Strain identifier

BacDive ID: 140988

Type strain: Yes

Species: Altericroceibacterium endophyticum

Strain Designation: BR-75

Strain history: Fidalgo, C. University of Aveiro

NCBI tax ID(s): 1808508 (species)

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General

@ref: 43875

BacDive-ID: 140988

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

description: Altericroceibacterium endophyticum BR-75 is an aerobe, Gram-negative, motile bacterium that forms circular colonies and was isolated from surface-sterilized belwoground tissues of the halophyte Halimione portulacoides in salt marsh in Aveiro, Portugal.

NCBI tax id

  • NCBI tax id: 1808508
  • Matching level: species

strain history

  • @ref: 67772
  • history: Fidalgo, C. University of Aveiro

doi: 10.13145/bacdive140988.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Sphingomonadales
  • family: Erythrobacteraceae
  • genus: Altericroceibacterium
  • species: Altericroceibacterium endophyticum
  • full scientific name: Altericroceibacterium endophyticum (Fidalgo et al. 2017) Xu et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Altererythrobacter endophyticus

@ref: 43875

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Sphingomonadales

family: Erythrobacteraceae

genus: Altererythrobacter

species: Altererythrobacter endophyticus

strain designation: BR-75

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
43875negative1.46-3.95 µm0.59-1.41 µmrod-shapedyes
69480negative99.96

colony morphology

  • @ref: 43875
  • colony size: 0.5-1.2 mm
  • colony color: yellow
  • colony shape: circular
  • incubation period: 2 days
  • medium used: Marine agar

pigmentation

  • @ref: 43875
  • production: no
  • name: Bacteriophyll alpha

Culture and growth conditions

culture medium

@refnamegrowth
43875Marine agar (MA)yes
43875Reasoner's 2A agar (R2A)yes

culture temp

@refgrowthtypetemperaturerange
43875positivegrowth18-37
43875positiveoptimum30mesophilic
67772positiveminimum18psychrophilic
67772positiveoptimum30mesophilic
67772positivemaximum37mesophilic

culture pH

@refabilitytypepHPH range
43875positivegrowth5.0-11.5alkaliphile
43875positiveoptimum7.5-8.0
67772positiveoptimum7.5-8.0
67772positivemaximum11.5
67772positiveminimum5.0

Physiology and metabolism

oxygen tolerance

  • @ref: 43875
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.991

halophily

@refsaltgrowthtested relationconcentrationhalophily level
43875NaClpositivegrowth0.5-5 %(w/v)
43875NaClpositiveoptimum2 %(w/v)slightly halophilic

observation

  • @ref: 43875
  • observation: quinone Q-10

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4387517128adipate-assimilation
4387527689decanoate-assimilation
4387517634D-glucose-assimilation
4387516899D-mannitol-assimilation
4387516024D-mannose-assimilation
4387530849L-arabinose-assimilation
4387517306maltose-assimilation
43875506227N-acetylglucosamine-assimilation
4387518401phenylacetate-assimilation
4387532032potassium gluconate-assimilation
4387553258sodium citrate-assimilation
43875168082-dehydro-D-gluconate-builds acid from
43875581435-dehydro-D-gluconate-builds acid from
4387527613amygdalin-builds acid from
4387518305arbutin-builds acid from
4387517057cellobiose-builds acid from
4387515963ribitol-builds acid from
4387517108D-arabinose-builds acid from
4387518333D-arabitol-builds acid from
4387515824D-fructose-builds acid from
4387528847D-fucose-builds acid from
4387512936D-galactose-builds acid from
4387517634D-glucose-builds acid from
4387562318D-lyxose-builds acid from
4387516899D-mannitol-builds acid from
4387516024D-mannose-builds acid from
4387516988D-ribose-builds acid from
4387517924D-sorbitol-builds acid from
4387516443D-tagatose-builds acid from
4387565327D-xylose-builds acid from
4387516813galactitol-builds acid from
4387517113erythritol-builds acid from
4387528066gentiobiose-builds acid from
4387517754glycerol-builds acid from
4387528087glycogen-builds acid from
4387517268myo-inositol-builds acid from
4387515443inulin-builds acid from
4387530849L-arabinose-builds acid from
4387518403L-arabitol-builds acid from
4387518287L-fucose-builds acid from
4387562345L-rhamnose-builds acid from
4387517266L-sorbose-builds acid from
4387565328L-xylose-builds acid from
4387517716lactose-builds acid from
4387517306maltose-builds acid from
438756731melezitose-builds acid from
4387528053melibiose-builds acid from
43875320061methyl alpha-D-glucopyranoside-builds acid from
4387543943methyl alpha-D-mannoside-builds acid from
4387574863methyl beta-D-xylopyranoside-builds acid from
43875506227N-acetylglucosamine-builds acid from
4387532032potassium gluconate-builds acid from
4387516634raffinose-builds acid from
4387517814salicin-builds acid from
4387528017starch-builds acid from
4387517992sucrose-builds acid from
4387527082trehalose-builds acid from
4387532528turanose-builds acid from
4387517151xylitol-builds acid from
4387517234glucose-fermentation
4387562968cellulose-hydrolysis
438755291gelatin-hydrolysis
4387528017starch-hydrolysis
4387517632nitrate-reduction
4387525115malate+assimilation
43875esculin ferric citrate+builds acid from
43875casein+hydrolysis
438754853esculin+hydrolysis
4387553424tween 20+hydrolysis
4387537166xylan+hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
4387516136hydrogen sulfideno
4387535581indoleno
4387530089acetateyes

enzymes

@refvalueactivityec
43875catalase+1.11.1.6
43875cytochrome oxidase+1.9.3.1
43875beta-galactosidase+3.2.1.23
43875arginine dihydrolase-3.5.3.6
43875urease3.5.1.5
43875protease
43875alkaline phosphatase+3.1.3.1
43875esterase (C 4)
43875esterase Lipase (C 8)+
43875lipase (C 14)+/-
43875leucine arylamidase+3.4.11.1
43875alpha-chymotrypsin+3.4.21.1
43875acid phosphatase+3.1.3.2
43875naphthol-AS-BI-phosphohydrolase+
43875cystine arylamidase-3.4.11.3
43875trypsin-3.4.21.4
43875beta-glucuronidase+3.2.1.31
43875beta-glucosidase+3.2.1.21
43875N-acetyl-beta-glucosaminidase-3.2.1.52
43875alpha-mannosidase-3.2.1.24
43875alpha-fucosidase-3.2.1.51
43875beta-galactosidase+/-3.2.1.23
43875alpha-galactosidase-3.2.1.22

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    43875C14:0 2OH8.1
    43875C16:05.8
    43875C16:1ω7c / C15:0 iso 2OH2.6
    43875C17:1ω6c3.1
    43875C18:01.1
    43875C18:1ω7c / C18:1ω6c76.3
  • type of FA analysis: whole cell analysis
  • incubation medium: R2A agar
  • agar/liquid: agar
  • incubation temperature: 30
  • incubation time: 2
  • software version: Sherlock 6.0
  • library/peak naming table: TSBA6
  • system: MIS MIDI
  • cutoff value:

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentenrichment cultureenrichment culture temperaturesampling date
43875surface-sterilized belwoground tissues of the halophyte Halimione portulacoides in salt marsh in Aveiro, PortugalAveiroPortugalPRTEuropeMarine agar28
67772Surface-sterilized aboveground tissues of the halophyte Halimione portulacoides in salt marshAveiro, AveiroPortugalPRTEurope2012

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Salt marsh
#Host#Plants#Shrub (Scrub)
#Host Body-Site#Plant#Sterilized plant part

taxonmaps

  • @ref: 69479
  • File name: preview.99_73976.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_20;96_1655;97_39780;98_51766;99_73976&stattab=map
  • Last taxonomy: Altericroceibacterium endophyticum subclade
  • 16S sequence: KY310591
  • Sequence Identity:
  • Total samples: 119
  • soil counts: 7
  • aquatic counts: 106
  • animal counts: 4
  • plant counts: 2

Safety information

risk assessment

  • @ref: 67772
  • biosafety level: 1

Sequence information

16S sequences

  • @ref: 43875
  • description: 16S rRNA gene sequence
  • accession: KY310591
  • database: nuccore

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Altererythrobacter endophyticus strain LMG 295181808508.3wgspatric1808508
66792Altericroceibacterium endophyticum LMG 295182915142722draftimg1808508
67772Altericroceibacterium endophyticum LMG 29518GCA_009827595scaffoldncbi1808508

GC content

  • @ref: 43875
  • GC-content: 58.3
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno88.099yes
gram-positiveno97.595yes
anaerobicno98.846no
aerobicyes87.709no
halophileno70.766no
spore-formingno95.354no
glucose-utilyes82.21no
flagellatedno97.404no
thermophileno99.027yes
glucose-fermentno89.833yes

External links

@ref: 43875

culture collection no.: CECT 9129, LMG 29518, BR 75, UCCCB41

Reference

@idauthorstitledoi/urljournalpubmed
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
43875Cátia Fidalgo, Jaqueline Rocha, Ricardo Martins, Diogo Neves Proença, Paula V. Morais, Isabel Henriques, Artur AlvesAltererythrobacter halimionae sp. nov. and Altererythrobacter endophyticus sp. nov., two endophytes from the salt marsh plant Halimione portulacoides10.1099/ijsem.0.002079IJSEM 67: 3057-3062 201728853692
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
67772Curators of the UCCCBhttps://ucccb.uc.pt/
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/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1