Name: Pseudonocardia halophobica SS1/1 (as Nocardia sp.)
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 13360

Type strain:

Species: Pseudonocardia halophobica

Strain Designation: SS1/1 (as Nocardia sp.), SS1/1 (as Nocardia sp.)

Culture col. no.: DSM 43089, ATCC 51535, DSM 656, IMRU 1300, JCM 9421, NRRL B-16064, VKM Ac-1069, CGMCC 4.1288, IFO 15048, IMSNU 21327, KCTC 9296, NBRC 15048, NCIMB 13212, NRRL B-16514

Strain history: DSM 43089 <-- R. E. Gordon IMRU 1300 <-- M. P. Lechevalier SS1/1.

NCBI tax ID(s): 471802 (strain), 29401 (species)

SI-ID 88631

ATCC 51535, DSM 43089, DSM 656, NRRL B-16064, VKM Ac-1069, JCM 9421, IFO 15048, NRRL B-16514, NCIMB 13212, KCTC 9296, NBRC 15048, CGMCC 4.1288

Special Collections

Other strains from Pseudonocardia halophobica

Section

Name and taxonomic classification

Morphology

Culture and growth conditions

Physiology and metabolism

Isolation, sampling and environmental information

Safety information

Sequence information

External links

Search for species Pseudonocardia halophobica in external resources:

SILVA

BRENDA

PANGAEA

GBIF

Pseudonocardia halophobica SS1/1 is a spore-forming bacterium that builds an aerial mycelium and was isolated from soil.

spore-forming

16S sequence

Bacteria

Information on the name and the taxonomic classification. Name and taxonomic classification

Last LPSN update 14-12-2023 (DD-MM-YYYY)

Domain "Bacteria"

Phylum Actinomycetota

Class Actinomycetes

Order Pseudonocardiales

Family Pseudonocardiaceae

Genus Pseudonocardia

Species Pseudonocardia halophobica

Full Scientific Name (LPSN) Pseudonocardia halophobica (Akimov et al. 1989) McVeigh et al. 1994

Synonym Pseudoamycolata halophobica

Information on morphological and physiological properties Morphology

[Ref.: #19937] Colony color Melony yellow (1028)

[Ref.: #19937] Incubation period 10-14 days

[Ref.: #19937] Cultivation medium used ISP 2

[Ref.: #19937] Colony color Colorless

[Ref.: #19937] Incubation period 10-14 days

[Ref.: #19937] Cultivation medium used ISP 3

[Ref.: #19937] Colony color Colorless

[Ref.: #19937] Incubation period 10-14 days

[Ref.: #19937] Cultivation medium used ISP 4

[Ref.: #19937] Colony color Melony yellow (1028)

[Ref.: #19937] Incubation period 10-14 days

[Ref.: #19937] Cultivation medium used ISP 5

[Ref.: #19937] Colony color Melony yellow (1028)

[Ref.: #19937] Incubation period 10-14 days

[Ref.: #19937] Cultivation medium used ISP 6

[Ref.: #19937] Colony color Melony yellow (1028)

[Ref.: #19937] Incubation period 10-14 days

[Ref.: #19937] Cultivation medium used ISP 7

[Ref.: #19937] Multicellular complex forming ability yes

[Ref.: #19937] Multicellular complex name Aerial Mycelium

[Ref.: #19937] Multicellular complex color Dusty grey (7037)

[Ref.: #19937] Medium Name (multicellularity) ISP 2

[Ref.: #19937] Multicellular complex forming ability yes

[Ref.: #19937] Multicellular complex name Aerial Mycelium

[Ref.: #19937] Multicellular complex color Dusty grey (7037)

[Ref.: #19937] Medium Name (multicellularity) ISP 3

[Ref.: #19937] Multicellular complex forming ability yes

[Ref.: #19937] Multicellular complex name Aerial Mycelium

[Ref.: #19937] Multicellular complex color Dusty grey (7037)

[Ref.: #19937] Medium Name (multicellularity) ISP 4

[Ref.: #19937] Multicellular complex forming ability yes

[Ref.: #19937] Multicellular complex name Aerial Mycelium

[Ref.: #19937] Multicellular complex color Dusty grey (7037)

[Ref.: #19937] Medium Name (multicellularity) ISP 5

[Ref.: #19937] Multicellular complex forming ability no

[Ref.: #19937] Medium Name (multicellularity) ISP 6

[Ref.: #19937] Multicellular complex forming ability yes

[Ref.: #19937] Multicellular complex name Aerial Mycelium

[Ref.: #19937] Multicellular complex color Dusty grey (7037)

[Ref.: #19937] Medium Name (multicellularity) ISP 7

Information on culture and growth conditions Culture and growth conditions

[Ref.: #10752] Culture medium

GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)

[Ref.: #10752] Culture medium growth

[Ref.: #10752] Culture medium link Medium recipe at MediaDive

[Ref.: #10752] Culture medium composition expand / minimize

Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)
Composition:
Agar 18.0 g/l
Malt extract 10.0 g/l
Yeast extract 4.0 g/l
Glucose 4.0 g/l
CaCO3 2.0 g/l
Distilled water

[Ref.: #19937] Culture medium

ISP 2

[Ref.: #19937] Culture medium growth

[Ref.: #19937] Culture medium composition expand / minimize

Name: ISP 2 / Yeast Malt Agar (5265); 5265
Composition
Malt extract 10.0 g/l
Yeast extract 4.0 g/l
Glucose 4.0 g/l
Agar 15.0 g/l
Preparation:
Sterilisation: 20 minutes at 121°C
pH before sterilisation: 7.0
Usage: Maintenance and Taxonomy
Organisms: All Actinomycetes

[Ref.: #19937] Culture medium

ISP 7

[Ref.: #19937] Culture medium growth

[Ref.: #19937] Culture medium composition expand / minimize

Name: ISP 7 (5322)
Composition
Glycerol 15.0 g/l
L-Tyrosine 0.5 g/l
L-Asparagine 1.0 g/l
K2HPO4 0.5 g/l
NaCl 0.5 g/l
FeSO4 x 7 H2O 0.01 g/l
Trace element solution 5343 1.0 ml/l
Agar 20.0
Sterilisation:
20 minutes at 121°C
pH before sterilisation:
7.3
Usage:
Production of melanoid pigments
Organisms:
All Actinomycetes

[Ref.: #19937] Culture medium

ISP 6

[Ref.: #19937] Culture medium growth

[Ref.: #19937] Culture medium composition expand / minimize

Name: ISP 6 (5318)
Composition
Peptone 15.0 g/l
Proteose peptose 5.0 g/l
Ferric ammonium citrate 0.5 g/l
Sodium glycerophosphate 1.0 g/l
Sodium thiosulfate 0.08 g/l
Yeast extract 1.0 g/l
Agar 15.0 g/l
Sterilisation:
20 minutes at 121°C
pH before sterilisation:
Usage: Production of melanoid pigments
Organisms:
All Actinomycetes

[Ref.: #19937] Culture medium

ISP 5

[Ref.: #19937] Culture medium growth

[Ref.: #19937] Culture medium composition expand / minimize

Name: ISP 5 (5323)
Composition
L-Asparagine 1.0 g/l
Glycerol 10.0 g/l
K2HPO4 1.0 g/l
Salt solution (see preparation) 1.0 ml/l
Agar 20.0 g/l
Preparation:
Salt solution
1.0 g FeSO4 x 7 H2O
1.0 g MnCl2 x 4 H2O
1.0 g ZNSO4 x 7 H2O
in 100 ml water
Sterilisation:
20 minutes at 121°C
pH before sterilisation:
7.2
Usage:
Maintenance and taxonomy
Organisms:
All Actinomycetes

[Ref.: #19937] Culture medium

ISP 4

[Ref.: #19937] Culture medium growth

[Ref.: #19937] Culture medium composition expand / minimize

Name: ISP 4; DSM 547

Solution I:
Difco soluble starch, 10.0 g.
Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml.

Solution II:
CaCO3 2.0 g
K2HPO4 (anhydrous) 1.0 g
MgSO4 x 7 H2O 1.0 g
NaCl 1.0 g
(NH4)2SO4 2.0 g
Distilled water 500.0 ml
Trace salt solution (see below) 1.0 ml

The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min.

Trace element solution:
FeSO4 x 7 H2O 0.1 g
MnCl2 x 4 H2O 0.1 g
ZnSO4 x 7 H2O 0.1 g
Distilled water 100.0 ml

[Ref.: #19937] Culture medium

ISP 3

[Ref.: #19937] Culture medium growth

[Ref.: #19937] Culture medium composition expand / minimize

Name: ISP 3; 5315
Composition
Dog oat flakes 20.0 g/l
Trace element solution (5314) 2.5 ml/l
Agar 18.0 g/l
Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated).
Sterilisation: 20 minutes at 121°C
pH before sterilisation: 7.8
Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production)
Organisms: All Actinomycetes

Trace element solution 5314

Name: Trace element solution 5314; 5314
Composition
CaCl2 x H2O 3.0 g/l
Fe-III-citrate 1.0 g/l
MnSO4 0.2 g/l
ZnCl2 0.1 g/l
CuSO4 x 5 H2O 0.025 g/l
Sodium tetra borate 0.2 g/l
CoCl2 x 6 H2O 0.004 g/l
Sodium molybdate 0.01 g/l
Preparation: Use double destillated water.
Sterilisation: 20 minutes at 121°C
pH before sterilisation:
Usage: Trace element solution for different media
Organisms:

Temperatures Kind of temperature Temperature

[Ref.: #10752] growth 28 °C

[Ref.: #19937] optimum 28 °C

[Ref.: #67770] growth 28 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #19937] Spore description Formation of spore chains, spore surface smooth

[Ref.: #19937] Ability of spore formation yes

Halophily Salt Tested relation Salt conc.

[Ref.: #19937] NaCl growth 0 %

[Ref.: #67770] Observation quinones: MK-8(H₄)

Metabolite utilization Metabolite Utilization activity Kind of utilization tested

[Ref.: #19937] arabinose ChEBI +

[Ref.: #68368] arginine ChEBI - hydrolysis * from API 20E

[Ref.: #19937] cellulose ChEBI -

[Ref.: #68368] citrate ChEBI - assimilation * from API 20E

[Ref.: #19937] fructose ChEBI -

[Ref.: #68368] gelatin ChEBI + hydrolysis * from API 20E

[Ref.: #19937] glucose ChEBI +

[Ref.: #68368] lysine ChEBI - degradation * from API 20E

[Ref.: #19937] mannitol ChEBI +

[Ref.: #19937] myo-inositol ChEBI -

[Ref.: #68368] ornithine ChEBI - degradation * from API 20E

[Ref.: #19937] raffinose ChEBI -

[Ref.: #19937] rhamnose ChEBI -

[Ref.: #19937] sucrose ChEBI -

[Ref.: #68368] tryptophan ChEBI - energy source * from API 20E

[Ref.: #68368] urea ChEBI + hydrolysis * from API 20E

[Ref.: #19937] xylose ChEBI -

Only first 10 entries are displayed. Click here to see all.

Metabolite production Metabolite Production

[Ref.: #68368] acetoin ChEBI yes * from API 20E

[Ref.: #68368] hydrogen sulfide ChEBI no * from API 20E

[Ref.: #68368] indole ChEBI no * from API 20E

Physiological tests Metabolite Voges-Proskauer-test Indole test

[Ref.: #68368] acetoin ChEBI + * from API 20E

[Ref.: #68368] indole ChEBI - * from API 20E

Enzymes Enzyme Enzyme activity EC number

[Ref.: #68382] acid phosphatase + 3.1.3.2 * from API zym

[Ref.: #68382] alkaline phosphatase + 3.1.3.1 * from API zym

[Ref.: #68382] alpha-chymotrypsin - 3.4.21.1 * from API zym

[Ref.: #68382] alpha-fucosidase - 3.2.1.51 * from API zym

[Ref.: #68382] alpha-galactosidase - 3.2.1.22 * from API zym

[Ref.: #68382] alpha-glucosidase + 3.2.1.20 * from API zym

[Ref.: #68382] alpha-mannosidase + 3.2.1.24 * from API zym

[Ref.: #68368] arginine dihydrolase - 3.5.3.6 * from API 20E

[Ref.: #68382] beta-galactosidase + 3.2.1.23 * from API zym

[Ref.: #68368] beta-galactosidase - 3.2.1.23 * from API 20E

[Ref.: #68382] beta-glucosidase + 3.2.1.21 * from API zym

[Ref.: #68382] beta-glucuronidase - 3.2.1.31 * from API zym

[Ref.: #68382] cystine arylamidase - 3.4.11.3 * from API zym

[Ref.: #68382] esterase (C 4) + * from API zym

[Ref.: #68382] esterase lipase (C 8) + * from API zym

[Ref.: #68368] gelatinase + * from API 20E

[Ref.: #68382] leucine arylamidase + 3.4.11.1 * from API zym

[Ref.: #68382] lipase (C 14) - * from API zym

[Ref.: #68368] lysine decarboxylase - 4.1.1.18 * from API 20E

[Ref.: #68382] N-acetyl-beta-glucosaminidase + 3.2.1.52 * from API zym

[Ref.: #68382] naphthol-AS-BI-phosphohydrolase + * from API zym

[Ref.: #68368] ornithine decarboxylase - 4.1.1.17 * from API 20E

[Ref.: #68382] trypsin + 3.4.21.4 * from API zym

[Ref.: #68368] tryptophan deaminase - 4.1.99.1 * from API 20E

[Ref.: #68368] urease + 3.5.1.5 * from API 20E

[Ref.: #68382] valine arylamidase + * from API zym

Only first 10 entries are displayed. Click here to see all.

API® 20E: Note that the displayed test results represent raw data and therefore may deviate!

API ID beta-GalactosidaseONPG Arginine dihydrolaseADH (Arg) Lysine decarboxylaseLDC (Lys) Ornithine decarboxylaseODC Citrate utilizationCIT H2S productionH2S Urease/urea hydrolysisURE Tryptophan deaminaseTDA (Trp) Indole productionIND Acetoin production (Voges Proskauer test)VP Gelatinase/gelatin hydrolysisGEL Fermentation/oxidation of D-glucoseGLU Fermentation/oxidation of D-mannitolMAN Fermentation/oxidation of inositolINO Fermentation/oxidation of sorbitolSor Fermentation/oxidation of L-rhamnoseRHA Fermentation/oxidation of sucroseSAC Fermentation/oxidation of melibioseMEL Fermentation/oxidation of amygdalinAMY Fermentation/oxidation of L-arabinoseARA Cytochrome oxidaseOX Nitrite productionNO2 Reduction to N2N2 MotilityMOB Growth on MacConkey mediumMAC Oxidative catabolisation of D-glucoseOF-O Fermentation of D-glucoseOF-F

[Ref.: #19937] 545 - - - - - - + - - + + not determinedn.d. not determinedn.d. not determinedn.d. not determinedn.d. not determinedn.d. not determinedn.d. not determinedn.d. not determinedn.d. not determinedn.d. not determinedn.d. not determinedn.d. not determinedn.d. not determinedn.d. not determinedn.d. not determinedn.d. not determinedn.d.

API® zym: Note that the displayed test results represent raw data and therefore may deviate!

API ID Control 2-naphthyl phosphateAlkaline phosphatase 2-naphthyl butyrateEsterase (C 4) 2-naphtyl caprylateEsterase Lipase (C 8) 2-naphthyl myristateLipase (C 14) L-leucyl-2-naphthylamideLeucine arylamidase L-valyl-2-naphthylamideValine arylamidase L-cystyl-2-naphthylamideCystine arylamidase N-benzoyl-DL-arginine-2-naphthylamideTrypsin N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin 2-naphthyl phosphateAcid phosphatase Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase 6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase 2-naphthyl-betaD-galactpyranosidebeta- Galactosidase Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase 2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase 6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase 1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase 6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase 2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase

[Ref.: #19937] 745 not determinedn.d. + + + - + + - + - + + - + - + + + + -

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #10752] Sample type/isolated from soil

[Ref.: #67770] Sample type/isolated from Soil

* marker position based on {}

Isolation sources categories

#Environmental #Terrestrial #Soil

What are isolation sources categories?

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #10752] Biosafety level 1 Risk group (German classification)
According to TRBA 466

[Ref.: #19937] Biosafety level 1 German classification

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

Sequence accession description Seq. accession number Sequence length (bp) Sequence database Associated NCBI tax ID

[Ref.: #20218] P.halophobica 16S rRNA gene Y08534 1455
GenBank
ENA
29401 tax ID *

[Ref.: #20218] P.halophobica 16S ribosomal RNA (partial) Z14111 1438
GenBank
ENA
29401 tax ID *

[Ref.: #20218] Pseudonocardia halophobica 16S rRNA gene, strain IMSNU 21327T AJ252827 1512
GenBank
ENA
29401 tax ID *

[Ref.: #20218] Pseudonocardia halophobica 16S ribosomal RNA gene, partial sequence EU139576 1384
GenBank
ENA
29401 tax ID *

[Ref.: #67770] GC-content 72 mol% thermal denaturation, midpoint method (Tm)

Availability in culture collections External links

[Ref.: #10752] Culture collection no. DSM 43089, ATCC 51535, DSM 656, IMRU 1300, JCM 9421, NRRL B-16064, VKM Ac-1069, CGMCC 4.1288, IFO 15048, IMSNU 21327, KCTC 9296, NBRC 15048, NCIMB 13212, NRRL B-16514

[Ref.: #82558] SI-ID 88631 *

Literature:

Topic Title Authors Journal DOI Year

Phylogeny Pseudonocardia lutea sp. nov., a novel actinobacterium isolated from soil in Chad. Gao Y, Piao C, Wang H, Shi L, Guo X, Song J, Xiang W, Zhao J, Wang X Int J Syst Evol Microbiol 10.1099/ijsem.0.002780 2018 *

Phylogeny Pseudonocardia yuanmoensis sp. nov., a novel actinobacterium isolated from soil in Yunnan, south-west China. Nie GX, Ming H, Wei DQ, Zhou EM, Tang X, Cheng J, Tang SK, Li WJ Antonie Van Leeuwenhoek 10.1007/s10482-011-9689-4 2011 *

Phylogeny Pseudonocardia xishanensis sp. nov., an endophytic actinomycete isolated from the roots of Artemisia annua L. Zhao GZ, Li J, Zhu WY, Wei DQ, Zhang JL, Xu LH, Li WJ Int J Syst Evol Microbiol 10.1099/ijs.0.037028-0 2011 *

Phylogeny Pseudonocardia ailaonensis sp. nov., isolated from soil in China. Qin S, Su YY, Zhang YQ, Wang HB, Jiang CL, Xu LH, Li WJ Int J Syst Evol Microbiol 10.1099/ijs.0.65721-0 2008 *

Phylogeny The phylogenetic position of Pseudoamycolata halophobica (Akimov et al. 1989) and a proposal to reclassify it as Pseudonocardia halophobica. McVeigh HP, Munro J, Embley TM Int J Syst Bacteriol 10.1099/00207713-44-2-300 1994 *

References

#10752 Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 43089

#19937 Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .

#20215 Parte, 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 DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 )

#20218 Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#68368 Automatically annotated from API 20E .

#68382 Automatically annotated from API zym .

#82558 Reimer, 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 identifiers . ( DOI 10.60712/SI-ID88631.1 )

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Field you want to change:

Your change proposal*

Reference*

Name *

Email *

Institution

Please Enter the Captcha Text

Change proposal

Successfully sent