Strain identifier

BacDive ID: 158420

Type strain: Yes

Species: Aestuariimicrobium soli

Strain Designation: D6

Strain history: <- F. Chen, Nanjing Agric. Univ., China; KCTC 39995

NCBI tax ID(s): 2035834 (species)

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General

@ref: 65096

BacDive-ID: 158420

DSM-Number: 105824

keywords: 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-positive, rod-shaped, colony-forming

description: Aestuariimicrobium soli D6 is a facultative anaerobe, mesophilic, Gram-positive bacterium that forms circular colonies and was isolated from soil.

NCBI tax id

  • NCBI tax id: 2035834
  • Matching level: species

strain history

  • @ref: 65096
  • history: <- F. Chen, Nanjing Agric. Univ., China; KCTC 39995

doi: 10.13145/bacdive158420.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Propionibacteriales
  • family: Propionibacteriaceae
  • genus: Aestuariimicrobium
  • species: Aestuariimicrobium soli
  • full scientific name: Aestuariimicrobium soli Chen et al. 2018

@ref: 65096

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Propionibacteriaceae

genus: Aestuariimicrobium

species: Aestuariimicrobium soli

full scientific name: Aestuariimicrobium soli Chen et al. 2018

strain designation: D6

type strain: yes

Morphology

cell morphology

  • @ref: 66705
  • gram stain: positive
  • cell length: 1.2-1.3 µm
  • cell width: 0.6-0.7 µm
  • cell shape: rod-shaped

colony morphology

  • @ref: 66705
  • colony size: 1-3 mm
  • colony color: yellow
  • colony shape: circular
  • incubation period: 3 days
  • medium used: R2A medium

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
65096TRYPTICASE 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
66705LB (Luria-Bertani) agaryes
66705Nutrient agar (NA)yes
66705Reasoner's 2A agar (R2A)yes
66705tryptic soy agar (TSA)yes

culture temp

@refgrowthtypetemperaturerange
65096positivegrowth28mesophilic
66705positiveoptimum30mesophilic
66705positivegrowth4-37

culture pH

@refabilitytypepHPH range
66705positiveoptimum7
66705positivegrowth6.5-8.5alkaliphile

Physiology and metabolism

oxygen tolerance

  • @ref: 66705
  • oxygen tolerance: facultative anaerobe

spore formation

  • @ref: 66705
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
66705NaClpositivegrowth0-7 %(w/v)
66705NaClpositiveoptimum0.5 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6670515361pyruvate-assimilation
6670516150benzoate-assimilation
6670530031succinate-assimilation
6670517057cellobiose+assimilation
6670517634D-glucose+assimilation
6670565327D-xylose+assimilation
6670515443inulin-builds acid from
6670515963ribitol-builds acid from
6670516443D-tagatose-builds acid from
6670516813galactitol-builds acid from
6670516899D-mannitol-builds acid from
6670516988D-ribose-builds acid from
6670517113erythritol-builds acid from
6670517151xylitol-builds acid from
6670517266L-sorbose-builds acid from
6670517268myo-inositol-builds acid from
6670517754glycerol-builds acid from
6670517814salicin-builds acid from
6670518287L-fucose-builds acid from
6670518305arbutin-builds acid from
6670518333D-arabitol-builds acid from
6670518403L-arabitol-builds acid from
6670527613amygdalin-builds acid from
6670528017starch-builds acid from
6670528053melibiose-builds acid from
6670528066gentiobiose-builds acid from
6670528087glycogen-builds acid from
6670528847D-fucose-builds acid from
6670530849L-arabinose-builds acid from
6670532032potassium gluconate-builds acid from
6670532528turanose-builds acid from
6670543943methyl alpha-D-mannoside-builds acid from
6670559640N-acetylglucosamine-builds acid from
6670562318D-lyxose-builds acid from
6670562345L-rhamnose-builds acid from
6670565327D-xylose-builds acid from
6670565328L-xylose-builds acid from
6670574863methyl beta-D-xylopyranoside-builds acid from
66705320061methyl alpha-D-glucopyranoside-builds acid from
66705esculin ferric citrate-builds acid from
66705potassium 2-dehydro-D-gluconate-builds acid from
66705potassium 5-dehydro-D-gluconate-builds acid from
667056731melezitose+builds acid from
6670512936D-galactose+builds acid from
6670515824D-fructose+builds acid from
6670516024D-mannose+builds acid from
6670516634raffinose+builds acid from
6670517057cellobiose+builds acid from
6670517108D-arabinose+builds acid from
6670517306maltose+builds acid from
6670517634D-glucose+builds acid from
6670517716lactose+builds acid from
6670517924D-sorbitol+builds acid from
6670517992sucrose+builds acid from
6670527082trehalose+builds acid from
667055291gelatin-carbon source
6670512936D-galactose-carbon source
6670513705acetoacetate-carbon source
6670514314D-glucose 6-phosphate-carbon source
6670515588D-malate-carbon source
6670515740formate-carbon source
6670515748D-glucuronate-carbon source
6670515971L-histidine-carbon source
6670516024D-mannose-carbon source
6670516467L-arginine-carbon source
6670516523D-serine-carbon source
6670516537galactarate-carbon source
6670516634raffinose-carbon source
6670516651(S)-lactate-carbon source
66705167632-oxobutanoate-carbon source
6670516865gamma-aminobutyric acid-carbon source
6670516899D-mannitol-carbon source
6670516977L-alanine-carbon source
6670517057cellobiose-carbon source
6670517115L-serine-carbon source
6670517164stachyose-carbon source
6670517268myo-inositol-carbon source
6670517272propionate-carbon source
6670517306maltose-carbon source
6670517309pectin-carbon source
6670517464L-galactonic acid gamma-lactone-carbon source
6670517596inosine-carbon source
6670517716lactose-carbon source
6670517754glycerol-carbon source
6670517924D-sorbitol-carbon source
6670518024D-galacturonic acid-carbon source
66705181014-hydroxyphenylacetic acid-carbon source
6670518183L-pyroglutamic acid-carbon source
6670518287L-fucose-carbon source
6670518333D-arabitol-carbon source
6670523652dextrin-carbon source
6670526490quinate-carbon source
6670528053melibiose-carbon source
6670528066gentiobiose-carbon source
6670528800N-acetylgalactosamine-carbon source
6670528847D-fucose-carbon source
6670529990D-aspartate-carbon source
6670529991L-aspartate-carbon source
6670530612D-glucarate-carbon source
6670532323glucuronamide-carbon source
6670532528turanose-carbon source
6670535418n-acetylneuraminate-carbon source
66705370543-hydroxybutyrate-carbon source
6670548607lithium chloride-carbon source
6670551850methyl pyruvate-carbon source
6670553258citric acid-carbon source
6670553423tween 40-carbon source
6670559640N-acetylglucosamine-carbon source
6670562345L-rhamnose-carbon source
6670563153N-acetyl-D-mannosamine-carbon source
6670564103sodium butyrate-carbon source
6670570744glycine-proline-carbon source
6670571321fusidate-carbon source
6670573706bromosuccinate-carbon source
66705739183-O-methyl-D-glucose-carbon source
6670574611methyl (R)-lactate-carbon source
6670575229sodium bromate-carbon source
6670575248potassium tellurite-carbon source
6670578697D-fructose 6-phosphate-carbon source
66705100147nalidixic acid-carbon source
66705161680aztreonam-carbon source
66705320055methyl beta-D-glucopyranoside-carbon source
667051 % sodium lactate-carbon source
66705168102-oxoglutarate-carbon source
66705alpha-hydroxybutyrate-carbon source
6670515589L-malate+carbon source
6670515824D-fructose+carbon source
6670516411acetic acid+carbon source
6670516551D-trehalose+carbon source
6670517814salicin+carbon source
6670517925alpha-D-glucose+carbon source
6670517992sucrose+carbon source
6670529985L-glutamate+carbon source
6670515318xanthine-hydrolysis
6670517368hypoxanthine-hydrolysis
6670518186tyrosine-hydrolysis
6670528017starch-hydrolysis
667054853esculin+hydrolysis
6670553423tween 40+hydrolysis
6670553424tween 20+hydrolysis
6670553425tween 60+hydrolysis
6670553426tween 80+hydrolysis
66705casein+hydrolysis
6670517632nitrate+reduction

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.
6670518208penicillin gyesyes12 µg (disc)
6670528971ampicillinyesyes10 µg (disc)
667053393carbenicillinyesyes100 µg (disc)
6670517698chloramphenicolyesyes100 µg (disc)
667053542cephalothinyesyes30 µg (disc)
667057507neomycinyesyes30 µg (disc)
6670527902tetracyclineyesyes30 µg (disc)
6670528368novobiocinyesyes5 µg (disc)
6670516869oleandomycinyesyes15 µg (disc)
6670517833gentamicinyesno30 µg (disc)
667056104kanamycinyesno30 µg (disc)
667056472lincomycinyesno15 µg (disc)
667058309polymyxin byesno10 µg (disc)
6670517076streptomycinyesno50 µg (disc)

enzymes

@refvalueactivityec
66705acid phosphatase-3.1.3.2
66705alkaline phosphatase-3.1.3.1
66705alpha-chymotrypsin-3.4.21.1
66705alpha-fucosidase-3.2.1.51
66705alpha-galactosidase-3.2.1.22
66705alpha-glucosidase-3.2.1.20
66705alpha-mannosidase-3.2.1.24
66705beta-galactosidase-3.2.1.23
66705beta-glucosidase-3.2.1.21
66705beta-glucuronidase-3.2.1.31
66705cytochrome oxidase-1.9.3.1
66705esterase (C 4)-
66705esterase Lipase (C 8)-
66705lipase (C 14)-
66705N-acetyl-beta-glucosaminidase-3.2.1.52
66705trypsin-3.4.21.4
66705urease-3.5.1.5
66705valine arylamidase-
66705catalase+1.11.1.6
66705cystine arylamidase+3.4.11.3
66705leucine arylamidase+3.4.11.1
66705naphthol-AS-BI-phosphohydrolase+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitudeenrichment cultureenrichment culture durationenrichment culture temperatureisolation procedure
65096soilXuancheng, Anhui ProvinceChinaCHNAsia
66705farmland soiXuancheng city, Anhui ProvinceChinaCHNAsia30.8338118.618R2A agar3 days30The soil sample was suspended in sterilized distilled water, spread on R2A (Difco) agar using the 10-fold dilution plating method and incubated at 30°C for 3 days.

isolation source categories

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

Sequence information

16S sequences

  • @ref: 65096
  • description: Aestuariimicrobium sp. D6 16S ribosomal RNA gene, partial sequence
  • accession: MF947711
  • length: 1477
  • database: ena
  • NCBI tax ID: 2035834

GC content

@refGC-contentmethod
6509669.2
6670569.2high performance liquid chromatography (HPLC)

External links

@ref: 65096

culture collection no.: DSM 105824, KCTC 39995

straininfo link

  • @ref: 111223
  • straininfo: 396985

literature

  • topic: Phylogeny
  • Pubmed-ID: 30141771
  • title: Aestuariimicrobium soli sp. nov., isolated from farmland soil, and emended description of the genus Aestuariimicrobium.
  • authors: Chen LL, Chen F, Zhao HZ, Feng ZZ, Zhang H, Huang X
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002986
  • year: 2018
  • mesh: Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, *Farms, Fatty Acids/chemistry, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, Propionibacteriaceae/*classification/genetics/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry
  • topic2: Transcriptome

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
65096Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-105824Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 105824)
66705Ling-ling Chen, Feng Chen, Hua-zhu Zhao , Zhao-zhong Feng , Hao Zhang , Xing HuangAestuariimicrobium soli sp. nov., isolated from farmland soil, and emended description of the genus Aestuariimicrobium10.1099/ijsem.0.002986IJSEM 68: 3296-3300 201830141771
111223Reimer, 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-ID396985.1