Mesorhizobium plurifarium (DSM 21884, CIP 105884, JCM 21566)

Name: Mesorhizobium plurifarium (DSM 21884, CIP 105884, JCM 21566)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 11892

Type strain

Culture col. no. DSM 21884 CIP 105884 JCM 21566 LMG 11892 NBRC 102498 3 more

NCBI tax ID(s) 69974

Special Collections DSMZ JCM CIP

History <- CIP <- LMG <- P. De Lajudie, ORSTOM, Dakar, Senegal (Rhizobium sp.) <- M. Neyra IAM 15105 <-- LMG 11892 <-- P. de Lajudie ORS 1032 (Rhizobium sp.) <-- M. Neyra. CIP <- 1999, LMG <- 1991, de Lajudie, ORSTOM, West Africa: strain ORS 1032

Links

Mesorhizobium plurifarium DSM 21884 is a mesophilic, Gram-negative, motile prokaryote that was isolated from Acacia senegal.

Gram-negative motile rod-shaped mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 265432

LMG 11892,CIP 105884,HAMBI 208,KCTC 12159,KACC 10732,NBRC 102498,IAM 15105,JCM 21566,CFBP 6717,DSM 21884

@ref 20215

Last LPSN update 2025-12-16 09:49:43

Domain Pseudomonadati

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Hyphomicrobiales

Family Phyllobacteriaceae

Genus Mesorhizobium

Species Mesorhizobium plurifarium

Full scientific name Mesorhizobium plurifarium de Lajudie et al. 1998

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
121874	negative	rod-shaped
125439	negative		99.5
125438	negative		98.333

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
16018	YMA-MEDIUM (DSMZ Medium 1031)	Medium recipe at MediaDive	Name: YMA-MEDIUM (DSMZ Medium 1031) Composition: Agar 20.0 g/l Mannitol 10.0 g/l Yeast extract 0.3 g/l MgSO4 0.2 g/l K2HPO4 0.2 g/l NaCl 0.05 g/l Distilled water
39379	MEDIUM 304 - for Allorhizobium undicola		Distilled water make up to (987.000 ml);Sodium chloride (0.050 g);Agar (20.000 g);Yeast extract (1.000 g);Potassium di-hydrogen phosphate (0.500 g);Sodium glutamate (0.500 g);Mannitol (10.000 g);Solution A - M0556 (10.000 ml);Solution B - M0557 (1.000 ml)
121874	CIP Medium 296	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
16018	positive	growth	30	mesophilic
39379	positive	growth	30	mesophilic
67770	positive	growth	28	mesophilic
121874	positive	growth	25-37	mesophilic
121874	negative	growth	10
121874	negative	growth	41
121874	negative	growth	45

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	99.2

Spore formation

@ref	Spore formation	Confidence
125439		97.8
125438		92.139

Halophily

@ref	Salt	Growth	Tested relation	Concentration
121874	NaCl	positive	growth	0 %
121874	NaCl		growth	2 %
121874	NaCl		growth	4 %
121874	NaCl		growth	6 %
121874	NaCl		growth	8 %
121874	NaCl		growth	10 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68371	18305 ChEBI	arbutin	+	builds acid from	from API 50CH acid
121874	16947 ChEBI	citrate	+	carbon source
68371	17108 ChEBI	D-arabinose	-	builds acid from	from API 50CH acid
68371	18333 ChEBI	D-arabitol	-	builds acid from	from API 50CH acid
68371	15824 ChEBI	D-fructose	+	builds acid from	from API 50CH acid
68371	28847 ChEBI	D-fucose	-	builds acid from	from API 50CH acid
68371	12936 ChEBI	D-galactose	-	builds acid from	from API 50CH acid
68371	17634 ChEBI	D-glucose	+	builds acid from	from API 50CH acid
68371	62318 ChEBI	D-lyxose	-	builds acid from	from API 50CH acid
68371	16899 ChEBI	D-mannitol	-	builds acid from	from API 50CH acid
68371	16024 ChEBI	D-mannose	+	builds acid from	from API 50CH acid
68371	16988 ChEBI	D-ribose	+	builds acid from	from API 50CH acid
68371	17924 ChEBI	D-sorbitol	-	builds acid from	from API 50CH acid
68371	16443 ChEBI	D-tagatose	-	builds acid from	from API 50CH acid
68371	65327 ChEBI	D-xylose	-	builds acid from	from API 50CH acid
68371	17113 ChEBI	erythritol	-	builds acid from	from API 50CH acid
121874	4853 ChEBI	esculin	+	hydrolysis
68371	4853 ChEBI	esculin	+	builds acid from	from API 50CH acid
68371	16813 ChEBI	galactitol	-	builds acid from	from API 50CH acid
68371	28066 ChEBI	gentiobiose	-	builds acid from	from API 50CH acid
68371	24265 ChEBI	gluconate	-	builds acid from	from API 50CH acid
68371	17754 ChEBI	glycerol	-	builds acid from	from API 50CH acid
68371	28087 ChEBI	glycogen	+	builds acid from	from API 50CH acid
121874	606565 ChEBI	hippurate	-	hydrolysis
68371	15443 ChEBI	inulin	-	builds acid from	from API 50CH acid
68371	30849 ChEBI	L-arabinose	-	builds acid from	from API 50CH acid
68371	18403 ChEBI	L-arabitol	-	builds acid from	from API 50CH acid
68371	18287 ChEBI	L-fucose	-	builds acid from	from API 50CH acid
68371	62345 ChEBI	L-rhamnose	-	builds acid from	from API 50CH acid
68371	17266 ChEBI	L-sorbose	-	builds acid from	from API 50CH acid
68371	65328 ChEBI	L-xylose	-	builds acid from	from API 50CH acid
68371	17716 ChEBI	lactose	-	builds acid from	from API 50CH acid
68371	6731 ChEBI	melezitose	-	builds acid from	from API 50CH acid
68371	28053 ChEBI	melibiose	-	builds acid from	from API 50CH acid
68371	320061 ChEBI	methyl alpha-D-glucopyranoside	-	builds acid from	from API 50CH acid
68371	43943 ChEBI	methyl alpha-D-mannoside	-	builds acid from	from API 50CH acid
68371	74863 ChEBI	methyl beta-D-xylopyranoside	-	builds acid from	from API 50CH acid
68371	17268 ChEBI	myo-inositol	-	builds acid from	from API 50CH acid
68371	59640 ChEBI	N-acetylglucosamine	+	builds acid from	from API 50CH acid
121874	17632 ChEBI	nitrate	-	reduction
121874	17632 ChEBI	nitrate	-	respiration
121874	16301 ChEBI	nitrite	-	reduction
68371		Potassium 2-ketogluconate	-	builds acid from	from API 50CH acid
68371		Potassium 5-ketogluconate	-	builds acid from	from API 50CH acid
68371	16634 ChEBI	raffinose	-	builds acid from	from API 50CH acid
68371	15963 ChEBI	ribitol	-	builds acid from	from API 50CH acid
68371	17814 ChEBI	salicin	+	builds acid from	from API 50CH acid
68371	28017 ChEBI	starch	+	builds acid from	from API 50CH acid
68371	17992 ChEBI	sucrose	-	builds acid from	from API 50CH acid
68371	27082 ChEBI	trehalose	+	builds acid from	from API 50CH acid
68371	32528 ChEBI	turanose	+	builds acid from	from API 50CH acid
68371	17151 ChEBI	xylitol	-	builds acid from	from API 50CH acid

Antibiotic resistance

@ref	Metabolite	Is sensitive	Is resistant
121874	0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)

Metabolite production

@ref	Chebi-ID	Metabolite	Production
121874	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test
121874	15688 ChEBI	acetoin	-
121874	17234 ChEBI	glucose		-

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
121874	alcohol dehydrogenase	-	1.1.1.1
68382	alkaline phosphatase	-	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68382	alpha-glucosidase	+	3.2.1.20	from API zym
68382	alpha-mannosidase	-	3.2.1.24	from API zym
121874	amylase	-
68382	beta-galactosidase	-	3.2.1.23	from API zym
121874	beta-galactosidase	-	3.2.1.23
68382	beta-glucosidase	-	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
121874	caseinase	-	3.4.21.50
121874	catalase	-	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
121874	DNase	-
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
121874	gamma-glutamyltransferase	-	2.3.2.2
121874	gelatinase	-
121874	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
121874	lipase	-
68382	lipase (C 14)	-		from API zym
121874	lysine decarboxylase	-	4.1.1.18
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
121874	ornithine decarboxylase	-	4.1.1.17
121874	oxidase	-
121874	phenylalanine ammonia-lyase	-	4.3.1.24
121874	protease	-
68382	trypsin	+	3.4.21.4	from API zym
121874	tryptophan deaminase	-
121874	tween esterase	-
121874	urease	+	3.5.1.5
68382	valine arylamidase	-		from API zym

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
121874	-	-	+	+	-	+	-	-	+	-	+	+	-	-	-	+	-	-	-	-

API 50CHac

@ref	ControlQ	GLY	ERY	DARA	LARA	RIB	DXYL	LXYL	ADO	MDX	GAL	GLU	FRU	MNE	SBE	RHA	DUL	INO	MAN	SOR	MDM	MDG	NAG	AMY	ARB	ESC	SAL	CEL	MAL	LAC	MEL	SAC	TRE	INU	MLZ	RAF	AMD	GLYG	XLT	GEN	TUR	LYX	TAG	DFUC	LFUC	DARL	LARL	GNT	2KG	5KG
121874	not determinedn.d.	-	-	-	-	+	-	-	-	-	-	+	+	+	-	-	-	-	-	-	-	-	+	+/-	+	+	+	+/-	+/-	-	-	-	+	-	-	-	+	+	-	-	+	-	-	-	-	-	-	-	-	-

API biotype100

@ref	ControlQ	D-glucose as carbon sourceGLU	D-fructose as carbon sourceFRU	D-galactose as carbon sourceGAL	D-trehalose as carbon sourceTRE	D-mannose as carbon sourceMNE	L-sorbose as carbon sourceSBE	D-melibiose as carbon sourceMEL	sucrose as carbon sourceSAC	D-raffinose as carbon sourceRAF	maltotriose as carbon sourceMTE	maltose as carbon sourceMAL	lactose as carbon sourceLAC	lactulose as carbon sourceLTE	1-O-methyl-beta-galactopyranoside as carbon sourceMbGa	1-O-methyl-alpha-galactopyranoside as carbon sourceMaGa	D-cellobiose as carbon sourceCEL	gentiobiose as carbon sourceGEN	1-O-methyl-beta-D-glucopyranoside as carbon sourceMbGu	esculin as carbon sourceESC	D-ribose as carbon sourceRIB	L-arabinose as carbon sourceARA	D-xylose as carbon sourceXYL	palatinose as carbon sourcePLE	L-rhamnose as carbon sourceRHA	L-fucose as carbon sourceFUC	D-melezitose as carbon sourceMLZ	D-arabitol as carbon sourceDARL	L-arabitol as carbon sourceLARL	xylitol as carbon sourceXLT	dulcitol as carbon sourceDUL	D-tagatose as carbon sourceTAG	glycerol as carbon sourceGLY	myo-inositol as carbon sourceINO	D-mannitol as carbon sourceMAN	maltitol as carbon sourceMTL	D-turanose as carbon sourceTUR	D-sorbitol as carbon sourceSOR	adonitol as carbon sourceADO	hydroxyquinoline-beta-glucuronide as carbon sourceHBG	D-lyxose as carbon sourceLYX	i-erythritol as carbon sourceERY	1-O-methyl-alpha-D-glucoside as carbon sourceMDG	3-O-methyl-D-glucose as carbon source3MDG	D-saccharate as carbon sourceSAT	mucate as carbon sourceMUC	L-tartrate as carbon sourceLTAT	D-tartrate as carbon sourceDTAT	meso-tartrate as carbon sourceMTAT	D-malate as carbon sourceDMLT	L-malate as carbon sourceLMLT	cis-aconitate as carbon sourceCATE	trans-aconitate as carbon sourceTATE	tricarballylate as carbon sourceTTE	citrate as carbon sourceCIT	D-glucuronate as carbon sourceGRT	D-galacturonate as carbon sourceGAT	2-ketogluconate as carbon source2KG	5-ketogluconate as carbon source5KG	tryptophan as carbon sourceTRY	N-acetyl-D-glucosamine as carbon sourceNAG	D-gluconate as carbon sourceGNT	phenylacetate as carbon sourcePAC	protocatechuate as carbon sourcePAT	4-hydroxybenzoate as carbon sourcepOBE	quinate as carbon sourceQAT	gentisate as carbon sourceGTE	3-hydroxybenzoate as carbon sourcemOBE	benzoate as carbon sourceBAT	3-phenylpropionate as carbon sourcePPAT	m-coumarate as carbon sourceCMT	trigonelline as carbon sourceTGE	betaine as carbon sourceBET	putrescine as carbon sourcePCE	4-aminobutyrate as carbon sourceABT	histamine as carbon sourceHIN	DL-lactate as carbon sourceLAT	caprate as carbon sourceCAP	caprylate as carbon sourceCYT	L-histidine as carbon sourceHIS	succinate as carbon sourceSUC	fumarate as carbon sourceFUM	glutarate as carbon sourceGRE	DL-glycerate as carbon sourceGYT	5-aminovalerate as carbon sourceAVT	ethanolamine as carbon sourceETN	tryptamine as carbon sourceTTN	D-glucosamine as carbon sourceGLN	itaconate as carbon sourceITA	3-hydroxybutyrate as carbon source3OBU	L-aspartate as carbon sourceAPT	L-glutamate as carbon sourceGTT	L-proline as carbon sourcePRO	D-alanine as carbon sourceDALA	L-alanine as carbon sourceLALA	L-serine as carbon sourceSER	malonate as carbon sourceMNT	propionate as carbon sourcePROP	L-tyrosine as carbon sourceTYR	2-ketoglutarate as carbon source2KT
121874	not determinedn.d.	+	+	+	+	+	+	+	+	-	-	+	+	-	-	-	+	+	+	+	+	+	+	-	+	+	-	+	-	+	-	-	+	+	+	+	+	+	+	-	+	-	-	+	-	-	-	-	-	+	+	+	-	-	+	-	-	-	-	+	+	-	-	+	-	-	-	-	-	-	-	-	+	-	+	-	+	-	-	+	+	+	-	+	-	-	-	+	-	+	-	+	+	-	+	-	+	+	+	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Tree

Isolation

@ref	Sample type	Host species	Country	Country ISO 3 Code	Continent
16018	Acacia senegal	Acacia senegal	Senegal	SEN	Africa
67770	Root nodule harvested on young seedling of Acacia senegal	Acacia senegal	Senegal	SEN	Africa
121874	Acacia		Senegal	SEN	Africa

Taxonmaps

69479

Global distribution of 16S sequence Y14158 (>99% sequence identity) for Mesorhizobium from Microbeatlas

Aquatic Samples	8865
Soil Samples	28701
Animal Samples	7451
Plant Samples	4030
Total Samples	49047

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
16018	1	Risk group (German classification) According to TRBA 466
121874	1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	NCBI tax ID	Score
66792	ASM302459v1 assembly for Mesorhizobium plurifarium LMG 11892	contig	GCA_003024595	69974.15	69974	22.5

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Mesorhizobium plurifarium gene for 16S rRNA, partial sequence, strain: NBRC 102498	AB681835	1410	69974
20218	Mesorhizobium plurifarium strain LMG 11892 16S ribosomal RNA gene, partial sequence; internal transcribed spacer, complete sequence; and 23S ribosomal RNA, partial sequence	AF345263	962	69974
16018	Mesorhizobium plurifarium 16S rRNA gene, strain LMG 11892	Y14158	1437	69974

GC content

@ref	GC-content (mol%)	Method
16018	64.4
67770	64.4	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: Mesorhizobium plurifarium LMG 11892
NCBI: GCA_003024595

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	97.80	no
125439	motility	BacteriaNetⓘ	yes	52.60	no
125439	gram_stain	BacteriaNetⓘ	negative	99.50	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Mesorhizobium plurifarium strain LMG 11892
PATRIC: 69974.15

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.33	no
125438	anaerobic	anaerobicⓘ	no	95.51	no
125438	spore-forming	spore-formingⓘ	no	92.14	no
125438	aerobic	aerobicⓘ	yes	85.28	no
125438	thermophilic	thermophileⓘ	no	99.00	no
125438	flagellated	motile2+ⓘ	yes	72.85	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Mesorhizobium retamae sp. nov., a novel non-nodulating and non-nitrogen-fixing species isolated from the root nodules of Retama raetam sampled in Tunisia.	Ben Gaied R, Sbissi I, Tarhouni M, Huber K, Wolf J, Neumann-Schaal M, Nouioui I, Ghodhbane-Gtari F, Gtari M.	Int J Syst Evol Microbiol	10.1099/ijsem.0.006478	2024
Phylogeny	Mesorhizobium acaciae sp. nov., isolated from root nodules of Acacia melanoxylon R. Br.	Zhu YJ, Lu JK, Chen YL, Wang SK, Sui XH, Kang LH	Int J Syst Evol Microbiol	10.1099/ijsem.0.000455	2015
Phylogeny	Mesorhizobium silamurunense sp. nov., isolated from root nodules of Astragalus species.	Zhao CT, Wang ET, Zhang YM, Chen WF, Sui XH, Chen WX, Liu HC, Zhang XX	Int J Syst Evol Microbiol	10.1099/ijs.0.031229-0	2011
Phylogeny	Characterization of tropical tree rhizobia and description of Mesorhizobium plurifarium sp. nov.	de Lajudie P, Willems A, Nick G, Moreira F, Molouba F, Hoste B, Torck U, Neyra M, Collins MD, Lindstrom K, Dreyfus B, Gillis M	Int J Syst Bacteriol	10.1099/00207713-48-2-369	1998

References

#16018	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 21884
#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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#39379	; Curators of the CIP;
#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) .
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#68371	Automatically annotated from API 50CH acid .
#68382	Automatically annotated from API zym .
#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 .
#121874	Collection of Institut Pasteur ; Curators of the CIP; CIP 105884
#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 )

Rate our new design

Content

About us

Mesorhizobium plurifarium (DSM 21884, CIP 105884, JCM 21566)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Antibiotic resistance

Metabolite production

Metabolite tests

Enzymes

API zym

API 50CHac

API biotype100

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_003024595

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

Help

Social Media