Name: Mesorhizobium sophorae ICMP 19535
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 141125

Type strain:

Species: Mesorhizobium sophorae

Culture col. no.: ICMP 19535, LMG 28223, HAMBI 3606

NCBI tax ID(s): 1300294 (species)

SI-ID 393610

LMG 28223, HAMBI 3606, ICMP 19535

Section

Mesorhizobium sophorae ICMP 19535 is a Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from root nodules of Sophora microphylla from a river outwash fan.

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

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

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Alphaproteobacteria*
	Order	*Hyphomicrobiales*
	Family	*Phyllobacteriaceae*
	Genus	*Mesorhizobium*
	Species	**Mesorhizobium sophorae**
	Full Scientific Name (LPSN)	Mesorhizobium sophorae De Meyer et al. 2016

Information on morphological and physiological properties Morphology

[Ref.: #44033]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.994

[Ref.: #44033]	Cell length	2 µm

[Ref.: #44033]	Cell width	1 µm

[Ref.: #44033]	Cell shape	rod-shaped

[Ref.: #69480]	Motility	yes Confidence in %94.098

[Ref.: #44033]	Colony size	0.2-0.7 mm
[Ref.: #44033]	Colony color	light cream
[Ref.: #44033]	Colony shape	circular
[Ref.: #44033]	Cultivation medium used	YMA

Information on culture and growth conditions Culture and growth conditions

[Ref.: #44033]

Culture medium

YMA

[Ref.: #44033]

Culture medium growth

[Ref.: #44033]

Culture medium

YMB

[Ref.: #44033]

Culture medium growth

	Kind of temperature		Temperature
[Ref.: #44033]		growth	15-30 °C
[Ref.: #44033]	no	growth	4 °C
[Ref.: #44033]	no	growth	7 °C
[Ref.: #44033]	no	growth	37 °C
[Ref.: #44033]		growth	28 °C

[Ref.: #44033]	Temperature range	psychrophilic
[Ref.: #44033]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #44033]			growth	4.0-7.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69481]	Ability of spore formation	no Confidence in %99
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.995

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #44033]		NaCl		growth	1-8	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #44033]	1 % sodium lactate	+/-	respiration
[Ref.: #44033]	2-hydroxybutyrate ChEBI	-	respiration
[Ref.: #44033]	2-oxobutanoate ChEBI	-	respiration
[Ref.: #44033]	2-oxoglutarate ChEBI	-	respiration
[Ref.: #44033]	3-hydroxybutyrate ChEBI	+	respiration
[Ref.: #44033]	3-O-methyl-D-glucose ChEBI	-	respiration
[Ref.: #44033]	4-hydroxyphenylacetic acid ChEBI	+/-	respiration
[Ref.: #44033]	acetate ChEBI	+	respiration
[Ref.: #44033]	acetoacetate ChEBI	+	respiration
[Ref.: #44033]	alpha-D-glucose ChEBI	+	respiration
[Ref.: #44033]	alpha-lactose ChEBI	+	respiration
[Ref.: #44033]	aztreonam ChEBI	+	respiration
[Ref.: #44033]	bromosuccinate ChEBI	-	respiration
[Ref.: #44033]	cellobiose ChEBI	+	respiration
[Ref.: #44033]	citrate ChEBI	-	respiration
[Ref.: #44033]	D-arabitol ChEBI	+	respiration
[Ref.: #44033]	D-aspartate ChEBI	+/-	respiration
[Ref.: #44033]	D-fructose ChEBI	+	respiration
[Ref.: #44033]	D-fructose 6-phosphate ChEBI	-	respiration
[Ref.: #44033]	D-fucose ChEBI	+	respiration
[Ref.: #44033]	D-galactose ChEBI	+	respiration
[Ref.: #44033]	D-galacturonic acid ChEBI	+/-	respiration
[Ref.: #44033]	D-gluconate ChEBI	-	respiration
[Ref.: #44033]	D-glucose ChEBI	+	assimilation
[Ref.: #44033]	D-glucose 6-phosphate ChEBI	-	respiration
[Ref.: #44033]	D-glucuronate ChEBI	+/-	respiration
[Ref.: #44033]	D-malate ChEBI	-	respiration
[Ref.: #44033]	D-mannitol ChEBI	+	respiration
[Ref.: #44033]	D-mannose ChEBI	+	respiration
[Ref.: #44033]	D-saccharate ChEBI	-	respiration
[Ref.: #44033]	D-serine ChEBI	-	respiration
[Ref.: #44033]	D-sorbitol ChEBI	+/-	respiration
[Ref.: #44033]	D-trehalose ChEBI	+	respiration
[Ref.: #44033]	dextrin ChEBI	+/-	respiration
[Ref.: #44033]	formate ChEBI	+/-	respiration
[Ref.: #44033]	fusidate ChEBI	+/-	respiration
[Ref.: #44033]	galactarate ChEBI	-	respiration
[Ref.: #44033]	gamma-aminobutyric acid ChEBI	+	respiration
[Ref.: #44033]	gelatin ChEBI	-	respiration
[Ref.: #44033]	gentiobiose ChEBI	+	respiration
[Ref.: #44033]	glucuronamide ChEBI	+/-	respiration
[Ref.: #44033]	glycerol ChEBI	+	respiration
[Ref.: #44033]	glycine-proline ChEBI	+/-	respiration
[Ref.: #44033]	guanidinium chloride ChEBI	-	respiration
[Ref.: #44033]	inosine ChEBI	-	respiration
[Ref.: #44033]	L-alanine ChEBI	+	respiration
[Ref.: #44033]	L-arabinose ChEBI	+	assimilation
[Ref.: #44033]	L-arginine ChEBI	+	respiration
[Ref.: #44033]	L-aspartate ChEBI	+	respiration
[Ref.: #44033]	L-fucose ChEBI	+	respiration
[Ref.: #44033]	L-galactonic acid gamma-lactone ChEBI	-	respiration
[Ref.: #44033]	L-glutamate ChEBI	+/-	respiration
[Ref.: #44033]	L-histidine ChEBI	+/-	respiration
[Ref.: #44033]	L-malate ChEBI	+	respiration
[Ref.: #44033]	L-pyroglutamic acid ChEBI	-	respiration
[Ref.: #44033]	L-rhamnose ChEBI	+	respiration
[Ref.: #44033]	L-serine ChEBI	-	respiration
[Ref.: #44033]	lactate ChEBI	+	respiration
[Ref.: #44033]	lincomycin ChEBI	+	respiration
[Ref.: #44033]	lithium chloride ChEBI	+/-	respiration
[Ref.: #44033]	maltose ChEBI	+	assimilation
[Ref.: #44033]	maltose ChEBI	+	respiration
[Ref.: #44033]	melibiose ChEBI	+	respiration
[Ref.: #44033]	methyl (R)-lactate ChEBI	-	respiration
[Ref.: #44033]	methyl D-glucoside ChEBI	+	respiration
[Ref.: #44033]	methyl pyruvate ChEBI	-	respiration
[Ref.: #44033]	minocycline ChEBI	+/-	respiration
[Ref.: #44033]	myo-inositol ChEBI	+	respiration
[Ref.: #44033]	N-acetyl-beta-D-mannosamine ChEBI	+/-	respiration
[Ref.: #44033]	N-acetylgalactosamine ChEBI	+	respiration
[Ref.: #44033]	N-acetylglucosamine ChEBI	+	respiration
[Ref.: #44033]	n-acetylneuraminate ChEBI	-	respiration
[Ref.: #44033]	nalidixic acid ChEBI	+	respiration
[Ref.: #44033]	niaproof ChEBI	-	respiration
[Ref.: #44033]	pectin ChEBI	-	respiration
[Ref.: #44033]	potassium tellurite ChEBI	+/-	respiration
[Ref.: #44033]	propionate ChEBI	+	respiration
[Ref.: #44033]	quinate ChEBI	-	respiration
[Ref.: #44033]	raffinose ChEBI	+	respiration
[Ref.: #44033]	rifamycin sv ChEBI	+	respiration
[Ref.: #44033]	salicin ChEBI	+/-	respiration
[Ref.: #44033]	sodium bromate ChEBI	-	respiration
[Ref.: #44033]	sodium butyrate ChEBI	+/-	respiration
[Ref.: #44033]	stachyose ChEBI	-	respiration
[Ref.: #44033]	sucrose ChEBI	+/-	respiration
[Ref.: #44033]	tetrazolium blue ChEBI	+	respiration
[Ref.: #44033]	tetrazolium violet ChEBI	+/-	respiration
[Ref.: #44033]	troleandomycin ChEBI	-	respiration
[Ref.: #44033]	turanose ChEBI	+/-	respiration
[Ref.: #44033]	tween 40 ChEBI	+/-	respiration
[Ref.: #44033]	vancomycin ChEBI	+/-	respiration
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Antibiotic sensitivity	Concentration		Antibiotic resistance	Concentration
[Ref.: #44033]	chloramphenicol ChEBI				yes	30	µg (disc)
[Ref.: #44033]	erythromycin ChEBI				yes	15	µg (disc)
[Ref.: #44033]	gentamicin ChEBI	yes	10	µg (disc)
[Ref.: #44033]	kanamycin ChEBI				yes	30	µg (disc)
[Ref.: #44033]	streptomycin ChEBI	yes	25	µg (disc)

	Enzyme	Enzyme activity	EC number
[Ref.: #44033]	arginine dihydrolase	+/-	3.5.3.6
[Ref.: #44033]	catalase	-	1.11.1.6
[Ref.: #44033]	cytochrome oxidase	+	1.9.3.1

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #44033]

Fatty acid	Percentage
C18:1ω7c	48.8
C16:0	21.4
11-methyl-C18:1ω7c	12
C19:0cycloω8c	10.1
C17:0 iso	5.3
C16:1ω7c / C15:0iso2-OH	2.4

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

[Ref.: #44033]	Sample type/isolated from	root nodules of Sophora microphylla from a river outwash fan
[Ref.: #44033]	Geographic location (country and/or sea, region)	Pororari River, Westland
[Ref.: #44033]	Country	New Zealand
[Ref.: #44033]	Country ISO 3 Code	NZL
[Ref.: #44033]	Continent	Australia and Oceania
* marker position based on {}

Isolation sources categories

#Host	#Plants	#Tree
#Host Body-Site	#Plant	#Root nodule

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KC237424 (>99% sequence identity) for Mesorhizobium from Microbeatlas

Aquatic Samples	5652
Soil Samples	18576
Animal Samples	4689
Plant Samples	1771
Total Samples	30688

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.: #44033]	16S rRNA gene sequence	KC237424		GenBank

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Mesorhizobium sophorae ICMP 19535	GCA_002270415	contig	GenBank	1300294 tax ID	*
[Ref.: #66792]	Mesorhizobium sophorae strain ICMP 19535	1300294.3	wgs	PATRIC	1300294 tax ID	*
[Ref.: #66792]	Mesorhizobium sophorae ICMP 19535	2791355123	draft	JGI IMG/M	1300294 tax ID	*

[Ref.: #44033]

GC-content

62.6 mol%

high performance liquid chromatography (HPLC)

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Mesorhizobium sophorae strain ICMP 19535 PATRIC: 1300294.3
[Ref.: #69481]	spore-forming	no	99	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Mesorhizobium sophorae strain ICMP 19535 PATRIC: 1300294.3
[Ref.: #69480]	motile	yes	87.15	no
[Ref.: #69480]	gram-positive	no	98.101	no
[Ref.: #69480]	anaerobic	no	98.915	no
[Ref.: #69480]	halophile	no	94.031	no
[Ref.: #69480]	spore-forming	no	93.96	no
[Ref.: #69480]	thermophile	no	99.344	yes
[Ref.: #69480]	glucose-util	yes	91.533	no
[Ref.: #69480]	flagellated	no	84.687	no
[Ref.: #69480]	aerobic	yes	90.593	no
[Ref.: #69480]	glucose-ferment	no	91.219	no

Availability in culture collections External links

[Ref.: #44033]

Culture collection no.

ICMP 19535, LMG 28223, HAMBI 3606

[Ref.: #96865]

SI-ID 393610

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Mesorhizobium terrae sp. nov., a novel species isolated from soil in Jangsu, Korea.	Jung YJ, Kim HJ, Hur M	Antonie Van Leeuwenhoek	10.1007/s10482-020-01435-0	2020	*
Phylogeny	Mesorhizobium calcicola sp. nov., Mesorhizobium waitakense sp. nov., Mesorhizobium sophorae sp. nov., Mesorhizobium newzealandense sp. nov. and Mesorhizobium kowhaii sp. nov. isolated from Sophora root nodules.	De Meyer SE, Tan HW, Andrews M, Heenan PB, Willems A	Int J Syst Evol Microbiol	10.1099/ijsem.0.000796	2015	*
Genetics	Complete Genome Sequence of Mesorhizobium sophorae ICMP 19535(T), a Highly Specific, Nitrogen-Fixing Symbiont of New Zealand Endemic Sophora spp.	De Meyer SE, Nguyen DT, Wang P, Andrews M	Genome Announc	10.1128/genomeA.00958-17	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 )

#44033

Soe E. De Meyer, Heng Wee Tan, Mitchell Andrews, Peter B. Heenan and Anne Willems: Mesorhizobium calcicola sp. nov., Mesorhizobium waitakense sp. nov., Mesorhizobium sophorae sp. nov., Mesorhizobium newzealandense sp. nov. and Mesorhizobium kowhaii sp. nov. isolated from Sophora root nodules. IJSEM 66: 786 - 795 2016 ( DOI 10.1099/ijsem.0.000796 , PubMed 26610329 )

#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) .

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#96865

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID393610.1 )

* These data were automatically processed and therefore are not curated

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Mesorhizobium sophorae strain ICMP 19535

Mesorhizobium sophorae strain ICMP 19535

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