Strain identifier

BacDive ID: 12524

Type strain: Yes

Species: Macellibacteroides fermentans

Strain Designation: LIND7H

Strain history: M.-L. Fardeau LIND7H.

NCBI tax ID(s): 879969 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 17348

BacDive-ID: 12524

DSM-Number: 23697

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

description: Macellibacteroides fermentans LIND7H is an anaerobe, mesophilic, Gram-positive bacterium that was isolated from upflow anaerobic filter treating abattoir wastewaters.

NCBI tax id

  • NCBI tax id: 879969
  • Matching level: species

strain history

@refhistory
17348<- M.-L. Fardeau, Lab. Microbiol. de l'IRD/ESIL, Univ. de Provence et de la Méditerranée, Marseille, France; LIND7H <- L. Jabari
67770M.-L. Fardeau LIND7H.

doi: 10.13145/bacdive12524.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Bacteroidia
  • order: Bacteroidales
  • family: Porphyromonadaceae
  • genus: Macellibacteroides
  • species: Macellibacteroides fermentans
  • full scientific name: Macellibacteroides fermentans Jabari et al. 2012

@ref: 17348

domain: Bacteria

phylum: Bacteroidetes

class: Bacteroidia

order: Bacteroidales

family: Porphyromonadaceae

genus: Macellibacteroides

species: Macellibacteroides fermentans

full scientific name: Macellibacteroides fermentans Jabari et al. 2012

strain designation: LIND7H

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
30285positive2.5 µm0.75 µmrod-shapedno
69480negative99.997

colony morphology

  • @ref: 17348
  • incubation period: 1-2 days

pigmentation

  • @ref: 30285
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 17348
  • name: PYG MEDIUM (MODIFIED) (DSMZ Medium 104)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/104
  • composition: Name: PYG MEDIUM (modified) (DSMZ Medium 104) Composition: Yeast extract 10.0 g/l Peptone 5.0 g/l Trypticase peptone 5.0 g/l Beef extract 5.0 g/l Glucose 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Hemin 0.005 g/l Ethanol 0.0038 g/l Resazurin 0.001 g/l Tween 80 Vitamin K1 NaOH Distilled water

culture temp

@refgrowthtypetemperaturerange
17348positivegrowth35mesophilic
30285positivegrowth20-45
30285positiveoptimum37.5mesophilic
62485positivegrowth37mesophilic
67770positivegrowth37mesophilic

culture pH

@refabilitytypepHPH range
30285positivegrowth5-8.5alkaliphile
30285positiveoptimum7

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
17348anaerobe
30285anaerobe
62485anaerobe
69480anaerobe99.43

spore formation

@refspore formationconfidence
30285no
69481no100
69480no99.987

halophily

  • @ref: 30285
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: <2 %

observation

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

metabolite utilization

  • @ref: 30285
  • Chebi-ID: 4853
  • metabolite: esculin
  • utilization activity: +
  • kind of utilization tested: hydrolysis

enzymes

  • @ref: 30285
  • value: gelatinase
  • activity: +

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentsampling dategeographic location
17348upflow anaerobic filter treating abattoir wastewatersTunisiaTUNAfrica
62485Wastewater digestorTunisiaTUNAfrica2011Insat
67770Upflow anaerobic filter treating abattoir wastewaters in Tunisia

isolation source categories

Cat1Cat2Cat3
#Engineered#Industrial#Engineered product
#Engineered#Waste#Wastewater
#Condition#Anoxic (anaerobic)

taxonmaps

  • @ref: 69479
  • File name: preview.99_4592.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_126;96_2290;97_2778;98_3449;99_4592&stattab=map
  • Last taxonomy: Macellibacteroides fermentans
  • 16S sequence: HQ020488
  • Sequence Identity:
  • Total samples: 19129
  • soil counts: 798
  • aquatic counts: 8663
  • animal counts: 9468
  • plant counts: 200

Safety information

risk assessment

  • @ref: 17348
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 17348
  • description: Macellibacteroides fermentans strain LIND7H 16S ribosomal RNA gene, partial sequence
  • accession: HQ020488
  • length: 1502
  • database: ena
  • NCBI tax ID: 879969

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Macellibacteroides fermentans strain DSM 23697879969.3wgspatric879969
66792Macellibacteroides fermentans DSM 236972849162381draftimg879969
67770Macellibacteroides fermentans DSM 23697GCA_013409575contigncbi879969

GC content

@refGC-contentmethod
1734841.4high performance liquid chromatography (HPLC)
3028541.4

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno90.851no
flagellatedno98.414yes
gram-positiveno95.11yes
anaerobicyes96.339yes
halophileno86.076no
spore-formingno94.795yes
thermophileno98.992yes
glucose-utilyes93.275no
aerobicno95.619yes
glucose-fermentyes72.441no

External links

@ref: 17348

culture collection no.: DSM 23697, CCUG 60892, JCM 16313

straininfo link

  • @ref: 81743
  • straininfo: 400276

literature

  • topic: Phylogeny
  • Pubmed-ID: 22180609
  • title: Macellibacteroides fermentans gen. nov., sp. nov., a member of the family Porphyromonadaceae isolated from an upflow anaerobic filter treating abattoir wastewaters.
  • authors: Jabari L, Gannoun H, Cayol JL, Hedi A, Sakamoto M, Falsen E, Ohkuma M, Hamdi M, Fauque G, Ollivier B, Fardeau ML
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.032508-0
  • year: 2011
  • mesh: Abattoirs, Bacterial Typing Techniques, Bacteroidetes/*classification/genetics/isolation & purification, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Fermentation, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Tunisia, Vitamin K 2/analysis, Waste Water/*microbiology
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
17348Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23697)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23697
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
30285Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2662628776041
62485Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 60892)https://www.ccug.se/strain?id=60892
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/
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
81743Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID400276.1StrainInfo: A central database for resolving microbial strain identifiers