Strain identifier
BacDive ID: 4982
Type strain:
Species: Leminorella richardii
Strain Designation: BE2-2083
Strain history: CIP <- 1989, NCTC <- 1986, ATCC <- F. Brenner: strain BE2-2083
NCBI tax ID(s): 1354266 (strain), 158841 (species)
General
@ref: 5577
BacDive-ID: 4982
DSM-Number: 14849
keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-negative, human pathogen
description: Leminorella richardii BE2-2083 is a facultative anaerobe, mesophilic, Gram-negative human pathogen that was isolated from faeces of female with diarrhea on corticosteroid therapy.
NCBI tax id
NCBI tax id | Matching level |
---|---|
158841 | species |
1354266 | strain |
strain history
@ref | history |
---|---|
5577 | <- ATCC <- F. W. Brenner, CDC, Atlanta, USA |
67770 | DSM 14849 <-- ATCC 33998 <-- F. W. Brenner; CDC, USA; BE2-2083. |
122234 | CIP <- 1989, NCTC <- 1986, ATCC <- F. Brenner: strain BE2-2083 |
doi: 10.13145/bacdive4982.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Enterobacterales
- family: Budviciaceae
- genus: Leminorella
- species: Leminorella richardii
- full scientific name: Leminorella richardii Hickman-Brenner et al. 1985
@ref: 5577
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Enterobacteriales, not validated
family: Budviciaceae
genus: Leminorella
species: Leminorella richardii
full scientific name: Leminorella richardii Hickman-Brenner et al. 1985
strain designation: BE2-2083
type strain: yes
Morphology
cell morphology
@ref | gram stain | confidence | cell shape |
---|---|---|---|
69480 | negative | 99.943 | |
122234 | negative | oval-shaped |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
5577 | NUTRIENT AGAR (DSMZ Medium 1) | yes | https://mediadive.dsmz.de/medium/1 | Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water |
40620 | MEDIUM 3 - Columbia agar | yes | Columbia agar (39.000 g);distilled water (1000.000 ml) | |
122234 | CIP Medium 3 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3 | |
122234 | CIP Medium 72 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
5577 | positive | growth | 37 | mesophilic |
40620 | positive | growth | 30 | mesophilic |
67770 | positive | growth | 37 | mesophilic |
122234 | positive | growth | 10-37 | |
122234 | no | growth | 5 | psychrophilic |
122234 | no | growth | 41 | thermophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 122234
- oxygen tolerance: facultative anaerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 99 |
69480 | no | 99.478 |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
68371 | 18403 | L-arabitol | - | builds acid from |
68371 | 18333 | D-arabitol | - | builds acid from |
68371 | 18287 | L-fucose | - | builds acid from |
68371 | 28847 | D-fucose | - | builds acid from |
68371 | 16443 | D-tagatose | - | builds acid from |
68371 | 62318 | D-lyxose | - | builds acid from |
68371 | 32528 | turanose | - | builds acid from |
68371 | 28066 | gentiobiose | - | builds acid from |
68371 | 17151 | xylitol | - | builds acid from |
68371 | 28087 | glycogen | - | builds acid from |
68371 | 28017 | starch | - | builds acid from |
68371 | 16634 | raffinose | - | builds acid from |
68371 | 6731 | melezitose | - | builds acid from |
68371 | 15443 | inulin | - | builds acid from |
68371 | 27082 | trehalose | - | builds acid from |
68371 | 17992 | sucrose | - | builds acid from |
68371 | 28053 | melibiose | - | builds acid from |
68371 | 17716 | lactose | - | builds acid from |
68371 | 17306 | maltose | - | builds acid from |
68371 | 17057 | cellobiose | - | builds acid from |
68371 | 17814 | salicin | - | builds acid from |
68371 | 4853 | esculin | - | builds acid from |
68371 | 18305 | arbutin | - | builds acid from |
68371 | 27613 | amygdalin | - | builds acid from |
68371 | 320061 | methyl alpha-D-glucopyranoside | - | builds acid from |
68371 | 43943 | methyl alpha-D-mannoside | - | builds acid from |
68371 | 17924 | D-sorbitol | - | builds acid from |
68371 | 16899 | D-mannitol | - | builds acid from |
68371 | 17268 | myo-inositol | - | builds acid from |
68371 | 16813 | galactitol | - | builds acid from |
68371 | 62345 | L-rhamnose | - | builds acid from |
68371 | 17266 | L-sorbose | - | builds acid from |
68371 | 16024 | D-mannose | - | builds acid from |
68371 | 15824 | D-fructose | - | builds acid from |
68371 | 12936 | D-galactose | - | builds acid from |
68371 | 74863 | methyl beta-D-xylopyranoside | - | builds acid from |
68371 | 15963 | ribitol | - | builds acid from |
68371 | 65328 | L-xylose | - | builds acid from |
68371 | 17113 | erythritol | - | builds acid from |
122234 | 29864 | mannitol | - | fermentation |
122234 | 16947 | citrate | - | carbon source |
122234 | 17234 | glucose | + | fermentation |
122234 | 17716 | lactose | - | fermentation |
122234 | 17632 | nitrate | + | reduction |
122234 | 16301 | nitrite | - | reduction |
122234 | 15792 | malonate | - | assimilation |
122234 | 132112 | sodium thiosulfate | + | builds gas from |
68374 | 18257 | ornithine | - | degradation |
68374 | 29016 | arginine | - | hydrolysis |
68374 | 25094 | lysine | - | degradation |
68374 | 16199 | urea | - | hydrolysis |
68374 | 18403 | L-arabitol | - | builds acid from |
68374 | 18024 | D-galacturonic acid | - | builds acid from |
68374 | Potassium 5-ketogluconate | - | builds acid from | |
68374 | 16899 | D-mannitol | - | builds acid from |
68374 | 17306 | maltose | - | builds acid from |
68374 | 15963 | ribitol | - | builds acid from |
68374 | 18394 | palatinose | - | builds acid from |
68374 | 15792 | malonate | - | assimilation |
68374 | 27897 | tryptophan | - | energy source |
68374 | 17634 | D-glucose | + | builds acid from |
68374 | 17992 | sucrose | - | builds acid from |
68374 | 30849 | L-arabinose | + | builds acid from |
68374 | 18333 | D-arabitol | - | builds acid from |
68374 | 27082 | trehalose | - | builds acid from |
68374 | 62345 | L-rhamnose | - | builds acid from |
68374 | 17268 | myo-inositol | - | builds acid from |
68374 | 17057 | cellobiose | - | builds acid from |
68374 | 30911 | sorbitol | - | builds acid from |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
68374 | 35581 | indole | no |
122234 | 35581 | indole | no |
metabolite tests
- @ref: 68374
- Chebi-ID: 35581
- metabolite: indole
- indole test: -
enzymes
@ref | value | activity | ec |
---|---|---|---|
68382 | alpha-fucosidase | - | 3.2.1.51 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | beta-glucosidase | - | 3.2.1.21 |
68382 | alpha-glucosidase | - | 3.2.1.20 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | trypsin | - | 3.4.21.4 |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | valine arylamidase | - | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | lipase (C 14) | - | |
68382 | esterase lipase (C 8) | - | |
68382 | esterase (C 4) | + | |
68382 | alkaline phosphatase | + | 3.1.3.1 |
68374 | L-aspartate arylamidase | - | 3.4.11.21 |
68374 | alpha-maltosidase | - | |
68374 | alpha-galactosidase | - | 3.2.1.22 |
68374 | alpha-glucosidase | - | 3.2.1.20 |
68374 | beta-galactosidase | - | 3.2.1.23 |
68374 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68374 | beta-glucuronidase | - | 3.2.1.31 |
68374 | beta-glucosidase | - | 3.2.1.21 |
68374 | lipase | - | |
68374 | urease | - | 3.5.1.5 |
68374 | lysine decarboxylase | - | 4.1.1.18 |
68374 | arginine dihydrolase | - | 3.5.3.6 |
68374 | ornithine decarboxylase | - | 4.1.1.17 |
122234 | oxidase | - | |
122234 | beta-galactosidase | + | 3.2.1.23 |
122234 | alcohol dehydrogenase | - | 1.1.1.1 |
122234 | gelatinase | - | |
122234 | catalase | + | 1.11.1.6 |
122234 | lysine decarboxylase | - | 4.1.1.18 |
122234 | ornithine decarboxylase | - | 4.1.1.17 |
122234 | tryptophan deaminase | - | |
122234 | urease | - | 3.5.1.5 |
API zym
@ref | Control | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
122234 | - | + | + | - | - | + | - | - | - | - | + | + | - | - | - | - | - | - | - | - |
API 50CHac
@ref | GLY | ERY | DARA | LARA | RIB | DXYL | LXYL | ADO | MDX | GAL | GLU | FRU | MNE | SBE | RHA | DUL | INO | MAN | SOR | MDM | MDG | NAG | AMY | ARB | ESC | SAL | CEL | MAL | LAC | MEL | SAC | TRE | INU | MLZ | RAF | AMD | GLYG | XLT | GEN | TUR | LYX | TAG | DFUC | LFUC | DARL | LARL | GNT | 2KG | 5KG |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
122234 | +/- | - | +/- | +/- | +/- | +/- | - | - | - | - | +/- | - | - | - | - | - | - | - | - | - | - | +/- | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | +/- | +/- | +/- |
API ID32E
@ref | ODC | ADH Arg | LDC Lys | URE | LARL | GAT | 5KG | LIP | RP | beta GLU | MAN | MAL | ADO | PLE | beta GUR | MNT | IND | beta NAG | beta GAL | GLU | SAC | LARA | DARL | alpha GLU | alpha GAL | TRE | RHA | INO | CEL | SOR | alphaMAL | AspA |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
47225 | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - | + | - | + | - | - | - | - | - | - | - | - | - | - |
API biotype100
@ref | GLU | FRU | GAL | TRE | MNE | SBE | MEL | SAC | RAF | MTE | MAL | LAC | LTE | MbGa | MaGa | CEL | GEN | MbGu | ESC | RIB | ARA | XYL | PLE | RHA | FUC | MLZ | DARL | LARL | XLT | DUL | TAG | GLY | INO | MAN | MTL | TUR | SOR | ADO | HBG | LYX | ERY | MDG | 3MDG | SAT | MUC | LTAT | DTAT | MTAT | DMLT | LMLT | CATE | TATE | TTE | CIT | GRT | GAT | 2KG | 5KG | TRY | NAG | GNT | PAC | PAT | pOBE | QAT | GTE | mOBE | BAT | PPAT | CMT | TGE | BET | PCE | ABT | HIN | LAT | CAP | CYT | HIS | SUC | FUM | GRE | GYT | AVT | ETN | TTN | GLN | ITA | 3OBU | APT | GTT | PRO | DALA | LALA | SER | MNT | PROP | TYR | 2KT |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
122234 | - | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | + | + | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - | - | + | - | + | + | + | + | + | - | + | - | + | + | - | + | - | - | + | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | + | + | - | - | - | - | - | - | - | - | + | - | - | - | - | + | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | sampling date |
---|---|---|---|---|---|---|
5577 | faeces of female with diarrhea on corticosteroid therapy | Texas | USA | USA | North America | |
47225 | Human feces,7-month-old female,gastroenteritis | 1987 | ||||
67770 | Stool of female with diarrhea on corticosteroid therapy | Texas | USA | USA | North America | |
122234 | Human, Female with diarrhoea on corticosteroid, stool | Texas | United States of America | USA | North America |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Infection | #Patient | |
#Host Body Product | #Gastrointestinal tract | #Feces (Stool) |
#Host | #Human | #Female |
Safety information
risk assessment
@ref | pathogenicity human | biosafety level | biosafety level comment |
---|---|---|---|
5577 | yes, in single cases | 1 | Risk group (German classification) |
122234 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 20218
- description: Leminorella richardii partial 16S rRNA gene, strain BE2-2083
- accession: HF558368
- length: 1516
- database: ena
- NCBI tax ID: 158841
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Leminorella richardii NCTC12151 | GCA_900478135 | complete | ncbi | 158841 |
66792 | Leminorella richardii strain NCTC12151 | 158841.3 | complete | patric | 158841 |
66792 | Leminorella richardii NCTC 12151 | 2887760073 | complete | img | 158841 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 99 | no |
flagellated | no | 93.532 | no |
gram-positive | no | 97.85 | no |
anaerobic | no | 90.474 | no |
aerobic | no | 71.447 | no |
halophile | no | 88.899 | no |
spore-forming | no | 96.654 | no |
thermophile | no | 99.766 | yes |
glucose-util | yes | 83.463 | no |
motile | no | 71.39 | no |
glucose-ferment | yes | 84.407 | no |
External links
@ref: 5577
culture collection no.: CCUG 20910, NCTC 12151, LMG 7911, JCM 5905, DSM 14849, ATCC 33998, CDC 978-82, JCM 31908, CCM 4004, CIP 103360, CDC 0978-82
straininfo link
- @ref: 74478
- straininfo: 13713
literature
- topic: Phylogeny
- Pubmed-ID: 3972991
- title: Leminorella, a new genus of Enterobacteriaceae: identification of Leminorella grimontii sp. nov. and Leminorella richardii sp. nov. found in clinical specimens.
- authors: Hickman-Brenner FW, Vohra MP, Huntley-Carter GP, Fanning GR, Lowery VA 3rd, Brenner DJ, Farmer JJ 3rd
- journal: J Clin Microbiol
- DOI: 10.1128/jcm.21.2.234-239.1985
- year: 1985
- mesh: DNA, Bacterial/analysis, Enterobacteriaceae/*classification/isolation & purification/metabolism, Humans, Nucleic Acid Hybridization, Terminology as Topic
- topic2: Pathogenicity
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
5577 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14849) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-14849 | |||
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 | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
40620 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/15149 | ||||
47225 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 20910) | https://www.ccug.se/strain?id=20910 | |||
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/ | ||||
68371 | Automatically annotated from API 50CH acid | |||||
68374 | Automatically annotated from API ID32E | |||||
68382 | Automatically annotated from API zym | |||||
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 | |||
74478 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID13713.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
122234 | Curators of the CIP | Collection of Institut Pasteur (CIP 103360) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103360 |