Name: Nitrincola alkalisediminis MEB087
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 140898

Type strain:

Species: Nitrincola alkalisediminis

Strain Designation: MEB087

Culture col. no.: KCTC 42948, JCM 19317

Strain history: A. A. Joshi MEB087.

NCBI tax ID(s): 1366656 (species)

Special Collections

Other strains from Nitrincola alkalisediminis

Section

Nitrincola alkalisediminis MEB087 is an aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from A sediment sample collected from the alkaline Lonar Lake.

colony-forming
Gram-negative
rod-shaped
aerobe
mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Oceanospirillales*
	Family	*Oceanospirillaceae*
	Genus	*Nitrincola*
	Species	**Nitrincola alkalisediminis**
	Full Scientific Name (LPSN)	Nitrincola alkalisediminis Joshi et al. 2016

Information on morphological and physiological properties Morphology

[Ref.: #43735]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %100

[Ref.: #43735]	Cell length	1.4-2.2 µm

[Ref.: #43735]	Cell width	0.7-1.17 µm

[Ref.: #43735]	Cell shape	rod-shaped

[Ref.: #43735]	Motility	no

[Ref.: #43735]	Colony size	2-5 mm
[Ref.: #43735]	Colony color	Cream
[Ref.: #43735]	Colony shape	circular
[Ref.: #43735]	Incubation period	2 days
[Ref.: #43735]	Cultivation medium used	Nutrient agar

Information on culture and growth conditions Culture and growth conditions

[Ref.: #43735]

Culture medium

Nutrient agar (NA)

[Ref.: #43735]

Culture medium growth

	Temperatures	Kind of temperature		Temperature
[Ref.: #43735]			optimum	37 °C
[Ref.: #67770]			growth	37 °C

	pH	Kind of pH		pH
[Ref.: #43735]			optimum	9.5
[Ref.: #43735]			growth	7.5-11

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43735]

Oxygen tolerance

aerobe

[Ref.: #69480]	Ability of spore formation	no Confidence in %91.394
[Ref.: #69481]	Ability of spore formation	no Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43735]		NaCl		growth	0.6	M
[Ref.: #43735]		NaCl		optimum	0.4	M

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43735]	acetate ChEBI	-	carbon source
[Ref.: #43735]	acetate ChEBI	-	energy source
[Ref.: #43735]	adipate ChEBI	-	carbon source
[Ref.: #43735]	adipate ChEBI	-	energy source
[Ref.: #43735]	casein	-	hydrolysis
[Ref.: #43735]	cellobiose ChEBI	-	carbon source
[Ref.: #43735]	cellobiose ChEBI	-	energy source
[Ref.: #43735]	coumarate ChEBI	-	carbon source
[Ref.: #43735]	coumarate ChEBI	-	energy source
[Ref.: #43735]	D-arabinose ChEBI	-	carbon source
[Ref.: #43735]	D-arabinose ChEBI	-	energy source
[Ref.: #43735]	D-fructose ChEBI	-	carbon source
[Ref.: #43735]	D-fructose ChEBI	-	energy source
[Ref.: #43735]	D-galactose ChEBI	-	carbon source
[Ref.: #43735]	D-galactose ChEBI	-	energy source
[Ref.: #43735]	D-glucose ChEBI	+	carbon source
[Ref.: #43735]	D-mannose ChEBI	-	carbon source
[Ref.: #43735]	D-mannose ChEBI	-	energy source
[Ref.: #43735]	D-ribose ChEBI	-	carbon source
[Ref.: #43735]	D-ribose ChEBI	-	energy source
[Ref.: #43735]	D-saccharate ChEBI	+	carbon source
[Ref.: #43735]	D-xylose ChEBI	-	carbon source
[Ref.: #43735]	D-xylose ChEBI	-	energy source
[Ref.: #43735]	decanoate ChEBI	-	carbon source
[Ref.: #43735]	decanoate ChEBI	-	energy source
[Ref.: #43735]	dna ChEBI	-	hydrolysis
[Ref.: #43735]	ethanol ChEBI	-	carbon source
[Ref.: #43735]	ethanol ChEBI	-	energy source
[Ref.: #43735]	fumarate ChEBI	-	carbon source
[Ref.: #43735]	fumarate ChEBI	-	energy source
[Ref.: #43735]	galactitol ChEBI	-	carbon source
[Ref.: #43735]	galactitol ChEBI	-	energy source
[Ref.: #43735]	gelatin ChEBI	-	hydrolysis
[Ref.: #43735]	glucose ChEBI	+	fermentation
[Ref.: #43735]	glucuronate ChEBI	-	carbon source
[Ref.: #43735]	glucuronate ChEBI	-	energy source
[Ref.: #43735]	glycerol ChEBI	-	carbon source
[Ref.: #43735]	glycerol ChEBI	-	energy source
[Ref.: #43735]	glycine ChEBI	-	carbon source
[Ref.: #43735]	glycine ChEBI	-	energy source
[Ref.: #43735]	hippurate ChEBI	-	carbon source
[Ref.: #43735]	hippurate ChEBI	-	energy source
[Ref.: #43735]	L-alanine ChEBI	-	carbon source
[Ref.: #43735]	L-alanine ChEBI	-	energy source
[Ref.: #43735]	L-arginine ChEBI	-	carbon source
[Ref.: #43735]	L-arginine ChEBI	-	energy source
[Ref.: #43735]	L-asparagine ChEBI	-	carbon source
[Ref.: #43735]	L-asparagine ChEBI	-	energy source
[Ref.: #43735]	L-aspartate ChEBI	-	carbon source
[Ref.: #43735]	L-aspartate ChEBI	-	energy source
[Ref.: #43735]	L-glutamate ChEBI	-	carbon source
[Ref.: #43735]	L-glutamate ChEBI	-	energy source
[Ref.: #43735]	L-glutamine ChEBI	-	carbon source
[Ref.: #43735]	L-glutamine ChEBI	-	energy source
[Ref.: #43735]	L-isoleucine ChEBI	-	carbon source
[Ref.: #43735]	L-isoleucine ChEBI	-	energy source
[Ref.: #43735]	L-leucine ChEBI	-	carbon source
[Ref.: #43735]	L-leucine ChEBI	-	energy source
[Ref.: #43735]	L-methionine ChEBI	-	carbon source
[Ref.: #43735]	L-methionine ChEBI	-	energy source
[Ref.: #43735]	L-ornithine ChEBI	-	carbon source
[Ref.: #43735]	L-ornithine ChEBI	-	energy source
[Ref.: #43735]	L-phenylalanine ChEBI	-	carbon source
[Ref.: #43735]	L-phenylalanine ChEBI	-	energy source
[Ref.: #43735]	L-rhamnose ChEBI	-	carbon source
[Ref.: #43735]	L-rhamnose ChEBI	-	energy source
[Ref.: #43735]	L-serine ChEBI	-	carbon source
[Ref.: #43735]	L-serine ChEBI	-	energy source
[Ref.: #43735]	L-threonine ChEBI	-	carbon source
[Ref.: #43735]	L-threonine ChEBI	-	energy source
[Ref.: #43735]	L-tryptophan ChEBI	-	carbon source
[Ref.: #43735]	L-tryptophan ChEBI	-	energy source
[Ref.: #43735]	lactate ChEBI	-	carbon source
[Ref.: #43735]	lactate ChEBI	-	energy source
[Ref.: #43735]	lactose ChEBI	-	carbon source
[Ref.: #43735]	lactose ChEBI	-	energy source
[Ref.: #43735]	malate ChEBI	-	carbon source
[Ref.: #43735]	malate ChEBI	-	energy source
[Ref.: #43735]	malate ChEBI	+	carbon source
[Ref.: #43735]	maltose ChEBI	-	carbon source
[Ref.: #43735]	maltose ChEBI	-	energy source
[Ref.: #43735]	mannitol ChEBI	-	carbon source
[Ref.: #43735]	mannitol ChEBI	-	energy source
[Ref.: #43735]	N-acetylglucosamine ChEBI	-	carbon source
[Ref.: #43735]	N-acetylglucosamine ChEBI	-	energy source
[Ref.: #43735]	nitrate ChEBI	+	reduction
[Ref.: #43735]	nitrite ChEBI	+	reduction
[Ref.: #43735]	phenylacetate ChEBI	-	carbon source
[Ref.: #43735]	phenylacetate ChEBI	-	energy source
[Ref.: #43735]	potassium gluconate ChEBI	-	carbon source
[Ref.: #43735]	potassium gluconate ChEBI	-	energy source
[Ref.: #43735]	propanol ChEBI	-	carbon source
[Ref.: #43735]	propanol ChEBI	-	energy source
[Ref.: #43735]	pyruvate ChEBI	+	carbon source
[Ref.: #43735]	ribitol ChEBI	-	carbon source
[Ref.: #43735]	ribitol ChEBI	-	energy source
[Ref.: #43735]	sarcosine ChEBI	-	carbon source
[Ref.: #43735]	sarcosine ChEBI	-	energy source
[Ref.: #43735]	sodium citrate ChEBI	+	carbon source
[Ref.: #43735]	sorbitol ChEBI	-	carbon source
[Ref.: #43735]	sorbitol ChEBI	-	energy source
[Ref.: #43735]	starch ChEBI	-	hydrolysis
[Ref.: #43735]	succinate ChEBI	-	carbon source
[Ref.: #43735]	succinate ChEBI	-	energy source
[Ref.: #43735]	sucrose ChEBI	+	carbon source
[Ref.: #43735]	urea ChEBI	-	hydrolysis
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Antibiotic sensitivity	Concentration		Antibiotic resistance	Concentration
[Ref.: #43735]	ampicillin ChEBI				yes	25	µg (disc)
[Ref.: #43735]	bacitracin ChEBI	yes	10	Unit (disc)
[Ref.: #43735]	carbenicillin ChEBI				yes	100	µg (disc)
[Ref.: #43735]	chloramphenicol ChEBI	yes	30	µg (disc)
[Ref.: #43735]	erythromycin ChEBI	yes	15	µg (disc)
[Ref.: #43735]	gentamicin ChEBI	yes	5	µg (disc)
[Ref.: #43735]	nalidixic acid ChEBI	yes	30	µg (disc)
[Ref.: #43735]	neomycin ChEBI	yes	30	µg (disc)
[Ref.: #43735]	penicillin ChEBI	yes	10	µg (disc)
[Ref.: #43735]	polymyxin b ChEBI	yes	35	µg (disc)
[Ref.: #43735]	rifampicin ChEBI	yes	2	µg (disc)
[Ref.: #43735]	streptomycin ChEBI	yes	10	µg (disc)
[Ref.: #43735]	tetracycline ChEBI	yes	30	µg (disc)
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #43735]	acetoin ChEBI	no
[Ref.: #43735]	hydrogen sulfide ChEBI	no
[Ref.: #43735]	indole ChEBI	no

	Physiological tests	Metabolite	Methylred-test
[Ref.: #43735]		glucose ChEBI	+

	Enzyme	Enzyme activity	EC number
[Ref.: #43735]	arginine dihydrolase	-	3.5.3.6
[Ref.: #43735]	catalase	+	1.11.1.6
[Ref.: #43735]	cytochrome oxidase	+	1.9.3.1
[Ref.: #43735]	lysine decarboxylase	-	4.1.1.18
[Ref.: #43735]	ornithine decarboxylase	-	4.1.1.17

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #43735]	Sample type/isolated from	A sediment sample collected from the alkaline Lonar Lake
[Ref.: #43735]	Geographic location (country and/or sea, region)	Lonar Lake, India
[Ref.: #43735]	Country	India
[Ref.: #43735]	Country ISO 3 Code	IND
[Ref.: #43735]	Continent	Asia
[Ref.: #43735]	Isolation date	2010-10

[Ref.: #67770]	Sample type/isolated from	Sediment from the alkaline Lonar Lake in Maharashtra
[Ref.: #67770]	Country	India
[Ref.: #67770]	Country ISO 3 Code	IND
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Condition	#Alkaline	-
#Environmental	#Aquatic	#Lake (large)
#Environmental	#Aquatic	#Sediment

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KC822363 (>99% sequence identity) for Nitrincola from Microbeatlas

Aquatic Samples	54
Soil Samples	10
Animal Samples	25
Plant Samples	1
Total Samples	90

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #43735]	Nitrincola alkalisediminis strain MEB087 16S ribosomal RNA gene, partial sequence	KC822363		GenBank ENA

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Nitrincola alkalisediminis JCM 19317	GCA_009821115	scaffold	GenBank ENA	1366656 tax ID	*
[Ref.: #66792]	Nitrincola alkalisediminis strain MEB087	1366656.3	wgs	PATRIC	1366656 tax ID	*
[Ref.: #66792]	Nitrincola alkalisediminis JCM 19317	2890467569	draft	JGI IMG/M	1366656 tax ID	*

[Ref.: #67770]

GC-content

49.3 mol%

thermal denaturation, midpoint method (Tm)

Data predicted using genome information as a basis Genome-based predictions

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Nitrincola alkalisediminis JCM 19317 NCBI: GCA_009821115.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Nitrincola alkalisediminis JCM 19317 NCBI: GCA_009821115.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	100	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	94.747	yes
[Ref.: #69480]	aerobic	aerobicⓘ	yes	76.415	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	91.394	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	97.491	no
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	88.388	no

Availability in culture collections External links

[Ref.: #43735]

Culture collection no.

KCTC 42948, JCM 19317

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Nitrincola alkalisediminis sp. nov., an alkaliphilic bacterium isolated from an alkaline lake.	Joshi A, Thite S, Kulkarni G, Dhotre D, Joseph N, Venkata Ramana V, Polkade A, Shouche Y	Int J Syst Evol Microbiol	10.1099/ijsem.0.000868	2015	*
Phylogeny	Nitrincola tibetensis sp. nov., isolated from Lake XuguoCo on the Tibetan Plateau.	Phurbu D, Pema Y, Ma C, Lu H, Li H, Tian Y, Xing P	Int J Syst Evol Microbiol	10.1099/ijsem.0.003111	2018	*

References

#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. IJSEM ( DOI 10.1099/ijsem.0.004332 )

#43735

Amaraja Joshi, Sonia Thite, Girish Kulkarni, Dhiraj Dhotre, Neetha Joseph, Venkata Ramana V., Ashish Polkade, Yogesh Shouche: Nitrincola alkalisediminis sp. nov., an alkaliphilic bacterium isolated from an alkaline lake. IJSEM 66: 1254 - 1259 2016 ( DOI 10.1099/ijsem.0.000868 , PubMed 26705145 )

#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) .

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

* These data were automatically processed and therefore are not curated

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