Frankia soli (DSM 100623, NRRL B-16219, CECT 9041)

Name: Frankia soli (DSM 100623, NRRL B-16219, CECT 9041)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 159517

Type strain

Strain Designation DDB000320, Cj

Culture col. no. DSM 100623 NRRL B-16219 CECT 9041 DDB000320 Cj

NCBI tax ID(s) 2599596

Special Collections DSMZ

History DSMZ <- M. Gtari,Faculté des sciences de Tunis, Tunesia; NRRL B-16219 <- D. D. Baker

Links

Frankia soli DDB000320 is a bacterium that was isolated from Ceanothus jepsonii .

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 295366

DSM 100623,CECT 9041,NRRL B-16219

@ref 20215

Last LPSN update 2026-05-29 08:44:12

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Frankiales

Family Frankiaceae

Genus Frankia

Species Frankia soli

Full scientific name Frankia soli Gtari et al. 2020

Synonyms (1)

Parafrankia soli

Morphology

Cell morphology

@ref	Gram stain	Confidence	Motility
125439	positive	99.602
125439		93.623

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
66342	BAP+ MEDIUM FOR FRANKIA (DSMZ Medium 1536)		Medium recipe at MediaDive	Name: BAP+ MEDIUM FOR FRANKIA (DSMZ Medium 1536) Composition: KH2PO4 0.95 g/l K2HPO4 0.6 g/l Na-propionate 0.48 g/l NH4Cl 0.27 g/l MgSO4 x 7 H2O 0.025 g/l Citric acid 0.01 g/l Eisencitrat 0.01 g/l CaCl2 x 2 H2O 0.01 g/l H3BO3 0.00286 g/l MnCl2 x 4 H2O 0.00181 g/l Pyridoxine hydrochloride 0.0005 g/l Nicotinic acid 0.0005 g/l ZnSO4 x 7 H2O 0.00022 g/l Thiamine HCl 0.0001 g/l CuSO4 x 5 H2O 8e-05 g/l Na2MoO4 x 2 H2O 2.5e-05 g/l CoSO4 x 7 H2O 1e-06 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
66342	positive	growth	28

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	99.482

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host Body-Site	#Plant	#Rhizosphere
#Host	#Plants	#Shrub (Scrub)

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent
66342	Ceanothus jepsonii (Rhizosphere)	Ceanothus jepsonii	Wyoming	USA	USA	North America

Taxonmaps

69479

Global distribution of 16S sequence MN238860 (>99% sequence identity) for Frankia from Microbeatlas

Aquatic Samples	34
Soil Samples	283
Animal Samples	148
Plant Samples	36
Total Samples	501

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
124043	ASM185469v1 assembly for Parafrankia soli NRRL B-16219	contig	GCA_001854695	1834517.7	2684623035	2599596	17.37

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
66342	Parafrankia soli strain Cj 16S ribosomal RNA gene, partial sequence	MN238860	1456		2599596

GC content

@ref	GC-content (mol%)	Method
66342	71.1	sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM185469v1 assembly for Parafrankia soli NRRL B-16219
NCBI: GCA_001854695

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.48	no
125439	motility	BacteriaNetⓘ	no	93.62	no
125439	gram_stain	BacteriaNetⓘ	positive	99.60	no
125439	spore_formation	BacteriaNetⓘ	yes	86.03	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Enzymology	Frankia [NiFe] uptake hydrogenases and genome reduction: different lineages of loss.	Pawlowski K, Wibberg D, Mehrabi S, Obaid NB, Patyi A, Berckx F, Nguyen H, Hagen M, Lundin D, Brachmann A, Blom J, Herrera-Belaroussi A, Abrouk D, Pujic P, Hahlin AS, Kalinowski J, Normand P, Sellstedt A.	FEMS Microbiol Ecol	10.1093/femsec/fiae147	2024
	A root nodule microbiome sequencing data set from red alder (Alnus rubra Bong.).	Bell CJ, Sena JA, Fajardo DA, Lavelle EM, Costa MA, Herman B, Davin LB, Lewis NG, Berry AM.	Sci Data	10.1038/s41597-024-04131-0	2024
	A tale of two lineages: how the strains of the earliest divergent symbiotic Frankia clade spread over the world.	Berckx F, Nguyen TV, Bandong CM, Lin HH, Yamanaka T, Katayama S, Wibberg D, Blom J, Kalinowski J, Tateno M, Simbahan J, Liu CT, Brachmann A, Pawlowski K.	BMC Genomics	10.1186/s12864-022-08838-5	2022
Genetics	Genomic Insights of Alnus-Infective Frankia Strains Reveal Unique Genetic Features and New Evidence on Their Host-Restricted Lifestyle.	Kim Tiam S, Boubakri H, Bethencourt L, Abrouk D, Fournier P, Herrera-Belaroussi A.	Genes (Basel)	10.3390/genes14020530	2023
Proteome	Effect of actinorhizal root exudates on the proteomes of Frankia soli NRRL B-16219, a strain colonizing the root tissues of its actinorhizal host via intercellular pathway.	Gueddou A, Sarker I, Sen A, Ghodhbane-Gtari F, Benson DR, Armengaud J, Gtari M	Res Microbiol	10.1016/j.resmic.2021.103900	2021
Phylogeny	Frankia soli sp. nov., an actinobacterium isolated from soil beneath Ceanothus jepsonii.	Gtari M, Ghodhbane-Gtari F, Nouioui I	Int J Syst Evol Microbiol	10.1099/ijsem.0.003899	2020

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 )
#66342	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 100623
#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 .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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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Frankia soli (DSM 100623, NRRL B-16219, CECT 9041)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_001854695

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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