Name: Terrimonas lutea DY
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 134180

Type strain:

Species: Terrimonas lutea

Strain Designation: DY

Culture col. no.: IAM 15284, CCTCC AB 205006, JCM 21735, BCRC 17943, CIP 109226

Strain history: CIP <- 2006, IAM

NCBI tax ID(s): 296052 (species)

SI-ID 291136

IAM 15284, JCM 21735, CIP 109226

Section

Terrimonas lutea DY is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from Garden soil.

Gram-negative
rod-shaped
aerobe
16S sequence
Bacteria

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

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Bacteroidota*
	Class	*Chitinophagia*
	Order	*Chitinophagales*
	Family	*Chitinophagaceae*
	Genus	*Terrimonas*
	Species	**Terrimonas lutea**
	Full Scientific Name (LPSN)	Terrimonas lutea Xie and Yokota 2006

Information on morphological and physiological properties Morphology

[Ref.: #31718]	Gram stain	negative
[Ref.: #120685]	Gram stain	negative

[Ref.: #31718]	Cell length	01-03 µm

[Ref.: #31718]	Cell width	0.3-0.5 µm

[Ref.: #31718]	Cell shape	rod-shaped
[Ref.: #120685]	Cell shape	rod-shaped

[Ref.: #31718]	Motility	no
[Ref.: #120685]	Motility	no

[Ref.: #31718]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #32785]

Culture medium

MEDIUM 328- for nutrient agar

[Ref.: #32785]

Culture medium growth

[Ref.: #32785]

Culture medium composition

expand / minimize

[Ref.: #120685]

Culture medium

CIP Medium 328

[Ref.: #120685]

Culture medium growth

[Ref.: #120685]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #31718]	growth	10-37 °C
[Ref.: #31718]	optimum	25-32 °C
[Ref.: #32785]	growth	30 °C
[Ref.: #67770]	growth	27 °C

[Ref.: #31718]	Temperature range	mesophilic
[Ref.: #32785]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #31718]			optimum	7
[Ref.: #31718]			growth	7

Information on physiology and metabolism Physiology and metabolism

[Ref.: #31718]	Oxygen tolerance	aerobe
[Ref.: #120685]	Oxygen tolerance	obligate aerobe

[Ref.: #31718]

Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #31718]		NaCl		growth	0-1	%

[Ref.: #31718]	Observation	aggregates in chains
[Ref.: #67770]	Observation	quinones: MK-7, MK-6

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31718]	5-dehydro-D-gluconate ChEBI	+	carbon source
[Ref.: #68371]	amygdalin ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #31718]	arabinose ChEBI	+	carbon source
[Ref.: #68371]	arbutin ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #31718]	cellobiose ChEBI	+	carbon source
[Ref.: #68371]	cellobiose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-arabinose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-arabitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-fucose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-glucose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-lyxose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-mannitol ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-mannose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-sorbitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-tagatose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	erythritol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	esculin ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #31718]	fructose ChEBI	+	carbon source
[Ref.: #68371]	galactitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #31718]	galactose ChEBI	+	carbon source
[Ref.: #68371]	gluconate ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #31718]	glucose ChEBI	+	carbon source
[Ref.: #68371]	glycerol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	glycogen ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-arabitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-fucose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-rhamnose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-sorbose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-xylose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #31718]	lactose ChEBI	+	carbon source
[Ref.: #31718]	maltose ChEBI	+	carbon source
[Ref.: #31718]	mannose ChEBI	+	carbon source
[Ref.: #68371]	melezitose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #31718]	melibiose ChEBI	+	carbon source
[Ref.: #68371]	methyl alpha-D-glucopyranoside ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	methyl alpha-D-mannoside ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	methyl beta-D-xylopyranoside ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	myo-inositol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #31718]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #31718]	nitrate ChEBI	+	reduction
[Ref.: #120685]	nitrate ChEBI	-	reduction
[Ref.: #120685]	nitrite ChEBI	-	reduction
[Ref.: #68371]	Potassium 2-ketogluconate ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	Potassium 5-ketogluconate ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #31718]	raffinose ChEBI	+	carbon source
[Ref.: #68371]	raffinose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	ribitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	salicin ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	starch ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #31718]	sucrose ChEBI	+	carbon source
[Ref.: #68371]	sucrose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	trehalose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	turanose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	xylitol ChEBI	-	builds acid from	* from API 50CH acid
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #120685]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	+	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	+	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	+	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	+	3.2.1.24	* from API zym
[Ref.: #68382]	beta-galactosidase	+	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	+	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	+	3.2.1.31	* from API zym
[Ref.: #31718]	catalase	+	1.11.1.6
[Ref.: #120685]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	+	3.4.11.3	* from API zym
[Ref.: #31718]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	+	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #120685]	oxidase	+
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #120685]	urease	-	3.5.1.5
[Ref.: #68382]	valine arylamidase	+		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® 50CH acid:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	ControlQ	Acid from glycerolGLY	Acid from erythritolERY	Acid from D-arabinoseDARA	Acid from L-arabinoseLARA	Acid from D-riboseRIB	Acid from D-xyloseDXYL	Acid from L-xyloseLXYL	Acid from D-adonitolADO	Acid from methyl beta-D-xylopyranosideMDX	Acid from D-galactoseGAL	Acid from D-glucoseGLU	Acid from D-fructoseFRU	Acid from D-mannoseMNE	Acid from L-sorboseSBE	Acid from L-rhamnoseRHA	Acid from dulcitolDUL	Acid from inositolINO	Acid from D-mannitolMAN	Acid from D-sorbitolSOR	Acid from methyl alpha-D-mannopyranosideMDM	Acid from methyl alpha-D-glucopyranosideMDG	Acid from N-acetyl-glucosamineNAG	Acid from amygdalinAMY	Acid from arbutinARB	Acid from esculinESC	Acid from salicinSAL	Acid from cellobioseCEL	Acid from maltoseMAL	Acid from lactoseLAC	Acid from melibioseMEL	Acid from sucroseSAC	Acid from trehaloseTRE	Acid from inulinINU	Acid from melezitoseMLZ	Acid from raffinoseRAF	Acid from starchAMD	Acid from glycogenGLYG	Acid from xylitolXLT	Acid from gentiobioseGEN	Acid from turanoseTUR	Acid from D-lyxoseLYX	Acid from D-tagatoseTAG	Acid from D-fucoseDFUC	Acid from L-fucoseLFUC	Acid from D-arabitolDARL	Acid from L-arabitolLARL	Acid from gluconateGNT	Acid from 2-Ketogluconate2KG	Acid from 5-Ketogluconate5KG
[Ref.: #120685]	11499	not determinedn.d.	-	-	-	+/-	+/-	+/-	-	-	-	+/-	+	+/-	+	-	-	-	-	+	-	-	-	+/-	+	+	+	+	+	+/-	+/-	+/-	+	-	+/-	-	+	-	-	-	+/-	-	-	-	-	-	-	-	-	-	-

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #120685]	11731	-	+	+	+	-	+	+	+	+	+	+	+	+	+	+	+	+	+	+	+

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

[Ref.: #67770]	Sample type/isolated from	Garden soil
[Ref.: #67770]	Country	Japan
[Ref.: #67770]	Country ISO 3 Code	JPN
[Ref.: #67770]	Continent	Asia

[Ref.: #120685]	Sample type/isolated from	Environment, Soil, garden
[Ref.: #120685]	Geographic location (country and/or sea, region)	Tokyo
[Ref.: #120685]	Country	Japan
[Ref.: #120685]	Country ISO 3 Code	JPN
[Ref.: #120685]	Continent	Asia
* marker position based on {}

[Ref.: #69479]

Global distribution of 16S sequence AB192292 (>99% sequence identity) for Terrimonas lutea subclade from Microbeatlas

Aquatic Samples	412
Soil Samples	537
Animal Samples	296
Plant Samples	216
Total Samples	1461

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #120685]

Biosafety level

Risk group (French classification)

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.: #31718]	Terrimonas lutea gene for 16S rRNA, partial sequence	AB192292	1431	GenBank	296052 tax ID

[Ref.: #31718]	GC-content	47.2 mol%
[Ref.: #67770]	GC-content	47.2 mol%	high performance liquid chromatography (HPLC)

Availability in culture collections External links

[Ref.: #31718]

Culture collection no.

IAM 15284, CCTCC AB 205006, JCM 21735, BCRC 17943, CIP 109226

[Ref.: #91778]

SI-ID 291136

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Terrimonas pekingensis sp. nov., isolated from bulking sludge, and emended descriptions of the genus Terrimonas, Terrimonas ferruginea, Terrimonas lutea and Terrimonas aquatica.	Jin D, Wang P, Bai Z, Jin B, Yu Z, Wang X, Zhuang G, Zhang H	Int J Syst Evol Microbiol	10.1099/ijs.0.036848-0	2012	*
Phylogeny	Reclassification of [Flavobacterium] ferrugineum as Terrimonas ferruginea gen. nov., comb. nov., and description of Terrimonas lutea sp. nov., isolated from soil.	Xie CH, Yokota A	Int J Syst Evol Microbiol	10.1099/ijs.0.64115-0	2006	*

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 )

#31718

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 #27994 (see below)

#32785 ; Curators of the CIP;
#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 .

#91778

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-ID291136.1 )

#120685 Collection of Institut Pasteur ; Curators of the CIP; CIP 109226

#27994

IJSEM 1117 2006 ( DOI 10.1099/ijs.0.64115-0 , PubMed 16627664 )

* These data were automatically processed and therefore are not curated

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