Strain identifier

BacDive ID: 140847

Type strain: Yes

Species: Mycoavidus cysteinexigens

Strain Designation: B1-EB

Strain history: H. Ohta; Ibaraki Univ., Japan; B1-EB.

NCBI tax ID(s): 1553431 (species)

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General

@ref: 43655

BacDive-ID: 140847

keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-negative, rod-shaped, colony-forming

description: Mycoavidus cysteinexigens B1-EB is an aerobe, Gram-negative, rod-shaped bacterium that forms irregular colonies and was isolated from the fungus Mortierella elongata strain FMR23-6 which was isolated from cropland soil samples.

NCBI tax id

  • NCBI tax id: 1553431
  • Matching level: species

strain history

  • @ref: 67770
  • history: H. Ohta; Ibaraki Univ., Japan; B1-EB.

doi: 10.13145/bacdive140847.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Burkholderiaceae
  • genus: Mycoavidus
  • species: Mycoavidus cysteinexigens
  • full scientific name: Mycoavidus cysteinexigens Ohshima et al. 2016

@ref: 43655

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Burkholderiaceae

genus: Mycoavidus

species: Mycoavidus cysteinexigens

strain designation: B1-EB

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
43655negative1.2-1.8 µm0.5-0.7 µmrod-shapedno
69480negative99.988

colony morphology

  • @ref: 43655
  • colony color: White to cream
  • colony shape: irregular
  • medium used: B-CYEalpha agar plates

Culture and growth conditions

culture medium

  • @ref: 43655
  • name: B-CYE alpha agar plates
  • growth: yes

culture temp

@refgrowthtypetemperaturerange
43655positivegrowth4-35
67770positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 43655
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no96
69480no99.999

observation

  • @ref: 43655
  • observation: Cysteine is required for growth

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4365517128adipate-assimilation
4365522599arabinose-assimilation
4365527689decanoate-assimilation
4365516947citrate-assimilation
4365525115malate-assimilation
4365524265gluconate-assimilation
4365517234glucose-assimilation
4365517306maltose-assimilation
4365529864mannitol-assimilation
4365537684mannose-assimilation
43655506227N-acetylglucosamine-assimilation
4365518401phenylacetate-assimilation
4365517632nitrate-reduction

metabolite production

  • @ref: 43655
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
43655arginine dihydrolase-3.5.3.6
43655urease-3.5.1.5
43655beta-glucosidase-3.2.1.21
43655gelatinase-
43655beta-galactosidase-3.2.1.23
43655alkaline phosphatase-3.1.3.1
43655esterase Lipase (C 8)-
43655lipase (C 14)-
43655valine arylamidase-
43655cystine arylamidase-3.4.11.3
43655trypsin-3.4.21.4
43655alpha-chymotrypsin-3.4.21.1
43655acid phosphatase-3.1.3.2
43655alpha-galactosidase-3.2.1.22
43655beta-glucuronidase-3.2.1.31
43655alpha-glucosidase-3.2.1.20
43655N-acetyl-beta-glucosaminidase-3.2.1.52
43655alpha-mannosidase-3.2.1.24
43655alpha-fucosidase-3.2.1.51
43655esterase (C 4)+
43655leucine arylamidase+3.4.11.1
43655naphthol-AS-BI-phosphohydrolase+
43655cytochrome oxidase-1.9.3.1
43655catalase-1.11.1.6

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    43655C17:1ω8c5.7
    43655C18:1ω9c20.9
    43655C15:0 iso9.9
    43655C16:0 iso27.4
    43655C17:0 iso7.7
    43655C17:1 iso ω9c / C16:0 10-methyl5.9
  • type of FA analysis: whole cell analysis
  • incubation medium: B-CYEalpha agar plate medium
  • agar/liquid: agar
  • incubation temperature: 30
  • incubation time: 3
  • incubation_oxygen: aerobic
  • software version: Sherlock 6.0
  • library/peak naming table: TSBA6
  • system: MIS MIDI
  • instrument: 7890A Agilent
  • cutoff value:

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinenthost species
43655the fungus Mortierella elongata strain FMR23-6 which was isolated from cropland soil samplesJapanJapanJPNAsia
67770Fungal cell homogenate of the fungus Mortierella elongata strain FMR23-6 I-B1Mortierella elongata

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Host#Fungi

taxonmaps

  • @ref: 69479
  • File name: preview.99_3745.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_12;96_1925;97_2316;98_2859;99_3745&stattab=map
  • Last taxonomy: Burkholderiaceae
  • 16S sequence: LC005489
  • Sequence Identity:
  • Total samples: 4728
  • soil counts: 2920
  • aquatic counts: 186
  • animal counts: 836
  • plant counts: 786

Sequence information

16S sequences

  • @ref: 43655
  • description: 16S rRNA gene sequence
  • accession: LC005489
  • database: nuccore

Genome sequences

  • @ref: 66792
  • description: Mycoavidus cysteinexigens B1EB
  • accession: GCA_003966915
  • assembly level: complete
  • database: ncbi
  • NCBI tax ID: 1553431

GC content

  • @ref: 67770
  • GC-content: 49.8
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno96no
motileno78.266yes
flagellatedno93.929yes
gram-positiveno98.188no
anaerobicno94.967yes
aerobicno71.707no
halophileno90.481no
spore-formingno95.182no
thermophileno91.404yes
glucose-utilno82.508yes
glucose-fermentno83.914no

External links

@ref: 43655

culture collection no.: JCM 30646, LMG 28693, NBRC 110909

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny26920389Mycoavidus cysteinexigens gen. nov., sp. nov., an endohyphal bacterium isolated from a soil isolate of the fungus Mortierella elongata.Ohshima S, Sato Y, Fujimura R, Takashima Y, Hamada M, Nishizawa T, Narisawa K, Ohta HInt J Syst Evol Microbiol10.1099/ijsem.0.0009902016Bacterial Typing Techniques, Base Composition, Burkholderiaceae/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Japan, *Mortierella, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistryTranscriptome
Genetics29540638Comparative Genomic Insights into Endofungal Lifestyles of Two Bacterial Endosymbionts, Mycoavidus cysteinexigens and Burkholderia rhizoxinica.Sharmin D, Guo Y, Nishizawa T, Ohshima S, Sato Y, Takashima Y, Narisawa K, Ohta HMicrobes Environ10.1264/jsme2.ME171382018Burkholderia/*genetics/physiology, Burkholderiaceae/*genetics/physiology, Comparative Genomic Hybridization, Fungi/*physiology, Genome, Bacterial, Metagenome, Phylogeny, Sequence Analysis, DNA, *SymbiosisPhylogeny
Phylogeny34287117'Candidatus Xiphinematincola pachtaicus' gen. nov., sp. nov., an endosymbiotic bacterium associated with nematode species of the genus Xiphinema (Nematoda, Longidoridae).Palomares-Rius JE, Gutierrez-Gutierrez C, Mota M, Bert W, Claeys M, Yushin VV, Suzina NE, Ariskina EV, Evtushenko LI, Subbotin SA, Castillo PInt J Syst Evol Microbiol10.1099/ijsem.0.0048882021Animals, Bacterial Typing Techniques, Base Composition, Burkholderiaceae/*classification/isolation & purification, Citrus/parasitology, DNA, Bacterial/genetics, Fatty Acids/chemistry, Female, Genes, Bacterial, In Situ Hybridization, Fluorescence, Nematoda/*microbiology, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhizosphere, Sequence Analysis, DNA, Spain, *SymbiosisTranscriptome

Reference

@idauthorstitledoi/urljournalpubmed
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
43655Shoko Ohshima, Yoshinori Sato, Reiko Fujimura, Yusuke Takashima, Moriyuki Hamada, Tomoyasu Nishizawa, Kazuhiko Narisawa, Hiroyuki OhtaMycoavidus cysteinexigens gen. nov., sp. nov., an endohyphal bacterium isolated from a soil isolate of the fungus Mortierella elongata10.1099/ijsem.0.000990IJSEM 66: 2052-2057 201626920389
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
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa1025Nucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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