Name: Trichococcus ilyis R210
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 2285

Type strain:

Species: Trichococcus ilyis

Strain Designation: R210

Culture col. no.: DSM 22150, JCM 31247

Strain history: A. J. M. Stams; Wageningen Univ., Netherlands; R210.

NCBI tax ID(s): 640938 (species)

SI-ID 407774

DSM 22150

Section

Trichococcus ilyis R210 is an anaerobe, motile, rod-shaped bacterium that was isolated from sludge from an anaerobic sulfate-reducing bioreactor with a citrate-containing waste stream.

motile
rod-shaped
anaerobe
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	*Bacillota*
	Class	*Bacilli*
	Order	*Lactobacillales*
	Family	*Carnobacteriaceae*
	Genus	*Trichococcus*
	Species	**Trichococcus ilyis**
	Full Scientific Name (LPSN)	Trichococcus ilyis Strepis et al. 2016

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #24925]	Cell length	0.63-1.4 µm

[Ref.: #24925]	Cell width	0.48-0.9 µm

[Ref.: #24925]	Cell shape	rod-shaped

[Ref.: #24925]	Motility	yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #16124]

Culture medium

PYG MEDIUM (MODIFIED) (DSMZ Medium 104)

[Ref.: #16124]

Culture medium growth

[Ref.: #16124]

Culture medium link

Medium recipe at MediaDive

[Ref.: #16124]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #16124]	growth	30 °C
[Ref.: #24925]	growth	4-40 °C
[Ref.: #24925]	optimum	30 °C
[Ref.: #67770]	growth	30 °C

[Ref.: #16124]	Temperature range	mesophilic
[Ref.: #24925]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #24925]			optimum	7.8
[Ref.: #24925]			growth	6.0-9.6

Information on physiology and metabolism Physiology and metabolism

[Ref.: #16124]	Oxygen tolerance	anaerobe
[Ref.: #24925]	Oxygen tolerance	anaerobe

[Ref.: #69480]

Ability of spore formation

no Confidence in %99.94

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #24925]	cellobiose ChEBI	+	carbon source
[Ref.: #24925]	citrate ChEBI	+	carbon source
[Ref.: #24925]	D-arabinose ChEBI	+	carbon source
[Ref.: #24925]	D-fructose ChEBI	+	carbon source
[Ref.: #24925]	D-galactose ChEBI	+	carbon source
[Ref.: #24925]	D-galacturonic acid ChEBI	-	carbon source
[Ref.: #24925]	D-glucose ChEBI	+	carbon source
[Ref.: #24925]	D-glucuronate ChEBI	+	carbon source
[Ref.: #24925]	D-mannitol ChEBI	+	carbon source
[Ref.: #24925]	D-mannose ChEBI	+	carbon source
[Ref.: #24925]	D-sorbitol ChEBI	-	carbon source
[Ref.: #24925]	D-tagatose ChEBI	-	carbon source
[Ref.: #24925]	D-xylose ChEBI	-	carbon source
[Ref.: #24925]	ethanol ChEBI	-	carbon source
[Ref.: #24925]	formate ChEBI	-	carbon source
[Ref.: #24925]	galactitol ChEBI	-	carbon source
[Ref.: #24925]	glycerol ChEBI	-	carbon source
[Ref.: #24925]	L-malate ChEBI	+	carbon source
[Ref.: #24925]	L-rhamnose ChEBI	+	carbon source
[Ref.: #24925]	L-sorbose ChEBI	-	carbon source
[Ref.: #24925]	lactate ChEBI	-	carbon source
[Ref.: #24925]	lactose ChEBI	+	carbon source
[Ref.: #24925]	maltose ChEBI	+	carbon source
[Ref.: #24925]	methanol ChEBI	-	carbon source
[Ref.: #24925]	myo-inositol ChEBI	-	carbon source
[Ref.: #24925]	pyruvate ChEBI	+	carbon source
[Ref.: #24925]	raffinose ChEBI	+	carbon source
[Ref.: #24925]	starch ChEBI	-	carbon source
[Ref.: #24925]	sucrose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #16124]	Sample type/isolated from	sludge from an anaerobic sulfate-reducing bioreactor with a citrate-containing waste stream
[Ref.: #16124]	Geographic location (country and/or sea, region)	Jiangsu
[Ref.: #16124]	Country	China
[Ref.: #16124]	Country ISO 3 Code	CHN
[Ref.: #16124]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Sulfate-reducing bioreactor with a citrate-containing waste stream
* marker position based on {}

Isolation sources categories

#Engineered	#Bioreactor	-
#Engineered	#Waste	#Wastewater
#Environmental	#Terrestrial	#Mud (Sludge)
#Condition	#Anoxic (anaerobic)	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence FJ374769 (>99% sequence identity) for Trichococcus from Microbeatlas

Aquatic Samples	19650
Soil Samples	4890
Animal Samples	13208
Plant Samples	929
Total Samples	38677

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

[Ref.: #16124]

Biosafety level

Risk group (German classification)
According to TRBA 466

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.: #16124]	Trichococcus ilyis strain R210 16S ribosomal RNA gene, partial sequence	FJ374769	1475	ENA	640938 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Trichococcus ilyis R210	GCA_900067235	scaffold	GenBank	640938 tax ID
[Ref.: #66792]	Trichococcus ilyis DSM 22150	GCA_900109135	scaffold	GenBank	640938 tax ID	*
[Ref.: #66792]	Trichococcus sp. DSM 22150	1855308.3	wgs	PATRIC	640938 tax ID	*
[Ref.: #66792]	Trichococcus ilyis R210	2791354989	draft	JGI IMG/M	640938 tax ID	*
[Ref.: #66792]	Trichococcus ilyis DSM 22150	2619618824	draft	JGI IMG/M	640938 tax ID	*

[Ref.: #24925]	GC-content	47.9 mol%
[Ref.: #16124]	GC-content	47.9 mol%	sequence analysis
[Ref.: #67770]	GC-content	47.9 mol%	genome sequence analysis

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Trichococcus ilyis DSM 22150 NCBI: GCA_900109135.1
[Ref.: #69481]	spore-forming	no	79	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Trichococcus ilyis DSM 22150 NCBI: GCA_900109135.1
[Ref.: #69480]	glucose-ferment	yes	71.709	no
[Ref.: #69480]	motile	no	92.82	no
[Ref.: #69480]	flagellated	no	94.469	no
[Ref.: #69480]	gram-positive	yes	90.504	no
[Ref.: #69480]	anaerobic	no	68.316	yes
[Ref.: #69480]	aerobic	no	93.186	yes
[Ref.: #69480]	halophile	yes	61.95	no
[Ref.: #69480]	spore-forming	no	92.166	no
[Ref.: #69480]	thermophile	no	99.517	yes
[Ref.: #69480]	glucose-util	yes	88.945	yes

Availability in culture collections External links

[Ref.: #16124]

Culture collection no.

DSM 22150, JCM 31247

[Ref.: #71843]

SI-ID 407774

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Description of Trichococcus ilyis sp. nov. by combined physiological and in silico genome hybridization analyses.	Strepis N, Sanchez-Andrea I, van Gelder AH, van Kruistum H, Shapiro N, Kyrpides N, Goker M, Klenk HP, Schaap P, Stams AJM, Sousa DZ	Int J Syst Evol Microbiol	10.1099/ijsem.0.001294	2016	*

References

#16124

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 22150

#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 )

#24925

N. S.-A. Strepis, Irene,van Gelder, Antonie H.,van Kruistum, Henri,Shapiro, Nicole,Kyrpides, Nikos,Göker, Markus,Klenk, Hans-Peter,Schaap, Peter,Stams, Alfons J. M.,Sousa, Diana Z.: Description of Trichococcus ilyis sp. nov. by combined physiological and in silico genome hybridization analyses. IJSEM 66: 3957 - 3963 2016 ( DOI 10.1099/ijsem.0.001294 , PubMed 27406836 )

#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) .

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#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 )

#71843

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-ID407774.1 )

* These data were automatically processed and therefore are not curated

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Trichococcus ilyis DSM 22150

Trichococcus ilyis DSM 22150

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