Strain identifier

BacDive ID: 158468

Type strain: Yes

Species: Microbacterium ureisolvens

Strain history: <- Guo-xing Nie, Henan normal Univ.

NCBI tax ID(s): 2781186 (species)

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General

@ref: 65144

BacDive-ID: 158468

DSM-Number: 103157

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

description: Microbacterium ureisolvens DSM 103157 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from From sediment of Yellow river.

NCBI tax id

  • NCBI tax id: 2781186
  • Matching level: species

strain history

@refhistory
65144<- Guo-xing Nie, College of Fisheries, Henan Normal University, Xingxiang; CFH S00084 <- J. Shan
67771<- Guo-xing Nie, Henan normal Univ.

doi: 10.13145/bacdive158468.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Microbacteriaceae
  • genus: Microbacterium
  • species: Microbacterium ureisolvens
  • full scientific name: Microbacterium ureisolvens Cheng et al. 2019

@ref: 65144

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Microbacteriaceae

genus: Microbacterium

species: Microbacterium ureisolvens

full scientific name: Microbacterium ureisolvens Cheng et al. 2019

type strain: yes

Morphology

cell morphology

  • @ref: 67812
  • gram stain: positive
  • cell length: 1.28-2.42 µm
  • cell width: 0.35-0.37 µm
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 67812
  • colony color: pale yellow to bright yellow
  • medium used: Reasoner's 2A agar (R2A)

Culture and growth conditions

culture medium

  • @ref: 65144
  • name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/92
  • composition: Name: 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

culture temp

@refgrowthtypetemperaturerange
65144positivegrowth28mesophilic
67771positivegrowth28mesophilic
67812positivegrowth15-37
67812positiveoptimum25-37mesophilic

culture pH

@refabilitytypepH
67812positivegrowth7-8
67812positiveoptimum7

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
67771aerobe
67812aerobe

spore formation

  • @ref: 67812
  • type of spore: endospore
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
67812NaClpositivegrowth0-4 %
67812NaClpositiveoptimum0-3 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6781217632nitrate+reduction
6781228017starch+hydrolysis
678125291gelatin+hydrolysis
6781262968cellulose-hydrolysis
6781253424tween 20-hydrolysis
6781253423tween 40-hydrolysis
6781253425tween 60-hydrolysis
6781253426tween 80-hydrolysis
6781223652dextrin+assimilation
67812167632-oxobutanoate+assimilation
6781213705acetoacetate+assimilation
6781217306maltose+assimilation
6781216551D-trehalose+assimilation
6781217057cellobiose+assimilation
6781228066gentiobiose+assimilation
6781217992sucrose+assimilation
6781232528turanose+assimilation
6781217164stachyose+assimilation
6781216634raffinose+assimilation
6781236219alpha-lactose+assimilation
6781228053melibiose+assimilation
67812320055methyl beta-D-glucopyranoside+assimilation
6781217814salicin+assimilation
6781259640N-acetylglucosamine+assimilation
6781217925alpha-D-glucose+assimilation
6781216024D-mannose+assimilation
6781215824D-fructose+assimilation
6781212936D-galactose+assimilation
6781262345L-rhamnose+assimilation
6781216899D-mannitol+assimilation
6781270744glycine-proline+nitrogen source
6781216977L-alanine+nitrogen source
6781229991L-aspartate+nitrogen source
6781229988L-glutamate+nitrogen source
6781217115L-serine+nitrogen source
678128391D-gluconate+assimilation
6781226490quinate+assimilation
67812181014-hydroxyphenylacetic acid+assimilation
6781216651(S)-lactate+assimilation
6781215588D-malate+assimilation
6781215589L-malate+assimilation
6781273706bromosuccinate+assimilation
67812645522-hydroxybutyrate+assimilation
67812370543-hydroxybutyrate+assimilation
6781217272propionate+assimilation
6781230089acetate+assimilation
6781215740formate+assimilation
678124853esculin+assimilation
6781230849L-arabinose+assimilation
678124-nitrophenyl beta-D-galactopyranoside hydrolysate+assimilation
6781228087glycogen+assimilation
678126731melezitose+assimilation
6781274863methyl beta-D-xylopyranoside+assimilation
6781228017starch+assimilation
6781265327D-xylose+assimilation
6781216857L-threonine+nitrogen source

metabolite production

  • @ref: 67812
  • Chebi-ID: 16136
  • metabolite: hydrogen sulfide
  • production: no

enzymes

@refvalueactivityec
67812catalase+1.11.1.6
67812urease+3.5.1.5
67812alkaline phosphatase+3.1.3.1
67812cystine arylamidase+3.4.11.3
67812esterase (C 4)+
67812esterase Lipase (C 8)+
67812alpha-fucosidase+3.2.1.51
67812alpha-galactosidase+3.2.1.22
67812alpha-glucosidase+3.2.1.20
67812beta-glucosidase+3.2.1.21
67812beta-galactosidase+3.2.1.23
67812leucine arylamidase+3.4.11.1
67812naphthol-AS-BI-phosphohydrolase+
67812N-acetyl-beta-glucosaminidase+3.2.1.52
67812trypsin+3.4.21.4
67812valine arylamidase+
67812cytochrome oxidase-1.9.3.1
67812alpha-chymotrypsin-3.4.21.1
67812beta-glucuronidase-3.2.1.31
67812alpha-mannosidase-3.2.1.24

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    67812C16:01.8
    67812C17:00.5
    67812C18:01.5
    67812C14:0 iso0.7
    67812C15:0 iso6.3
    67812C16:0 iso13.2
    67812C17:0 iso5.2
    67812C18:0 iso1.1
    67812C15:0 anteiso36
    67812C17:0 anteiso25.6
    67812C19:0 anteiso0.2
    67812C16:0 2OH0.6
    67812C17:0 2OH0.1
    67812C17:0 3OH0.1
    67812C18:0-2-OH0.1
    67812C18:0 10-methyl TBSA2.6
    67812C16:1 w9c0.1
    67812C17:1 w5c0.2
    67812C17:1 w8c0.1
    67812C18:1 w9c3.7
    67812C16:1 w6c and/or C16:1 w7c0.1
    67812C19:0 cyclo w10c and/or 19w60.1
    67812C18:1 w7c0.1
  • type of FA analysis: whole cell analysis
  • incubation medium: tryptic soy agar
  • agar/liquid: agar
  • incubation temperature: 28
  • incubation time: 3
  • software version: Sherlock 6.1
  • library/peak naming table: TSBA6
  • system: MIS MIDI

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentenrichment cultureenrichment culture durationenrichment culture temperatureisolation procedure
67771From sediment of Yellow riverHenan ProvinceChinaCHNAsia
65144sedimentHenan Province, Yellow RiverChinaCHNAsia
67812sediment sampleYellow River in Henan ProvinceChinaCHNAsiaISP22 weeks28standard dilution plating method

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Sediment
#Environmental#Terrestrial#Sediment

Sequence information

16S sequences

  • @ref: 65144
  • description: Microbacterium sp. strain CFH S00084 16S ribosomal RNA gene, partial sequence
  • accession: KY039334
  • length: 1458
  • database: ena
  • NCBI tax ID: 51671

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Microbacterium sp. KCTC 398022183895.3wgspatric2183895
66792Microbacterium sp. KCTC 398022866300312draftimg2183895
67812Microbacterium sp. KCTC 39802GCA_003121305contigncbi2183895

GC content

@refGC-contentmethod
6514470.5
6781270.5genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno89.989no
gram-positiveyes92.331yes
anaerobicno99.631no
aerobicyes96.017yes
halophileno88.341no
spore-formingno91.017yes
glucose-utilyes88.823yes
flagellatedno97.939yes
thermophileno99.125no
glucose-fermentno87.839no

External links

@ref: 65144

culture collection no.: DSM 103157, KCTC 39802, CFH S00084

straininfo link

  • @ref: 111265
  • straininfo: 401834

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny30575502Microbacterium ureisolvens sp. nov., isolated from a Yellow River sample.Cheng LJ, Ming H, Zhao ZL, Ji WL, Zhang LY, Li LY, Meng XL, Li M, Niu MM, Nie GXInt J Syst Evol Microbiol10.1099/ijsem.0.0032032018Actinobacteria/*classification/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rivers/*microbiology, Sequence Analysis, DNA, Vitamin K 2/chemistryTranscriptome
Phylogeny34491524Description of Microbacterium luteum sp. nov., Microbacterium cremeum sp. nov., and Microbacterium atlanticum sp. nov., three novel C50 carotenoid producing bacteria.Xie F, Niu S, Lin X, Pei S, Jiang L, Tian Y, Zhang GJ Microbiol10.1007/s12275-021-1186-52021Base Composition, Carotenoids/chemistry/*metabolism, DNA, Bacterial/genetics, Fatty Acids/chemistry/metabolism, Microbacterium/classification/genetics/*isolation & purification/*metabolism, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/microbiologyMetabolism

Reference

@idauthorstitledoi/urlcataloguejournal
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
65144Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-103157Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 103157)
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
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
67812Li-jiao Cheng, Hong Ming, Zhuo-Li Zhao, Wei-Li Ji, Ling-Yu Zhang, Lan-yu Li, Xiao-lin Meng, Meng Li, Ming-ming Niu, Guo-Xing NieMicrobacterium ureisolvens sp. nov., isolated from a Yellow River sample10.1099/ijsem.0.003203IJSEM 69: 560-566 2019
111265Reimer, 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-ID401834.1