Cite this strain

Ilumatobacter nonamiensis (NBRC 29153, KCTC 29139, YM16-303)

BacDive ID 133933

Type strain

Strain Designation YM16-303

Culture col. no. NBRC 29153 KCTC 29139 YM16-303

NCBI tax ID(s) 467093

Special Collections KCTC Literature strains

Links

Ilumatobacter nonamiensis YM16-303 is an aerobe, Gram-positive, rod-shaped prokaryote that was isolated from soil.

Gram-positive rod-shaped aerobe genome sequence 16S sequence

Name and taxonomic classification

SI-ID 24630

KCTC 29139,NBRC 109120

@ref 20215

Last LPSN update 2025-12-16 10:01:55

Domain Bacillati

Phylum Actinomycetota

Class Acidimicrobiia

Order Acidimicrobiales

Family Ilumatobacteraceae

Genus Ilumatobacter

Species Ilumatobacter nonamiensis

Full scientific name Ilumatobacter nonamiensis corrig. Matsumoto et al. 2013

Synonyms (1)

Ilumatobacter nonamiense

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility
30911	positive	0.85 µm	0.55 µm	rod-shaped
125439	positive

Pigmentation

30911

Productionyes

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)
30911	positive	growth	10-30

Culture pH

@ref	Ability	Type	PH	PH range
30911	positive	growth	06-10	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
30911	aerobe
125439	obligate aerobe

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
30911	4853 ChEBI	esculin	+	hydrolysis

Enzymes

@ref	Value	Activity	Ec
30911	acid phosphatase	+	3.1.3.2
30911	alkaline phosphatase	+	3.1.3.1

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

30911

Sample typesoil

Taxonmaps

69479

Global distribution of 16S sequence AB360345 (>99% sequence identity) for Ilumatobacter nonamiensis subclade from Microbeatlas

Aquatic Samples	2591
Soil Samples	277
Animal Samples	315
Plant Samples	16
Total Samples	3199

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID
66792	ASM35014v1 assembly for Ilumatobacter nonamiensis YM16-303	contig	GCA_000350145	1313171.3	2565956804	1313171

Genome browser: GCA_000350145

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
30911	Ilumatobacter nonamiensis YM16-303 gene for 16S rRNA, partial sequence	AB360345	1443		1313171

Genome-based predictions

Predictions

Predictions from Diaspora project based on:
Ilumatobacter nonamiensis YM16-303
NCBI: GCA_000350145

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	70.20	no
125439	motility	BacteriaNetⓘ	no	81.10	no
125439	gram_stain	BacteriaNetⓘ	positive	98.30	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.10	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Complete genome sequence of Ilumatobacter coccineum YM16-304(T.).	Fujinami S, Takarada H, Kasai H, Sekine M, Omata S, Harada T, Fukai R, Hosoyama A, Horikawa H, Kato Y, Nakazawa H, Fujita N	Stand Genomic Sci	10.4056/sigs.4007734	2013
Phylogeny	Ilumatobacter nonamiense sp. nov. and Ilumatobacter coccineum sp. nov., isolated from seashore sand.	Matsumoto A, Kasai H, Matsuo Y, Shizuri Y, Ichikawa N, Fujita N, Omura S, Takahashi Y	Int J Syst Evol Microbiol	10.1099/ijs.0.047316-0	2013

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 )
#30911	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 #27241 (see below)
#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 .
#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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Ilumatobacter nonamiensis (NBRC 29153, KCTC 29139, YM16-303)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Metabolite utilization

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_000350145

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

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