Strain identifier

BacDive ID: 132991

Type strain: Yes

Species: Larsenimonas suaedae

Strain Designation: ST307

Strain history: <- Z. Xia, Shandong Univ., Jinan, China; St307 <- Z. Xia and C. Cui

NCBI tax ID(s): 1851019 (species)

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General

@ref: 24779

BacDive-ID: 132991

DSM-Number: 22428

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, Gram-negative, motile, rod-shaped, colony-forming

description: Larsenimonas suaedae ST307 is an obligate aerobe, Gram-negative, motile bacterium that forms circular colonies and was isolated from halophyte Suaeda salsa L. in seaside saline soil.

NCBI tax id

  • NCBI tax id: 1851019
  • Matching level: species

strain history

  • @ref: 24779
  • history: <- Z. Xia, Shandong Univ., Jinan, China; St307 <- Z. Xia and C. Cui

doi: 10.13145/bacdive132991.20250331.9.3

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Oceanospirillales
  • family: Halomonadaceae
  • genus: Larsenimonas
  • species: Larsenimonas suaedae
  • full scientific name: Larsenimonas suaedae Xia et al. 2016

@ref: 24779

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Oceanospirillales

family: Halomonadaceae

genus: Larsenimonas

species: Larsenimonas suaedae

full scientific name: Larsenimonas suaedae Xia et al. 2016

strain designation: ST307

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
43589negative0.8-1.5 µm0.4-0.6 µmrod-shapedyes
125439negative99.8
125439yes90.4
125438negative100

colony morphology

  • @ref: 43589
  • colony color: Orange-yellow
  • colony shape: circular
  • medium used: MH medium

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
43589MH mediumyes
24779CHROMOHALOBACTER MEDIUM (DSMZ Medium 1395)yeshttps://mediadive.dsmz.de/medium/1395Name: CHROMOHALOBACTER MEDIUM (DSMZ Medium 1395) Composition: NaCl 41.0 g/l Agar 20.0 g/l Yeast extract 10.0 g/l MgSO4 x 7 H2O 9.6 g/l MgCl2 x 6 H2O 7.0 g/l Peptone 5.0 g/l KCl 2.0 g/l Glucose 1.0 g/l CaCl2 x 2 H2O 0.36 g/l NaHCO3 0.06 g/l NaBr 0.026 g/l Distilled water

culture temp

@refgrowthtypetemperature
43589positivegrowth5-45
43589positiveoptimum35
24779positivegrowth37

culture pH

@refabilitytypepHPH range
43589positivegrowth5-9alkaliphile
43589positiveoptimum7-8

Physiology and metabolism

oxygen tolerance

  • @ref: 43589
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
43589no
125439no99.4

halophily

@refsaltgrowthtested relationconcentrationhalophily level
43589NaClpositivegrowth0.6-20 %(w/v)
43589NaClpositiveoptimum5-6 %(w/v)moderately halophilic

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4358917108D-arabinose-builds acid from
4358916899D-mannitol-builds acid from
4358917924D-sorbitol-builds acid from
4358917113erythritol-builds acid from
4358962345L-rhamnose-builds acid from
4358917268myo-inositol-builds acid from
4358916634raffinose-builds acid from
4358927922sorbose-builds acid from
4358917924D-sorbitol-carbon source
4358965327D-xylose-carbon source
4358915740formate-carbon source
4358917561L-cysteine-carbon source
4358962345L-rhamnose-carbon source
4358916857L-threonine-carbon source
4358916828L-tryptophan-carbon source
4358917716lactose-carbon source
4358917790methanol-carbon source
4358917268myo-inositol-carbon source
4358916634raffinose-carbon source
4358928017starch-carbon source
4358917924D-sorbitol-energy source
4358965327D-xylose-energy source
4358915740formate-energy source
4358917561L-cysteine-energy source
4358962345L-rhamnose-energy source
4358916857L-threonine-energy source
4358916828L-tryptophan-energy source
4358917716lactose-energy source
4358917790methanol-energy source
4358917268myo-inositol-energy source
4358916634raffinose-energy source
4358928017starch-energy source
43589casein-hydrolysis
4358916991dna-hydrolysis
435895291gelatin-hydrolysis
4358928017starch-hydrolysis
4358953426tween 80-hydrolysis
4358917561L-cysteine-nitrogen source
4358916857L-threonine-nitrogen source
4358916828L-tryptophan-nitrogen source
4358917632nitrate-reduction
4358929806fumarate-respiration
4358917632nitrate-respiration
4358916301nitrite-respiration
435894-nitrophenyl beta-D-galactopyranoside hydrolysate+assimilation
4358915824D-fructose+builds acid from
4358912936D-galactose+builds acid from
4358917634D-glucose+builds acid from
4358916024D-mannose+builds acid from
4358917716lactose+builds acid from
4358917306maltose+builds acid from
4358917992sucrose+builds acid from
4358927082trehalose+builds acid from
4358917925alpha-D-glucose+carbon source
4358916947citrate+carbon source
4358915824D-fructose+carbon source
4358912936D-galactose+carbon source
4358916024D-mannose+carbon source
4358917754glycerol+carbon source
4358915428glycine+carbon source
4358916977L-alanine+carbon source
4358917895L-tyrosine+carbon source
4358916414L-valine+carbon source
4358917306maltose+carbon source
4358917992sucrose+carbon source
4358927082trehalose+carbon source
4358917925alpha-D-glucose+energy source
4358915824D-fructose+energy source
4358912936D-galactose+energy source
4358916024D-mannose+energy source
4358917754glycerol+energy source
4358915428glycine+energy source
4358916977L-alanine+energy source
4358917895L-tyrosine+energy source
4358916414L-valine+energy source
4358917306maltose+energy source
4358917992sucrose+energy source
4358927082trehalose+energy source
4358917634D-glucose+fermentation
4358917234glucose+fermentation
4358953424tween 20+hydrolysis
4358928938ammonium+nitrogen source
4358915428glycine+nitrogen source
4358916977L-alanine+nitrogen source
4358917895L-tyrosine+nitrogen source
4358916414L-valine+nitrogen source
4358917634D-glucose+oxidation

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.is resistantresistance conc.
4358928971ampicillinyesyes20 µg/mL
435893393carbenicillinyesyes100 µg/mL
4358928077rifampicinyesyes30 µg/mL
4358918208penicillin gyesyes20 Unit
4358917698chloramphenicolyesyes30 µg/mL
4358948923erythromycinyesyes15 µg/mL
435896104kanamycinyesyes30 µg/mL
43589100147nalidixic acidyesyes30 µg/mL
4358917076streptomycinyesyes10 µg/mL
4358928864tobramycinyesyes10 µg/mL

metabolite production

@refChebi-IDmetaboliteproduction
4358915688acetoinno
4358916136hydrogen sulfideno
4358935581indoleno

metabolite tests

@refChebi-IDmetabolitemethylred-testvoges-proskauer-testcitrate test
4358917234glucose+
4358915688acetoin-
4358916947citrate+

enzymes

@refvalueactivityec
43589catalase+1.11.1.6
43589lysine decarboxylase+4.1.1.18
43589ornithine decarboxylase+4.1.1.17
43589cytochrome oxidase-1.9.3.1
43589phenylalanine deaminase-4.3.1.5
43589urease+3.5.1.5

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinentlatitudelongitude
24779halophyte Suaeda salsa L. in seaside saline soilSuaeda salsaDongying (37.4° N, 118.9° E)ChinaCHNAsia37.4118.9
43589the halophyte Suaeda salsa in seaside saline soilDongyingChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Herbaceous plants (Grass,Crops)
#Condition#Saline
#Environmental#Aquatic#Marine
#Environmental#Terrestrial#Soil
#Host#Algae

taxonmaps

  • @ref: 69479
  • File name: preview.99_50528.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_48;96_21119;97_28506;98_36318;99_50528&stattab=map
  • Last taxonomy: Larsenimonas
  • 16S sequence: FJ463811
  • Sequence Identity:
  • Total samples: 398
  • soil counts: 36
  • aquatic counts: 286
  • animal counts: 67
  • plant counts: 9

Safety information

risk assessment

  • @ref: 24779
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 24779
  • description: Larsenimonas suaedae strain ST307 16S ribosomal RNA gene, partial sequence
  • accession: FJ463811
  • length: 1474
  • database: nuccore
  • NCBI tax ID: 1851019

Genome sequences

  • @ref: 66792
  • description: Larsenimonas suaedae DSM 22428
  • accession: GCA_023712105
  • assembly level: scaffold
  • database: ncbi
  • NCBI tax ID: 1851019

GC content

  • @ref: 24779
  • GC-content: 60.5
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingno100yes
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no96.558yes
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes82.505yes
125438spore-formingspore-formingAbility to form endo- or exosporesno88.366no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno97.264yes
125438motile2+flagellatedAbility to perform flagellated movementyes76.526no
125439BacteriaNetspore_formationAbility to form endo- or exosporesno99.4
125439BacteriaNetmotilityAbility to perform movementyes90.4
125439BacteriaNetgram_stainReaction to gram-stainingnegative99.8
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthaerobe85.1

External links

@ref: 24779

culture collection no.: DSM 22428, CGMCC 1.8902

straininfo link

  • @ref: 91267
  • straininfo: 396701

literature

  • topic: Phylogeny
  • Pubmed-ID: 27129697
  • title: Larsenimonas suaedae sp. nov., a moderately halophilic, endophytic bacterium isolated from the halophyte Suaeda salsa.
  • authors: Xia ZJ, Wu HZ, Cui CX, Chen Q, Zhao GY, Wang HX, Dai MX
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.001126
  • year: 2016
  • mesh: Bacterial Typing Techniques, Base Composition, Chenopodiaceae/*microbiology, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Halomonadaceae/*classification/genetics/isolation & purification, Hydroxybutyrates/metabolism, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Pigmentation, Polyesters/metabolism, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ubiquinone/chemistry
  • topic2: Metabolism

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
24779Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-22428Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22428)
43589Zhi-Jie Xia, Hong-Zhen Wu, Chun-Xiao Cui, Qi Chen, Guo-Yan Zhao, Hai-Xia Wang, Mei-Xue DaiLarsenimonas suaedae sp. nov., a moderately halophilic, endophytic bacterium isolated from the euhalophyte Suaeda salsa10.1099/ijsem.0.001126IJSEM 66: 2952-2958 201627129697
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
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/
91267Reimer, 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-ID396701.1
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg OvermannPredicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets10.1101/2024.08.12.607695
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardydeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1https://github.com/GenomeNet/deepG