Name: Rhodobacter aestuarii JA296
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 13823

Type strain:

Species: Rhodobacter aestuarii

Strain Designation: JA296

Culture col. no.: DSM 19945, CCUG 55130, JCM 14887

Strain history: <- C. Sasikala, Centre Environment, Inst. Sci. and Technol., J. N. T. Univ., Hyderabad, India; JA296 <- P. A. Kumar

NCBI tax ID(s): 453582 (species)

SI-ID 409841

CCUG 55130

Section

Rhodobacter aestuarii JA296 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from brown-coloured microbial mat from brackish water of mangrove forest.

Gram-negative
motile
rod-shaped
anaerobe
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	*Rhodobacterales*
	Family	*Paracoccaceae*
	Genus	*Rhodobacter*
	Species	**Rhodobacter aestuarii**
	Full Scientific Name (LPSN)	Rhodobacter aestuarii Venkata Ramana et al. 2009

Information on morphological and physiological properties Morphology

[Ref.: #29034]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.994

[Ref.: #29034]	Cell length	1.75 µm

[Ref.: #29034]	Cell width	0.85 µm

[Ref.: #29034]	Cell shape	rod-shaped

[Ref.: #29034]	Motility	yes

[Ref.: #29034]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

		Temperature
[Ref.: #29034]	growth	25-30 °C
[Ref.: #29034]	optimum	30 °C
[Ref.: #60471]	growth	30 °C

[Ref.: #29034]	Temperature range	mesophilic
[Ref.: #60471]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #29034]			optimum	7
[Ref.: #29034]			growth	6-8.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29034]	Oxygen tolerance	anaerobe
[Ref.: #60471]	Oxygen tolerance	aerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.986

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29034]		NaCl		growth	<2	%

[Ref.: #29034]

Observation

aggregates in chains

	Metabolite utilization	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29034]		lactate ChEBI	+	carbon source
[Ref.: #29034]		pyruvate ChEBI	+	carbon source

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

[Ref.: #8402]	Sample type/isolated from	brown-coloured microbial mat from brackish water of mangrove forest
[Ref.: #8402]	Geographic location (country and/or sea, region)	Dangmal, Bhitarkanika
[Ref.: #8402]	Country	India
[Ref.: #8402]	Country ISO 3 Code	IND
[Ref.: #8402]	Continent	Asia

[Ref.: #60471]	Sample type/isolated from	Mud from microbial mat of mangrove forest
[Ref.: #60471]	Sampling date	2007-05-15
[Ref.: #60471]	Geographic location (country and/or sea, region)	Orissa,Bhitarkanika,Dangmal
[Ref.: #60471]	Country	India
[Ref.: #60471]	Country ISO 3 Code	IND
[Ref.: #60471]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Brackish
#Environmental	#Aquatic	#Mangrove
#Environmental	#Microbial community	#Microbial mat
#Environmental	#Terrestrial	#Forest

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AM748926 (>99% sequence identity) for Rhodobacter aestuarii subclade from Microbeatlas

Aquatic Samples	4
Soil Samples	1
Animal Samples
Plant Samples
Total Samples	5

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

[Ref.: #8402]

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.: #8402]	Rhodobacter aestuarii partial 16S rRNA gene, type strain JA296T	AM748926	1369	ENA	453582 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Rhodobacter aestuarii DSM 19945	GCA_900156655	contig	GenBank	453582 tax ID	*
[Ref.: #66792]	Rhodobacter aestuarii JA296	GCA_003053525	scaffold	GenBank	453582 tax ID	*
[Ref.: #66792]	Rhodobacter aestuarii strain DSM 19945	453582.3	wgs	PATRIC	453582 tax ID	*
[Ref.: #66792]	Rhodobacter aestuarii JA296	2740891822	draft	JGI IMG/M	453582 tax ID	*
[Ref.: #66792]	Rhodobacter aestuarii DSM 19945	2681813516	draft	JGI IMG/M	453582 tax ID	*

[Ref.: #8402]	GC-content	65.1 mol%	high performance liquid chromatography (HPLC)
[Ref.: #29034]	GC-content	65.1 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: Rhodobacter aestuarii strain DSM 19945 PATRIC: 453582.5
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Rhodobacter aestuarii JA296 NCBI: GCA_003053525.1
[Ref.: #69480]	flagellated	no	76.964	no
[Ref.: #69480]	gram-positive	no	98.718	no
[Ref.: #69480]	anaerobic	no	74.941	no
[Ref.: #69480]	halophile	no	73.137	no
[Ref.: #69480]	spore-forming	no	96.046	no
[Ref.: #69480]	thermophile	no	95.979	yes
[Ref.: #69480]	glucose-util	yes	81.353	no
[Ref.: #69480]	aerobic	no	87.773	no
[Ref.: #69480]	motile	yes	63.105	no
[Ref.: #69480]	glucose-ferment	no	86.136	no

Availability in culture collections External links

[Ref.: #8402]

Culture collection no.

DSM 19945, CCUG 55130, JCM 14887

[Ref.: #83000]

SI-ID 409841

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Frigidibacter oleivorans sp. nov., isolated from a deep well with oil reservoir water.	Zhang YX, Li FL, Ma SC, Zheng GD, Chen WF, Li WJ, Wang L	Int J Syst Evol Microbiol	10.1099/ijsem.0.004294	2020	*
Phylogeny	Paenirhodobacter enshiensis gen. nov., sp. nov., a non-photosynthetic bacterium isolated from soil, and emended descriptions of the genera Rhodobacter and Haematobacter.	Wang D, Liu H, Zheng S, Wang G	Int J Syst Evol Microbiol	10.1099/ijs.0.050351-0	2013	*
Phylogeny	Rhodobacter viridis sp. nov., a phototrophic bacterium isolated from mud of a stream.	Raj PS, Ramaprasad EVV, Vaseef S, Sasikala C, Ramana CV	Int J Syst Evol Microbiol	10.1099/ijs.0.038471-0	2012	*
Phylogeny	Rhodobacter aestuarii sp. nov., a phototrophic alphaproteobacterium isolated from an estuarine environment.	Venkata Ramana V, Anil Kumar P, Srinivas TN, Sasikala Ch, Ramana ChV	Int J Syst Evol Microbiol	10.1099/ijs.0.004507-0	2009	*

References

#8402

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19945

#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 )

#29034

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 #25464 (see below)

#60471 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 55130

#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 )

#83000

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-ID409841.1 )

#25464

IJSEM 1133 2009 ( DOI 10.1099/ijs.0.004507-0 , PubMed 19406806 )

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Rhodobacter aestuarii in external resources:
SILVA
BRENDA
PANGAEA
StrainInfo
GBIF

Rhodobacter aestuarii strain DSM 19945

Rhodobacter aestuarii JA296

Change proposal

Change proposal