Strain identifier

BacDive ID: 140470

Type strain: Yes

Species: Mangrovibacter phragmitis

Strain Designation: MP23

NCBI tax ID(s): 1691903 (species)

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General

@ref: 43192

BacDive-ID: 140470

DSM-Number: 100250

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-negative, motile, rod-shaped, colony-forming

description: Mangrovibacter phragmitis MP23 is a facultative anaerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from root tissue from Phragmites karka.

NCBI tax id

  • NCBI tax id: 1691903
  • Matching level: species

doi: 10.13145/bacdive140470.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Enterobacterales
  • family: Enterobacteriaceae
  • genus: Mangrovibacter
  • species: Mangrovibacter phragmitis
  • full scientific name: Mangrovibacter phragmitis Behera et al. 2017

@ref: 43192

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacterales

family: Enterobacteriaceae

genus: Mangrovibacter

species: Mangrovibacter phragmitis

strain designation: MP23

type strain: yes

Morphology

cell morphology

  • @ref: 43192
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: yes

colony morphology

  • @ref: 43192
  • colony color: white
  • colony shape: circular
  • medium used: LB agar

Culture and growth conditions

culture medium

  • @ref: 43192
  • name: LB (Luria-Bertani) MEDIUM
  • growth: yes

culture temp

@refgrowthtypetemperaturerange
43192positiveoptimum30mesophilic
43192positivegrowth20-40

culture pH

@refabilitytypepHPH range
43192positivegrowth5-10alkaliphile
43192positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 43192
  • oxygen tolerance: facultative anaerobe

halophily

@refsaltgrowthtested relationconcentrationhalophily level
43192NaClpositivegrowth0-8 %
43192NaClpositiveoptimum1 %
43192slightly halophilic

observation

  • @ref: 43192
  • observation: nitrogen fixation

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4319217234glucose+fermentation
4319217632nitrate+reduction
4319216947citrate+assimilation
43192casein-hydrolysis
431925291gelatin-hydrolysis
4319253426tween 80-hydrolysis
4319228017starch-hydrolysis
4319230911sorbitol+builds acid from
4319265328L-xylose+builds acid from
4319228260galactose+builds acid from
4319237684mannose+builds acid from
4319228757fructose+builds acid from
4319226546rhamnose+builds acid from
4319230849L-arabinose+builds acid from
4319216634raffinose+builds acid from
4319217716lactose+builds acid from
4319217268myo-inositol+builds acid from
4319215443inulin+builds acid from
4319229864mannitol+builds acid from
4319217306maltose+builds acid from
4319228053melibiose+builds acid from
4319217814salicin+builds acid from
4319227082trehalose+builds acid from
4319217234glucose+builds acid from
4319215963ribitol+builds acid from
4319217057cellobiose+builds acid from
4319216813galactitol+builds acid from

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.is resistantresistance conc.group ID
431922637amikacinyesyes10 µg (disc)
431922676amoxicillinyesyes30 µg (disc)
4319228971ampicillinyesyes10 µg (disc)
4319228669bacitracinyesyes10 µg (disc)
431923393carbenicillinyesyes100 µg (disc)
4319217698chloramphenicolyesyes30 µg (disc)
43192100241ciprofloxacinyesyes30 µg (disc)
4319248923erythromycinyesyes10 µg (disc)
431925195furazolidoneyesyes50 µg (disc)
4319217833gentamicinyesyes30 µg (disc)
431926104kanamycinyesyes30 µg (disc)
43192100147nalidixic acidyesyes30 µg (disc)
431927507neomycinyesyes10 µg (disc)
4319271415nitrofurantoinyesyes300 µg (disc)
43192100246norfloxacinyesyes10 µg (disc)
431927731ofloxacinyesyes5 µg (disc)
4319228077rifampicinyesyes30 µg (disc)
4319217076streptomycinyesyes10 µg (disc)
431929331sulfamethizoleyesyes300 µg (disc)
431929332sulfamethoxazoleyesyes25 µg (disc)26
4319227902tetracyclineyesyes30 µg (disc)
4319245924trimethoprimyesyes25 µg (disc)26

metabolite production

@refChebi-IDmetaboliteproduction
4319215688acetoinno
4319216136hydrogen sulfideno
4319235581indoleno

metabolite tests

@refChebi-IDmetabolitemethylred-testvoges-proskauer-test
4319217234glucose+
4319215688acetoin-

enzymes

@refvalueactivityec
43192catalase+1.11.1.6
43192cytochrome oxidase-1.9.3.1
43192urease-3.5.1.5
43192arginine dihydrolase-3.5.3.6

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    43192C12:01
    43192C14:015.3
    43192C14:0 3-OH/iso-C16:1I8.3
    43192C16:1ω6c / C16:1ω7c18
    43192C16:030.6
    43192C17:0 cyclo7.9
    43192C18:1ω6c / C18:1ω7c18.3
    43192C19:0 cyclo ω8c0.7
  • type of FA analysis: whole cell analysis
  • incubation medium: tryptic soy broth agar (TSBA; HiMedia)
  • agar/liquid: agar
  • incubation temperature: 30
  • incubation time: 1
  • software version: Sherlock 6.1
  • system: MIS MIDI

Isolation, sampling and environmental information

isolation

  • @ref: 43192
  • sample type: root tissue from Phragmites karka
  • geographic location: northern shoreline of Chilika Lagoon, Odisha state
  • country: India
  • origin.country: IND
  • continent: Asia
  • latitude: 19
  • longitude: 85
  • enrichment culture: LB agar
  • enrichment culture duration: 2 days
  • enrichment culture temperature: 30
  • isolation procedure: serial dilution of tissue homogenate

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Herbaceous plants (Grass,Crops)
#Host Body-Site#Plant#Root (Rhizome)

taxonmaps

  • @ref: 69479
  • File name: preview.99_5566.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_6;96_2687;97_3300;98_4154;99_5566&stattab=map
  • Last taxonomy: Enterobacteriaceae
  • 16S sequence: KP319034
  • Sequence Identity:
  • Total samples: 3500
  • soil counts: 85
  • aquatic counts: 517
  • animal counts: 2601
  • plant counts: 297

Sequence information

16S sequences

  • @ref: 43192
  • description: Mangrovibacter sp. MP23 16S ribosomal RNA gene, partial sequence
  • accession: KP319034
  • length: 1368
  • database: nuccore
  • NCBI tax ID: 1691903

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Mangrovibacter phragmitis MP23GCA_001655675contigncbi1691903
66792Mangrovibacter phragmitis MP232791354903draftimg1691903

GC content

  • @ref: 43192
  • GC-content: 50.3
  • method: Thermal denaturation, fluorometry

External links

@ref: 43192

culture collection no.: KCTC 42580, DSM 100250

literature

  • topic: Phylogeny
  • Pubmed-ID: 28086074
  • title: Mangrovibacter phragmitis sp. nov., an endophyte isolated from the roots of Phragmites karka.
  • authors: Behera P, Venkata Ramana V, Maharana B, Joseph N, Vaishampayan P, Singh NK, Shouche Y, Bhadury P, Mishra SR, Raina V, Suar M, Pattnaik AK, Rastogi G
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.001789
  • year: 2017
  • mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Endophytes/classification/genetics/isolation & purification, Enterobacteriaceae/*classification/genetics/isolation & purification, Fatty Acids/chemistry, India, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Plant Roots/*microbiology, Poaceae/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
  • topic2: Enzymology

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
43192Pratiksha Behera, V. Venkata Ramana, Bhagirathi Maharana, Neetha Joseph, Parag Vaishampayan, Nitin K. Singh, Yogesh Shouche, Punyasloke Bhadury, Samir R. Mishra, Vishakha Raina, Mrutyunjay Suar, Ajit K. Pattnaik, Gurdeep RastogiMangrovibacter phragmitis sp. nov., an endophyte isolated from the roots of Phragmites karka10.1099/ijsem.0.001789IJSEM 67: 1228-1234 201728086074
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/