Strain identifier

BacDive ID: 159738

Type strain: Yes

Species: Pseudonocardia mangrovi

NCBI tax ID(s): 2283313 (species)

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General

@ref: 66657

BacDive-ID: 159738

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

description: Pseudonocardia mangrovi TBRC 7778 is an aerobe, spore-forming, Gram-positive bacterium that was isolated from soil in a mangrove forest .

NCBI tax id

  • NCBI tax id: 2283313
  • Matching level: species

doi: 10.13145/bacdive159738.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Pseudonocardiales
  • family: Pseudonocardiaceae
  • genus: Pseudonocardia
  • species: Pseudonocardia mangrovi
  • full scientific name: Pseudonocardia mangrovi Chanama et al. 2018

@ref: 66657

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Pseudonocardiales

family: Pseudonocardiaceae

genus: Pseudonocardia

species: Pseudonocardia mangrovi

type strain: yes

Morphology

cell morphology

  • @ref: 66657
  • gram stain: positive

multicellular morphology

@refforms multicellular complexcomplex colorfurther descriptionmedium name
66657yesorange-yellow or yellow-brownextensively branched substrate and aerial mycelia. The substrate mycelium is fragmented into rod-shaped elements, and spore chains consisting of smooth and rod-shaped spores are formed on the aerial mycelium
66657yeswhiteaerial myceliumISP2, ISP3, ISP4, ISP5, ISP7

Culture and growth conditions

culture medium

@refnamegrowth
66657ISP 2yes
66657ISP 3yes
66657ISP 4yes
66657ISP 5yes
66657ISP 7yes
66657Nutrient agar (NA)yes
66657yeast-starch agaryes

culture temp

@refgrowthtypetemperaturerange
66657positivegrowth20-40
66657positiveoptimum28-30mesophilic

culture pH

@refabilitytypepHPH range
66657positivegrowth6-11alkaliphile
66657positiveoptimum6-8

Physiology and metabolism

oxygen tolerance

  • @ref: 66657
  • oxygen tolerance: aerobe

spore formation

  • @ref: 66657
  • spore description: spore chains consisting of smooth and rod-shaped spores
  • type of spore: spore
  • spore formation: yes

halophily

@refsaltgrowthtested relationconcentration
66657NaClpositivegrowth0-7 %(w/v)
66657NaClpositiveoptimum1-4 %(w/v)

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
66657milk-assimilation
66657D-galactose+carbon source12936
66657D-fructose+carbon source15824
66657raffinose+carbon source16634
66657D-ribose+carbon source16988
66657myo-inositol+carbon source17268
66657D-sorbose+carbon source17317
66657D-glucose+carbon source17634
66657glycerol+carbon source17754
66657sucrose+carbon source17992
66657L-arabitol+carbon source18403
66657trehalose+carbon source27082
66657mannose+carbon source37684
66657D-xylose+carbon source65327
66657gelatin-hydrolysis5291
66657xanthine-hydrolysis15318
66657hypoxanthine-hydrolysis17368
66657starch+hydrolysis28017
66657nitrate-reduction17632

enzymes

@refvalueactivityec
66657acid phosphatase+3.1.3.2
66657alkaline phosphatase+3.1.3.1
66657alpha-chymotrypsin+3.4.21.1
66657alpha-glucosidase+3.2.1.20
66657cystine arylamidase+3.4.11.3
66657esterase (C 4)+
66657esterase Lipase (C 8)+
66657leucine arylamidase+3.4.11.1
66657naphthol-AS-BI-phosphohydrolase+
66657trypsin+3.4.21.4
66657valine arylamidase+

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    66657C15:0 anteiso
    66657C16:0 2OH
    66657C18:01.1
    66657C17:01.2
    66657C17:0 10-methyl1.2
    66657C16:0 10-methyl11.2
    66657C16:1 w7c and/or C16:1 w6c14.4
    66657C17:1 w8c2.4
    66657C17:0 anteiso3.2
    66657C16:0 iso33.6
    66657C16:1 iso H4.9
    66657C17:0 iso5.1
    66657C15:0 iso7.2
    66657C16:09.1
  • type of FA analysis: whole cell analysis
  • incubation medium: glucose-yeast extract broth
  • agar/liquid: liquid
  • incubation temperature: 28
  • incubation time: 4
  • software version: Sherlock 4.0B
  • library/peak naming table: ACTINO
  • system: MIS MIDI
  • cutoff value:

Isolation, sampling and environmental information

isolation

  • @ref: 66657
  • sample type: soil in a mangrove forest (organic layer of the loam soil with pH of 6.8)
  • geographic location: Samut Prakan province
  • country: Thailand
  • origin.country: THA
  • continent: Asia
  • enrichment culture: humic acid-salts vitamin agar
  • enrichment culture composition: supplemented with cycloheximide (50 mg l-1) and nystatin (50 mg l-1)
  • isolation procedure: The sample was taken from the organic layer of the loam soil with pH of 6.8, and kept at -20°C before being air-dried at 37°C for 7 days. The novel strain was isolated on humic acid-salts vitamin agar and then sub-cultivated on International Streptomyces Project 3 medium.

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Mangrove
#Environmental#Terrestrial#Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_112123.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_2672;97_3280;98_4781;99_112123&stattab=map
  • Last taxonomy: Pseudonocardia
  • 16S sequence: KY859773
  • Sequence Identity:
  • Total samples: 1128
  • soil counts: 657
  • aquatic counts: 140
  • animal counts: 122
  • plant counts: 209

Sequence information

16S sequences

  • @ref: 66657
  • description: Pseudonocardia sp. strain SMC 195 16S ribosomal RNA gene, partial sequence
  • accession: KY859773
  • length: 1474
  • database: ena
  • NCBI tax ID: 2283313

GC content

  • @ref: 66657
  • GC-content: 73.2-74.8
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 66657

culture collection no.: TBRC 7778, NBRC 113150, SMC 195

literature

  • topic: Phylogeny
  • Pubmed-ID: 30040061
  • title: Pseudonocardia mangrovi sp. nov., isolated from soil.
  • authors: Chanama S, Janphen S, Suriyachadkun C, Chanama M
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002927
  • year: 2018
  • mesh: Actinomycetales/*classification/genetics/isolation & purification, Avicennia/microbiology, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Glycolipids/chemistry, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Thailand, Vitamin K 2/analogs & derivatives/chemistry, *Wetlands
  • topic2: Transcriptome

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
66657Suchart Chanama, Suphansa Janphen, Chanwit Suriyachadkun, Manee ChanamaPseudonocardia mangrovi sp. nov., isolated from soil10.1099/ijsem.0.002927IJSEM 68: 2949-2955 201830040061
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/