Strain identifier

BacDive ID: 24644

Type strain: Yes

Species: Marininema halotolerans

Strain history: <- S.-K. Tang, Yunnan Univ., Yunnan Inst. Microbiol. (YIM), Kunming, China; YIM M11385 <- J. He

NCBI tax ID(s): 1155944 (species)

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General

@ref: 21234

BacDive-ID: 24644

DSM-Number: 45789

keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, Gram-positive

description: Marininema halotolerans DSM 45789 is an aerobe, spore-forming, Gram-positive bacterium that was isolated from marine sediment.

NCBI tax id

  • NCBI tax id: 1155944
  • Matching level: species

strain history

  • @ref: 21234
  • history: <- S.-K. Tang, Yunnan Univ., Yunnan Inst. Microbiol. (YIM), Kunming, China; YIM M11385 <- J. He

doi: 10.13145/bacdive24644.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Thermoactinomycetaceae
  • genus: Marininema
  • species: Marininema halotolerans
  • full scientific name: Marininema halotolerans Zhang et al. 2013

@ref: 21234

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Thermoactinomycetaceae

genus: Marininema

species: Marininema halotolerans

full scientific name: Marininema halotolerans Zhang et al. 2013

type strain: yes

Morphology

cell morphology

@refgram stainconfidence
31101positive
69480positive100

pigmentation

  • @ref: 31101
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
31101positivegrowth25-42
31101positiveoptimum28mesophilic

culture pH

@refabilitytypepH
31101positivegrowth6.0-8.0
31101positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 31101
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
31101yes
69481yes100
69480yes99.743

halophily

  • @ref: 31101
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3110116449alanine+carbon source
3110129016arginine+carbon source
3110122653asparagine+carbon source
3110117057cellobiose+carbon source
3110129987glutamate+carbon source
3110115428glycine+carbon source
3110127570histidine+carbon source
3110125115malate+carbon source
3110126986threonine+carbon source
3110127082trehalose+carbon source
3110117151xylitol+carbon source

enzymes

  • @ref: 31101
  • value: catalase
  • activity: +
  • ec: 1.11.1.6

Isolation, sampling and environmental information

isolation

  • @ref: 21234
  • sample type: marine sediment
  • geographic location: Indian Ocean, Little Andaman Island, South Bay
  • country: India
  • origin.country: IND
  • continent: Asia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Sediment

taxonmaps

  • @ref: 69479
  • File name: preview.99_148468.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_358;96_7734;97_9289;98_11402;99_148468&stattab=map
  • Last taxonomy: Marininema halotolerans
  • 16S sequence: KC684888
  • Sequence Identity:
  • Total samples: 821
  • soil counts: 393
  • aquatic counts: 69
  • animal counts: 313
  • plant counts: 46

Safety information

risk assessment

  • @ref: 21234
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 21234
  • description: Marininema halotolerans strain YIM M11385 16S ribosomal RNA gene, partial sequence
  • accession: KC684888
  • length: 1549
  • database: ena
  • NCBI tax ID: 1155944

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Marininema halotolerans DSM 45789GCA_900116235scaffoldncbi1155944
66792Marininema halotolerans strain DSM 457891155944.3wgspatric1155944
66792Marininema halotolerans DSM 457892675903148draftimg1155944

GC content

@refGC-contentmethod
2123446.64high performance liquid chromatography (HPLC)
3110146.64

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileno85.11no
flagellatedno94.518no
gram-positiveyes89.908yes
anaerobicno99.225yes
aerobicyes93.63yes
halophileno76.024no
spore-formingyes94.582no
glucose-fermentno92.945no
thermophileyes71.015yes
glucose-utilyes88.313no

External links

@ref: 21234

culture collection no.: DSM 45789, CCTCC AB 2012052, YIM M11385

literature

  • topic: Phylogeny
  • Pubmed-ID: 23907227
  • title: Marininema halotolerans sp. nov., a novel thermoactinomycete isolated from a sediment sample, and emended description of the genus Marininema Li et al. 2012.
  • authors: Zhang XM, He J, Zhang DF, Chen W, Jiang Z, Sahu MK, Sivakumar K, Li WJ
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.052142-0
  • year: 2013
  • mesh: Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Gram-Positive Bacteria/*classification/genetics/isolation & purification, India, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry
  • 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
21234Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-45789Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45789)
31101Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172743028776041
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
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