Rhizobium wenxiniae (CGMCC 1.15279, DSM 100734, 166)

Name: Rhizobium wenxiniae (CGMCC 1.15279, DSM 100734, 166)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 140985

Type strain

Strain Designation 166

Culture col. no. CGMCC 1.15279 DSM 100734 166

NCBI tax ID(s) 1737357

Special Collections DSMZ Literature strains

Links

Rhizobium wenxiniae 166 is an aerobe, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from surface-sterilized root tissue of maize, Fangshan District, Beijing, PR China.

Gram-negative rod-shaped colony-forming aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 405935

DSM 100734

@ref 20215

Last LPSN update 2026-05-29 08:39:51

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Hyphomicrobiales

Family Rhizobiaceae

Genus Rhizobium

Species Rhizobium wenxiniae

Full scientific name Rhizobium wenxiniae Gao et al. 2017

Synonyms (1)

"Alirhizobium wenxiniae"

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
43873	negative	1.2-2.2 µm	0.3-0.4 µm	rod-shaped
125438	negative				98.333
125439	negative				94.818

Colony morphology

@ref	Colony size	Colony color	Colony shape	Incubation period	Medium used
43873	3-4 mm	milky	circular	2 days	Yeast mannitol agar

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
43873	Tryptic soy agar
43873	Yeast mannitol agar
64870	RHIZOBIUM MEDIUM (DSMZ Medium 98)	Medium recipe at MediaDive	Name: RHIZOBIUM MEDIUM (DSMZ Medium 98) Composition: air-dried garden soil 80.0 g/l Agar 15.0 g/l Mannitol 10.0 g/l Yeast extract 1.0 g/l Na2CO3 0.2 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
43873	positive	growth	15-37
43873	positive	optimum	30
64870	positive	growth	30

Culture pH

@ref	Ability	Type	PH	PH range
43873	positive	optimum	7
43873	positive	growth	6.0-9.0	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
43873	aerobe
125439	obligate aerobe	92.152

Spore formation

@ref	Spore formation	Confidence
125439		98.72

Halophily

@ref	Salt	Growth	Tested relation	Concentration
43873	NaCl	positive	growth	0-2 %(w/v)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
43873	16651 ChEBI	(S)-lactate	+	carbon source
43873	73918 ChEBI	3-O-methyl-D-glucose	+	carbon source
43873	30089 ChEBI	acetate	+	carbon source
68369	17128 ChEBI	adipate	-	assimilation	from API 20NE
68369	29016 ChEBI	arginine	-	hydrolysis	from API 20NE
43873		casein	-	hydrolysis
43873	62968 ChEBI	cellulose	+	hydrolysis
43873	28847 ChEBI	D-fucose	+	carbon source
43873	8391 ChEBI	D-gluconate	-	carbon source
68369	17634 ChEBI	D-glucose	+	assimilation	from API 20NE
43873	15748 ChEBI	D-glucuronate	+	carbon source
68369	16899 ChEBI	D-mannitol	+	assimilation	from API 20NE
68369	16024 ChEBI	D-mannose	+	assimilation	from API 20NE
43873	17924 ChEBI	D-sorbitol	-	carbon source
68369	27689 ChEBI	decanoate	-	assimilation	from API 20NE
43873	23652 ChEBI	dextrin	+	carbon source
68369	4853 ChEBI	esculin	+	hydrolysis	from API 20NE
68369	5291 ChEBI	gelatin	-	hydrolysis	from API 20NE
43873	28066 ChEBI	gentiobiose	+	carbon source
43873	17234 ChEBI	glucose	-	fermentation
43873	17754 ChEBI	glycerol	+	carbon source
68369	30849 ChEBI	L-arabinose	+	assimilation	from API 20NE
43873	29991 ChEBI	L-aspartate	+	carbon source
43873	17464 ChEBI	L-galactonic acid gamma-lactone	+	carbon source
68369	25115 ChEBI	malate	+	assimilation	from API 20NE
43873	51850 ChEBI	methyl pyruvate	-	carbon source
43873	506227 ChEBI	N-acetylglucosamine	+	carbon source
68369	59640 ChEBI	N-acetylglucosamine	+	assimilation	from API 20NE
43873	100147 ChEBI	nalidixic acid	-	carbon source
43873	17632 ChEBI	nitrate	+	reduction
68369	17632 ChEBI	nitrate	+	reduction	from API 20NE
43873	75248 ChEBI	potassium tellurite	-	carbon source
43873	26490 ChEBI	quinate	+	carbon source
43873	28017 ChEBI	starch	-	hydrolysis
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
68369	16199 ChEBI	urea	+	hydrolysis	from API 20NE

Antibiotic resistance

@ref	ChEBI	Metabolite	Sensitivity conc.	Resistance conc.
43873	28971	ampicillin	50 µg/mL
43873	28971	ampicillin		5 µg/mL
43873	48923	erythromycin	50 µg/mL
43873	48923	erythromycin		5 µg/mL
43873	17833	gentamicin	5 µg/mL
43873	6104	kanamycin	5 µg/mL
43873	6472	lincomycin		300 µg/mL
43873	17076	streptomycin	5 µg/mL
43873	27902	tetracycline	5 µg/mL

Metabolite production

@ref	Chebi-ID	Metabolite	Production
43873	15688 ChEBI	acetoin
68369	35581 ChEBI	indole		from API 20NE

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
68369	35581 ChEBI	indole	-	from API 20NE

Enzymes

@ref	Value	Activity	Ec
43873	acid phosphatase	+	3.1.3.2
43873	alkaline phosphatase	+	3.1.3.1
43873	alpha-chymotrypsin	+	3.4.21.1
43873	alpha-fucosidase	-	3.2.1.51
43873	alpha-galactosidase	-	3.2.1.22
43873	alpha-glucosidase	+	3.2.1.20
43873	alpha-mannosidase	-	3.2.1.24
43873	arginine dihydrolase	-	3.5.3.6
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
43873	beta-galactosidase	-	3.2.1.23
43873	beta-glucosidase	+	3.2.1.21
68369	beta-glucosidase	+	3.2.1.21	from API 20NE
43873	beta-glucuronidase	-	3.2.1.31
43873	catalase	+	1.11.1.6
43873	cystine arylamidase	+	3.4.11.3
43873	cytochrome oxidase	+	1.9.3.1
43873	esterase (C 4)	+
43873	esterase Lipase (C 8)	+
68369	gelatinase	-		from API 20NE
43873	leucine arylamidase	+	3.4.11.1
43873	lipase (C 14)	-
43873	N-acetyl-beta-glucosaminidase	-	3.2.1.52
43873	naphthol-AS-BI-phosphohydrolase	+
43873	trypsin	+	3.4.21.4
68369	urease	+	3.5.1.5	from API 20NE
43873	valine arylamidase	+

Fatty acid profile

Metadata FA analysis

@ref

43873

Fatty acid	Percentage
C18:1ω7c / C18:1ω6c	71.1
C16:0	7.8
C12:0 aldehyde / unknown 10.928	6.8
C19:0ω8c cyclo	4
C16:0 3OH	3.1
C16:1ω6c / C16:1ω7c	3
10-methyl C19:0	0.9
C17:1ω8c	0.5
C14:0	0.4
C13:1 at 12-13	0.4
C17:0	0.4
C15:1 iso h / C13:0 3OH	0.3
C18:0	0.3
C17:1ω6c	0.3
C17:0 3OH	0.3
C18:0 3OH	0.2
C15:0 3OH	0.2
C18:1ω5c	0.1
unknown 18.846 / C19:1ω6c	0.1

API 20NE

@ref	Reduction of nitratesNO3	TRP	GLU_ Ferm	ADH (Arg)	URE	ESC	GEL	PNPG	GLU_ Assim	ARA	MNE	MAN	NAG	MAL	GNT	CAP	ADI	MLT	CIT	PAC	OX
64870	+	-	+/-	-	+	+	-	+	+	+	+	+	+	+/-	+/-	-	-	+	-	-	not determinedn.d.

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Root (Rhizome)
#Host Body-Site	#Plant	#Sterilized plant part

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Enrichment culture	Enrichment culture duration	Enrichment culture temperature
43873	surface-sterilized root tissue of maize, Fangshan District, Beijing, PR China	Fangshan District, Beijing	China	CHN	Asia	Luria-Bertani agar	2-3 days	room temperature
64870	surface-sterilized root tissue of maize	Fangshan District of Beijing	China	CHN	Asia

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
64870	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM1420135v1 assembly for Rhizobium wenxiniae DSM 100734	scaffold	GCA_014201355	1737357.3	2861144075	1737357	71.86
66792	ASM1464151v1 assembly for Rhizobium wenxiniae CGMCC 1.15279	scaffold	GCA_014641515	1737357.4	8113151056	1737357	68.16

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
64870	Rhizobium wenxiniae strain 166 16S ribosomal RNA gene, partial sequence	KR610521	1348		1737357

GC content

@ref	GC-content (mol%)	Method
64870	59.8	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM1420135v1 assembly for Rhizobium wenxiniae DSM 100734
BV-BRC: 1737357.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	92.15	no
125439	gram_stain	BacteriaNetⓘ	negative	94.82	no
125439	motility	BacteriaNetⓘ	yes	56.59	no
125439	spore_formation	BacteriaNetⓘ	no	98.72	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Rhizobium wenxiniae DSM 100734
NCBI: GCA_014201355.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.33	yes
125438	anaerobic	anaerobicⓘ	no	94.06	no
125438	aerobic	aerobicⓘ	yes	79.56	yes
125438	spore-forming	spore-formingⓘ	no	84.78	no
125438	thermophilic	thermophileⓘ	no	99.50	yes
125438	flagellated	motile2+ⓘ	yes	69.59	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Bacterial synergies amplify nitrogenase activity in diverse systems.	Sher AW, Tournay RJ, Gomez-Rivas E, Doty SL.	ISME Commun	10.1093/ismeco/ycae158	2024
Phylogeny	Rhizobium wenxiniae sp. nov., an endophytic bacterium isolated from maize root.	Gao JL, Sun P, Wang XM, Lv FY, Mao XJ, Sun JG	Int J Syst Evol Microbiol	10.1099/ijsem.0.002025	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 )
#43873	Jun-lian Gao, Pengbo Sun, Xu-ming Wang, Fan-yang Lv, Xiao-jie Mao, Jian-guang Sun: Rhizobium wenxiniae sp. nov., an endophytic bacterium isolated from maize root. IJSEM 67: 2798 - 2803 2017 ( DOI 10.1099/ijsem.0.002025 , PubMed 28820092 )
#64870	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 100734
#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) .
#68369	Automatically annotated from API 20NE .
#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 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Rhizobium wenxiniae (CGMCC 1.15279, DSM 100734, 166)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Antibiotic resistance

Metabolite production

Metabolite tests

Enzymes

Fatty acid profile

API 20NE

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_014201355

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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