Strain identifier

BacDive ID: 2909

Type strain: Yes

Species: Brachymonas chironomi

Strain Designation: AIMA4

Strain history: <- M. Halpern, Department of Biology, University of Haifa; AIMA4

NCBI tax ID(s): 1121116 (strain), 491919 (species)

« back to strain detail view
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 2:
version 1:
version 8.1 (current version)

General

@ref: 8367

BacDive-ID: 2909

DSM-Number: 19884

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

description: Brachymonas chironomi AIMA4 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from chironomid egg mass.

NCBI tax id

NCBI tax idMatching level
1121116strain
491919species

strain history

  • @ref: 8367
  • history: <- M. Halpern, Department of Biology, University of Haifa; AIMA4

doi: 10.13145/bacdive2909.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Comamonadaceae
  • genus: Brachymonas
  • species: Brachymonas chironomi
  • full scientific name: Brachymonas chironomi Halpern et al. 2009

@ref: 8367

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Comamonadaceae

genus: Brachymonas

species: Brachymonas chironomi

full scientific name: Brachymonas chironomi Halpern et al. 2009

strain designation: AIMA4

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
29142negative2 µm0.975 µmovoid-shapedno
69480negative99.999

pigmentation

  • @ref: 29142
  • production: yes

multimedia

@refmultimedia contentcaptionintellectual property rights
66793EM_DSM_19884_1.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_19884_2.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_19884_3.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_19884_4.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_19884_5.jpgelectron microscopic image© HZI/Manfred Rohde

Culture and growth conditions

culture medium

  • @ref: 8367
  • name: NUTRIENT AGAR (DSMZ Medium 1)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1
  • composition: Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
8367positivegrowth28mesophilic
29142positivegrowth18-37
29142positiveoptimum30mesophilic

culture pH

@refabilitytypepHPH range
29142positivegrowth5.0-9.0alkaliphile
29142positiveoptimum6.0-8.0

Physiology and metabolism

oxygen tolerance

  • @ref: 29142
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.994

halophily

@refsaltgrowthtested relationconcentration
29142NaClpositivegrowth0-2.5 %
29142NaClpositiveoptimum0.5 %

observation

  • @ref: 29142
  • observation: aggregates in chains

enzymes

@refvalueactivityec
29142acid phosphatase+3.1.3.2
29142alkaline phosphatase+3.1.3.1
29142catalase+1.11.1.6
29142cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

  • @ref: 8367
  • sample type: chironomid egg mass
  • country: Israel
  • origin.country: ISR
  • continent: Asia

isolation source categories

Cat1Cat2Cat3
#Host#Arthropoda#Insecta
#Host Body Product#Urogenital tract#Egg

taxonmaps

  • @ref: 69479
  • File name: preview.99_47653.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_1;96_11035;97_27002;98_34376;99_47653&stattab=map
  • Last taxonomy: Brachymonas chironomi subclade
  • 16S sequence: EU346912
  • Sequence Identity:
  • Total samples: 1009
  • soil counts: 19
  • aquatic counts: 679
  • animal counts: 292
  • plant counts: 19

Safety information

risk assessment

  • @ref: 8367
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 8367
  • description: Brachymonas chironomi strain AIMA4 16S ribosomal RNA gene, partial sequence
  • accession: EU346912
  • length: 1501
  • database: ena
  • NCBI tax ID: 1121116

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Brachymonas chironomi DSM 19884GCA_000374625scaffoldncbi1121116
66792Brachymonas chironomi DSM 198841121116.3wgspatric1121116
66792Brachymonas chironomi DSM 198842518285616draftimg1121116

GC content

@refGC-contentmethod
836760high performance liquid chromatography (HPLC)
2914260

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno85.014yes
flagellatedno93.839yes
gram-positiveno98.812no
anaerobicno97.265yes
aerobicyes83.355no
halophileno91.302yes
spore-formingno96.49no
glucose-utilno83.836no
thermophileno95.56no
glucose-fermentno91.077no

External links

@ref: 8367

culture collection no.: DSM 19884, LMG 24400

straininfo link

  • @ref: 72432
  • straininfo: 323188

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19643891Brachymonas chironomi sp. nov., isolated from a chironomid egg mass, and emended description of the genus Brachymonas.Halpern M, Shaked T, Schumann PInt J Syst Evol Microbiol10.1099/ijs.0.007211-02009Animals, Chironomidae/*microbiology, Comamonadaceae/*classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry/metabolism, Molecular Sequence Data, Ovum/*microbiology, Phylogeny, RNA, Ribosomal, 16S/geneticsMetabolism
Genetics26203340High quality draft genome sequence of Brachymonas chironomi AIMA4(T) (DSM 19884(T)) isolated from a Chironomus sp. egg mass.Laviad S, Lapidus A, Han J, Haynes M, Reddy T, Huntemann M, Pati A, Ivanova NN, Mavromatis K, Lang E, Rohde M, Markowitz V, Woyke T, Klenk HP, Kyrpides NC, Halpern MStand Genomic Sci10.1186/s40793-015-0010-42015

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
8367Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19884)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19884
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
29142Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2556628776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
66793Mukherjee et al.10.1038/nbt.3886GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life28604660 35: 676-683 2017
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
72432Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID323188.1StrainInfo: A central database for resolving microbial strain identifiers