Strain identifier

BacDive ID: 130529

Type strain: Yes

Species: Mesorhizobium silamurunense

Strain history: <- LMG <- W. X. Chen <- C. Zhao, State Key Laboratory for Agrobiotechnol., China Agricultural Univ., Beijing, PR China; CCBAU 01550

NCBI tax ID(s): 499528 (species)

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General

@ref: 22037

BacDive-ID: 130529

DSM-Number: 29845

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

description: Mesorhizobium silamurunense DSM 29845 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from root nodules of Astragalus membranaceus.

NCBI tax id

  • NCBI tax id: 499528
  • Matching level: species

strain history

  • @ref: 22037
  • history: <- LMG <- W. X. Chen <- C. Zhao, State Key Laboratory for Agrobiotechnol., China Agricultural Univ., Beijing, PR China; CCBAU 01550

doi: 10.13145/bacdive130529.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Phyllobacteriaceae
  • genus: Mesorhizobium
  • species: Mesorhizobium silamurunense
  • full scientific name: Mesorhizobium silamurunense Zhao et al. 2012

@ref: 22037

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Phyllobacteriaceae

genus: Mesorhizobium

species: Mesorhizobium silamurunense

full scientific name: Mesorhizobium silamurunense Zhao et al. 2012

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
30226negative3.1 µm1.5 µmrod-shapedyes
69480yes92.823
69480negative99.891

colony morphology

  • @ref: 22037
  • incubation period: 2-3 days

pigmentation

  • @ref: 30226
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 22037
  • name: RHIZOBIUM MEDIUM (DSMZ Medium 98)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/98
  • composition: Name: RHIZOBIUM MEDIUM (DSMZ Medium 98) Composition: air-dried garden soil 80.0 g/l Agar 15.0 g/l Mannitol 10.0 g/l Yeast extract 1.0 g/l Na2CO3 0.2 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
22037positivegrowth30mesophilic
30226positivegrowth28-40
30226positiveoptimum28mesophilic

culture pH

  • @ref: 30226
  • ability: positive
  • type: optimum
  • pH: 7

Physiology and metabolism

oxygen tolerance

  • @ref: 30226
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
30226no
69481no100
69480no99.989

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3022628757fructose+carbon source
3022628260galactose+carbon source
3022617234glucose+carbon source
3022617306maltose+carbon source
3022637684mannose+carbon source
3022628053melibiose+carbon source
3022626546rhamnose+carbon source
3022630911sorbitol+carbon source
3022617992sucrose+carbon source
3022627082trehalose+carbon source
3022618222xylose+carbon source
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate-assimilation
6836917306maltose+assimilation
6836959640N-acetylglucosamine+assimilation
6836916899D-mannitol+assimilation
6836930849L-arabinose+assimilation
6836917634D-glucose+assimilation
683695291gelatin-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction

metabolite production

@refChebi-IDmetaboliteproduction
3022635581indoleyes
6836935581indoleno

metabolite tests

@refChebi-IDmetaboliteindole test
3022635581indole+
6836935581indole-

enzymes

@refvalueactivityec
22037cytochrome-c oxidase+1.9.3.1
30226catalase+1.11.1.6
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369arginine dihydrolase-3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
22037-----+-+++++++---+--+
22037----+/----++-+++---+/---

Isolation, sampling and environmental information

isolation

  • @ref: 22037
  • sample type: root nodules of Astragalus membranaceus
  • host species: Astragalus membranaceus
  • geographic location: Inner Mongolia
  • country: China
  • origin.country: CHN
  • continent: Asia

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Shrub (Scrub)
#Host Body-Site#Plant#Root nodule

taxonmaps

  • @ref: 69479
  • File name: preview.99_315.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_220;97_239;98_268;99_315&stattab=map
  • Last taxonomy: Mesorhizobium
  • 16S sequence: FJ824659
  • Sequence Identity:
  • Total samples: 49047
  • soil counts: 28701
  • aquatic counts: 8865
  • animal counts: 7451
  • plant counts: 4030

Safety information

risk assessment

  • @ref: 22037
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
30226Mesorhizobium silamurunense strain CCBAU 45272 16S ribosomal RNA gene, partial sequenceFJ8246591348nuccore499528
22037Mesorhizobium silamurunense strain CCBAU 01550 16S ribosomal RNA gene, partial sequenceEU3996981348ena499528

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Mesorhizobium silamurunense CCBAU 01550GCA_014843825contigncbi499528
66792Mesorhizobium silamurunense strain CCBAU 01550499528.4wgspatric499528

GC content

@refGC-contentmethod
3022662.4
2203762.4thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
gram-positiveno97.457yes
anaerobicno98.829no
halophileno94.045no
spore-formingno94.137yes
glucose-utilyes91.084yes
aerobicyes89.448no
thermophileno98.962no
motileyes86.67yes
flagellatedno85.509no
glucose-fermentno90.841no

External links

@ref: 22037

culture collection no.: DSM 29845, CCBAU 01550, HAMBI 3029, LMG 24822

straininfo link

  • @ref: 89052
  • straininfo: 359613

literature

  • topic: Phylogeny
  • Pubmed-ID: 22058324
  • title: Mesorhizobium silamurunense sp. nov., isolated from root nodules of Astragalus species.
  • authors: Zhao CT, Wang ET, Zhang YM, Chen WF, Sui XH, Chen WX, Liu HC, Zhang XX
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.031229-0
  • year: 2011
  • mesh: Astragalus Plant/*microbiology, Bacterial Typing Techniques, China, DNA, Bacterial/genetics, Fatty Acids/analysis, Genes, Bacterial, Mesorhizobium/*classification/genetics/isolation & purification, Molecular Sequence Data, *Phylogeny, Plant Root Nodulation, Plant Roots/microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
  • topic2: Genetics

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
22037Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-29845Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 29845)
30226Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172656928776041
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
68369Automatically annotated from API 20NE
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
89052Reimer, 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-ID359613.1