Strain identifier

BacDive ID: 131254

Type strain: Yes

Species: Microvirga zambiensis

Strain history: <- HAMBI; HAMBI 3238 <- K. Lindström, HAMBI; LMG 26454 <- A. Willems, LMG; WSM3693 <- J.K. Ardley, Murdoch University, Australia; CB 1298 <- A. McInnes, CB <- W.C. Verboom

NCBI tax ID(s): 1402137 (species)

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General

@ref: 22481

BacDive-ID: 131254

DSM-Number: 28907

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

description: Microvirga zambiensis DSM 28907 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from Lotononis angolensis, nitrogen-fixing nodule.

NCBI tax id

  • NCBI tax id: 1402137
  • Matching level: species

strain history

  • @ref: 22481
  • history: <- HAMBI; HAMBI 3238 <- K. Lindström, HAMBI; LMG 26454 <- A. Willems, LMG; WSM3693 <- J.K. Ardley, Murdoch University, Australia; CB 1298 <- A. McInnes, CB <- W.C. Verboom

doi: 10.13145/bacdive131254.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Methylobacteriaceae
  • genus: Microvirga
  • species: Microvirga zambiensis
  • full scientific name: Microvirga zambiensis Ardley et al. 2012

@ref: 22481

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Methylobacteriaceae

genus: Microvirga

species: Microvirga zambiensis

full scientific name: Microvirga zambiensis Ardley et al. 2012

type strain: yes

Morphology

cell morphology

  • @ref: 30397
  • gram stain: negative
  • cell length: 1.6 µm
  • cell width: 0.45 µm
  • cell shape: rod-shaped
  • motility: yes

pigmentation

  • @ref: 30397
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 22481
  • name: MODIFIED YMA MEDIUM (HAMBI) (DSMZ Medium 1545)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1545
  • composition: Name: MODIFIED YMA MEDIUM (HAMBI) (DSMZ Medium 1545) Composition: Agar 20.0 g/l Mannitol 10.0 g/l Yeast extract 2.5 g/l K2HPO4 x 3 H2O 0.6 g/l MgSO4 x 7 H2O 0.2 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
22481positivegrowth28mesophilic
30397positivegrowth15-38
30397positiveoptimum35mesophilic

culture pH

@refabilitytypepHPH range
30397positivegrowth6-9.5alkaliphile
30397positiveoptimum7.75

Physiology and metabolism

oxygen tolerance

  • @ref: 30397
  • oxygen tolerance: aerobe

spore formation

  • @ref: 30397
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
30397NaClpositivegrowth0-1.5 %
30397NaClpositiveoptimum0.25 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3039730089acetate+carbon source
3039722599arabinose+carbon source
3039717057cellobiose+carbon source
3039728757fructose+carbon source
3039717234glucose+carbon source
3039729987glutamate+carbon source
3039717754glycerol+carbon source
3039729864mannitol+carbon source
3039730031succinate+carbon source
3039717632nitrate+reduction

enzymes

@refvalueactivityec
30397catalase+1.11.1.6
30397urease+3.5.1.5

Isolation, sampling and environmental information

isolation

  • @ref: 22481
  • sample type: Lotononis angolensis, nitrogen-fixing nodule
  • geographic location: Chibala (Fort Jameson)
  • country: Zambia
  • origin.country: ZMB
  • continent: Africa

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Herbaceous plants (Grass,Crops)
#Host Body-Site#Plant#Root nodule

Safety information

risk assessment

  • @ref: 22481
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 22481
  • description: Microvirga zambiensis WSM3693 16S ribosomal RNA gene, partial sequence
  • accession: HM362433
  • length: 1452
  • database: ena
  • NCBI tax ID: 864070

GC content

  • @ref: 30397
  • GC-content: 62.6

External links

@ref: 22481

culture collection no.: DSM 28907, CB 1298, HAMBI 3238, LMG 26454, WSM 3693

straininfo link

  • @ref: 89698
  • straininfo: 377641

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny22199210Microvirga lupini sp. nov., Microvirga lotononidis sp. nov. and Microvirga zambiensis sp. nov. are alphaproteobacterial root-nodule bacteria that specifically nodulate and fix nitrogen with geographically and taxonomically separate legume hosts.Ardley JK, Parker MA, De Meyer SE, Trengove RD, O'Hara GW, Reeve WG, Yates RJ, Dilworth MJ, Willems A, Howieson JGInt J Syst Evol Microbiol10.1099/ijs.0.035097-02011Bacterial Typing Techniques, DNA, Bacterial/genetics, Fabaceae/*microbiology, Fatty Acids/analysis, Methylobacteriaceae/*classification/genetics/isolation & purification, Molecular Sequence Data, Nitrogen Fixation, *Phylogeny, Plant Root Nodulation, Plant Roots/microbiology, RNA, Ribosomal, 16S/genetics, Texas, ZambiaGenetics
Phylogeny26671415Microvirga makkahensis sp. nov., and Microvirga arabica sp. nov., isolated from sandy arid soil.Veyisoglu A, Tatar D, Saygin H, Inan K, Cetin D, Guven K, Tuncer M, Sahin NAntonie Van Leeuwenhoek10.1007/s10482-015-0631-z2015Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry/metabolism, Methylobacteriaceae/classification/genetics/*isolation & purification/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Soil/chemistry, *Soil MicrobiologyMetabolism
Phylogeny27902203Microvirga soli sp. nov., an alphaproteobacterium isolated from soil.Dahal RH, Kim JInt J Syst Evol Microbiol10.1099/ijsem.0.0015822017Bacterial Typing Techniques, Base Composition, Bradyrhizobiaceae/genetics, DNA, Bacterial/genetics, Fatty Acids/analysis, Methylobacteriaceae/*classification/genetics/isolation & purification, Nucleic Acid Hybridization, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil MicrobiologyTranscriptome
Phylogeny27902217Microvirga ossetica sp. nov., a species of rhizobia isolated from root nodules of the legume species Vicia alpestris Steven.Safronova VI, Kuznetsova IG, Sazanova AL, Belimov AA, Andronov EE, Chirak ER, Osledkin YS, Onishchuk OP, Kurchak ON, Shaposhnikov AI, Willems A, Tikhonovich IAInt J Syst Evol Microbiol10.1099/ijsem.0.0015772017Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Methylobacteriaceae/*classification/genetics/isolation & purification, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Root Nodules, Plant/*microbiology, Russia, Sequence Analysis, DNA, Vicia/*microbiologyTranscriptome

Reference

@idauthorstitledoi/urlcatalogueID_cross_referencepubmed
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
22481Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-28907Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 28907)
30397Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172673428776041
89698Reimer, 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-ID377641.1