Pseudoclavibacter endophyticus EGI 60007 | Type strain | DSM 29943, CGMCC 1.15081, KCTC 39112

Strain identifier

BacDive ID: 132433

Type strain:

Species: Pseudoclavibacter endophyticus

Strain Designation: EGI 60007

Culture col. no.: DSM 29943, CGMCC 1.15081, KCTC 39112

Section

Name and taxonomic classification
Morphology and physiology
Culture and growth conditions
Isolation, sampling and environmental information
Molecular biology
Strain availability

External links

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

[Ref.: #24222]	Domain	Bacteria
[Ref.: #24222]	Phylum	Actinobacteria
[Ref.: #24222]	Class	Actinobacteria
[Ref.: #24222]	Order	Actinomycetales
[Ref.: #24222]	Family	Microbacteriaceae
[Ref.: #24222]	Genus	Pseudoclavibacter
[Ref.: #24222]	Species	Pseudoclavibacter endophyticus
[Ref.: #24222]	Full Scientific Name	Pseudoclavibacter endophyticus Li et al. 2016
[Ref.: #24222]	Strain Designation	EGI 60007
[Ref.: #24222]	Type strain

		Prokaryotic Nomenclature Up-to-date (PNU)	Taxonomical status	Literature reference
	Last PNU update	20-11-2019 (DD-MM-YYYY)
[Ref.: #20215]	Domain	Bacteria
[Ref.: #20215]	Phylum	Actinobacteria
[Ref.: #20215]	Class	Actinobacteria		Int. J. Syst. Bacteriol. 47:479*
[Ref.: #20215]	Family	Microbacteriaceae		Int. J. Syst. Bacteriol. 45:418
[Ref.: #20215]	Genus	Pseudoclavibacter	gen. nov. (VP)	Int. J. Syst. Evol. Microbiol. 54:783*
[Ref.: #20215]	Species	Pseudoclavibacter endophyticus	sp. nov. (VP)	Int. J. Syst. Evol. Microbiol. 66:1287*
[Ref.: #20215]	Full Scientific Name	Pseudoclavibacter endophyticus Li et al. 2016

Information on morphological and physiological propertiesMorphology and physiology

[Ref.: #43744]	Gram stain	positive
[Ref.: #43744]	Cell length	1.1-2.3 µm
[Ref.: #43744]	Cell width	0.4-0.6 µm
[Ref.: #43744]	Cell shape	rod-shaped
[Ref.: #43744]	Motility	no

[Ref.: #43744]	Colony color	White, opaque
[Ref.: #43744]	Colony shape	circular
[Ref.: #43744]	Incubation period	7 days
[Ref.: #43744]	Cultivation medium used	R2A agar

	Enzyme	Enzyme activity	EC number
[Ref.: #43744]	acid phosphatase	-	3.1.3.2
[Ref.: #43744]	alkaline phosphatase	-	3.1.3.1
[Ref.: #43744]	alpha-galactosidase	-	3.2.1.22
[Ref.: #43744]	alpha-glucosidase	-	3.2.1.20
[Ref.: #43744]	alpha-mannosidase	-	3.2.1.24
[Ref.: #43744]	beta-D-fucosidase	-	3.2.1.38
[Ref.: #43744]	beta-galactosidase	-	3.2.1.23
[Ref.: #43744]	beta-glucosidase	+	3.2.1.21
[Ref.: #43744]	beta-glucuronidase	-	3.2.1.31
[Ref.: #43744]	catalase	+	1.11.1.6
[Ref.: #43744]	chymotrypsin	+	3.4.4.5
[Ref.: #43744]	cystine arylamidase	+	3.4.11.3
[Ref.: #43744]	cytochrome oxidase	-	1.9.3.1
[Ref.: #43744]	esterase (C 4)	+
[Ref.: #43744]	esterase Lipase (C 8)	+
[Ref.: #43744]	gelatinase	-
[Ref.: #43744]	leucine arylamidase	+	3.4.11.1
[Ref.: #43744]	lipase (C 14)	-
[Ref.: #43744]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #43744]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #43744]	trypsin	-	3.4.21.4
[Ref.: #43744]	urease	-	3.5.1.5
[Ref.: #43744]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Type of FA analysis

whole cell analysis

Incubation medium

TSA

Agar/liquid

agar

Incubation temperature (°C)

Incubation time (d)

Incubation pH

Incubation oxygen condition

aerobic

Treatment/condition

Software version

Sherlock 6.1

Library/peak naming table

TSBA6

System

MIS MIDI

Instrument

Agilent 7890A

Method/protocol

Cutoff value

1.00

Reference

[Ref.: #43744]

Fatty acid	Percentage
C10:0 3-OH	1.1
C12:0	10.9
C12:0 3-OH	2.8
C14:0	0.8
C16:0	11.6
C16:1ω5c	0.5
C16:1ω7c / C16:1ω6c	8.2
C17:0	0.8
C17:0cyclo	13
C17:1ω8c	0.9
C18:0	0.6
C18:1ω7c / C18:1ω6c	18.3
C18:1ω9c	0.4
C19:0ω8c-cyclo	9.3
iso-C11:0 3-OH	0.3

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43744]		NaCl		growth	0-11	%(w/v)
[Ref.: #43744]		NaCl		optimum	4	%(w/v)

	Metabolite	Antibiotic sensitivity
[Ref.: #43744]	1 % sodium lactate	yes
[Ref.: #43744]	Aztreonam	yes
[Ref.: #43744]	Lincomycin	yes
[Ref.: #43744]	Nalidixic acid	yes
[Ref.: #43744]	Potassium tellurite	yes
[Ref.: #43744]	Sodium bromate	yes
[Ref.: #43744]	Sodium butyrate	yes
[Ref.: #43744]	Tetrazolium violet	yes
[Ref.: #43744]	Troleandomycin	yes

	Metabolite production	Metabolite	Production
[Ref.: #43744]		Indole	yes

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43744]	(R)-Malic acid	-	respiration
[Ref.: #43744]	(S)-Lactic acid	-	respiration
[Ref.: #43744]	(S)-Malic acid	-	respiration
[Ref.: #43744]	2-Oxobutanoic acid	-	respiration
[Ref.: #43744]	2-Oxoglutaric acid	-	respiration
[Ref.: #43744]	4-Hydroxyphenylacetic acid	+	respiration
[Ref.: #43744]	Acetic acid	+	respiration
[Ref.: #43744]	Acetoacetic acid	+	respiration
[Ref.: #43744]	alpha-Hydroxybutyrate	-	respiration
[Ref.: #43744]	Arabinose	-	builds acid from
[Ref.: #43744]	beta-Hydroxybutyrate	+	respiration
[Ref.: #43744]	Citric acid	-	respiration
[Ref.: #43744]	D-Fructose	-	builds acid from
[Ref.: #43744]	D-Fructose	+	respiration
[Ref.: #43744]	D-Fructose 6-phosphate	-	respiration
[Ref.: #43744]	D-Gluconic acid	-	respiration
[Ref.: #43744]	D-Glucose 6-phosphate	-	respiration
[Ref.: #43744]	D-Mannitol	+	respiration
[Ref.: #43744]	D-Mannose	-	builds acid from
[Ref.: #43744]	D-Xylose	-	builds acid from
[Ref.: #43744]	Esculin	+	fermentation
[Ref.: #43744]	Formic acid	+	respiration
[Ref.: #43744]	Gelatin	-	hydrolysis
[Ref.: #43744]	Glucose	-	builds acid from
[Ref.: #43744]	Glycerol	-	builds acid from
[Ref.: #43744]	Glycerol	-	respiration
[Ref.: #43744]	Inositol	-	builds acid from
[Ref.: #43744]	L-Aspartic acid	+	respiration
[Ref.: #43744]	L-Glutamic acid	+	respiration
[Ref.: #43744]	Mannitol	-	builds acid from
[Ref.: #43744]	Melibiose	-	builds acid from
[Ref.: #43744]	Methyl pyruvate	-	respiration
[Ref.: #43744]	myo-Inositol	-	respiration
[Ref.: #43744]	N-Acetylglucosamine	-	builds acid from
[Ref.: #43744]	N-Acetylglucosamine	-	respiration
[Ref.: #43744]	Pectin	-	respiration
[Ref.: #43744]	Propionic acid	-	respiration
[Ref.: #43744]	Rhamnose	-	builds acid from
[Ref.: #43744]	Sorbitol	-	builds acid from
[Ref.: #43744]	Sucrose	-	builds acid from
	Only first 10 entries are displayed. Click here to see all.

[Ref.: #43744]

Oxygen tolerance

aerobe

Information on culture and growth conditionsCulture and growth conditions

[Ref.: #43744]

Culture medium

GYEA

[Ref.: #43744]

Culture medium growth

[Ref.: #43744]

Culture medium

Luria-Bertani agar

[Ref.: #43744]

Culture medium growth

[Ref.: #43744]

Culture medium

R2A

[Ref.: #43744]

Culture medium growth

[Ref.: #43744]

Culture medium

TSA

[Ref.: #43744]

Culture medium growth

[Ref.: #24222]

Culture medium

TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92), 28°C

[Ref.: #24222]

Culture medium growth

[Ref.: #24222]

Culture medium link

medium recipe provided by DSMZ

		Temperature
[Ref.: #24222]	growth	28 ̊C
[Ref.: #43744]	growth	10-60 ̊C
[Ref.: #43744]	optimum	25-35 ̊C

[Ref.: #24222]	Temperature range	mesophilic
[Ref.: #43744]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #43744]			optimum	8
[Ref.: #43744]			growth	7-9

Information on isolation source, the sampling and environmental conditionsIsolation, sampling and environmental information

[Ref.: #24222]

Sample type/isolated from

surface-sterilized healthy roots of Glycyrrhiza uralensis F.

[Ref.: #24222]

Host species

Glycyrrhiza uralensis

[Ref.: #24222]

Geographic location (country and/or sea, region)

Xinjiang Province, Yili County (43.39° N 83.84° E)

[Ref.: #24222]

Country

China

[Ref.: #24222]

Continent

Asia

[Ref.: #24222]

Geographic location

43.3900°/83.8400°

[Ref.: #43744]

Sample type/isolated from

Healthy root of Glycyrrhiza uralensis F. collected from Yili County

[Ref.: #43744]

Geographic location (country and/or sea, region)

Yili County, Xinjiang Province

[Ref.: #43744]

Country

China

[Ref.: #43744]

Continent

Asia

Isolation sources categories

#Host Body-Site	#Plant	#Sterilized plant part
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Root (Rhizome)

What are isolation sources categories?

* marker position based on {}

Information on genomic background e.g. entries in nucleic sequence databassMolecular biology

[Ref.: #43744]	GC-content	63.3 mol%	high performance liquid chromatography (HPLC)
[Ref.: #24222]	GC-content	63.3 mol%	high performance liquid chromatography (HPLC)

Sequence information:

	Sequence database	Sequence accession description	Sequence accession number	Sequence type	Sequence length (bp)	Associated NCBI tax ID
[Ref.: #24222]	16S rRNA gene, Marker Gene (GenBank Direct submission)	Pseudoclavibacter endophyticus strain EGI 60007 16S ribosomal RNA gene, partial sequence	KP721484		1490	1778590

Availability in culture collectionsStrain availability

[Ref.: #24222]

Culture collection no.

DSM 29943, CGMCC 1.15081, KCTC 39112

[Ref.: #24222]

Strain history

<- W.-J. Li, YIM; EGI60007 <- L. Li

References

#20215

Leibniz Institute DSMZ D.Gleim, M.Kracht, N.Weiss et. al.: Prokaryotic Nomenclature Up-to-date - compilation of all names of Bacteria and Archaea, validly published according to the Bacteriological Code since 1. Jan. 1980, and validly published nomenclatural changes since .

#24222

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 29943

#43744

Yan-Qiong Li, Li Li, Yu-Song Fu, Zhao-Qiong Cui, Yan-Qing Duan, Nimaichand Salam, Jian-Wei Guo, Wei Chen, Wen-Jun Li: Pseudoclavibacter endophyticus sp. nov., isolated from roots of Glycyrrhiza uralensis. IJSEM 66: 1287 - 1292 2016 ( DOI 10.1099/ijsem.0.000876 )

* These References are textmined

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 Pseudoclavibacter endophyticus in external resources:
SILVA
BRENDA
PANGAEA
StrainInfo
GBIF