Strain identifier

BacDive ID: 133752

Type strain: Yes

Species: Microvirga lupini

Strain Designation: Lut6

NCBI tax ID(s): 420324 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 8.1 (current version)

General

@ref: 30397

BacDive-ID: 133752

keywords: genome sequence, Bacteria, aerobe, Gram-negative, rod-shaped

description: Microvirga lupini Lut6 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from plant associated.

NCBI tax id

  • NCBI tax id: 420324
  • Matching level: species

doi: 10.13145/bacdive133752.20230509.8.1

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 lupini
  • full scientific name: Microvirga lupini Ardley et al. 2012

@ref: 30397

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Hyphomicrobiales

family: Methylobacteriaceae

genus: Microvirga

species: Microvirga lupini

strain designation: Lut6

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: no

pigmentation

  • @ref: 30397
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
30397positivegrowth10-43
30397positiveoptimum39mesophilic

culture pH

@refabilitytypepHPH range
30397positivegrowth5.5-9.5alkaliphile
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
3039722599arabinose+carbon source
3039717057cellobiose+carbon source
3039716236ethanol+carbon source
3039728757fructose+carbon source
3039717234glucose+carbon source
3039717754glycerol+carbon source
3039730031succinate+carbon source

enzymes

@refvalueactivityec
30397catalase+1.11.1.6
30397urease+3.5.1.5

Isolation, sampling and environmental information

isolation

  • @ref: 30397
  • sample type: plant associated

isolation source categories

  • Cat1: #Host
  • Cat2: #Plants

Sequence information

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Microvirga lupini Lut6GCA_000517005scaffoldncbi420324
66792Microvirga lupini Lut62508501050draftimg420324

GC content

  • @ref: 30397
  • GC-content: 61.9

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes80.225no
flagellatedno82.52yes
gram-positiveno97.678yes
anaerobicno98.584yes
halophileno90.867no
spore-formingno93.72yes
thermophileno98.107yes
glucose-utilyes92.804yes
aerobicyes93.941yes
glucose-fermentno91.843no

External links

@ref: 30397

culture collection no.: LMG 26460, HAMBI 3236

straininfo link

  • @ref: 91584
  • straininfo: 377737

literature

  • topic: Phylogeny
  • Pubmed-ID: 22199210
  • title: Microvirga 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.
  • authors: Ardley JK, Parker MA, De Meyer SE, Trengove RD, O'Hara GW, Reeve WG, Yates RJ, Dilworth MJ, Willems A, Howieson JG
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.035097-0
  • year: 2011
  • mesh: Bacterial 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, Zambia
  • topic2: Genetics

Reference

@idauthorstitledoi/urlID_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
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
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
91584Reimer, 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-ID377737.1