Strain identifier

BacDive ID: 6128

Type strain: Yes

Species: Herpetosiphon giganteus

Strain Designation: Hp a2

Strain history: <- H. Reichenbach, Hp a2 (Herpetosiphon giganteus)

NCBI tax ID(s): 2029754 (species)

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General

@ref: 306

BacDive-ID: 6128

DSM-Number: 589

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

description: Herpetosiphon giganteus Hp a2 is an aerobe, mesophilic bacterium that builds unbranched, multicellular filaments and was isolated from soil.

NCBI tax id

  • NCBI tax id: 2029754
  • Matching level: species

strain history

  • @ref: 306
  • history: <- H. Reichenbach, Hp a2 (Herpetosiphon giganteus)

doi: 10.13145/bacdive6128.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/chloroflexota
  • domain: Bacteria
  • phylum: Chloroflexota
  • class: Chloroflexia
  • order: Herpetosiphonales
  • family: Herpetosiphonaceae
  • genus: Herpetosiphon
  • species: Herpetosiphon giganteus
  • full scientific name: Herpetosiphon giganteus (ex Reichenbach and Golecki 1975) Pan et al. 2017

@ref: 306

domain: Bacteria

phylum: Chloroflexi

class: Chloroflexia

order: Herpetosiphonales

family: Herpetosiphonaceae

genus: Herpetosiphon

species: Herpetosiphon giganteus

full scientific name: Herpetosiphon giganteus (ex Reichenbach and Golecki 1975) Pan et al. 2017

strain designation: Hp a2

type strain: yes

Morphology

multicellular morphology

  • @ref: 43315
  • forms multicellular complex: yes
  • complex name: unbranched, multicellular filaments

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
306CY-AGAR (DSMZ Medium 67)yeshttps://mediadive.dsmz.de/medium/67Name: CY-AGAR (DSMZ Medium 67) Composition: Agar 15.0 g/l Casitone 3.0 g/l CaCl2 x 2 H2O 1.36 g/l Yeast extract 1.0 g/l Distilled water
43315CY agaryes0.3 % (w/v) casitone, 0.3 % (w/v) yeast extract, 0.1 % (w/v) CaCl2.2H2O, 1.5 % (w/v) agar (pH 7.2)
43315modified Pol mediumyes0.3 % (w/v) starch, 0.3 % (w/v) casitone, 0.05 % (w/v) CaCl2.2H2O, 0.2 % (w/v) MgSO4.7H2O, 1.19 % (w/v) HEPES (pH 7.2); supplemented with 1 ml/L trace elements solution (0.01 % (w/v) MnCl2. 4H2O, 0.002 % (w/v) CoCl2, 0.001 % (w/v) CuSO4, 0.001 % (w/v) Na2MoO4.2H2O, 0.002 % (w/v) ZnCl2, 0.0005 % (w/v) LiCl, 0.0005 % (w/v) SnCl2.2H2O, 0.001 % (w/v) H3BO3, 0.002 % (w/v) KBr, 0.002 % (w/v) KI, 0.0008 % (w/v) EDTA
43315VY/2 AGARyes0,5 % (w/v) baker's yeast (fresh weight), 0.1 % (w/v) CaCl2.2H2O, 1.5 % (w/v) agar (pH 7.2); supplemented with 0.5 mg/L vitamin B12

culture temp

@refgrowthtypetemperaturerange
306positivegrowth30mesophilic
43315positivegrowth20-37

culture pH

  • @ref: 43315
  • ability: positive
  • type: growth
  • pH: 6-9
  • PH range: alkaliphile

Physiology and metabolism

oxygen tolerance

  • @ref: 43315
  • oxygen tolerance: aerobe

compound production

  • @ref: 306
  • compound: restriction endonuclease HgiDI

halophily

  • @ref: 43315
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 3 %(w/v)

observation

  • @ref: 43315
  • observation: quinone MK-10

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4331528037N-acetylgalactosamine-builds acid from
43315esculin+builds acid from
4331528087glycogen-builds acid from
4331529016arginine+hydrolysis
433155291gelatin+hydrolysis
4331517234glucose+/-fermentation
4331530849L-arabinose+carbon source

antibiotic resistance

@refChEBIgroup IDmetaboliteis antibioticis sensitivesensitivity conc.is resistantresistance conc.
43315267610amoxicillinyesyes20 µg (disc)
433152897120ampicillinyesyes10 µg (disc)
433153393carbenicillinyesyes
433154894710clavulanic acidyesyes10 µg (disc)
4331517833gentamicinyesyes10 µg (disc)
433156104kanamycinyesyes
433156472lincomycinyesyes2 µg (disc)
433156472lincomycinyesyes
433156827methicillinyesyes
43315100147nalidixic acidyesyes30 µg (disc)
433157660nystatinyesyes
4331518208penicillin gyesyes
433158309polymyxin byesyes
43315932120sulbactamyesyes10 µg (disc)
4331535358sulfonamideyesyes200 µg (disc)
4331527902tetracyclineyesyes30 µg (disc)

enzymes

@refvalueactivityec
43315acid phosphatase-3.1.3.2
43315alpha-galactosidase-3.2.1.22
43315cystine arylamidase-3.4.11.3
43315leucine arylamidase-3.4.11.1
43315valine arylamidase-
43315trypsin-3.4.21.4
43315alkaline phosphatase+3.1.3.1
43315esterase (C 4)+/-
43315esterase Lipase (C 8)+/-

Isolation, sampling and environmental information

isolation

  • @ref: 306
  • sample type: soil
  • country: Nepal
  • origin.country: NPL
  • continent: Asia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

Safety information

risk assessment

  • @ref: 306
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 43315
  • description: partial 16S rRNA gene sequence
  • accession: KY689830
  • database: nuccore

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Herpetosiphon giganteus DSM 589GCA_016907925contigncbi2029754
66792Herpetosiphon giganteus strain DSM 5892029754.3wgspatric2029754
66792Herpetosiphon giganteus DSM 5892901034711draftimg2029754

GC content

@refGC-contentmethod
4331552.6
30652.6high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno92.099no
gram-positiveno66.131no
anaerobicno97.761yes
aerobicyes87.946yes
halophileno93.816no
spore-formingno55.445no
glucose-utilyes84.089no
flagellatedno95.005no
thermophileno87.858yes
glucose-fermentno85.321no

External links

@ref: 306

culture collection no.: DSM 589, NBRC 112828

straininfo link

  • @ref: 75615
  • straininfo: 47232

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny871230Carotenoid glucosides and menaquinones from the gliding bacterium Herpetosiphon giganteus Hp a2.Kleinig H, Reichenbach HArch Microbiol10.1007/BF004130981977Bacteroidetes/*analysis/classification, Carotenoids/*analysis, Glucosides/*analysis, Glycosides/*analysis, Pigments, Biological/analysis, Spectrum Analysis, Vitamin K/*analysis
Phylogeny28741992Herpetosiphon gulosus sp. nov., a filamentous predatory bacterium isolated from sandy soil and Herpetosiphon giganteus sp. nov., nom. rev.Pan X, Kage H, Martin K, Nett MInt J Syst Evol Microbiol10.1099/ijsem.0.0021412017Bacterial Typing Techniques, Base Composition, Chloroflexi/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Germany, Nepal, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Silicon Dioxide, *Soil Microbiology, Ubiquinone/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
306Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 589)https://www.dsmz.de/collection/catalogue/details/culture/DSM-589
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
43315Xinli Pan, Hirokazu Kage, Karin Martin, Markus Nett10.1099/ijsem.0.002141Herpetosiphon gulosus sp. nov., a filamentous predatory bacterium isolated from sandy soil and Herpetosiphon giganteus sp. nov., nom. rev.IJSEM 67: 2476-2481 201728741992
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)
75615Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID47232.1StrainInfo: A central database for resolving microbial strain identifiers