Name: Mesorhizobium ephedrae 6GN-30
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 159849

Type strain:

Species: Mesorhizobium ephedrae

Strain Designation: 6GN-30

Culture col. no.: ACCC 60073, KCTC 62410

Strain history: <- Lei Liu, Research Institute of Forestry, Chinese Academy of Forestry

NCBI tax ID(s): 2116701 (species)

Special Collections

Section

When using BacDive for research please cite our paper

Mesorhizobium ephedrae 6GN-30 is an aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from the root of E. przewalskii.

colony-forming
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	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Pseudomonadota*
	Class	*Alphaproteobacteria*
	Order	*Hyphomicrobiales*
	Family	*Phyllobacteriaceae*
	Genus	*Mesorhizobium*
	Species	**Mesorhizobium ephedrae**
	Full Scientific Name (LPSN)	Mesorhizobium ephedrae Liu et al. 2018

Synonym

"Kumtagia ephedrae"

Information on morphological and physiological properties Morphology

[Ref.: #66753]	Gram stain	negative
[Ref.: #125438]	Gram stain	negative Confidence in %97.986

[Ref.: #66753]	Cell length	0.9-2.0 µm

[Ref.: #66753]	Cell width	0.4-0.6 µm

[Ref.: #66753]	Cell shape	rod-shaped

[Ref.: #66753]	Motility	yes

[Ref.: #66753]	Colony color	white
[Ref.: #66753]	Colony shape	circular
[Ref.: #66753]	Incubation period	2 days
[Ref.: #66753]	Cultivation medium used	Trypticase Soy Agar (TSA)

Information on culture and growth conditions Culture and growth conditions

[Ref.: #66753]

Culture medium

tryptic soy agar (TSA)

[Ref.: #66753]

Culture medium growth

		Temperature
[Ref.: #66753]	optimum	30 °C
[Ref.: #66753]	growth	15-45 °C
[Ref.: #67771]	growth	30 °C

	pH	Kind of pH		pH
[Ref.: #66753]			optimum	7.0-8.0
[Ref.: #66753]			growth	6.0-9.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #66753]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #66753]		NaCl		growth	0-1.0	%(w/v)
[Ref.: #66753]		NaCl		optimum	0	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #66753]	(S)-lactate ChEBI	+	carbon source
[Ref.: #66753]	1 % sodium lactate	-	carbon source
[Ref.: #66753]	2-oxobutanoate ChEBI	+	carbon source
[Ref.: #66753]	2-oxoglutarate ChEBI	-	carbon source
[Ref.: #66753]	3-hydroxybutyrate ChEBI	+	carbon source
[Ref.: #66753]	3-O-methyl-D-glucose ChEBI	-	carbon source
[Ref.: #66753]	4-hydroxyphenylacetic acid ChEBI	+	carbon source
[Ref.: #66753]	acetic acid ChEBI	+	carbon source
[Ref.: #66753]	acetoacetate ChEBI	+	carbon source
[Ref.: #66753]	adipate ChEBI	+	assimilation
[Ref.: #66753]	alpha-D-glucose ChEBI	+	carbon source
[Ref.: #66753]	alpha-hydroxybutyrate	+	carbon source
[Ref.: #66753]	arabinose ChEBI	+	assimilation
[Ref.: #66753]	aztreonam ChEBI	-	carbon source
[Ref.: #66753]	bromosuccinate ChEBI	-	carbon source
[Ref.: #66753]	casein	-	hydrolysis
[Ref.: #66753]	cellobiose ChEBI	-	carbon source
[Ref.: #66753]	citric acid ChEBI	+	assimilation
[Ref.: #66753]	citric acid ChEBI	-	carbon source
[Ref.: #66753]	D-arabitol ChEBI	-	carbon source
[Ref.: #66753]	D-aspartate ChEBI	-	carbon source
[Ref.: #66753]	D-fructose ChEBI	+	carbon source
[Ref.: #66753]	D-fructose 6-phosphate ChEBI	-	carbon source
[Ref.: #66753]	D-fucose ChEBI	+	carbon source
[Ref.: #66753]	D-galactose ChEBI	+	carbon source
[Ref.: #66753]	D-galacturonic acid ChEBI	+	carbon source
[Ref.: #66753]	D-glucarate ChEBI	-	carbon source
[Ref.: #66753]	D-glucose 6-phosphate ChEBI	-	carbon source
[Ref.: #66753]	D-glucuronate ChEBI	-	carbon source
[Ref.: #66753]	D-glucuronate ChEBI	+	carbon source
[Ref.: #66753]	D-malate ChEBI	-	carbon source
[Ref.: #66753]	D-mannitol ChEBI	+	carbon source
[Ref.: #66753]	D-mannose ChEBI	+	carbon source
[Ref.: #66753]	D-serine ChEBI	-	carbon source
[Ref.: #66753]	D-sorbitol ChEBI	+	carbon source
[Ref.: #66753]	D-trehalose ChEBI	+	carbon source
[Ref.: #66753]	dextrin ChEBI	+	carbon source
[Ref.: #66753]	esculin ChEBI	-	hydrolysis
[Ref.: #66753]	formate ChEBI	+	carbon source
[Ref.: #66753]	fusidate ChEBI	-	carbon source
[Ref.: #66753]	galactarate ChEBI	+	carbon source
[Ref.: #66753]	gamma-aminobutyric acid ChEBI	-	carbon source
[Ref.: #66753]	gelatin ChEBI	-	carbon source
[Ref.: #66753]	gelatin ChEBI	+	hydrolysis
[Ref.: #66753]	gentiobiose ChEBI	-	carbon source
[Ref.: #66753]	glucose ChEBI	+	assimilation
[Ref.: #66753]	glucuronamide ChEBI	+	carbon source
[Ref.: #66753]	glycerol ChEBI	+	carbon source
[Ref.: #66753]	glycine-proline ChEBI	+	carbon source
[Ref.: #66753]	inosine ChEBI	+	carbon source
[Ref.: #66753]	L-alanine ChEBI	+	carbon source
[Ref.: #66753]	L-arginine ChEBI	+	carbon source
[Ref.: #66753]	L-aspartate ChEBI	+	carbon source
[Ref.: #66753]	L-fucose ChEBI	+	carbon source
[Ref.: #66753]	L-galactonic acid gamma-lactone ChEBI	+	carbon source
[Ref.: #66753]	L-glutamate ChEBI	+	carbon source
[Ref.: #66753]	L-histidine ChEBI	+	carbon source
[Ref.: #66753]	L-malate ChEBI	-	carbon source
[Ref.: #66753]	L-pyroglutamic acid ChEBI	-	carbon source
[Ref.: #66753]	L-rhamnose ChEBI	+	carbon source
[Ref.: #66753]	L-serine ChEBI	-	carbon source
[Ref.: #66753]	lactose ChEBI	-	carbon source
[Ref.: #66753]	lithium chloride ChEBI	-	carbon source
[Ref.: #66753]	malate ChEBI	+	assimilation
[Ref.: #66753]	maltose ChEBI	+	assimilation
[Ref.: #66753]	maltose ChEBI	+	carbon source
[Ref.: #66753]	mannitol ChEBI	+	assimilation
[Ref.: #66753]	mannose ChEBI	+	assimilation
[Ref.: #66753]	melibiose ChEBI	-	carbon source
[Ref.: #66753]	methyl (R)-lactate ChEBI	+	carbon source
[Ref.: #66753]	methyl beta-D-glucopyranoside ChEBI	+	carbon source
[Ref.: #66753]	methyl pyruvate ChEBI	+	carbon source
[Ref.: #66753]	myo-inositol ChEBI	+	carbon source
[Ref.: #66753]	N-acetyl-D-mannosamine ChEBI	-	carbon source
[Ref.: #66753]	N-acetylgalactosamine ChEBI	-	carbon source
[Ref.: #66753]	N-acetylglucosamine ChEBI	+	assimilation
[Ref.: #66753]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #66753]	n-acetylneuraminate ChEBI	-	carbon source
[Ref.: #66753]	nalidixic acid ChEBI	-	carbon source
[Ref.: #66753]	nitrate ChEBI	-	reduction
[Ref.: #66753]	pectin ChEBI	+	carbon source
[Ref.: #66753]	potassium gluconate ChEBI	+	assimilation
[Ref.: #66753]	potassium tellurite ChEBI	-	carbon source
[Ref.: #66753]	propionate ChEBI	-	carbon source
[Ref.: #66753]	quinate ChEBI	-	carbon source
[Ref.: #66753]	raffinose ChEBI	-	carbon source
[Ref.: #66753]	salicin ChEBI	+	carbon source
[Ref.: #66753]	sodium bromate ChEBI	-	carbon source
[Ref.: #66753]	sodium butyrate ChEBI	-	carbon source
[Ref.: #66753]	stachyose ChEBI	-	carbon source
[Ref.: #66753]	starch ChEBI	-	hydrolysis
[Ref.: #66753]	sucrose ChEBI	+	carbon source
[Ref.: #66753]	turanose ChEBI	+	carbon source
[Ref.: #66753]	tween 40 ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #66753]		indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test
[Ref.: #66753]		indole ChEBI	-

	Enzyme	Enzyme activity	EC number
[Ref.: #66753]	acid phosphatase	+	3.1.3.2
[Ref.: #66753]	alkaline phosphatase	+	3.1.3.1
[Ref.: #66753]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #66753]	alpha-fucosidase	-	3.2.1.51
[Ref.: #66753]	alpha-galactosidase	-	3.2.1.22
[Ref.: #66753]	alpha-glucosidase	-	3.2.1.20
[Ref.: #66753]	alpha-mannosidase	-	3.2.1.24
[Ref.: #66753]	arginine dihydrolase	-	3.5.3.6
[Ref.: #66753]	beta-galactosidase	-	3.2.1.23
[Ref.: #66753]	beta-glucosidase	-	3.2.1.21
[Ref.: #66753]	beta-glucuronidase	-	3.2.1.31
[Ref.: #66753]	catalase	+	1.11.1.6
[Ref.: #66753]	cystine arylamidase	-	3.4.11.3
[Ref.: #66753]	cytochrome oxidase	+	1.9.3.1
[Ref.: #66753]	esterase (C 4)	+
[Ref.: #66753]	esterase Lipase (C 8)	+
[Ref.: #66753]	leucine aminopeptidase	-	3.4.1.1
[Ref.: #66753]	leucine arylamidase	+	3.4.11.1
[Ref.: #66753]	lipase (C 14)	-
[Ref.: #66753]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #66753]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #66753]	trypsin	+	3.4.21.4
[Ref.: #66753]	tryptophan deaminase	-	4.1.99.1
[Ref.: #66753]	urease	-	3.5.1.5
[Ref.: #66753]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #66753]	Sample type/isolated from	the root of E. przewalskii
[Ref.: #66753]	Host species	Ephedra przewalskii
[Ref.: #66753]	Geographic location (country and/or sea, region)	Kumtag Desert, Xinjiang
[Ref.: #66753]	Country	China
[Ref.: #66753]	Country ISO 3 Code	CHN
[Ref.: #66753]	Continent	Asia
[Ref.: #66753]	Enrichment culture	nutrient agar plates and R2A agar
[Ref.: #66753]	Enrichment culture duration	5-7 days
[Ref.: #66753]	Enrichment culture temperature	30 ̊C
[Ref.: #66753]	Isolation/enrichment procedure	The roots of E. przewalskii were collected from the Kumtag Desert, Xinjiang, PR China. The root surface was sterilized as previously described, with some modifications. Samples were washed with tap water and sterilized with 70 % ethanol for 30 s, then immersed in 2.0 % sodium hypochlorite solution for 10-15 min, followed by three or four rinses with sterile distilled water. Sterilized roots (1 g) were ground with a sterile mortar and pestle and serially diluted in sterile distilled water, then incubated on nutrient agar plates and R2A agar plates at 30°C for 5-7 days.

[Ref.: #67771]	Sample type/isolated from	From Ephedra sinica, Kumtag desert
[Ref.: #67771]	Country	China
[Ref.: #67771]	Country ISO 3 Code	CHN
[Ref.: #67771]	Continent	Asia
* marker position based on {}

Isolation sources categories

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

What are isolation sources categories?

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.: #66753]	Mesorhizobium sp. strain 6GN-30 16S ribosomal RNA gene, partial sequence	MH105075	1406	GenBank ENA	1871066 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Mesorhizobium ephedrae 6GN-30	GCA_003012745	contig	GenBank ENA	2116701 tax ID	*

[Ref.: #66753]

GC-content

66.4 mol%

genome sequence analysis

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

	Model	Trait	Prediction	Confidence in %	In training data
	Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Mesorhizobium ephedrae 6GN-30 NCBI: GCA_003012745.1
[Ref.: #125438]	gram-positive	gram-positiveⓘ	no	97.986	yes
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	93.123	yes
[Ref.: #125438]	aerobic	aerobicⓘ	yes	89.698	yes
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	87.923	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	96.966	yes
[Ref.: #125438]	motile2+	flagellatedⓘ	yes	60.809	no

Availability in culture collections External links

[Ref.: #66753]

Culture collection no.

ACCC 60073, KCTC 62410

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Mesorhizobium ephedrae sp. nov. isolated from the roots of Ephedra przewalskii in Kumtag desert.	Liu L, Liang LX, Zhang XX, Li LB, Sun QW	Int J Syst Evol Microbiol	10.1099/ijsem.0.003044	2018	*

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 )

#66753

Lei Liu, Li-xiong Liang, Xiao-xia Zhang, Lu-bin Li, Qi-wu Sun: Mesorhizobium ephedrae sp. nov. isolated from the roots of Ephedra przewalskii in Kumtag desert. IJSEM 68: 3615 - 3620 2018 ( DOI 10.1099/ijsem.0.003044 , PubMed 30272540 )

#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) .

#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#125438

Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )

* 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 Mesorhizobium ephedrae in external resources:
SILVA
BRENDA
PANGAEA
GBIF