Name: Pelagerythrobacter rhizovicinus AY-3R
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 166753

Type strain:

Species: Pelagerythrobacter rhizovicinus

Strain Designation: AY-3R

Culture col. no.: KCTC 72280, MCCC 1K03572

NCBI tax ID(s): 2268576 (species)

Section

Pelagerythrobacter rhizovicinus AY-3R is a Gram-negative, motile, rod-shaped bacterium that forms circular colonies and was isolated from the rhizosphere soil of a desert xerophyte H. ammodendron sampled.

colony-forming
Gram-negative
motile
rod-shaped
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	*Sphingomonadales*
	Family	*Erythrobacteraceae*
	Genus	*Pelagerythrobacter*
	Species	**Pelagerythrobacter rhizovicinus**
	Full Scientific Name (LPSN)	Pelagerythrobacter rhizovicinus (Li et al. 2020) Gao et al. 2021

Synonym

Altererythrobacter rhizovicinus

Information on morphological and physiological properties Morphology

[Ref.: #69559]	Gram stain	negative

[Ref.: #69559]	Cell length	0.9-1.3 µm

[Ref.: #69559]	Cell width	0.3-0.5 µm

[Ref.: #69559]	Cell shape	rod-shaped

[Ref.: #69559]	Motility	yes

[Ref.: #69559]	Flagellum arrangement	polar

[Ref.: #69559]	Colony color	yellow
[Ref.: #69559]	Colony shape	circular
[Ref.: #69559]	Incubation period	3 days
[Ref.: #69559]	Cultivation medium used	Marine agar (MA)

[Ref.: #69559]	Pigment production	yes
[Ref.: #69559]	Pigment name	Methanol-soluble pigment

Information on culture and growth conditions Culture and growth conditions

[Ref.: #69559]

Culture medium

Marine agar (MA)

[Ref.: #69559]

Culture medium growth

	Temperatures	Kind of temperature		Temperature
[Ref.: #69559]			growth	20-42 °C
[Ref.: #69559]			optimum	28-30 °C

[Ref.: #69559]

Temperature range

mesophilic

	pH	Kind of pH		pH
[Ref.: #69559]			optimum	6.0-7.0
[Ref.: #69559]			growth	6.0-9.0

Information on physiology and metabolism Physiology and metabolism

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #69559]		NaCl		growth	0-8	%
[Ref.: #69559]		NaCl		optimum	3	%

[Ref.: #69559]	Observation	The Growth of the strain was occurs on TSA, ISP 2 agar, NA and MA, weakly on PYG agar, R2A agar and LB agar, but no growth occurs on TY agar and MacConkey agar.
[Ref.: #69559]	Observation	The predominant polar lipids are DPG, PC, PE, PG, SGL and one unknown polar lipid.
[Ref.: #69559]	Observation	Able to grow aerobically at 20-42 °C

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #69559]	acetate ChEBI	+	carbon source
[Ref.: #69559]	acetoacetate ChEBI	+	carbon source
[Ref.: #69559]	adipate ChEBI	-	assimilation
[Ref.: #69559]	alpha-D-glucose ChEBI	+	carbon source
[Ref.: #69559]	arabinose ChEBI	-	assimilation
[Ref.: #69559]	beta-hydroxybutyrate ChEBI	+	carbon source
[Ref.: #69559]	cellobiose ChEBI	+	carbon source
[Ref.: #69559]	cellulose ChEBI	-	hydrolysis
[Ref.: #69559]	citrate ChEBI	+	assimilation
[Ref.: #69559]	D-fructose ChEBI	+	builds acid from
[Ref.: #69559]	D-fucose ChEBI	+	builds acid from
[Ref.: #69559]	D-galactose ChEBI	+	carbon source
[Ref.: #69559]	D-galacturonic acid ChEBI	+	carbon source
[Ref.: #69559]	D-mannose ChEBI	+	builds acid from
[Ref.: #69559]	D-serine ChEBI	+	carbon source
[Ref.: #69559]	dextrin ChEBI	+	carbon source
[Ref.: #69559]	dna ChEBI	-	hydrolysis
[Ref.: #69559]	esculin ChEBI	+	hydrolysis
[Ref.: #69559]	gelatin ChEBI	-	hydrolysis
[Ref.: #69559]	gentiobiose ChEBI	+	builds acid from
[Ref.: #69559]	gluconate ChEBI	+	assimilation
[Ref.: #69559]	glucose ChEBI	+	builds acid from
[Ref.: #69559]	glycyl-L-proline ChEBI	+	carbon source
[Ref.: #69559]	hydrogen sulfide ChEBI	-	assimilation
[Ref.: #69559]	L-alanine ChEBI	+	carbon source
[Ref.: #69559]	L-galactonic acid gamma-lactone ChEBI	+	carbon source
[Ref.: #69559]	L-glutamate ChEBI	+	carbon source
[Ref.: #69559]	L-serine ChEBI	+	carbon source
[Ref.: #69559]	maltose ChEBI	-	assimilation
[Ref.: #69559]	mannose ChEBI	+	assimilation
[Ref.: #69559]	melibiose ChEBI	+	builds acid from
[Ref.: #69559]	nitrate ChEBI	-	reduction
[Ref.: #69559]	raffinose ChEBI	+	builds acid from
[Ref.: #69559]	sucrose ChEBI	+	builds acid from
[Ref.: #69559]	trehalose ChEBI	+	builds acid from
[Ref.: #69559]	trehalose ChEBI	+	carbon source
[Ref.: #69559]	tween 40 ChEBI	+	carbon source
[Ref.: #69559]	tween 80 ChEBI	+	hydrolysis
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #69559]		hydrogen sulfide ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #69559]	acid phosphatase	-	3.1.3.2
[Ref.: #69559]	alkaline phosphatase	+	3.1.3.1
[Ref.: #69559]	alpha-chymotrypsin	+	3.4.21.1
[Ref.: #69559]	alpha-fucosidase	-	3.2.1.51
[Ref.: #69559]	alpha-galactosidase	-	3.2.1.22
[Ref.: #69559]	alpha-glucosidase	+	3.2.1.20
[Ref.: #69559]	alpha-mannosidase	-	3.2.1.24
[Ref.: #69559]	beta-galactosidase	-	3.2.1.23
[Ref.: #69559]	beta-glucosidase	-	3.2.1.21
[Ref.: #69559]	beta-glucuronidase	+	3.2.1.31
[Ref.: #69559]	catalase	+	1.11.1.6
[Ref.: #69559]	cystine arylamidase	+	3.4.11.3
[Ref.: #69559]	cytochrome oxidase	+	1.9.3.1
[Ref.: #69559]	esterase (C 4)	+
[Ref.: #69559]	esterase Lipase (C 8)	+
[Ref.: #69559]	leucine arylamidase	+	3.4.11.1
[Ref.: #69559]	lipase (C 14)	-
[Ref.: #69559]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #69559]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #69559]	trypsin	+	3.4.21.4
[Ref.: #69559]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #69559]

Fatty acid	Percentage
C18:1 w7c	29.8
C17:1 w6c	21.4
C16:1w7c/ C16:1w6c	12.5
C14:0 2OH	7.2
C16:0	6.9
C18:1 w7c 11-methyl	5.9
C15:0 2OH	5.7
C16:1 w5c	2.6
C16:0 2OH	1.4
C17:1 w8c	1.3
C18:1 w5c	1.1
C19:0 cyclo w8c	1.1

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

[Ref.: #69559]	Sample type/isolated from	the rhizosphere soil of a desert xerophyte H. ammodendron sampled
[Ref.: #69559]	Geographic location (country and/or sea, region)	Badain Jaran Desert, Alexa region Inner Mongolia
[Ref.: #69559]	Country	China
[Ref.: #69559]	Country ISO 3 Code	CHN
[Ref.: #69559]	Continent	Asia
* marker position based on {}

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.: #20215]	Pelagerythrobacter rhizovicinus 16S ribosomal RNA gene, partial sequence	MH611372	1457	ENA	2268576 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #69559]	genome sequence	SDPV00000000		GenBank	2268576 tax ID
[Ref.: #66792]	Pelagerythrobacter rhizovicinus AY-3R	GCA_004135625	contig	GenBank	2268576 tax ID	*

[Ref.: #69559]

GC-content

66.3 mol%

genome sequence analysis

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Pelagerythrobacter rhizovicinus AY-3R NCBI: GCA_004135625.1
[Ref.: #69480]	motile	yes	76.755	no
[Ref.: #69480]	flagellated	no	81.577	no
[Ref.: #69480]	gram-positive	no	97.916	no
[Ref.: #69480]	anaerobic	no	99.283	no
[Ref.: #69480]	aerobic	yes	93.366	no
[Ref.: #69480]	halophile	no	88.921	no
[Ref.: #69480]	spore-forming	no	92.991	no
[Ref.: #69480]	thermophile	no	95.728	no
[Ref.: #69480]	glucose-util	yes	83.395	no
[Ref.: #69480]	glucose-ferment	no	89.18	no

Availability in culture collections External links

[Ref.: #20215]

Culture collection no.

KCTC 72280, MCCC 1K03572

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Altererythrobacter rhizovicinus sp. nov., isolated from rhizosphere soil of Haloxylon ammodendron.	Li HP, Yao D, Shao KZ, Han QQ, Gou JY, Zhao Q, Zhang JL	Int J Syst Evol Microbiol	10.1099/ijsem.0.003817	2020	*

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 )

#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) .

#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) .

#69559

Hui-Ping Li, Dan Yao, Kun-Zhong Shao, Qing-Qing Han, Jing-Yi Gou, Qi Zhao and Jin-Lin Zhang: Altererythrobacter rhizovicinus sp. nov., isolated from rhizosphere soil of Haloxylon ammodendron. IJSEM 70: 2020 ( DOI 10.1099/ijsem.0.003817 )

* These data were automatically processed and therefore are not curated

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