Strain identifier

BacDive ID: 134331

Type strain: Yes

Species: Luteolibacter pohnpeiensis

Strain Designation: A4T-83

Strain history: <- JW Yoon, Tokyo Univ. <- K Adachi, MBI

NCBI tax ID(s): 454153 (species)

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General

@ref: 32455

BacDive-ID: 134331

keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-negative, rod-shaped

description: Luteolibacter pohnpeiensis A4T-83 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from Driftwood.

NCBI tax id

  • NCBI tax id: 454153
  • Matching level: species

strain history

  • @ref: 67771
  • history: <- JW Yoon, Tokyo Univ. <- K Adachi, MBI

doi: 10.13145/bacdive134331.20250331.9.3

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/verrucomicrobiota
  • domain: Bacteria
  • phylum: Verrucomicrobiota
  • class: Verrucomicrobiia
  • order: Verrucomicrobiales
  • family: Verrucomicrobiaceae
  • genus: Luteolibacter
  • species: Luteolibacter pohnpeiensis
  • full scientific name: Luteolibacter pohnpeiensis Yoon et al. 2008

@ref: 32455

domain: Bacteria

phylum: Verrucomicrobia

class: Verrucomicrobiae

order: Verrucomicrobiales

family: Verrucomicrobiaceae

genus: Luteolibacter

species: Luteolibacter pohnpeiensis

strain designation: A4T-83

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
32455negative1.75 µm0.65 µmrod-shapedno
67771rod-shapedno
67771negative
125438negative91.394

pigmentation

  • @ref: 32455
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperature
32455positivegrowth20-37
32455positiveoptimum33.5
67771positivegrowth30-37

culture pH

  • @ref: 32455
  • ability: positive
  • type: growth
  • pH: 6.5-9
  • PH range: alkaliphile

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
67771aerobe
125439obligate aerobe92.7

spore formation

@refspore formationconfidence
32455no
125439no96.5

halophily

  • @ref: 32455
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: <6 %

observation

  • @ref: 67771
  • observation: quinones: MK-9, MK-10

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3245522599arabinose+carbon source
3245517057cellobiose+carbon source
3245523652dextrin+carbon source
3245528757fructose+carbon source
3245528260galactose+carbon source
3245517234glucose+carbon source
3245517754glycerol+carbon source
3245517716lactose+carbon source
3245517306maltose+carbon source
3245537684mannose+carbon source
3245528053melibiose+carbon source
3245537657methyl D-glucoside+carbon source
3245516634raffinose+carbon source
3245530911sorbitol+carbon source
3245517992sucrose+carbon source
3245527082trehalose+carbon source

enzymes

@refvalueactivityec
32455acid phosphatase+3.1.3.2
32455alkaline phosphatase+3.1.3.1
32455alpha-galactosidase+3.2.1.22
32455catalase+1.11.1.6
32455cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
32455Driftwood
67771From a piece of driftwood from Mangrove coastPohnpei Island(0° 58′ 48″ N 15° 10′ 36″ E)Micronesia, Federated States ofFSMAustralia and Oceania

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic
#Host Body Product#Plant#Timber
#Host#Plants#Tree

Sequence information

16S sequences

  • @ref: 32455
  • description: Luteolibacter pohnpeiensis gene for 16S rRNA, partial sequence, strain: A4T-83
  • accession: AB331895
  • length: 1478
  • database: nuccore
  • NCBI tax ID: 454153

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Luteolibacter pohnpeiensis KCTC 22041GCA_016595435contigncbi454153
66792Luteolibacter pohnpeiensis strain KCTC 22041454153.3wgspatric454153

GC content

  • @ref: 32455
  • GC-content: 55.8

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingno91.394yes
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no93.229yes
125438spore-formingspore-formingAbility to form endo- or exosporesno85.575yes
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes78.265yes
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno94.964yes
125438motile2+flagellatedAbility to perform flagellated movementno68.524yes
125439BacteriaNetspore_formationAbility to form endo- or exosporesno96.5
125439BacteriaNetmotilityAbility to perform movementno56.9
125439BacteriaNetgram_stainReaction to gram-stainingnegative84.4
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthobligate aerobe92.7

External links

@ref: 32455

culture collection no.: KCTC 22041, MBIC 08322

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny18398209Description of Persicirhabdus sediminis gen. nov., sp. nov., Roseibacillus ishigakijimensis gen. nov., sp. nov., Roseibacillus ponti sp. nov., Roseibacillus persicicus sp. nov., Luteolibacter pohnpeiensis gen. nov., sp. nov. and Luteolibacter algae sp. nov., six marine members of the phylum 'Verrucomicrobia', and emended descriptions of the class Verrucomicrobiae, the order Verrucomicrobiales and the family Verrucomicrobiaceae.Yoon J, Matsuo Y, Adachi K, Nozawa M, Matsuda S, Kasai H, Yokota AInt J Syst Evol Microbiol10.1099/ijs.0.65520-02008Base Composition, Carotenoids/biosynthesis, DNA, Bacterial/chemistry/genetics, Fatty Acids/metabolism, Genes, Bacterial, Gram-Negative Bacteria/*classification/genetics/*isolation & purification/metabolism, Marine Biology, Microscopy, Electron, Transmission, Molecular Sequence Data, Peptidoglycan/metabolism, Phenotype, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Terminology as TopicMetabolism
Phylogeny22081723Luteolibacter luojiensis sp. nov., isolated from Arctic tundra soil, and emended description of the genus Luteolibacter.Jiang F, Li W, Xiao M, Dai J, Kan W, Chen L, Li W, Fang C, Peng FInt J Syst Evol Microbiol10.1099/ijs.0.037309-02011Arctic Regions, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Molecular Sequence Data, *Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Svalbard, Verrucomicrobia/*classification/genetics/isolation & purificationGenetics
Phylogeny23002048Luteolibacter yonseiensis sp. nov., isolated from activated sludge using algal metabolites.Park J, Baek GS, Woo SG, Lee J, Yang J, Lee JInt J Syst Evol Microbiol10.1099/ijs.0.046664-02012Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, DNA, Bacterial/genetics, Fatty Acids/analysis, Molecular Sequence Data, Muramic Acids/analysis, Nucleic Acid Hybridization, Peptidoglycan/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sewage/*microbiology, Verrucomicrobia/*classification/genetics/isolation & purification, Vitamin K 2/analogs & derivatives/analysisGenetics
Phylogeny25795066Luteolibacter arcticus sp. nov., isolated from high Arctic tundra soil, and emended description of the genus Luteolibacter.Kim M, Pak S, Rim S, Ren L, Jiang F, Chang X, Liu P, Zhang Y, Fang C, Zheng C, Peng FInt J Syst Evol Microbiol10.1099/ijs.0.0002022015Arctic Regions, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Molecular Sequence Data, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Svalbard, *Tundra, Verrucomicrobia/*classification/genetics/isolation & purification, Vitamin K 2/chemistryGenetics
Phylogeny34623952Luteolibacter ambystomatis sp. nov., isolated from the skin of an Anderson's salamander (Ambystoma andersoni).Busse HJ, Kampfer P, Szostak MP, Spergser JInt J Syst Evol Microbiol10.1099/ijsem.0.0050432021*Ambystoma/microbiology, Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Phospholipids, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Skin/*microbiology, Verrucomicrobia/*classification/isolation & purification, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny36256567Luteolibacter marinus sp. nov., a novel bacterium in the family Verrucomicrobiaceae, isolated from marine sediment.Xie F, Zhu S, Guo C, Liu X, He S, Zhang WInt J Syst Evol Microbiol10.1099/ijsem.0.0055442022Adolescent, Child, Humans, RNA, Ribosomal, 16S/genetics, Phylogeny, *Phosphatidylethanolamines, Catalase/genetics, Base Composition, *Cardiolipins, Caseins, DNA, Bacterial/genetics, Bacterial Typing Techniques, Fatty Acids/chemistry, Sequence Analysis, DNA, Geologic Sediments/microbiology, Quinones, Nucleotides, Starch, Phospholipids/chemistryPathogenicity

Reference

@idauthorstitledoi/urlID_cross_referencepubmed
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
32455Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172867728776041
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
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg OvermannPredicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets10.1101/2024.08.12.607695
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardydeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1https://github.com/GenomeNet/deepG