Strain identifier

BacDive ID: 12588

Type strain: Yes

Species: Myceligenerans xiligouense

Strain Designation: XLG910.2

Strain history: CGMCC 1.3458 <-- X. Cui XLG9A10.2.

NCBI tax ID(s): 253184 (species)

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General

@ref: 6066

BacDive-ID: 12588

DSM-Number: 15700

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

description: Myceligenerans xiligouense XLG910.2 is an aerobe, spore-forming, Gram-positive bacterium that was isolated from mud sample from Xiligou lake.

NCBI tax id

  • NCBI tax id: 253184
  • Matching level: species

strain history

@refhistory
6066<- X. Cui; XLG910.2
67770CGMCC 1.3458 <-- X. Cui XLG9A10.2.

doi: 10.13145/bacdive12588.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Promicromonosporaceae
  • genus: Myceligenerans
  • species: Myceligenerans xiligouense
  • full scientific name: Myceligenerans xiligouense Cui et al. 2004

@ref: 6066

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Promicromonosporaceae

genus: Myceligenerans

species: Myceligenerans xiligouense

full scientific name: Myceligenerans xiligouense Cui et al. 2004

strain designation: XLG910.2

type strain: yes

Morphology

cell morphology

@refgram stainmotilityconfidence
30188positive
69480no95

colony morphology

@refcolony colorincubation periodmedium used
18393Lemon yellow (1012)10-14 daysISP 2
18393Lemon yellow (1012)10-14 daysISP 3
18393Lemon yellow (1012)10-14 daysISP 4
18393Beige (1001)10-14 daysISP 5
18393Lemon yellow (1012)10-14 daysISP 6
18393Beige (1001)10-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium name
18393noISP 2
18393noISP 3
18393noISP 4
18393noISP 5
18393noISP 6
18393noISP 7

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6066BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water
18393ISP 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
18393ISP 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:
18393ISP 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
18393ISP 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
18393ISP 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
18393ISP 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
6066LB (Luria-Bertani) MEDIUM (DSMZ Medium 381)yeshttps://mediadive.dsmz.de/medium/381Name: LB (Luria-Bertani) MEDIUM (DSMZ Medium 381) Composition: Agar 20.0 g/l NaCl 10.0 g/l Tryptone 10.0 g/l Yeast extract 5.0 g/l Distilled water
6066OXOID NUTRIENT BROTH (DSMZ Medium 948)yeshttps://mediadive.dsmz.de/medium/948Name: OXOID NUTRIENT BROTH (DSMZ Medium 948) Composition: Nutrient broth 13.0 g/l Distilled water

culture temp

@refgrowthtypetemperature
6066positivegrowth28
18393positiveoptimum28
30188positivegrowth4.0-50
30188positiveoptimum25
67770positivegrowth28

culture pH

@refabilitytypepHPH range
30188positivegrowth4.0-13alkaliphile
30188positiveoptimum8

Physiology and metabolism

oxygen tolerance

  • @ref: 30188
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
30188yes
69481yes94

halophily

@refsaltgrowthtested relationconcentration
30188NaClpositivegrowth2.0-17.5 %
30188NaClpositiveoptimum4.5 %

murein

  • @ref: 6066
  • murein short key: A11.57
  • type: A4alpha L-Lys-L-Thr-D-Glu

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1839317234glucose+/-
1839322599arabinose-
1839317992sucrose+
1839318222xylose-
1839317268myo-inositol-
1839329864mannitol+/-
1839328757fructose-
1839326546rhamnose+
1839316634raffinose-
1839362968cellulose+
30188581435-dehydro-D-gluconate+carbon source
3018818403L-arabitol+carbon source
3018824175galacturonate+carbon source
3018824265gluconate+carbon source
3018828087glycogen+carbon source
3018817716lactose+carbon source
3018829864mannitol+carbon source
3018837684mannose+carbon source
3018828053melibiose+carbon source
3018816634raffinose+carbon source
3018826546rhamnose+carbon source
3018817814salicin+carbon source
3018853423tween 40+carbon source
3018853426tween 80+carbon source
683794853esculin+hydrolysis
6837916199urea-hydrolysis
683795291gelatin+hydrolysis
6837917992sucrose-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
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

@refPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELSAC
18393+---++++-+-

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
18393-++-+--+-+-++-+++--

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
6066mud sample from Xiligou lakeXiligouChinaCHNAsia
67770Pasture near an alkaline salt marsh soilQinghai Province, western ChinaChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Lake (large)
#Environmental#Terrestrial#Mud (Sludge)

taxonmaps

  • @ref: 69479
  • File name: preview.99_140482.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_28;96_17545;97_21606;98_44094;99_140482&stattab=map
  • Last taxonomy: Myceligenerans xiligouense
  • 16S sequence: AY354285
  • Sequence Identity:
  • Total samples: 299
  • soil counts: 129
  • aquatic counts: 77
  • animal counts: 84
  • plant counts: 9

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
183931German classification
60661Risk group (German classification)

Sequence information

16S sequences

  • @ref: 6066
  • description: Myceligeneris xiligouensis strain XLG9A10.2 16S ribosomal RNA gene, partial sequence
  • accession: AY354285
  • length: 1538
  • database: nuccore
  • NCBI tax ID: 253184

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Myceligenerans xiligouense strain DSM 15700253184.3wgspatric253184
66792Myceligenerans xiligouense DSM 157002784132080draftimg253184
67770Myceligenerans xiligouense DSM 15700GCA_003814695contigncbi253184

GC content

@refGC-contentmethod
606671.9
6777071.9high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesyes94no
69480gram-positivegram-positivePositive reaction to Gram-stainingyes88.201yes
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no95.557no
69480spore-formingspore-formingAbility to form endo- or exosporesyes68.84yes
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes89.096yes
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno98no
69480flagellatedmotile2+Ability to perform flagellated movementno95no

External links

@ref: 6066

culture collection no.: DSM 15700, CGMCC 1.3458, JCM 14112, NBRC 106321

straininfo link

  • @ref: 81802
  • straininfo: 132788

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15280304Myceligenerans xiligouense gen. nov., sp. nov., a novel hyphae-forming member of the family Promicromonosporaceae.Cui X, Schumann P, Stackebrandt E, Kroppenstedt RM, Pukall R, Xu L, Rohde M, Jiang CInt J Syst Evol Microbiol10.1099/ijs.0.03046-02004Actinomycetales/*classification/cytology/*isolation & purification/physiology, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/chemistry, DNA, Ribosomal/chemistry, Genes, rRNA, Hexoses/analysis, Microscopy, Electron, Scanning, Molecular Sequence Data, Mycelium/cytology, Peptidoglycan/chemistry, Phospholipids/analysis, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, *Soil Microbiology, Spores, Bacterial/cytology, Vitamin K 2/analysisGenetics
Phylogeny16403899Myceligenerans crystallogenes sp. nov., isolated from Roman catacombs.Groth I, Schumann P, Schutze B, Gonzalez JM, Laiz L, Suihko ML, Stackebrandt EInt J Syst Evol Microbiol10.1099/ijs.0.63756-02006Actinobacteria/chemistry/*classification/isolation & purification/physiology, Archaeology, Bacterial Typing Techniques, Base Composition, Base Sequence, Biodegradation, Environmental, Molecular Sequence Data, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Rome, Sequence Homology, Nucleic Acid, Soil Microbiology, Species Specificity, Xylans/metabolismGenetics
Phylogeny23224437Myceligenerans salitolerans sp. nov., a halotolerant actinomycete isolated from a salt lake in Xinjiang, China.Guan TW, Wu N, Tang SK, Che ZM, Chen XGExtremophiles10.1007/s00792-012-0502-82012Actinobacteria/*genetics/*isolation & purification/*metabolism, Base Sequence, China, Membrane Lipids/chemistry/metabolism, Molecular Sequence Data, *Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, *Water MicrobiologyMetabolism

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
6066Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15700)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15700
18393Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM15700.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
30188Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2653528776041
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updates33211880Nucleic Acids Res. 49: D498-D508 2020
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68379Automatically annotated from API Coryne
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
81802Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID132788.1StrainInfo: A central database for resolving microbial strain identifiers