Allorhizobium taibaishanense (DSM 100021, ACCC 14971, HAMBI 3214)

Name: Allorhizobium taibaishanense (DSM 100021, ACCC 14971, HAMBI 3214)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 130597

Type strain

Culture col. no. DSM 100021 ACCC 14971 HAMBI 3214 CCNWSX 0483

NCBI tax ID(s) 1368428 887144

Special Collections DSMZ Literature strains

History DSMZ <- HAMBI <- G. H. Wei, College of Life Sciences, Shaanxi, China; CCNWSX 0483

Links

Allorhizobium taibaishanense DSM 100021 is a bacterium that was isolated from root nodule of Kummerowia striata.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 379268

DSM 100021,HAMBI 3214,LMG 27055

@ref 20215

Last LPSN update 2026-05-29 08:37:24

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Hyphomicrobiales

Family Rhizobiaceae

Genus Allorhizobium

Species Allorhizobium taibaishanense

Full scientific name Allorhizobium taibaishanense (Yao et al. 2012) Hördt et al. 2020

Synonyms (3)

"Allorhizobium taibaishanense"
Rhizobium taibaishanense
Gillisella taibaishanensis

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	98.485
125439	negative	98.916

Colony morphology

21929

Incubation period1-2 days

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
21929	NUTRIENT AGAR (DSMZ Medium 1)		Medium recipe at MediaDive	Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
21929	positive	growth	30
30075	positive	growth	4-40

Culture pH

@ref	Ability	Type	PH	PH range
30075	positive	growth	12	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	98.253

Spore formation

@ref	Spore formation	Confidence
125439		99.467

Halophily

@ref	Salt	Growth	Tested relation	Concentration
30075	NaCl	positive	growth	1 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
30075	22599 ChEBI	arabinose	+	carbon source
68369	29016 ChEBI	arginine	-	hydrolysis	from API 20NE
68369	17634 ChEBI	D-glucose	+	assimilation	from API 20NE
68369	17634 ChEBI	D-glucose	-	fermentation	from API 20NE
68369	16899 ChEBI	D-mannitol	+	assimilation	from API 20NE
68369	16024 ChEBI	D-mannose	+	assimilation	from API 20NE
68369	27689 ChEBI	decanoate	-	assimilation	from API 20NE
68369	4853 ChEBI	esculin	+	hydrolysis	from API 20NE
30075	28757 ChEBI	fructose	+	carbon source
30075	28260 ChEBI	galactose	+	carbon source
68369	5291 ChEBI	gelatin	-	hydrolysis	from API 20NE
68369	24265 ChEBI	gluconate	+	assimilation	from API 20NE
30075	17234 ChEBI	glucose	+	carbon source
68369	30849 ChEBI	L-arabinose	+	assimilation	from API 20NE
30075	17716 ChEBI	lactose	+	carbon source
68369	25115 ChEBI	malate	+	assimilation	from API 20NE
30075	17306 ChEBI	maltose	+	carbon source
68369	17306 ChEBI	maltose	+	assimilation	from API 20NE
30075	37684 ChEBI	mannose	+	carbon source
68369	59640 ChEBI	N-acetylglucosamine	+	assimilation	from API 20NE
30075	17632 ChEBI	nitrate	+	reduction
68369	17632 ChEBI	nitrate	-	reduction	from API 20NE
30075	16634 ChEBI	raffinose	+	carbon source
30075	26546 ChEBI	rhamnose	+	carbon source
30075	33942 ChEBI	ribose	+	carbon source
30075	53258 ChEBI	sodium citrate	+	carbon source
30075	17992 ChEBI	sucrose	+	carbon source
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
68369	16199 ChEBI	urea	+	hydrolysis	from API 20NE
30075	18222 ChEBI	xylose	+	carbon source

Metabolite production

@ref	Chebi-ID	Metabolite	Production
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
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
68369	beta-glucosidase	+	3.2.1.21	from API 20NE
21929	catalase	+	1.11.1.6
30075	catalase	+	1.11.1.6
30075	cytochrome oxidase	+	1.9.3.1
21929	cytochrome-c oxidase	+	1.9.3.1
30075	gelatinase	+
68369	gelatinase	-		from API 20NE
68369	urease	+	3.5.1.5	from API 20NE

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
21929	-	-	-	-	+	+	-	+	+	+	+	+	+	+	+	-	+/-	+	-	-	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 nodule

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent
21929	root nodule of Kummerowia striata	Kummerowia striata	Taibaishan Mountains, Shaanxi Province	China	CHN	Asia

Taxonmaps

69479

Global distribution of 16S sequence HM776997 (>99% sequence identity) for Agrobacterium vitis from Microbeatlas

Aquatic Samples	3235
Soil Samples	3438
Animal Samples	2289
Plant Samples	1267
Total Samples	10229

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
21929	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	Rhizobium taibaishanense DSM 100021	complete			2738541332	887144	91.55
66792	ASM1419673v1 assembly for Allorhizobium taibaishanense DSM 100021	contig	GCA_014196735	887144.6	2829949180	887144	73.9

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
21929	Rhizobium taibaishanense strain CCNWSX 0483 16S ribosomal RNA gene, partial sequence	HM776997	1324		1368428

GC content

30075

GC-content (mol%)58

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM1419673v1 assembly for Allorhizobium taibaishanense DSM 100021
BV-BRC: 887144.6

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.25	no
125439	gram_stain	BacteriaNetⓘ	negative	98.92	no
125439	spore_formation	BacteriaNetⓘ	no	99.47	no
125439	motility	BacteriaNetⓘ	yes	53.46	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Rhizobium taibaishanense strain DSM 100021
PATRIC: 887144.6

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.49	no
125438	anaerobic	anaerobicⓘ	no	95.91	no
125438	aerobic	aerobicⓘ	yes	87.42	no
125438	spore-forming	spore-formingⓘ	no	89.08	no
125438	thermophilic	thermophileⓘ	no	98.48	yes
125438	flagellated	motile2+ⓘ	yes	73.08	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Analysis of 1,000+ Type-Strain Genomes Substantially Improves Taxonomic Classification of Alphaproteobacteria.	Hordt A, Lopez MG, Meier-Kolthoff JP, Schleuning M, Weinhold LM, Tindall BJ, Gronow S, Kyrpides NC, Woyke T, Goker M.	Front Microbiol	10.3389/fmicb.2020.00468	2020
Phylogeny	Revised phylogeny of Rhizobiaceae: proposal of the delineation of Pararhizobium gen. nov., and 13 new species combinations.	Mousavi SA, Willems A, Nesme X, de Lajudie P, Lindstrom K.	Syst Appl Microbiol	10.1016/j.syapm.2014.12.003	2015
	Diversity, Phylogeny and Plant Growth Promotion Traits of Nodule Associated Bacteria Isolated from Lotus parviflorus.	Soares R, Trejo J, Lorite MJ, Figueira E, Sanjuan J, Videira E Castro I.	Microorganisms	10.3390/microorganisms8040499	2020
Phylogeny	Allorhizobium terrae sp. nov., isolated from paddy soil, and reclassification of Rhizobium oryziradicis (Zhao et al. 2017) as Allorhizobium oryziradicis comb. nov.	Lin SY, Hameed A, Huang HI, Young CC.	Int J Syst Evol Microbiol	10.1099/ijsem.0.003770	2020
Phylogeny	Rhizobium oryziradicis sp. nov., isolated from rice roots.	Zhao JJ, Zhang J, Sun L, Zhang RJ, Zhang CW, Yin HQ, Zhang XX	Int J Syst Evol Microbiol	10.1099/ijsem.0.001724	2017
Phylogeny	Rhizobium taibaishanense sp. nov., isolated from a root nodule of Kummerowia striata.	Yao LJ, Shen YY, Zhan JP, Xu W, Cui GL, Wei GH	Int J Syst Evol Microbiol	10.1099/ijs.0.029108-0	2011

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 )
#21929	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 100021
#26433	IJSEM 335 2012 ( DOI 10.1099/ijs.0.029108-0 , PubMed 21421926 )
#30075	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 #26433
#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 .
#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 .
#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 )

Content

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Allorhizobium taibaishanense (DSM 100021, ACCC 14971, HAMBI 3214)

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

Metabolite production

Metabolite tests

Enzymes

API 20NE

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_014196735

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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