Strain identifier

BacDive ID: 158719

Type strain: Yes

Species: Saccharomonospora piscinae

Strain Designation: 06168H-1

Strain history: <- M Tseng, BCRC <- 06168H-1

NCBI tax ID(s): 687388 (species)

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General

@ref: 65463

BacDive-ID: 158719

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

description: Saccharomonospora piscinae 06168H-1 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from dried fishpond sediment.

NCBI tax id

  • NCBI tax id: 687388
  • Matching level: species

strain history

  • @ref: 67771
  • history: <- M Tseng, BCRC <- 06168H-1

doi: 10.13145/bacdive158719.20230509.8.1

Name and taxonomic classification

LPSN

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

@ref: 65463

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Pseudonocardiales

family: Pseudonocardiaceae

genus: Saccharomonospora

species: Saccharomonospora piscinae

strain designation: 06168H-1

type strain: yes

Morphology

cell morphology

@refgram stainmotilityconfidence
65463positive
67771positive
69480no91.097
69480positive100

Culture and growth conditions

culture medium

@refnamegrowth
65462Marine agar (MA)yes
65463inorganic salt-starch agaryes
65463Czapek's sucrose agaryes
65463oatmeal agaryes
65463Nutrient agar (NA)yes
65463glycerol-asparagine agar (ISP medium 5)no
65463tyrosine agar (ISP medium 7)no

culture temp

@refrangegrowthtypetemperature
65463mesophilic
65463positivegrowth20-40
67771mesophilicpositivegrowth26-30

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
65463aerobe
67771aerobe

spore formation

@refspore formationspore descriptionconfidence
65463no
65463yesnon-motile spores are produced on the branched aerial mycelia in short chains, spore chains are composed of 3-10 smooth-surface, oval spores
69480yes100
69481yes98

halophily

  • @ref: 65463
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-8 %(w/v)

observation

@refobservation
65463produces branched and unfragmented substrate mycelia
65463substrate mycelium is greyish to olive green or greyish green
65463aerial mycelium is pale green to greenish grey
65463sporulation only occurs on oatmeal agar, inorganic salt-starch agar, nutrient agar and Czapek's sucrose agar
65463the colour of substrate mycelia are dark bluish green to greyish green and dark olive green, the aerial mycelia are medium grey, dark bluish green to greenish grey
65463glucose, galactose, mannose, ribose and a trace amount of madurose occur in whole-cell hydrolysates
65463cell-wall peptidoglycan contains meso-DAP
65463predominant menaquinone is MK-9(H4) and minor components of MK-8(H4) and MK-9(H6)
65463polar lipids are diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylmethylethanolamine, phosphatidylcholine, hydroxyphosphatidylethanolamine and a ninhydrin-positive phosphoglycolipid

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6546316708adenine-assimilation
65463casein+assimilation
6546317057cellobiose+assimilation
6546317029chitin-assimilation
6546315824D-fructose-assimilation
6546317634D-glucose+assimilation
6546316899D-mannitol-assimilation
6546365327D-xylose+assimilation
65463esculin ferric citrate-assimilation
654635291gelatin-assimilation
65463606565hippurate-assimilation
6546317368hypoxanthine-assimilation
6546330849L-arabinose+assimilation
6546327374L-inositol-assimilation
65463milk-assimilation
6546316634raffinose-assimilation
6546326546rhamnose-assimilation
6546328017starch+assimilation
6546317992sucrose+assimilation
6546318186tyrosine+assimilation
6546315318xanthine-assimilation

metabolite production

  • @ref: 65463
  • Chebi-ID: 89634
  • metabolite: melanin
  • production: no

enzymes

@refvalueactivityec
65463nitrate reductase-1.7.99.4
65463urease-3.5.1.5

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    65463C12:02.9
    65463C14:01.3
    65463C16:022.1
    65463C17:02.3
    65463C18:02
    65463C17:1ω8c2.9
    65463C14:0 iso0.7
    65463C16:0 iso2.4
    65463C10:0 3-OH5
    65463C12:0 3OH3.8
    65463C16:0 3OH1.2
    65463C19:0 10-methyl1.2
    65463C16:1ω7c/ω6c20.7
    65463C18:1ω7c/ω6c20.1
  • type of FA analysis: whole cell analysis
  • incubation medium: marine
  • agar/liquid: agar
  • incubation temperature: 30
  • incubation time: 3
  • software version: Sherlock 6B
  • library/peak naming table: TSBA6
  • system: MIS MIDI
  • instrument: Agilent Technologies 6850
  • method/protocol: Sasser, 1990
  • cutoff value:

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentenrichment cultureenrichment culture compositionenrichment culture durationenrichment culture temperatureisolation procedure
65463dried fishpond sedimentKouhu townshipTaiwanTWNAsiaSabouraud glucose agar7.5 g casamino acid, 10.0 g yeast extract, 20.0 g MgSO4 7H2O, 3.0 g trisodium citrate 2H2O, 2.0 g KCl, 34.0 g NaCl, 10.0 µg Fe2+, 18.0 g agar, 1.0 l distilled water, pH adjusted to 7.4)4 weeks30the sample of fishpond sediment was dried at room temperature for 7 days. The sample suspension (100 µl) was plated on modified Sabouraud glucose agar
67771From mangrove soilTaiwanTWNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Pond (small)
#Environmental#Terrestrial#Sediment
#Host#Fishes

taxonmaps

  • @ref: 69479
  • File name: preview.99_3449.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_466;97_2158;98_2648;99_3449&stattab=map
  • Last taxonomy: Saccharomonospora piscinae
  • 16S sequence: GU121457
  • Sequence Identity:
  • Total samples: 229
  • soil counts: 48
  • aquatic counts: 10
  • animal counts: 163
  • plant counts: 8

Sequence information

16S sequences

  • @ref: 65463
  • description: 16S rRNA gene sequence
  • accession: GU121457
  • database: nuccore

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Saccharomonospora piscinae KCTC 19743GCA_005862235scaffoldncbi687388
66792Saccharomonospora piscinae KCTC 197432894090410draftimg687388

GC content

  • @ref: 65463
  • GC-content: 70.6
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes98no
spore-formingyes98no
flagellatedno97.207no
gram-positiveyes91.989yes
anaerobicno98.806no
aerobicyes92.402yes
halophileyes66.084no
spore-formingyes75.193no
thermophileno95.197yes
glucose-utilyes86.311yes
motileno94.632no
glucose-fermentno94.119no

External links

@ref: 65463

culture collection no.: BCRC 16893, KCTC 19743

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny29533170Saccharomonospora piscinae sp. nov., a novel actinobacterium from fishpond sediment in Taiwan.Tseng M, Chiang WP, Liao HC, Hsieh SY, Yuan GFInt J Syst Evol Microbiol10.1099/ijsem.0.0026532018Actinomycetales/*classification/genetics/isolation & purification, Aquaculture, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Geologic Sediments/*microbiology, *Phylogeny, Ponds/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Taiwan, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Genetics32273373Draft Genome Sequence of Saccharomonospora piscinae KCTC 19743(T), an Actinobacterium Containing Secondary Metabolite Biosynthetic Gene Clusters.Ramirez-Duran N, de la Haba RR, Vera-Gargallo B, Sanchez-Porro C, Alonso-Carmona S, Sandoval-Trujillo H, Ventosa AMicrobiol Resour Announc10.1128/MRA.01588-192020

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
65462Xiupian Liu, Qiliang Lai, Yaping Du, Xiaorong Zhang, Zhen Liu, Fengqin Sun, Zongze ShaoNeptunicella marina gen. nov., sp. nov., isolated from surface seawater10.1099/ijsem.0.002660IJSEM 68: 1423-1428 201829533174
65463Min Tseng, Wan-Ping Chiang, Hsuen-Chun Liao, Sung-Yuan Hsieh, Gao Fung YuanSaccharomonospora piscinae sp. nov., a novel actinobacterium from fishpond sediment in Taiwan10.1099/ijsem.0.002653IJSEM 68: 1418-1422 201829533170
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
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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