Strain identifier

BacDive ID: 132580

Type strain: Yes

Species: Microlunatus kandeliicorticis

Strain Designation: 4Q3S-3

Strain history: <- L. Tuo, Chinese Acad. Sci. (CAS), Beijing; 4Q3S-3

NCBI tax ID(s): 1759536 (species)

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General

@ref: 24369

BacDive-ID: 132580

DSM-Number: 100723

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive, coccus-shaped, colony-forming

description: Microlunatus kandeliicorticis 4Q3S-3 is an aerobe, mesophilic, Gram-positive bacterium that forms circular colonies and was isolated from surface-sterilized bark of the mangrove plant Kandelia candel.

NCBI tax id

  • NCBI tax id: 1759536
  • Matching level: species

strain history

  • @ref: 24369
  • history: <- L. Tuo, Chinese Acad. Sci. (CAS), Beijing; 4Q3S-3

doi: 10.13145/bacdive132580.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Propionibacteriales
  • family: Propionibacteriaceae
  • genus: Microlunatus
  • species: Microlunatus kandeliicorticis
  • full scientific name: Microlunatus kandeliicorticis Yang and Zhi 2020

  • synonyms

    • @ref: 20215
    • synonym: Friedmanniella endophytica

@ref: 24369

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Propionibacteriaceae

genus: Microlunatus

species: Microlunatus kandeliicorticis

full scientific name: Microlunatus kandeliicorticis Yang and Zhi 2020

strain designation: 4Q3S-3

type strain: yes

Morphology

cell morphology

@refgram staincell widthcell shapemotilityconfidence
43069positive0.6-1.0 µmcoccus-shapedno
69480no97.213
69480positive100

colony morphology

  • @ref: 43069
  • colony color: vivid yellow
  • colony shape: circular
  • incubation period: 7 days
  • medium used: ISP2 agar

pigmentation

  • @ref: 43069
  • production: no
  • name: diffusible pigments

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
43069ISP2 agaryes
43069Reasoner's 2A agar (R2A)yes
43069Trypticase Soy Agar (TSA)yes
43069Nutrient agar (NA)yes
43069ISP3 agaryes
43069ISP5 agaryes
43069ISP4 agarno
43069ISP7 agarno
24369R2A MEDIUM (DSMZ Medium 830)yeshttps://mediadive.dsmz.de/medium/830Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
43069positiveoptimum28-30mesophilic
43069positivegrowth20-37
24369positivegrowth28mesophilic

culture pH

@refabilitytypepHPH range
43069positivegrowth5.0-9.0alkaliphile
43069positiveoptimum7.0-8.0

Physiology and metabolism

oxygen tolerance

  • @ref: 43069
  • oxygen tolerance: aerobe

spore formation

@reftype of sporespore formationconfidence
43069sporeno
69481yes90
69480no99.663

halophily

@refsaltgrowthtested relationconcentration
43069NaClpositivegrowth0-5.0 %(w/v)
43069NaClpositiveoptimum0 %

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
43069casein+hydrolysis
43069gelatin+hydrolysis5291
43069tween 20+hydrolysis53424
43069tween 40+hydrolysis53423
43069tween 80+hydrolysis53426
43069starch-hydrolysis28017
43069nitrate-reduction17632
43069glucose-fermentation17234
43069esculin+builds acid from4853
43069amygdalin+builds acid from27613
43069L-arabinose+builds acid from30849
43069arbutin+builds acid from18305
43069cellobiose+builds acid from17057
43069gentiobiose+builds acid from28066
43069D-glucose+builds acid from17634
43069lactose+builds acid from17716
43069maltose+builds acid from17306
43069melezitose+builds acid from6731
43069melibiose+builds acid from28053
43069methyl alpha-D-glucopyranoside+builds acid from320061
43069methyl alpha-D-mannoside+builds acid from43943
43069raffinose+builds acid from16634
43069D-ribose+builds acid from16988
43069sucrose+builds acid from17992
43069salicin+builds acid from17814
43069starch+builds acid from28017
43069trehalose+builds acid from27082
43069turanose+builds acid from32528
43069D-xylose+builds acid from65327
43069acetate+respiration30089
43069acetoacetate+respiration13705
43069N-acetylgalactosamine+respiration28037
43069N-acetylglucosamine+respiration506227
43069N-acetyl-beta-D-mannosamine+respiration63154
43069n-acetylneuraminate+respiration35418
43069D-alanine+respiration15570
43069gamma-aminobutyric acid+respiration16865
43069D-arabitol+respiration18333
43069L-arginine+respiration16467
43069L-aspartate+respiration29991
43069bromosuccinate+respiration73706
43069cellobiose+respiration17057
43069citrate+respiration16947
43069dextrin+respiration23652
43069formate+respiration15740
43069D-fructose+respiration15824
43069D-fructose 6-phosphate+respiration78697
43069L-fucose+respiration18287
43069D-fucose+respiration28847
43069D-galactose+respiration12936
43069galacturonate+respiration24175
43069D-galactonic acid lactone+respiration15895
43069gelatin+respiration5291
43069gentiobiose+respiration28066
43069D-gluconate+respiration8391
43069alpha-D-glucose+respiration17925
43069D-glucose 6-phosphate+respiration14314
43069glucuronamide+respiration32323
43069D-glucuronate+respiration15748
43069L-glutamate+respiration29985
43069glycerol+respiration17754
43069glycine-proline+respiration70744
43069L-histidine+respiration15971
430692-hydroxybutyrate+respiration64552
430693-hydroxybutyrate+respiration37054
430694-hydroxyphenylacetic acid+respiration18101
43069inosine+respiration17596
430692-oxobutanoate+respiration16763
430692-oxoglutarate+respiration30916
43069(S)-lactate+respiration16651
43069methyl (R)-lactate+respiration74611
43069alpha-lactose+respiration36219
43069D-malate+respiration15588
43069L-malate+respiration15589
43069maltose+respiration17306
43069D-mannitol+respiration16899
43069D-mannose+respiration16024
43069melibiose+respiration28053
430693-O-methyl-D-glucose+respiration73918
43069methyl beta-D-glucopyranoside+respiration320055
43069methyl pyruvate+respiration51850
43069myo-inositol+respiration17268
43069pectin+respiration17309
43069propionate+respiration17272
43069L-pyroglutamic acid+respiration18183
43069quinate+respiration26490
43069raffinose+respiration16634
43069L-rhamnose+respiration62345
43069D-saccharate+respiration33801
43069salicin+respiration17814
43069D-serine+respiration16523
43069L-serine+respiration17115
43069D-sorbitol+respiration17924
43069stachyose+respiration17164
43069sucrose+respiration17992
43069trehalose+respiration27082
43069turanose+respiration32528
43069tween 40+respiration53423
43069galactarate+respiration16537
43069potassium gluconate-assimilation32032
43069decanoate-assimilation27689
43069malate-assimilation25115
43069sodium citrate-assimilation53258
43069adipate-assimilation17128
43069phenylacetate-assimilation18401
43069D-glucose+carbon source17634
43069L-arabinose+carbon source30849
43069D-mannose+carbon source16024
43069D-mannitol+carbon source16899
43069maltose+carbon source17306
43069N-acetylglucosamine+carbon source506227

antibiotic resistance

@refmetaboliteis antibioticis resistantChEBIis sensitive
430691 % sodium lactateyesyes
43069aztreonamyesyes161680
43069fusidateyes71321yes
43069guanidinium chlorideyesyes32735
43069lincomycinyes6472yes
43069lithium chlorideyesyes48607
43069minocyclineyes50694yes
43069nalidixic acidyesyes100147
43069niaproofyes75273yes
43069potassium telluriteyesyes75248
43069rifamycin svyesyes29673
43069sodium bromateyesyes75229
43069sodium butyrateyesyes64103
43069tetrazolium blueyes75198yes
43069tetrazolium violetyesyes75193
43069troleandomycinyesyes45735
43069vancomycinyes28001yes

metabolite production

  • @ref: 43069
  • Chebi-ID: 16136
  • metabolite: hydrogen sulfide
  • production: no

metabolite tests

  • @ref: 43069
  • Chebi-ID: 17234
  • metabolite: glucose
  • methylred-test: -

enzymes

@refvalueactivityec
43069catalase+/-1.11.1.6
43069cytochrome oxidase-1.9.3.1
43069N-acetyl-beta-glucosaminidase+3.2.1.52
43069acid phosphatase+3.1.3.2
43069alkaline phosphatase+3.1.3.1
43069alpha-chymotrypsin+3.4.21.1
43069esterase (C 4)+
43069alpha-fucosidase+3.2.1.51
43069alpha-galactosidase+3.2.1.22
43069beta-galactosidase+3.2.1.23
43069alpha-glucosidase+3.2.1.20
43069beta-glucosidase+3.2.1.21
43069leucine arylamidase+3.4.11.1
43069alpha-mannosidase+3.2.1.24
43069naphthol-AS-BI-phosphohydrolase+
43069trypsin+3.4.21.4
43069valine arylamidase+
43069esterase Lipase (C 8)+/-
43069beta-glucuronidase+/-3.2.1.31
43069cystine arylamidase-3.4.11.3
43069lipase (C 14)-
43069urease-3.5.1.5

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    43069C15:0 anteiso28.4
    43069C16:0 iso28.2
    43069C15:0 iso19.1
    43069C17:0 anteiso9.7
    43069C16:07.4
    43069C17:0 iso2.5
    43069C18:02
    43069C14:0 iso1.9
    43069C14:00.5
    43069C15:0
  • type of FA analysis: whole cell analysis
  • incubation medium: ISP2 agar
  • agar/liquid: agar
  • incubation temperature: 28
  • system: MIS MIDI

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinentlatitudelongitude
24369surface-sterilized bark of the mangrove plant Kandelia candelKandelia candelCotai Ecological Zones in Macao (22° 08' 28'' N 113° 33' 90'' E)ChinaCHNAsia22.1411113.575
43069surface-sterilized bark of the mangrove plant Kandelia candelCotai Ecological Zones, Macao, ChinaChinaCHNAsia22113

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Mangrove
#Host#Plants#Shrub (Scrub)
#Host Body-Site#Plant#Bark
#Host Body-Site#Plant#Sterilized plant part

taxonmaps

  • @ref: 69479
  • File name: preview.99_50379.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_72;96_3990;97_4907;98_36215;99_50379&stattab=map
  • Last taxonomy: Friedmanniella endophytica subclade
  • 16S sequence: KU168417
  • Sequence Identity:
  • Total samples: 441
  • soil counts: 141
  • aquatic counts: 30
  • animal counts: 180
  • plant counts: 90

Safety information

risk assessment

  • @ref: 24369
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 24369
  • description: Friedmanniella endophytica strain 4Q3S-3 16S ribosomal RNA gene, partial sequence
  • accession: KU168417
  • length: 1479
  • database: ena
  • NCBI tax ID: 1759536

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Microlunatus kandeliicorticis DSM 100723GCA_014137855contigncbi1759536
66792Friedmanniella endophytica strain DSM 1007231759536.3wgspatric1759536
66792Friedmanniella endophytica DSM 1007232820958510draftimg1759536

GC content

  • @ref: 24369
  • GC-content: 69.5
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes90no
motileno93.869yes
gram-positiveyes89.727no
anaerobicno99.107no
aerobicyes91.274yes
halophileno93.157yes
spore-formingno84.902yes
thermophileno98.958yes
glucose-utilyes85.304yes
flagellatedno98.493no
glucose-fermentno87.519no

External links

@ref: 24369

culture collection no.: DSM 100723, CGMCC 4.7307

straininfo link

  • @ref: 90897
  • straininfo: 400730

literature

  • topic: Phylogeny
  • Pubmed-ID: 27169592
  • title: Friedmanniella endophytica sp. nov., an endophytic actinobacterium isolated from bark of Kandelia candel.
  • authors: Tuo L, Pan Z, Li FN, Lou I, Guo M, Lee SM, Chen L, Hu L, Sun CH
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.001146
  • year: 2016
  • mesh: Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Glycolipids/chemistry, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, Plant Bark/*microbiology, RNA, Ribosomal, 16S/genetics, Rhizophoraceae/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
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
24369Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-100723Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 100723)
43069Li Tuo, Zhen Pan, Fei-Na Li, Inchio Lou, Min Guo, Simon Ming-Yuen Lee, Li Chen, Lin Hu and Cheng-Hang SunFriedmanniella endophytica sp. nov., an endophytic actinobacterium isolated from bark of Kandelia candel10.1099/ijsem.0.001146IJSEM 66: 3057-3062 201627169592
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
90897Reimer, 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 identifiers10.60712/SI-ID400730.1