Name: Ciceribacter lividus MSSRFBL1
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 24486

Type strain:

Species: Ciceribacter lividus

Strain Designation: MSSRFBL1

Culture col. no.: DSM 25528, KCTC 32403

Strain history: <- R. Kathiravan, M.S. Swaminathan Research Foundation, Taramani, India; MSSRFBL

NCBI tax ID(s): 1197950 (species)

Section

Ciceribacter lividus MSSRFBL1 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from rhizosphere soil of chick pea .

Gram-negative
motile
rod-shaped
aerobe
mesophilic
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	*Pseudomonadota*
	Class	*Alphaproteobacteria*
	Order	*Hyphomicrobiales*
	Family	*Rhizobiaceae*
	Genus	*Ciceribacter*
	Species	**Ciceribacter lividus**
	Full Scientific Name (LPSN)	Ciceribacter lividus Kathiravan et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #31010]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.994

[Ref.: #31010]	Cell length	1.5 µm

[Ref.: #31010]	Cell width	0.4 µm

[Ref.: #31010]	Cell shape	rod-shaped

[Ref.: #31010]	Motility	yes

[Ref.: #31010]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

	Temperatures	Kind of temperature		Temperature
[Ref.: #31010]			growth	25-37 °C
[Ref.: #31010]			optimum	28 °C

[Ref.: #31010]

Temperature range

mesophilic

	pH	Kind of pH		pH
[Ref.: #31010]			optimum	7
[Ref.: #31010]			growth	6.0-8.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #31010]

Oxygen tolerance

aerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.983

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #31010]		NaCl		growth	0-2	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31010]	arabinose ChEBI	+	carbon source
[Ref.: #31010]	citrate ChEBI	+	carbon source
[Ref.: #31010]	fructose ChEBI	+	carbon source
[Ref.: #31010]	maltose ChEBI	+	carbon source
[Ref.: #31010]	mannose ChEBI	+	carbon source
[Ref.: #31010]	ribose ChEBI	+	carbon source
[Ref.: #31010]	sucrose ChEBI	+	carbon source

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #31010]		catalase	+	1.11.1.6
[Ref.: #31010]		urease	+	3.5.1.5

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

[Ref.: #21294]	Sample type/isolated from	rhizosphere soil of chick pea (Cicer arietinum L.)
[Ref.: #21294]	Host species	Cicer arietinum
[Ref.: #21294]	Geographic location (country and/or sea, region)	Tamil Nadu, Kannivadi (10° 22' 44.40'' N 77° 49' 48.0'' E)
[Ref.: #21294]	Country	India
[Ref.: #21294]	Country ISO 3 Code	IND
[Ref.: #21294]	Continent	Asia
[Ref.: #21294]	Geographic location	10.3790°/77.8300°
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Soil
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Rhizosphere

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence JQ230000 (>99% sequence identity) for Rhizobiaceae from Microbeatlas

Aquatic Samples	149
Soil Samples	122
Animal Samples	38
Plant Samples	374
Total Samples	683

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #21294]

Biosafety level

Risk group (German classification)
According to TRBA 466

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.: #21294]	Ciceribacter lividus strain MSSRFBL1 16S ribosomal RNA gene, partial sequence	JQ230000	1392	ENA	1197950 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Ciceribacter lividus DSM 25528	GCA_003337715	scaffold	GenBank	1197950 tax ID	*
[Ref.: #66792]	Ciceribacter lividus strain DSM 25528	1197950.4	wgs	PATRIC	1197950 tax ID	*
[Ref.: #66792]	Ciceribacter lividus DSM 25528	2770939508	draft	JGI IMG/M	1197950 tax ID	*

[Ref.: #21294]	GC-content	71 mol%	high performance liquid chromatography (HPLC)
[Ref.: #31010]	GC-content	71 mol%

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Ciceribacter lividus DSM 25528 NCBI: GCA_003337715.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Ciceribacter lividus DSM 25528 NCBI: GCA_003337715.1
[Ref.: #69480]	motile	yes	89.722	yes
[Ref.: #69480]	flagellated	no	51.643	no
[Ref.: #69480]	gram-positive	no	98.502	yes
[Ref.: #69480]	anaerobic	no	97.296	yes
[Ref.: #69480]	aerobic	yes	87.276	yes
[Ref.: #69480]	halophile	no	85.338	no
[Ref.: #69480]	spore-forming	no	95.722	no
[Ref.: #69480]	glucose-util	yes	91.283	no
[Ref.: #69480]	thermophile	no	94.963	no
[Ref.: #69480]	glucose-ferment	no	90.625	no

Availability in culture collections External links

[Ref.: #21294]

Culture collection no.

DSM 25528, KCTC 32403

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Ciceribacter lividus gen. nov., sp. nov., isolated from rhizosphere soil of chick pea (Cicer arietinum L.).	Kathiravan R, Jegan S, Ganga V, Prabavathy VR, Tushar L, Sasikala C, Ramana CV	Int J Syst Evol Microbiol	10.1099/ijs.0.049726-0	2013	*
Phylogeny	Ciceribacter azotifigens sp. nov., a nitrogen-fixing bacterium isolated from activated sludge.	Siddiqi MZ, Choi GM, Im WT	Int J Syst Evol Microbiol	10.1099/ijsem.0.002438	2018	*
Phylogeny	Ciceribacter thiooxidans sp. nov., a novel nitrate-reducing thiosulfate-oxidizing bacterium isolated from sulfide-rich anoxic sediment.	Deng T, Chen X, Zhang Q, Zhong Y, Guo J, Sun G, Xu M	Int J Syst Evol Microbiol	10.1099/ijsem.0.002367	2017	*

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 )

#21294

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 25528

#31010

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 #27340 (see below)

#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) .

#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 )

#27340

IJSEM 4484 2013 ( DOI 10.1099/ijs.0.049726-0 , PubMed 23907221 )

* These data were automatically processed and therefore are not curated

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Ciceribacter lividus DSM 25528

Ciceribacter lividus DSM 25528

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