Dyadobacter luteus (CGMCC 1.13719, ACCC 60381, JCM 32940)

Name: Dyadobacter luteus (CGMCC 1.13719, ACCC 60381, JCM 32940)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 164417

Type strain

Strain Designation RS19

Culture col. no. CGMCC 1.13719 ACCC 60381 JCM 32940 RS19

NCBI tax ID(s) 2259619

Special Collections JCM Literature strains

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Dyadobacter luteus RS19 is an aerobe, mesophilic, Gram-negative prokaryote that forms circular colonies and was isolated from Rose rhizosphere soil in Mentougou District of Beijing.

Gram-negative rod-shaped colony-forming aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 359562

JCM 32940

@ref 20215

Last LPSN update 2025-12-16 10:09:27

Domain Pseudomonadati

Phylum Bacteroidota

Class Cytophagia

Order Cytophagales

Family Spirosomataceae

Genus Dyadobacter

Species Dyadobacter luteus

Full scientific name Dyadobacter luteus Chen et al. 2025

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility	Confidence
68257	negative	1.4-2.3 µm	0.5-0.6 µm	rod-shaped
125439	negative					99.7

Colony morphology

@ref	Colony size	Colony color	Colony shape	Incubation period	Medium used
68257	1-2 mm	yellow	circular	1 day	TSB agar

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
67770	positive	growth	28	mesophilic
68257	positive	growth	1-37
68257	positive	optimum	15-30

Culture pH

@ref	Ability	Type	PH
68257	positive	growth	6-8

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
68257	aerobe
125439	obligate aerobe	96.6

Spore formation

@ref	Spore formation	Confidence
125439		98.4

Halophily

@ref	Salt	Growth	Tested relation	Concentration
68257	NaCl	positive	growth	0-1 %(w/v)

Observation

@ref	Observation
67770	quinones: MK-7
68257	occur in pairs in young cultures, but in chains of short rod shaped to coccoid cells in older cultures

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68257		1 % sodium lactate	+	carbon source
68257		1 % sodium lactate	+	energy source
68257	17925 ChEBI	alpha-D-glucose	+	carbon source
68257	17925 ChEBI	alpha-D-glucose	+	energy source
68257	36219 ChEBI	alpha-lactose	+	carbon source
68257	36219 ChEBI	alpha-lactose	+	energy source
68257	28860 ChEBI	beta-D-glucuronic acid	+	carbon source
68257	28860 ChEBI	beta-D-glucuronic acid	+	energy source
68257	17057 ChEBI	cellobiose	+	carbon source
68257	17057 ChEBI	cellobiose	+	energy source
68257	15824 ChEBI	D-fructose	+	carbon source
68257	15824 ChEBI	D-fructose	+	energy source
68257	15895 ChEBI	D-galactonic acid lactone	+	carbon source
68257	15895 ChEBI	D-galactonic acid lactone	+	energy source
68257	12936 ChEBI	D-galactose	+	carbon source
68257	12936 ChEBI	D-galactose	+	energy source
68257	18024 ChEBI	D-galacturonic acid	+	carbon source
68257	18024 ChEBI	D-galacturonic acid	+	energy source
68257	17634 ChEBI	D-glucose	+	assimilation
68257	16024 ChEBI	D-mannose	+	assimilation
68257	16024 ChEBI	D-mannose	+	carbon source
68257	16024 ChEBI	D-mannose	+	energy source
68257	17814 ChEBI	D-salicin	+	carbon source
68257	17814 ChEBI	D-salicin	+	energy source
68257	16551 ChEBI	D-trehalose	+	carbon source
68257	16551 ChEBI	D-trehalose	+	energy source
68257	4853 ChEBI	esculin	+	hydrolysis
68257	5291 ChEBI	gelatin	-	hydrolysis
68257	28066 ChEBI	gentiobiose	+	carbon source
68257	28066 ChEBI	gentiobiose	+	energy source
68257	30849 ChEBI	L-arabinose	+	assimilation
68257	18287 ChEBI	L-fucose	+	carbon source
68257	18287 ChEBI	L-fucose	+	energy source
68257	62345 ChEBI	L-rhamnose	+	carbon source
68257	62345 ChEBI	L-rhamnose	+	energy source
68257	17306 ChEBI	maltose	+	assimilation
68257	17306 ChEBI	maltose	+	carbon source
68257	17306 ChEBI	maltose	+	energy source
68257	28053 ChEBI	melibiose	+	carbon source
68257	28053 ChEBI	melibiose	+	energy source
68257	37657 ChEBI	methyl D-glucoside	+	carbon source
68257	37657 ChEBI	methyl D-glucoside	+	energy source
68257	506227 ChEBI	N-acetyl-D-glucosamine	+	assimilation
68257	506227 ChEBI	N-acetyl-D-glucosamine	+	carbon source
68257	506227 ChEBI	N-acetyl-D-glucosamine	+	energy source
68257	17632 ChEBI	nitrate	+	reduction
68257	17309 ChEBI	pectin	+	carbon source
68257	17309 ChEBI	pectin	+	energy source
68257	16634 ChEBI	raffinose	+	carbon source
68257	16634 ChEBI	raffinose	+	energy source
68257	17164 ChEBI	stachyose	+	carbon source
68257	17164 ChEBI	stachyose	+	energy source
68257	17992 ChEBI	sucrose	+	carbon source
68257	17992 ChEBI	sucrose	+	energy source
68257	32528 ChEBI	turanose	+	carbon source
68257	32528 ChEBI	turanose	+	energy source

Enzymes

@ref	Value	Activity	Ec
68257	acid phosphatase	+	3.1.3.2
68257	alkaline phosphatase	+	3.1.3.1
68257	alpha-galactosidase	+	3.2.1.22
68257	alpha-glucosidase	+	3.2.1.20
68257	alpha-mannosidase	+	3.2.1.24
68257	beta-D-fucosidase	-	3.2.1.38
68257	beta-galactosidase	+	3.2.1.23
68257	beta-glucosidase	+	3.2.1.21
68257	beta-glucuronidase	-	3.2.1.31
68257	catalase	+	1.11.1.6
68257	chymotrypsin	-	3.4.4.5
68257	cystine arylamidase	+	3.4.11.3
68257	cytochrome oxidase	+	1.9.3.1
68257	esterase	+
68257	esterase (C 4)	+
68257	esterase Lipase (C 8)	+
68257	leucine arylamidase	+	3.4.11.1
68257	lipase (C 14)	-
68257	N-acetyl-beta-glucosaminidase	+	3.2.1.52
68257	naphthol-AS-BI-phosphohydrolase	+
68257	P-nitroso-D-methyl galactose	-
68257	trypsin	-	3.4.21.4
68257	valine arylamidase	+

Fatty acid profile

Metadata FA analysis

@ref

68257

Fatty acid	Percentage
C16:1 w6c/C16:1 w7c	36.1
C15:0 iso	18.5
C16:1 w5c	14.5
C17:0 iso 3OH	9.2
C15:0 iso 3OH	5.7
C15:1 iso G	5
C16:0	4.5
C15:0 anteiso	1.5

Isolation, sampling and environmental information

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude	Enrichment culture	Isolation date
67770	Rose rhizosphere soil in Mentougou District of Beijing		China	CHN	Asia
68257	soil of rose rhizosphere	Mentougou District of Beijing	China	CHN	Asia	39.9633	116.083 39.9633/116.083	LB	2016-05-01

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM338361v1 assembly for Dyadobacter luteus RS19	contig	GCA_003383615	2259619.3	2839216549	2259619	64.14

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
68257	Dyadobacter luteus 16S ribosomal RNA gene, partial sequence	MH558673	1398		2259619

GC content

@ref	GC-content (mol%)	Method
67770	43.1	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Dyadobacter luteus RS19
NCBI: GCA_003383615

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	98.40	no
125439	motility	BacteriaNetⓘ	no	56.90	no
125439	gram_stain	BacteriaNetⓘ	negative	99.70	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	96.60	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Validation list no. 225: valid publication of new names and new combinations effectively published outside the IJSEM.	Oren A, Goker M.	Int J Syst Evol Microbiol	10.1099/ijsem.0.006863	2025
Phylogeny	Dyadobacter luteus sp. nov., isolated from rose rhizosphere soil.	Chen L, Gao X, Ma Q, Liu H, Wang X, Xu Y, Liu Y	Arch Microbiol	10.1007/s00203-019-01738-5	2019

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 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#68257	Lin Chen, Xu Gao, Qinghua Ma, Huihui Liu, Xinghong Wang, Yan Xu and Yunpeng Liu: Dyadobacter luteus sp. nov., isolated from rose rhizosphere soil. Arch Microbiol 202: 191 - 196 2020 ( DOI 10.1007/s00203-019-01738-5 )
#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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Dyadobacter luteus (CGMCC 1.13719, ACCC 60381, JCM 32940)

Name and taxonomic classification