Name: Indibacter alkaliphilus LW1
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 133554

Type strain:

Species: Indibacter alkaliphilus

Strain Designation: LW1

Culture col. no.: KCTC 22604, CCUG 57479

NCBI tax ID(s): 579922 (species)

SI-ID 408858

CCUG 57479

Section

Indibacter alkaliphilus LW1 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from freshwater .

Gram-negative
rod-shaped
aerobe
16S sequence
Bacteria
genome sequence

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

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Bacteroidota*
	Class	*Cytophagia*
	Order	*Cytophagales*
	Family	*Cyclobacteriaceae*
	Genus	*Indibacter*
	Species	**Indibacter alkaliphilus**
	Full Scientific Name (LPSN)	Indibacter alkaliphilus Anil Kumar et al. 2010

Information on morphological and physiological properties Morphology

[Ref.: #29487]	Gram stain	negative

[Ref.: #29487]	Cell length	2.5 µm

[Ref.: #29487]	Cell width	0.6 µm

[Ref.: #29487]	Cell shape	rod-shaped

[Ref.: #29487]	Motility	no

[Ref.: #29487]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

		Temperature
[Ref.: #29487]	growth	15-40 °C
[Ref.: #29487]	optimum	33.5 °C
[Ref.: #61343]	growth	30 °C

[Ref.: #29487]	Temperature range	mesophilic
[Ref.: #61343]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #29487]			growth	7.5-12

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29487]	Oxygen tolerance	aerobe
[Ref.: #61343]	Oxygen tolerance	aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29487]		NaCl		growth	<8	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29487]	arabinose ChEBI	+	carbon source
[Ref.: #29487]	esculin ChEBI	+	hydrolysis
[Ref.: #29487]	fructose ChEBI	+	carbon source
[Ref.: #29487]	galactose ChEBI	+	carbon source
[Ref.: #29487]	glucosamine ChEBI	+	carbon source
[Ref.: #29487]	glucose ChEBI	+	carbon source
[Ref.: #29487]	lactose ChEBI	+	carbon source
[Ref.: #29487]	maltose ChEBI	+	carbon source
[Ref.: #29487]	mannose ChEBI	+	carbon source
[Ref.: #29487]	melibiose ChEBI	+	carbon source
[Ref.: #29487]	nitrate ChEBI	+	reduction
[Ref.: #29487]	raffinose ChEBI	+	carbon source
[Ref.: #29487]	rhamnose ChEBI	+	carbon source
[Ref.: #29487]	ribitol ChEBI	+	carbon source
[Ref.: #29487]	sucrose ChEBI	+	carbon source
[Ref.: #29487]	trehalose ChEBI	+	carbon source
[Ref.: #29487]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #29487]		catalase	+	1.11.1.6
[Ref.: #29487]		cytochrome oxidase	+	1.9.3.1

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

[Ref.: #29487]	Sample type/isolated from	freshwater (river, lake, pond)

[Ref.: #61343]	Sample type/isolated from	Water (halo-alkaline)
[Ref.: #61343]	Sampling date	2008-08-25
[Ref.: #61343]	Geographic location (country and/or sea, region)	Lonar Lake,Buldhana
[Ref.: #61343]	Country	India
[Ref.: #61343]	Country ISO 3 Code	IND
[Ref.: #61343]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Freshwater
#Environmental	#Aquatic	#Lake (large)
#Environmental	#Aquatic	#Pond (small)
#Environmental	#Aquatic	#River (Creek)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence FM883672 (>99% sequence identity) for Indibacter alkaliphilus subclade from Microbeatlas

Aquatic Samples	199
Soil Samples	78
Animal Samples	155
Plant Samples	12
Total Samples	444

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.: #29487]	Indibacter alkaliphilus partial 16S rRNA gene, type strain LW1T	FM883672	1502	GenBank	1189612 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Indibacter alkaliphilus LW1	GCA_000295935	contig	GenBank	1189612 tax ID	*
[Ref.: #66792]	Indibacter alkaliphilus LW1	1189612.12	wgs	PATRIC	1189612 tax ID	*
[Ref.: #66792]	Indibacter alkaliphilus LW1	2516653045	draft	JGI IMG/M	1189612 tax ID	*

[Ref.: #29487]

GC-content

42.7 mol%

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Indibacter alkaliphilus LW1 PATRIC: 1189612.12
[Ref.: #69480]	motile	no	90.838	yes
[Ref.: #69480]	gram-positive	no	97.384	yes
[Ref.: #69480]	anaerobic	no	98.338	yes
[Ref.: #69480]	aerobic	yes	89.883	no
[Ref.: #69480]	halophile	no	77.754	no
[Ref.: #69480]	spore-forming	no	93.894	no
[Ref.: #69480]	flagellated	no	94.985	yes
[Ref.: #69480]	glucose-util	yes	89.104	yes
[Ref.: #69480]	thermophile	no	97.646	yes
[Ref.: #69480]	glucose-ferment	no	89.5	no

Availability in culture collections External links

[Ref.: #29487]

Culture collection no.

KCTC 22604, CCUG 57479

[Ref.: #91500]

SI-ID 408858

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Arthrospiribacter ruber gen. nov., sp. nov., a novel bacterium isolated from Arthrospira cultures.	Waleron M, Misztak A, Waleron MM, Furmaniak M, Mrozik A, Waleron K	Syst Appl Microbiol	10.1016/j.syapm.2020.126072	2020	*
Phylogeny	Indibacter alkaliphilus gen. nov., sp. nov., an alkaliphilic bacterium isolated from a haloalkaline lake.	Anil Kumar P, Srinivas TN, Madhu S, Manorama R, Shivaji S	Int J Syst Evol Microbiol	10.1099/ijs.0.014076	2010	*

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 )

#29487

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #25887 (see below)

#61343 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 57479

#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) .

#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) .

#91500

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID408858.1 )

#25887

IJSEM 721 2010 ( DOI 10.1099/ijs.0.014076-0 )

* These data were automatically processed and therefore are not curated

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