Strain identifier

BacDive ID: 4359

Type strain: Yes

Species: Lelliottia amnigena

Strain history: CIP <- 1988, F. Gavini, INSERM, Villeneuve d'Ascq, France: strain CUETM 77-118

NCBI tax ID(s): 1219085 (strain), 61646 (species)

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General

@ref: 1699

BacDive-ID: 4359

DSM-Number: 4486

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, rod-shaped

description: Lelliottia amnigena DSM 4486 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from soil.

NCBI tax id

NCBI tax idMatching level
1219085strain
61646species

strain history

@refhistory
1699<- ATCC <- H. Leclerc, 77-118
67770Y. Kosako 246 <-- R. Sakazaki 246 <-- H. Leclerc CUETM 77-118.
116343CIP <- 1988, F. Gavini, INSERM, Villeneuve d'Ascq, France: strain CUETM 77-118

doi: 10.13145/bacdive4359.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Enterobacterales
  • family: Enterobacteriaceae
  • genus: Lelliottia
  • species: Lelliottia amnigena
  • full scientific name: Lelliottia amnigena (Izard et al. 1981) Brady et al. 2013

  • synonyms

    • @ref: 20215
    • synonym: Enterobacter amnigenus

@ref: 1699

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacteriales, not validated

family: Enterobacteriaceae

genus: Lelliottia

species: Lelliottia amnigena

full scientific name: Lelliottia amnigena (Izard et al. 1981) Brady et al. 2013

type strain: yes

Morphology

cell morphology

  • @ref: 116343
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
1699COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://mediadive.dsmz.de/medium/693Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
1699TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://mediadive.dsmz.de/medium/92Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water
34586MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
116343CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
116343CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperaturerange
1699positivegrowth30mesophilic
34586positivegrowth30mesophilic
46036positivegrowth37mesophilic
67770positivegrowth37mesophilic
116343positivegrowth10-37
116343nogrowth5psychrophilic
116343nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
46036aerobe
116343facultative anaerobe

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
11634329864mannitol+fermentation
11634316947citrate+carbon source
11634317234glucose+fermentation
11634317716lactose-fermentation
11634317632nitrate+reduction
11634316301nitrite-reduction
11634315792malonate+assimilation
116343132112sodium thiosulfate-builds gas from

antibiotic resistance

  • @ref: 116343
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 116343
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11634315688acetoin+
11634317234glucose-

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382beta-glucosidase+3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase+3.2.1.23
68382alpha-galactosidase+3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
116343oxidase-
116343beta-galactosidase+3.2.1.23
116343alcohol dehydrogenase+1.1.1.1
116343gelatinase-
116343catalase+1.11.1.6
116343lysine decarboxylase-4.1.1.18
116343ornithine decarboxylase+4.1.1.17
116343phenylalanine ammonia-lyase-4.3.1.24
116343tryptophan deaminase-
116343urease-3.5.1.5

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    46036C12:0312
    46036C13:00.613
    46036C14:05.514
    46036C15:04.915
    46036C16:021.416
    46036C17:01.517
    46036C13:0 3OH/C15:1 i I/H0.714.469
    46036C14:0 3OH/C16:1 ISO I7.415.485
    46036C16:1 ω7c3915.819
    46036C17:0 CYCLO416.888
    46036C17:1 ω8c0.616.792
    46036C18:1 ω7c /12t/9t11.517.824
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
116343-+++-++---++++-+++--

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
116343+++++-++++++-+++++++++++-------+-+++---+-+-++----+---++++--++--------------+--+++-----+--++++++----

Isolation, sampling and environmental information

isolation

@refsample type
1699soil
46036Soil
67770Soil
116343Environment, Soil

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_3944.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_6;96_7;97_7;98_78;99_3944&stattab=map
  • Last taxonomy: Enterobacteriaceae
  • 16S sequence: AB004749
  • Sequence Identity:
  • Total samples: 2981
  • soil counts: 276
  • aquatic counts: 433
  • animal counts: 1728
  • plant counts: 544

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
16992Risk group (German classification)
1163432Risk group (French classification)

Sequence information

16S sequences

  • @ref: 1699
  • description: Enterobacter amnigenus gene for 16S ribosomal RNA, partial sequence
  • accession: AB004749
  • length: 1449
  • database: ena
  • NCBI tax ID: 61646

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lelliottia amnigena NBRC 1057001219085.5wgspatric1219085
66792Lelliottia amnigena strain DSM 448661646.66wgspatric61646
66792Lelliottia amnigena strain FDAARGOS 144461646.97completepatric61646
66792Lelliottia amnigena strain NCTC1212461646.72completepatric61646
66792Lelliottia amnigena LMG 27842837279015draftimg61646
66792Lelliottia amnigena NBRC 1057002731957555draftimg1219085
67770Lelliottia amnigena NBRC 105700GCA_001514515contigncbi1219085
67770Lelliottia amnigena NCTC12124GCA_900635465completencbi61646
67770Lelliottia amnigena LMG 2784GCA_002553545contigncbi61646

GC content

  • @ref: 67770
  • GC-content: 54.2
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno55.059no
gram-positiveno98.123no
anaerobicno96.766yes
aerobicyes81.52no
halophileno91.276no
spore-formingno94.91no
thermophileno99.226no
glucose-utilyes95.414no
motileyes88.453no
glucose-fermentyes93.413no

External links

@ref: 1699

culture collection no.: DSM 4486, ATCC 33072, LMG 2784, CCUG 14182, CECT 4078, JCM 1237, NCTC 12124, CUETM 77-118, BCRC 13987, CCM 3430, CIP 103169, HAMBI 1297, HUT 8113, NBRC 105700, NCIMB 2118, VTT E-97863

straininfo link

  • @ref: 73850
  • straininfo: 2193

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny29583116Lelliottia jeotgali sp. nov., isolated from a traditional Korean fermented clam.Yuk KJ, Kim YT, Huh CS, Lee JHInt J Syst Evol Microbiol10.1099/ijsem.0.0027372018Animals, Bacterial Typing Techniques, Base Composition, Bivalvia/*microbiology, DNA, Bacterial/genetics, Enterobacter/*classification/genetics/isolation & purification, Fatty Acids/chemistry, Fermented Foods/*microbiology, Genes, Bacterial, Multilocus Sequence Typing, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seafood/*microbiology, Sequence Analysis, DNATranscriptome
Phylogeny35829834Lelliottia steviae sp. nov. isolated from Stevia rebaudiana Bertoni.Lin J, Huang K, Huang JY, Xiong YR, Wei MM, Xiao N, Gao J, Ding XK, Ma ZY, Sang JH, Kong LX, Hong ZY, Li OArch Microbiol10.1007/s00203-022-03033-22022Bacterial Typing Techniques, DNA, Bacterial/genetics, DNA, Ribosomal, Fatty Acids/analysis, Multilocus Sequence Typing, Nucleic Acid Hybridization, Phospholipids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Stevia/geneticsTranscriptome

Reference

@idauthorscataloguedoi/urltitle
1699Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 4486)https://www.dsmz.de/collection/catalogue/details/culture/DSM-4486
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
34586Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/14937
46036Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 14182)https://www.ccug.se/strain?id=14182
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/
68382Automatically annotated from API zym
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
73850Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID2193.1StrainInfo: A central database for resolving microbial strain identifiers
116343Curators of the CIPCollection of Institut Pasteur (CIP 103169)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103169