Terrimonas ferruginea 3576 | Type strain | DSM 30193, ATCC 13524, IAM 15098, LMG 4021, NBRC 14992, CCUG 33443, JCM 21559, BCRC 17944, IFO 14992, LMG 10403, NCIMB 11299, CIP 109225 | BacDiveID:17755

Strain identifier

BacDive ID: 17755

Type strain:

Species: Terrimonas ferruginea

Strain Designation: 3576

Culture col. no.: DSM 30193, ATCC 13524, IAM 15098, LMG 4021, NBRC 14992, CCUG 33443, JCM 21559, BCRC 17944, IFO 14992, LMG 10403, NCIMB 11299, CIP 109225

Strain history: CIP <- 2006, IAM

NCBI tax ID(s): 1123356 (strain), 249 (species)

SI-ID 2823

LMG 4021, ATCC 13524, DSM 30193, IFO 14992, LMG 10403, NCIMB 11299, CCUG 33443, NCIB 11299, KCTC 2909, NCCB 95039, LMD 95.39, NBRC 14992, CDBB 61, IAM 15098, JCM 21559, CIP 109225

Special Collections

Section

Terrimonas ferruginea 3576 is an obligate aerobe, Gram-negative bacterium of the family Chitinophagaceae.

Gram-negative
obligate aerobe
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	*Bacteroidota*
	Class	*Chitinophagia*
	Order	*Chitinophagales*
	Family	*Chitinophagaceae*
	Genus	*Terrimonas*
	Species	**Terrimonas ferruginea**
	Full Scientific Name (LPSN)	Terrimonas ferruginea (Sickles and Shaw 1934) Xie and Yokota 2006

Synonym

Flavobacterium ferrugineum

Information on morphological and physiological properties Morphology

[Ref.: #119334]	Gram stain	negative

[Ref.: #119334]	Cell shape	rod-shaped

[Ref.: #119334]	Motility	no

Multimedia content

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Information on culture and growth conditions Culture and growth conditions

Culture medium

NUTRIENT AGAR (DSMZ Medium 1)

Culture medium growth

Culture medium link

Medium recipe at MediaDive

Culture medium composition

expand / minimize

Culture medium

MEDIUM 328- for nutrient agar

Culture medium growth

Culture medium composition

expand / minimize

[Ref.: #119334]

Culture medium

CIP Medium 328

[Ref.: #119334]

Culture medium growth

[Ref.: #119334]

Culture medium link

Medium recipe provided by DSMZ

	Temperatures	Kind of temperature		Temperature
[Ref.: #9194]			growth	30 °C
[Ref.: #37466]			growth	30 °C
[Ref.: #67770]			growth	30 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #119334]

Oxygen tolerance

obligate aerobe

Ability of spore formation

no Confidence in %100

Name of produced compound

L carnitine

Observation

quinones: MK-7, MK-6

	Metabolite utilization	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68371]		amygdalin ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		arbutin 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-fructose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		D-fucose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		D-galactose 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-ribose 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]		galactitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		gluconate ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		glycerol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		inulin 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-sorbose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		L-xylose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		lactose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		melezitose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		melibiose ChEBI	-	builds acid from	* from API 50CH acid
[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.: #68371]		N-acetylglucosamine ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #119334]		nitrate ChEBI	-	reduction
[Ref.: #119334]		nitrite ChEBI	-	reduction
[Ref.: #68371]		Potassium 2-ketogluconate ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		raffinose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		salicin ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #119334]		sodium thiosulfate ChEBI	-	builds gas from
[Ref.: #68371]		sucrose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		trehalose 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.: #119334]		indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test
[Ref.: #119334]		acetoin ChEBI	+

	Enzymes	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.: #119334]		beta-galactosidase	-	3.2.1.23
[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.: #119334]		catalase	-	1.11.1.6
[Ref.: #68382]		cystine arylamidase	+	3.4.11.3	* from API zym
[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.: #119334]		oxidase	+
[Ref.: #68382]		trypsin	-	3.4.21.4	* from API zym
[Ref.: #119334]		tryptophan deaminase	-
[Ref.: #119334]		urease	-	3.5.1.5
[Ref.: #68382]		valine arylamidase	+		* from API zym
		Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

Fatty acid	Percentage	ECL
C13:0 3OH/C15:1 i I/H	36.8	14.469
C15:0 ISO	33.3	14.621
C16:1 ω7c/C15:0 ISO 2OH	7.8	15.85
C17:0 iso 3OH	5.8	18.161
unknown 13.566	4	13.566
C15:0	3.1	15
C18:2 ω6,9c/C18:0 ANTE	2	17.724
C16:0	1.8	16
C15:0 ISO 3OH	1.6	16.135
C16:0 3OH	1.3	17.52
C14:0	1	14
C13:0 iso	0.9	12.612
C16:0 anteiso	0.6	15.717

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.: #119334]	11498	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.: #119334]	11730	-	+	+	+	-	+	+	+	-	-	+	+	-	+	-	-	+	+	+	-

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

[Ref.: #67770]	Sample type/isolated from	Soil

[Ref.: #119334]	Sample type/isolated from	Environment, Soil sample
[Ref.: #119334]	Country	Japan
[Ref.: #119334]	Country ISO 3 Code	JPN
[Ref.: #119334]	Continent	Asia

[Ref.: #37466]	Country	Japan
[Ref.: #37466]	Country ISO 3 Code	JPN
[Ref.: #37466]	Continent	Asia
* marker position based on {}

Global distribution of 16S sequence AM230484 (>99% sequence identity) for Terrimonas ferruginea subclade from Microbeatlas

Aquatic Samples	1658
Soil Samples	1362
Animal Samples	212
Plant Samples	199
Total Samples	3431

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

[Ref.: #9194]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #119334]	Biosafety level	1	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.: #20218]	F.ferrugineum 16S ribosomal RNA	M62798	1535	GenBank ENA	249 tax ID	*
[Ref.: #20218]	Flavobacterium ferrugineum partial 16S rRNA gene, type strain DSM 30193	AM230484	1519	GenBank ENA	249 tax ID	*
[Ref.: #20218]	Terrimonas ferruginea gene for 16S rRNA, partial sequence, strain: NBRC 14992	AB680736	1456	GenBank ENA	249 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Terrimonas ferruginea DSM 30193	GCA_000425585	scaffold	GenBank ENA	1123356 tax ID
[Ref.: #66792]	Terrimonas ferruginea DSM 30193	1123356.3	wgs	PATRIC	1123356 tax ID	*
[Ref.: #66792]	Terrimonas ferruginea DSM 30193	2523533530	draft	JGI IMG/M	1123356 tax ID	*

GC-content

48.9 mol%

high performance liquid chromatography (HPLC)

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Terrimonas ferruginea DSM 30193 DSM 30193 NCBI: GCA_000425585.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Terrimonas ferruginea DSM 30193 PATRIC: 1123356.3
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	89.178	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	99.609	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	88.773	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	86.493	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	99.163	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	89.5	no

Availability in culture collections External links

Culture collection no.

DSM 30193, ATCC 13524, IAM 15098, LMG 4021, NBRC 14992, CCUG 33443, JCM 21559, BCRC 17944, IFO 14992, LMG 10403, NCIMB 11299, CIP 109225

SI-ID 2823

*

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Terrimonas rhizosphaerae sp. nov., isolated from ginseng rhizosphere soil.	Han SI, Lee YR, Kim JO, Whang KS	Int J Syst Evol Microbiol	10.1099/ijsem.0.001639	2017	*
Phylogeny	Filimonas aurantiibacter sp. nov., an orange-pigmented bacterium isolated from lake water and emended description of the genus Filimonas.	Albert RA, Waas NE, Pavlons SC, Pearson JL, Roecker J, Tewalt N, Cleeve N, Rossello-Mora R, Busse HJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.001305	2016	*
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	Flavitalea populi gen. nov., sp. nov., isolated from soil of a Euphrates poplar (Populus euphratica) forest.	Wang Y, Cai F, Tang Y, Dai J, Qi H, Rahman E, Peng F, Fang C	Int J Syst Evol Microbiol	10.1099/ijs.0.025221-0	2010	*
Phylogeny	Terrimonas aquatica sp. nov., isolated from a freshwater spring.	Sheu SY, Cho NT, Arun AB, Chen WM	Int J Syst Evol Microbiol	10.1099/ijs.0.020164-0	2010	*
Phylogeny	Sediminibacterium salmoneum gen. nov., sp. nov., a member of the phylum Bacteroidetes isolated from sediment of a eutrophic reservoir.	Qu JH, Yuan HL	Int J Syst Evol Microbiol	10.1099/ijs.0.65514-0	2008	*
Phylogeny	Niabella aurantiaca gen. nov., sp. nov., isolated from a greenhouse soil in Korea.	Kim BY, Weon HY, Yoo SH, Hong SB, Kwon SW, Stackebrandt E, Go SJ	Int J Syst Evol Microbiol	10.1099/ijs.0.64614-0	2007	*
Phylogeny	Niastella koreensis gen. nov., sp. nov. and Niastella yeongjuensis sp. nov., novel members of the phylum Bacteroidetes, isolated from soil cultivated with Korean ginseng.	Weon HY, Kim BY, Yoo SH, Lee SY, Kwon SW, Go SJ, Stackebrandt E	Int J Syst Evol Microbiol	10.1099/ijs.0.64242-0	2006	*
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

#9194

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 30193

#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 )

#20218

Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )

#37466 ; Curators of the CIP;
#51522 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 33443

#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) .

#66793

Mukherjee et al.: GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life. 35: 676 - 683 2017 ( DOI 10.1038/nbt.3886 , PubMed 28604660 )

#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 .

#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 )

#86746

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-ID2823.1 )

#119334 Collection of Institut Pasteur ; Curators of the CIP; CIP 109225
* These data were automatically processed and therefore are not curated

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