Strain identifier

BacDive ID: 140272

Type strain: Yes

Species: Rectinema cohabitans

Strain Designation: HM

Strain history: H. Mouttaki; Inst. of Groundwater Ecol., Helmholtz Zentrum München, Germany; HM.

NCBI tax ID(s): 1652145 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 8.1 (current version)

General

@ref: 42879

BacDive-ID: 140272

DSM-Number: 100378

keywords: 16S sequence, Bacteria, anaerobe, chemoorganoheterotroph, mesophilic, Gram-negative, rod-shaped, colony-forming

description: Rectinema cohabitans HM is an anaerobe, chemoorganoheterotroph, mesophilic bacterium that forms circular colonies and was isolated from anaerobic naphthalene-degrading sulfate-reducing enrichment culture established from soil of a contaminated aquifer.

NCBI tax id

  • NCBI tax id: 1652145
  • Matching level: species

strain history

@refhistory
42879<- H. Mouttaki, Helmholtz-Zentrum München, Germany; HM <- H. Mouttaki {2011}
67770H. Mouttaki; Inst. of Groundwater Ecol., Helmholtz Zentrum München, Germany; HM.

doi: 10.13145/bacdive140272.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/spirochaetota
  • domain: Bacteria
  • phylum: Spirochaetota
  • class: Spirochaetia
  • order: Spirochaetales
  • family: Treponemataceae
  • genus: Rectinema
  • species: Rectinema cohabitans
  • full scientific name: Rectinema cohabitans Koelschbach et al. 2017

@ref: 42879

domain: Bacteria

phylum: Spirochaetes

class: Spirochaetia

order: Spirochaetales

family: Treponemataceae

genus: Rectinema

species: Rectinema cohabitans

full scientific name: Rectinema cohabitans Koelschbach et al. 2017

strain designation: HM

type strain: yes

Morphology

cell morphology

  • @ref: 43207
  • gram stain: negative
  • cell length: 1-2.5 µm
  • cell width: 0.3-0.5 µm
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 43207
  • colony size: 0.5-1 mm
  • colony color: white
  • colony shape: circular
  • incubation period: 35 days

Culture and growth conditions

culture medium

  • @ref: 42879
  • name: ANAEROBIC FRESHWATER (FWM) MEDIUM (DSMZ Medium 503)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/503
  • composition: Name: ANAEROBIC FRESHWATER (FWM) MEDIUM (DSMZ Medium 503; with strain-specific modifications) Composition: D-Glucose 4.98504 g/l Yeast extract 1.99402 g/l Na2CO3 1.49551 g/l NaCl 0.997008 g/l KCl 0.498505 g/l MgCl2 x 6 H2O 0.398803 g/l Na2S x 9 H2O 0.299103 g/l NH4Cl 0.249252 g/l KH2PO4 0.199402 g/l CaCl2 x 2 H2O 0.149552 g/l HCl 0.00249252 g/l FeCl2 x 4 H2O 0.00149551 g/l Sodium resazurin 0.000498505 g/l NaOH 0.000498504 g/l Pyridoxine hydrochloride 0.000299103 g/l Nicotinic acid 0.000199402 g/l Thiamine-HCl x 2 H2O 0.000199402 g/l CoCl2 x 6 H2O 0.000189432 g/l Calcium pantothenate 9.97009e-05 g/l MnCl2 x 4 H2O 9.97009e-05 g/l Vitamin B12 9.97009e-05 g/l p-Aminobenzoic acid 7.97607e-05 g/l ZnCl2 6.97906e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l D-(+)-biotin 1.99402e-05 g/l H3BO3 5.98205e-06 g/l Na2WO4 x 2 H2O 3.98804e-06 g/l Na2SeO3 x 5 H2O 2.99103e-06 g/l CuCl2 x 2 H2O 1.99402e-06 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
43207positiveoptimum37mesophilic
43207positivegrowth12-50
42879positivegrowth37mesophilic
67770positivegrowth30mesophilic

culture pH

@refabilitytypepH
43207positivegrowth5-7
43207positiveoptimum6-7

Physiology and metabolism

oxygen tolerance

  • @ref: 43207
  • oxygen tolerance: anaerobe

nutrition type

  • @ref: 43207
  • type: chemoorganoheterotroph

halophily

@refsaltgrowthtested relationconcentration
43207NaClpositivegrowth0.1 %
43207NaClinconsistentgrowth1 %
43207NaClnogrowth2 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4320717634D-glucose+fermentation
4320715824D-fructose+fermentation
4320728120L-fructose+fermentation
4320712936D-galactose+fermentation
4320717716lactose+fermentation
432076359lactulose+fermentation
4320716024D-mannose+fermentation
432076731melezitose+fermentation
4320728053melibiose+fermentation
4320717992sucrose+fermentation
4320715361pyruvate+fermentation
4320729864mannitol-fermentation
4320717754glycerol-fermentation

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.is resistantresistance conc.
4320728971ampicillinyesyes100 µg/mL
4320717698chloramphenicolyesyes34 µg/mL
432076104kanamycinyesyes50 µg/mL
4320728077rifampicinyesyes10 µg/mL

enzymes

@refvalueactivityec
43207cytochrome oxidase-1.9.3.1
43207catalase-1.11.1.6

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    43207C14:011.2
    43207C16:1ω9t24.4
    43207C16:1ω9c11.4
    43207C16:1ω11c15.8
    43207C18:1ω13c25
  • type of FA analysis: whole cell analysis
  • system: MIS MIDI
  • instrument: Agilent 6890N

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
42879anaerobic naphthalene-degrading sulfate-reducing enrichment culture established from soil of a contaminated aquifernear StuttgartGermanyDEUEurope
4320720 year old, strictly anaerobic, naphthalene-degrading, sulfate-reducing enrichment culture N47, enriched from soil sampleStuttgartGermanyDEUEurope
67770Anaerobic naphthalene-degrading, sulfate-reducing enrichment culture, which was enriched from soil of a contaminated aquifernear StuttgartGermanyDEUEurope

isolation source categories

Cat1Cat2Cat3
#Condition#Anoxic (anaerobic)
#Engineered#Contamination
#Engineered#Laboratory#Lab enrichment
#Environmental#Aquatic#Groundwater

taxonmaps

  • @ref: 69479
  • File name: preview.99_54172.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_880;96_20940;97_26087;98_33157;99_54172&stattab=map
  • Last taxonomy: Rectinema
  • 16S sequence: KP297860
  • Sequence Identity:
  • Total samples: 1827
  • soil counts: 283
  • aquatic counts: 1349
  • animal counts: 121
  • plant counts: 74

Safety information

risk assessment

  • @ref: 42879
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 42879
  • description: Rectinema cohabitans strain HM 16S ribosomal RNA gene, partial sequence
  • accession: KP297860
  • length: 1501
  • database: ena
  • NCBI tax ID: 1652145

GC content

@refGC-contentmethod
4320751.5
4287951.5high performance liquid chromatography (HPLC)

External links

@ref: 42879

culture collection no.: DSM 100378, JCM 30982

straininfo link

  • @ref: 96578
  • straininfo: 399612

literature

  • topic: Phylogeny
  • Pubmed-ID: 28100313
  • title: Rectinema cohabitans gen. nov., sp. nov., a rod-shaped spirochaete isolated from an anaerobic naphthalene-degrading enrichment culture.
  • authors: Koelschbach JS, Mouttaki H, Pickl C, Heipieper HJ, Rachel R, Lawson PA, Meckenstock RU
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.001799
  • year: 2017
  • mesh: Amino Acids/chemistry, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Hot Springs/*microbiology, Oregon, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spirochaeta/*classification/genetics/isolation & purification, Spirochaetales/genetics
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
42879Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-100378Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 100378)
43207Janina S. Koelschbach, Housna Mouttaki, Carolin Pickl, Hermann J. Heipieper, Reinhard Rachel, Paul A. Lawson, Rainer U. MeckenstockRectinema cohabitans gen. nov., sp. nov., a rod-shaped spirochaete isolated from an anaerobic naphthalene degrading enrichment culture10.1099/ijsem.0.001799IJSEM 67: 1288-1295 201728100313
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
96578Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID399612.1