-K. Tang
67770DSM 45210 <-- S.-K. Tang <-- T.-W. Guan and S.-K. Tang YIM 92370.
67771<- S-K Tang, Yunnan Inst., China

doi: 10.13145/bacdive5850.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Glycomycetales
  • family: Glycomycetaceae
  • genus: Haloglycomyces
  • species: Haloglycomyces albus
  • full scientific name: Haloglycomyces albus Guan et al. 2009

@ref: 15780

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Glycomycetaceae

genus: Haloglycomyces

species: Haloglycomyces albus

full scientific name: Haloglycomyces albus Guan et al. 2009 emend. Nouioui et al. 2018

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
29103positiverod-shaped
67771positive
69480no92.375
69480positive92.452

colony morphology

@refcolony colorincubation periodmedium used
20180Grey white (9002)10-14 daysISP 2
20180Brown beige (1011)10-14 daysISP 4
20180Brown beige (1011)10-14 daysISP 5
20180Cream (9001)10-14 daysISP 6
20180Brown beige (1011)10-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium name
20180noISP 2
20180noISP 3
20180noISP 4
20180noISP 5
20180noISP 6
20180noISP 7

pigmentation

  • @ref: 29103
  • production: no

multimedia

  • @ref: 15780
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_45210.jpg
  • caption: Medium 1240 37°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
15780YIM MEDIUM + 10 % NACL (DSMZ Medium 1302)yeshttps://mediadive.dsmz.de/medium/1302Name: YIM MEDIUM + 10 % NaCl (DSMZ Medium 1302) Composition: NaCl 100.0 g/l Agar 20.0 g/l Yeast extract 2.0 g/l CaCO3 1.0 g/l Glucose 1.0 g/l Tryptone 0.5 g/l Distilled water
15780STARCH-MINERAL SALT-AGAR (STMS) + 10%NACL (DSMZ Medium 1240)yeshttps://mediadive.dsmz.de/medium/1240Name: STARCH-MINERAL SALT-AGAR + 10% NACL (DSMZ Medium 1240) Composition: NaCl 100.0 g/l Agar 15.0 g/l Starch 10.0 g/l (NH4)2SO4 2.0 g/l CaCO3 2.0 g/l K2HPO4 1.0 g/l MgSO4 x 7 H2O 1.0 g/l FeSO4 x 7 H2O 0.001 g/l MnCl2 x 4 H2O 0.001 g/l ZnSO4 x 7 H2O 0.001 g/l Distilled water
20180ISP 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
20180ISP 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
20180ISP 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
20180ISP 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
20180ISP 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

culture temp

@refgrowthtypetemperature
15780positivegrowth37
20180positiveoptimum37
29103positivegrowth15-40
29103positiveoptimum37
67770positivegrowth37
67771positivegrowth37

culture pH

@refabilitytypepHPH range
29103positivegrowth5.0-9.0alkaliphile
29103positiveoptimum7.25

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
29103aerobe
67771aerobe

halophily

@refsaltgrowthtested relationconcentration
29103NaClpositivegrowth03-18 %
29103NaClpositiveoptimum10 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H4), MK-9(H2), MK-8(H4), MK-10(H4), MK-10(H2)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2018017234glucose+
2018022599arabinose+
2018017992sucrose+
2018018222xylose+
2018017268myo-inositol+
2018029864mannitol+
2018028757fructose+
2018026546rhamnose+/-
2018016634raffinose+/-
2018062968cellulose+
2910317057cellobiose+carbon source
291035291gelatin+carbon source
2910317234glucose+carbon source
2910317306maltose+carbon source
2910329864mannitol+carbon source
2910337684mannose+carbon source
2910326546rhamnose+carbon source
2910330911sorbitol+carbon source

enzymes

@refvalueactivityec
29103catalase+1.11.1.6
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
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin+3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)+
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
20180+++++--+-++---+----

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
15780soil sample from hypersaline habitatXinjiang ProvinceChinaCHNAsia
67770Soil from a hypersaline habitatXinjiang Province, north-west ChinaChinaCHNAsia
67771From salt lakeXinjiang ProvinceChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Condition#Saline

taxonmaps

  • @ref: 69479
  • File name: preview.99_7308.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_344;96_3419;97_4196;98_5362;99_7308&stattab=map
  • Last taxonomy: Haloglycomyces albus subclade
  • 16S sequence: EU660053
  • Sequence Identity:
  • Total samples: 272
  • soil counts: 74
  • aquatic counts: 48
  • animal counts: 137
  • plant counts: 13

Safety information

risk assessment

  • @ref: 15780
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Actinomycetales bacterium YIM 92370 16S ribosomal RNA gene, partial sequenceFJ425041880nuccore575677
15780Haloglycomyces albus strain YIM 92370 16S ribosomal RNA gene, partial sequenceEU6600531421nuccore526067

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Haloglycomyces albus DSM 452101089549.3wgspatric1089549
66792Haloglycomyces albus DSM 452102516653079draftimg1089549
67770Haloglycomyces albus DSM 45210GCA_000527155contigncbi1089549

GC content

@refGC-contentmethod
1578060.8high performance liquid chromatography (HPLC)
2910360.8
6777060.4genome sequence analysis

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesno88no
69480gram-positivegram-positivePositive reaction to Gram-stainingyes92.452no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no96.174yes
69480spore-formingspore-formingAbility to form endo- or exosporesyes72.028no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes84.327no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno86.527yes
69480flagellatedmotile2+Ability to perform flagellated movementno92.375no

External links

@ref: 15780

culture collection no.: DSM 45210, JCM 16899, KCTC 19481, YIM 92370

straininfo link

  • @ref: 75331
  • straininfo: 398347

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19502305Haloglycomyces albus gen. nov., sp. nov., a halophilic, filamentous actinomycete of the family Glycomycetaceae.Guan TW, Tang SK, Wu JY, Zhi XY, Xu LH, Zhang LL, Li WJInt J Syst Evol Microbiol10.1099/ijs.0.006270-02009Actinomycetales/*classification/genetics/isolation & purification/physiology, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Sodium Chloride, *Soil Microbiology, Species SpecificityGenetics
Phylogeny26219545Salininema proteolyticum gen. nov., sp. nov., a halophilic rare actinomycete isolated from wetland soil, and emended description of the family Glycomycetaceae.Moshtaghi Nikou M, Ramezani M, Ali Amoozegar M, Rasouli M, Abolhassan Shahzadeh Fazeli S, Schumann P, de la Haba RR, Ventosa AInt J Syst Evol Microbiol10.1099/ijsem.0.0004832015Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Iran, Molecular Sequence Data, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry, *WetlandsGenetics
Phylogeny27088835Description of Salilacibacter albus gen. nov., sp. nov., isolated from a dried salt lake, and reclassification of Paraglycomyces xinjiangensis Luo et al. 2015 as a later heterotypic synonym of Salininema proteolyticum Nikou et al. 2015 with emended descriptions of the genus Salininema and Salininema proteolyticum.Li XJ, Liu JM, Wu Y, Zhang WM, Li J, Liu SW, Wu G, Hu L, Chen L, Huang DL, Li RF, Sun CHInt J Syst Evol Microbiol10.1099/ijsem.0.0010932016Actinobacteria/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Lakes/*microbiology, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Salinity, Sequence Analysis, DNA, Sodium ChlorideTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmedID_cross_reference
15780Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45210)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45210
20180Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM45210.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
29103Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2877604125532
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
68382Automatically annotated from API zym
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
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
75331Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID398347.1StrainInfo: A central database for resolving microbial strain identifiers