Strain identifier
BacDive ID: 12524
Type strain:
Species: Macellibacteroides fermentans
Strain Designation: LIND7H
Strain history: M.-L. Fardeau LIND7H.
NCBI tax ID(s): 879969 (species)
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
@ref | history |
---|---|
17348 | <- M.-L. Fardeau, Lab. Microbiol. de l'IRD/ESIL, Univ. de Provence et de la Méditerranée, Marseille, France; LIND7H <- L. Jabari |
67770 | M.-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
@ref | gram stain | cell length | cell width | cell shape | motility | confidence |
---|---|---|---|---|---|---|
30285 | positive | 2.5 µm | 0.75 µm | rod-shaped | no | |
69480 | negative | 99.997 |
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
@ref | growth | type | temperature | range |
---|---|---|---|---|
17348 | positive | growth | 35 | mesophilic |
30285 | positive | growth | 20-45 | |
30285 | positive | optimum | 37.5 | mesophilic |
62485 | positive | growth | 37 | mesophilic |
67770 | positive | growth | 37 | mesophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
30285 | positive | growth | 5-8.5 | alkaliphile |
30285 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance | confidence |
---|---|---|
17348 | anaerobe | |
30285 | anaerobe | |
62485 | anaerobe | |
69480 | anaerobe | 99.43 |
spore formation
@ref | spore formation | confidence |
---|---|---|
30285 | no | |
69481 | no | 100 |
69480 | no | 99.987 |
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
@ref | sample type | country | origin.country | continent | sampling date | geographic location |
---|---|---|---|---|---|---|
17348 | upflow anaerobic filter treating abattoir wastewaters | Tunisia | TUN | Africa | ||
62485 | Wastewater digestor | Tunisia | TUN | Africa | 2011 | Insat |
67770 | Upflow anaerobic filter treating abattoir wastewaters in Tunisia |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#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
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Macellibacteroides fermentans strain DSM 23697 | 879969.3 | wgs | patric | 879969 |
66792 | Macellibacteroides fermentans DSM 23697 | 2849162381 | draft | img | 879969 |
67770 | Macellibacteroides fermentans DSM 23697 | GCA_013409575 | contig | ncbi | 879969 |
GC content
@ref | GC-content | method |
---|---|---|
17348 | 41.4 | high performance liquid chromatography (HPLC) |
30285 | 41.4 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | no | 90.851 | no |
flagellated | no | 98.414 | yes |
gram-positive | no | 95.11 | yes |
anaerobic | yes | 96.339 | yes |
halophile | no | 86.076 | no |
spore-forming | no | 94.795 | yes |
thermophile | no | 98.992 | yes |
glucose-util | yes | 93.275 | no |
aerobic | no | 95.619 | yes |
glucose-ferment | yes | 72.441 | no |
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
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
---|---|---|---|---|---|---|
17348 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23697) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-23697 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
30285 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 26626 | 28776041 | |
62485 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 60892) | https://www.ccug.se/strain?id=60892 | |||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
69479 | João 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 | |||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
81743 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID400276.1 | StrainInfo: A central database for resolving microbial strain identifiers |