Strain identifier
BacDive ID: 164093
Type strain:
Species: Nitrincola tapanii
Strain Designation: MEB193
Strain history: A. A. Joshi; NCCS, India; MEB193.
NCBI tax ID(s): 1708751 (species)
General
@ref: 67770
BacDive-ID: 164093
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative, motile, rod-shaped
description: Nitrincola tapanii MEB193 is a mesophilic, Gram-negative, motile bacterium that was isolated from Sediment from Lonar Lake.
NCBI tax id
- NCBI tax id: 1708751
- Matching level: species
strain history
- @ref: 67770
- history: A. A. Joshi; NCCS, India; MEB193.
doi: 10.13145/bacdive164093.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Oceanospirillales
- family: Oceanospirillaceae
- genus: Nitrincola
- species: Nitrincola tapanii
- full scientific name: Nitrincola tapanii Joshi et al. 2020
@ref: 67770
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Oceanospirillales
family: Oceanospirillaceae
genus: Nitrincola
species: Nitrincola tapanii
full scientific name: Nitrincola tapanii Joshi et al. 2020
strain designation: MEB193
type strain: yes
Morphology
cell morphology
- @ref: 69574
- gram stain: negative
- cell length: 0.9-1.6 µm
- cell width: 0.2-0.6 µm
- cell shape: rod-shaped
- motility: yes
- flagellum arrangement: polar
colony morphology
- @ref: 69574
- colony size: 1-2 mm
- colony color: faint cream
- medium used: Nutrient agar (NA)
Culture and growth conditions
culture medium
- @ref: 69574
- name: Nutrient agar (NA)
- growth: yes
- composition: (pH 9.0) medium
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
67770 | positive | growth | 30 | mesophilic |
69574 | positive | growth | 30 | mesophilic |
69574 | positive | optimum | 10-37 |
culture pH
@ref | ability | type | pH |
---|---|---|---|
69574 | positive | growth | 8.0-10.5 |
69574 | positive | optimum | 9 |
Physiology and metabolism
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
69574 | NaCl | positive | growth | 0-6 %(w/v) |
69574 | NaCl | positive | optimum | 1 %(w/v) |
observation
@ref | observation |
---|---|
69574 | The strain is alkaliphilic. And the colonies are faint cream, entire, glistening, smooth and flat. |
69574 | No fluorescent or visible pigments are produced on solid King's media A or B |
69574 | The predominant polar lipids are phosphatidylglycerol and diphosphatidylglycerol. |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
69574 | 35581 | indole | - | assimilation |
69574 | 17521 | (-)-quinic acid | - | assimilation |
69574 | 16763 | 2-oxobutanoate | - | assimilation |
69574 | alpha-hydroxybutyrate | - | assimilation | |
69574 | 73706 | bromosuccinate | - | assimilation |
69574 | 17057 | cellobiose | - | assimilation |
69574 | 18333 | D-arabitol | - | assimilation |
69574 | 29990 | D-aspartate | - | assimilation |
69574 | 18391 | D-gluconate | - | assimilation |
69574 | 15588 | D-malate | - | assimilation |
69574 | 16899 | D-mannitol | - | assimilation |
69574 | 33801 | D-saccharate | - | assimilation |
69574 | 17814 | D-salicin | - | assimilation |
69574 | 16523 | D-serine | - | assimilation |
69574 | 17924 | D-sorbitol | - | assimilation |
69574 | 23652 | dextrin | - | assimilation |
69574 | esculin hydrolysate | - | assimilation | |
69574 | 15740 | formate | - | assimilation |
69574 | 16537 | galactarate | - | assimilation |
69574 | 16865 | gamma-aminobutyric acid | - | assimilation |
69574 | 5291 | gelatin | - | assimilation |
69574 | 17754 | glycerol | - | assimilation |
69574 | 70744 | glycyl-L-proline | - | assimilation |
69574 | 16136 | hydrogen sulfide | - | assimilation |
69574 | 17596 | inosine | - | assimilation |
69574 | 16977 | L-alanine | - | assimilation |
69574 | 16467 | L-arginine | - | assimilation |
69574 | 29991 | L-aspartate | - | assimilation |
69574 | 29985 | L-glutamate | - | assimilation |
69574 | 15971 | L-histidine | - | assimilation |
69574 | 15589 | L-malate | - | assimilation |
69574 | 90601 | L-pyroglutamic acid 2-naphthylamide | - | assimilation |
69574 | 17115 | L-serine | - | assimilation |
69574 | 24996 | lactate | - | assimilation |
69574 | 17716 | lactose | - | assimilation |
69574 | 17306 | maltose | - | assimilation |
69574 | 74611 | methyl (R)-lactate | - | assimilation |
69574 | 37657 | methyl D-glucoside | - | assimilation |
69574 | 51850 | methyl pyruvate | - | assimilation |
69574 | 17268 | myo-inositol | - | assimilation |
69574 | 63154 | N-acetyl-beta-D-mannosamine | - | assimilation |
69574 | 28037 | n-acetyl-D-galactosamine | - | assimilation |
69574 | 506227 | N-acetyl-D-glucosamine | - | assimilation |
69574 | n-acetyl-neuraminic acid | - | assimilation | |
69574 | 17309 | pectin | - | assimilation |
69574 | 17272 | propionate | - | assimilation |
69574 | 26490 | quinate | - | assimilation |
69574 | 16634 | raffinose | - | assimilation |
69574 | 17164 | stachyose | - | assimilation |
69574 | 17992 | sucrose | - | assimilation |
69574 | 27082 | trehalose | - | assimilation |
69574 | 32528 | turanose | - | assimilation |
69574 | 53423 | tween 40 | - | assimilation |
69574 | 16991 | dna | - | hydrolysis |
69574 | casein | - | hydrolysis | |
69574 | 5291 | gelatin | - | hydrolysis |
69574 | 28017 | starch | - | hydrolysis |
69574 | 53426 | tween 80 | - | hydrolysis |
69574 | 16199 | urea | - | hydrolysis |
69574 | 17632 | nitrate | - | reduction |
metabolite tests
@ref | Chebi-ID | metabolite | methylred-test | indole test | voges-proskauer-test | citrate test |
---|---|---|---|---|---|---|
69574 | 35581 | indole | - | - | ||
69574 | 16991 | dna | - | + | + |
enzymes
@ref | value | activity | ec |
---|---|---|---|
69574 | cytochrome oxidase | + | 1.9.3.1 |
69574 | catalase | + | 1.11.1.6 |
69574 | leucine arylamidase | + | 3.4.11.1 |
69574 | naphthol-AS-BI-phosphohydrolase | + | |
69574 | alkaline phosphatase | - | 3.1.3.1 |
69574 | esterase (C 4) | - | |
69574 | esterase Lipase (C 8) | - | |
69574 | lipase | - | |
69574 | valine arylamidase | - | |
69574 | cystine arylamidase | - | 3.4.11.3 |
69574 | trypsin | - | 3.4.21.4 |
69574 | alpha-chymotrypsin | - | 3.4.21.1 |
69574 | acid phosphatase | - | 3.1.3.2 |
69574 | alpha-galactosidase | - | 3.2.1.22 |
69574 | beta-galactosidase | - | 3.2.1.23 |
69574 | beta-glucuronidase | - | 3.2.1.31 |
69574 | alpha-glucosidase | - | 3.2.1.20 |
69574 | beta-glucosidase | - | 3.2.1.21 |
69574 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
69574 | alpha-mannosidase | - | 3.2.1.24 |
69574 | alpha-fucosidase | - | 3.2.1.51 |
fatty acid profile
fatty acids
@ref fatty acid percentage 69574 C10:0 2.6 69574 C10:0 3OH 4.7 69574 C12:0 2.6 69574 C16:0 24.6 69574 C16:1 w7c/ C16:1 w6c 9.9 69574 C18:0 1.5 69574 C18:1 w7c/C18:1 w6c 52.3 - type of FA analysis: whole cell analysis
- incubation medium: Nutrient agar
- incubation temperature: 28
- software version: Sherlock 6.0
- library/peak naming table: RTSBA6
- system: MIS MIDI
Isolation, sampling and environmental information
isolation
@ref | sample type | country | origin.country | continent | geographic location |
---|---|---|---|---|---|
67770 | Sediment from Lonar Lake | India | IND | Asia | |
69574 | sediment sample collected from Lonar Lake, India. | India | IND | Asia | Lonar Lake |
taxonmaps
- @ref: 69479
- File name: preview.99_150493.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_240;96_57152;97_73894;98_99446;99_150493&stattab=map
- Last taxonomy: Nitrincola tapanii subclade
- 16S sequence: KT633917
- Sequence Identity:
- Total samples: 52
- soil counts: 5
- aquatic counts: 39
- animal counts: 8
Sequence information
16S sequences
- @ref: 67770
- description: Nitrincola sp. MEB193 16S ribosomal RNA gene, partial sequence
- accession: KT633917
- length: 1481
- database: ena
- NCBI tax ID: 1708751
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
67770 | Nitrincola tapanii MEB193 | GCA_008368715 | contig | ncbi | 1708751 |
69574 | genome sequence | GCA_008368715.1 | ncbi |
GC content
- @ref: 67770
- GC-content: 50.79
- method: genome sequence analysis
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | yes | 86.76 | no |
flagellated | yes | 87.821 | no |
gram-positive | no | 99.003 | no |
anaerobic | no | 97.431 | no |
aerobic | yes | 63.687 | no |
halophile | yes | 70.65 | no |
spore-forming | no | 96.725 | no |
glucose-util | no | 56.747 | no |
glucose-ferment | no | 80.07 | no |
thermophile | no | 98.762 | yes |
External links
@ref: 67770
culture collection no.: JCM 31570, MCC 2863, KCTC 52390
literature
- topic: Phylogeny
- Pubmed-ID: 31751193
- title: Nitrincola tapanii sp. nov., a novel alkaliphilic bacterium from An Indian Soda Lake.
- authors: Joshi A, Thite S, Dhotre D, Moorthy M, Joseph N, Ramana VV, Shouche Y
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.003883
- year: 2020
- mesh: *Alkalies, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Hydrogen-Ion Concentration, India, Lakes/*microbiology, Nucleic Acid Hybridization, Oceanospirillaceae/*classification/isolation & purification, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
- topic2: Transcriptome
Reference
@id | authors | title | doi/url |
---|---|---|---|
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 |
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | |
69479 | João 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 beta | https://microbeatlas.org/ |
69574 | Amaraja Joshi, Sonia Thite, Dhiraj Dhotre, Manju Moorthy, Neetha Joseph, V. Venkata Ramana and Yogesh Shouche | Nitrincola tapanii sp. nov., a novel alkaliphilic bacterium from An Indian Soda Lake | 10.1099/ijsem.0.003883 |