Strain identifier

BacDive ID: 17693

Type strain: Yes

Species: Nitriliruptor alkaliphilus

Strain Designation: ANL-iso2

Strain history: <- D. Y. Sorokin; ANL-iso2

NCBI tax ID(s): 1069448 (strain), 427918 (species)

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General

@ref: 15647

BacDive-ID: 17693

DSM-Number: 45188

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

description: Nitriliruptor alkaliphilus ANL-iso2 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from soda lake sediments.

NCBI tax id

NCBI tax idMatching level
1069448strain
427918species

strain history

  • @ref: 15647
  • history: <- D. Y. Sorokin; ANL-iso2

doi: 10.13145/bacdive17693.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Nitriliruptoria
  • order: Nitriliruptorales
  • family: Nitriliruptoraceae
  • genus: Nitriliruptor
  • species: Nitriliruptor alkaliphilus
  • full scientific name: Nitriliruptor alkaliphilus Sorokin et al. 2009

@ref: 15647

domain: Bacteria

phylum: Actinobacteria

class: Nitriliruptoria

order: Nitriliruptorales

family: Nitriliruptoraceae

genus: Nitriliruptor

species: Nitriliruptor alkaliphilus

full scientific name: Nitriliruptor alkaliphilus Sorokin et al. 2009 emend. Nouioui et al. 2018

strain designation: ANL-iso2

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
28940positive2.25 µm0.4 µmrod-shapedno
69480positive99.309

pigmentation

  • @ref: 28940
  • production: no

multimedia

@refmultimedia contentcaptionintellectual property rights
15647https://www.dsmz.de/microorganisms/photos/DSM_45188.jpgMedium 1105 28°C© Leibniz-Institut DSMZ
66793EM_DSM_45188_1.jpgelectron microscopic image© HZI/Manfred Rohde

Culture and growth conditions

culture medium

  • @ref: 15647
  • name: NITRILIRUPTOR ALKALIPHILUS MEDIUM (DSMZ Medium 1105)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1105
  • composition: Name: NITRILIRUPTOR ALKALIPHILUS MEDIUM (DSMZ Medium 1105) Composition: Na2CO3 22.0 g/l NaHCO3 8.0 g/l NaCl 6.0 g/l Isobutyramide 0.8712 g/l K2HPO4 0.5 g/l MgSO4 x 7 H2O 0.2 g/l EDTA 0.005 g/l FeSO4 x 7 H2O 0.002 g/l H3BO3 0.0003 g/l CoCl2 x 6 H2O 0.0002 g/l ZnSO4 0.0001 g/l Vitamin B12 0.0001 g/l MnCl2 3e-05 g/l NiCl2 x 2 H2O 2e-05 g/l Na2MoO4 x 2 H2O 2e-05 g/l None 2e-05 g/l CuCl2 1e-05 g/l Na2S2O3 x 5 H2O Distilled water

culture temp

@refgrowthtypetemperaturerange
15647positivegrowth28mesophilic
28940positivegrowth32mesophilic
28940positiveoptimum32mesophilic

culture pH

@refabilitytypepHPH range
28940positivegrowth8.2-10.6alkaliphile
28940positiveoptimum9.25

Physiology and metabolism

oxygen tolerance

  • @ref: 28940
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
28940no
69481no90
69480no99.965

halophily

@refsaltgrowthtested relationconcentration
28940NaClpositivegrowth0.38-11.6 %
28940NaClpositiveoptimum1.45 %

observation

  • @ref: 28940
  • observation: aggregates in clumps

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2894030089acetate+carbon source
2894022599arabinose+carbon source
2894017057cellobiose+carbon source
2894016947citrate+carbon source
2894028757fructose+carbon source
289405291gelatin+carbon source
2894017234glucose+carbon source
2894017754glycerol+carbon source
2894025115malate+carbon source
2894017306maltose+carbon source
2894037684mannose+carbon source
2894017268myo-inositol+carbon source
2894017272propionate+carbon source
2894015361pyruvate+carbon source
2894030031succinate+carbon source
2894017992sucrose+carbon source
2894027082trehalose+carbon source
2894031011valerate+carbon source
6836925115malate-assimilation
6836927689decanoate-assimilation
6836924265gluconate-assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose-assimilation
683695291gelatin-hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
28940catalase+1.11.1.6
28940cytochrome oxidase+1.9.3.1
68369gelatinase-
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
68382alkaline phosphatase-3.1.3.1
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382cystine arylamidase-3.4.11.3
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase-3.1.3.2
68382naphthol-AS-BI-phosphohydrolase-
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
15647--+/-+/--++/--+/--------+/----

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
15647-----+/--+--------+/--+/--

Isolation, sampling and environmental information

isolation

  • @ref: 15647
  • sample type: soda lake sediments
  • geographic location: s-w Siberia
  • country: Russia
  • origin.country: RUS
  • continent: Asia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Lake (large)
#Environmental#Aquatic#Sediment
#Condition#Alkaline

taxonmaps

  • @ref: 69479
  • File name: preview.99_5137.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_502;96_2500;97_3052;98_3830;99_5137&stattab=map
  • Last taxonomy: Nitriliruptor alkaliphilus subclade
  • 16S sequence: EF422408
  • Sequence Identity:
  • Total samples: 1696
  • soil counts: 705
  • aquatic counts: 391
  • animal counts: 536
  • plant counts: 64

Safety information

risk assessment

  • @ref: 15647
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 15647
  • description: Nitriliruptor alkaliphilus strain ANL-iso2 16S ribosomal RNA gene, partial sequence
  • accession: EF422408
  • length: 1425
  • database: ena
  • NCBI tax ID: 1069448

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Nitriliruptor alkaliphilus DSM 45188GCA_000969705scaffoldncbi1069448
66792Nitriliruptor alkaliphilus DSM 451881069448.9wgspatric1069448
66792Nitriliruptor alkaliphilus DSM 451882513020036draftimg1069448

GC content

@refGC-contentmethod
1564770.8thermal denaturation, midpoint method (Tm)
2894070.8

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno90no
motileno62.43yes
flagellatedno88.333yes
gram-positiveyes77.57no
anaerobicno96.565no
aerobicyes85.669yes
halophileno89.485yes
spore-formingno84.683yes
thermophileno93.508yes
glucose-utilyes86.751no
glucose-fermentno87.838no

External links

@ref: 15647

culture collection no.: DSM 45188, NBRC 105792, NCCB 100119, UNIQEM U239

straininfo link

  • @ref: 86684
  • straininfo: 403647

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19196761Nitriliruptor alkaliphilus gen. nov., sp. nov., a deep-lineage haloalkaliphilic actinobacterium from soda lakes capable of growth on aliphatic nitriles, and proposal of Nitriliruptoraceae fam. nov. and Nitriliruptorales ord. nov.Sorokin DY, van Pelt S, Tourova TP, Evtushenko LIInt J Syst Evol Microbiol10.1099/ijs.0.002204-02009Actinobacteria/*classification/genetics/*growth & development/metabolism/ultrastructure, Hydrogen-Ion Concentration, Molecular Sequence Data, Nitriles/*metabolism, Phylogeny, RNA, Ribosomal, 16S/genetics, *Water MicrobiologyMetabolism
Phylogeny19915105Euzebya tangerina gen. nov., sp. nov., a deeply branching marine actinobacterium isolated from the sea cucumber Holothuria edulis, and proposal of Euzebyaceae fam. nov., Euzebyales ord. nov. and Nitriliruptoridae subclassis nov.Kurahashi M, Fukunaga Y, Sakiyama Y, Harayama S, Yokota AInt J Syst Evol Microbiol10.1099/ijs.0.016543-02009Actinobacteria/chemistry/*classification/genetics/*isolation & purification, Animals, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Galactose/analysis, Holothuria/*microbiology, Japan, Molecular Sequence Data, Phylogeny, Pigments, Biological/biosynthesis, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Rhamnose/analysis, Sequence Analysis, DNAGenetics
Phylogeny26510781Egibacter rhizosphaerae gen. nov., sp. nov., an obligately halophilic, facultatively alkaliphilic actinobacterium and proposal of Egibaceraceae fam. nov. and Egibacterales ord. nov.Zhang YG, Wang HF, Yang LL, Zhou XK, Zhi XY, Duan YQ, Xiao M, Zhang YM, Li WJInt J Syst Evol Microbiol10.1099/ijsem.0.0007132015Actinobacteria/*classification/genetics/isolation & purification, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Molecular Sequence Data, Peptidoglycan/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Tamaricaceae/microbiology, Vitamin K 2/analogs & derivatives/chemistryGenetics
Phylogeny26552810Egicoccus halophilus gen. nov., sp. nov., a halophilic, alkalitolerant actinobacterium and proposal of Egicoccaceae fam. nov. and Egicoccales ord. nov.Zhang YG, Chen JY, Wang HF, Xiao M, Yang LL, Guo JW, Zhou EM, Zhang YM, Li WJInt J Syst Evol Microbiol10.1099/ijsem.0.0007492015Actinobacteria/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Genetics31820112Comparative genomics analysis of Nitriliruptoria reveals the genomic differences and salt adaptation strategies.Chen DD, Tian Y, Jiao JY, Zhang XT, Zhang YG, Dong ZY, Xiong MJ, Xiao M, Shu WS, Li WJExtremophiles10.1007/s00792-019-01150-32019Actinobacteria, Genomics, Phylogeny, *Salt TolerancePhylogeny

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
15647Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45188)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45188
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
28940Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2537928776041
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
68369Automatically annotated from API 20NE
68382Automatically annotated from API zym
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
86684Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID403647.1StrainInfo: A central database for resolving microbial strain identifiers