Strain identifier
BacDive ID: 158681
Type strain:
Species: Polaribacter tangerinus
Strain Designation: WS2-14
Strain history: <- Zongjun Du, Shandong Univ.
NCBI tax ID(s): 1920034 (species)
General
@ref: 65417
BacDive-ID: 158681
keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-negative, coccus-shaped, colony-forming
description: Polaribacter tangerinus WS2-14 is an aerobe, Gram-negative, coccus-shaped bacterium that forms circular colonies and was isolated from sediment collected from a pond for sea cucumber culture.
NCBI tax id
- NCBI tax id: 1920034
- Matching level: species
strain history
- @ref: 67771
- history: <- Zongjun Du, Shandong Univ.
doi: 10.13145/bacdive158681.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Flavobacteriia
- order: Flavobacteriales
- family: Flavobacteriaceae
- genus: Polaribacter
- species: Polaribacter tangerinus
- full scientific name: Polaribacter tangerinus Han et al. 2017
@ref: 65417
domain: Bacteria
phylum: Bacteroidetes
class: Flavobacteriia
order: Flavobacteriales
family: Flavobacteriaceae
genus: Polaribacter
species: Polaribacter tangerinus
strain designation: WS2-14
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell shape | motility | cell length | cell width |
---|---|---|---|---|---|
65417 | negative | coccus-shaped | no | ||
65417 | rod-shaped | ||||
65417 | ovoid-shaped | ||||
65417 | 0.4-1.6 µm | 0.3-0.6 µm | |||
67771 | rod-shaped | ||||
67771 | ovoid-shaped | ||||
67771 | negative |
colony morphology
@ref | colony shape | medium used | colony size | colony color | incubation period |
---|---|---|---|---|---|
65417 | circular | marine agar 2216 | |||
65417 | 0.8-1.5 mm | orange | 5 days |
pigmentation
- @ref: 65417
- production: no
- name: Flexirubin
Culture and growth conditions
culture medium
- @ref: 65417
- name: Marine agar (MA)
- growth: yes
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
65417 | positive | growth | 10-37 | |
65417 | positive | growth | 28 | mesophilic |
67771 | positive | growth | 25-30 | mesophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
65417 | positive | growth | 6.5-8.5 | alkaliphile |
65417 | positive | optimum | 7.0-7.5 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
65417 | aerobe |
67771 | aerobe |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
65417 | NaCl | positive | growth | 0.5-6.0 %(w/v) |
65417 | NaCl | positive | optimum | 3 %(w/v) |
observation
@ref | observation |
---|---|
65417 | growth does not occur under anaerobic conditions, but grows weakly under microaerobic conditions on MA with or without 0.1 % (w/v) KNO3 |
65417 | sole respiratory quinone is MK-6 |
65417 | the main cellular polar lipids are phosphatidylethanolamine, one unidentified phospholipid, one unidentified aminolipid and three unidentified lipids |
67771 | quinones: MK-6 |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
65417 | 15588 | D-malate | + | carbon source |
65417 | 17925 | alpha-D-glucose | + | carbon source |
65417 | 73706 | bromosuccinate | + | carbon source |
65417 | 12936 | D-galactose | + | carbon source |
65417 | 16988 | D-ribose | + | builds acid from |
65417 | 17924 | D-sorbitol | + | carbon source |
65417 | 23652 | dextrin | + | carbon source |
65417 | 28066 | gentiobiose | + | carbon source |
65417 | 17306 | maltose | + | carbon source |
65417 | 28053 | melibiose | + | carbon source |
65417 | 17992 | sucrose | + | carbon source |
65417 | 53424 | tween 20 | + | hydrolysis |
65417 | 53423 | tween 40 | - | hydrolysis |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
65417 | 35581 | indole | no |
65417 | 15138 | sulfide | no |
enzymes
@ref | value | activity | ec |
---|---|---|---|
65417 | catalase | - | 1.11.1.6 |
65417 | cytochrome oxidase | - | 1.9.3.1 |
65417 | nitrate reductase | - | 1.7.99.4 |
65417 | gelatinase | - | |
65417 | arginine dihydrolase | - | 3.5.3.6 |
65417 | lysine decarboxylase | - | 4.1.1.18 |
65417 | ornithine decarboxylase | - | 4.1.1.17 |
65417 | urease | - | 3.5.1.5 |
65417 | tryptophan deaminase | - | 4.1.99.1 |
65417 | alkaline phosphatase | + | 3.1.3.1 |
65417 | leucine arylamidase | + | 3.4.11.1 |
65417 | valine arylamidase | + | |
65417 | cystine arylamidase | + | 3.4.11.3 |
65417 | acid phosphatase | + | 3.1.3.2 |
65417 | trypsin | + | 3.4.21.4 |
65417 | naphthol-AS-BI-phosphohydrolase | + | |
65417 | esterase (C 4) | - | |
65417 | esterase Lipase (C 8) | - | |
65417 | alpha-chymotrypsin | - | 3.4.21.1 |
65417 | alpha-galactosidase | - | 3.2.1.22 |
65417 | beta-galactosidase | - | 3.2.1.23 |
65417 | alpha-glucosidase | - | 3.2.1.20 |
65417 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
65417 | beta-glucosidase | - | 3.2.1.21 |
65417 | beta-glucuronidase | - | 3.2.1.31 |
65417 | lipase (C 14) | - | |
65417 | alpha-fucosidase | - | 3.2.1.51 |
65417 | alpha-mannosidase | - | 3.2.1.24 |
fatty acid profile
fatty acids
@ref fatty acid percentage 65417 C13:0 iso 15.5 65417 C15:0 iso 3OH 14.2 - type of FA analysis: whole cell analysis
- incubation medium: marine broth
- incubation temperature: 25
- incubation time: 2
- software version: Sherlock 4.5
- library/peak naming table: TSBA40
- system: MIS MIDI
- instrument: Agilent 6890 N
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | latitude | longitude |
---|---|---|---|---|---|---|---|
65417 | sediment collected from a pond for sea cucumber culture | Rongcheng, Shandong province | China | CHN | Asia | 36.9 | 122.233 |
67771 | From sediments, pond for sea cucumber culture in Rongcheng | Shandong province | China | CHN | Asia | 36.9097 | 122.246 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Invertebrates (Other) | #Echinodermata |
#Environmental | #Aquatic | #Pond (small) |
#Environmental | #Aquatic | #Sediment |
Sequence information
16S sequences
- @ref: 65417
- description: 16S rRNA gene sequence
- accession: KX262847
- database: nuccore
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Polaribacter tangerinus WS2-14 | GCA_002201235 | contig | ncbi | 1920034 |
66792 | Polaribacter tangerinus WS2-14 | 2791355037 | draft | img | 1920034 |
GC content
@ref | GC-content | method |
---|---|---|
65417 | 31.2 | high performance liquid chromatography (HPLC) |
67771 | 31.2 |
External links
@ref: 65417
culture collection no.: KCTC 52275, MCCC 1H00163
literature
- topic: Phylogeny
- Pubmed-ID: 28984567
- title: Polaribacter tangerinus sp. nov., isolated from sediment in a sea cucumber culture pond.
- authors: Han JR, Wang K, Zhang J, Chen GJ, Du ZJ
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.002369
- year: 2017
- mesh: Animals, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/genetics/isolation & purification, Geologic Sediments/*microbiology, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, *Sea Cucumbers, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry
- topic2: Transcriptome
Reference
@id | authors | title | doi/url | journal | pubmed |
---|---|---|---|---|---|
20215 | Parte, 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 DSMZ | 10.1099/ijsem.0.004332 | ||
65417 | Ji-Ru Han, Kan Wang, Jing Zhang, Guan-Jun Chen, Zong-Jun Du | Polaribacter tangerinus sp. nov., isolated from sediment in a sea cucumber culture pond | 10.1099/ijsem.0.002369 | IJSEM 67: 4736-4741 2017 | 28984567 |
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | ||
67771 | Curators of the KCTC | https://kctc.kribb.re.kr/En/Kctc |