Name: Paracoccus tegillarcae BM15
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 160592

Type strain:

Species: Paracoccus tegillarcae

Strain Designation: BM15

Culture col. no.: DSM 107723, KCTC 72032, JCM 33289

Strain history: J.-W. Bae; Kyung Hee Univ., South Korea; BM15.

NCBI tax ID(s): 1529068 (species)

SI-ID 407014

DSM 107723, DSM 108927

Section

Paracoccus tegillarcae BM15 is an aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from Gut of blood cockle.

colony-forming
Gram-negative
rod-shaped
aerobe
mesophilic
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	*Pseudomonadota*
	Class	*Alphaproteobacteria*
	Order	*Rhodobacterales*
	Family	*Paracoccaceae*
	Genus	*Paracoccus*
	Species	**Paracoccus tegillarcae**
	Full Scientific Name (LPSN)	Paracoccus tegillarcae Lee et al. 2019

Information on morphological and physiological properties Morphology

[Ref.: #68004]	Gram stain	negative

[Ref.: #68004]	Cell length	1.50-1.63 µm

[Ref.: #68004]	Cell width	0.78-0.84 µm

[Ref.: #68004]	Cell shape	rod-shaped

[Ref.: #68004]	Motility	no

[Ref.: #68004]	Colony color	pale yellow
[Ref.: #68004]	Colony shape	circular
[Ref.: #68004]	Cultivation medium used	Marine agar (MA)

Information on culture and growth conditions Culture and growth conditions

[Ref.: #67500]

Culture medium

BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)

[Ref.: #67500]

Culture medium growth

[Ref.: #67500]

Culture medium link

Medium recipe at MediaDive

[Ref.: #67500]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #67500]	growth	25 °C
[Ref.: #67770]	growth	20 °C
[Ref.: #68004]	growth	10-30 °C
[Ref.: #68004]	optimum	20 °C

[Ref.: #67500]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	psychrophilic
[Ref.: #68004]	Temperature range	psychrophilic

	pH	Kind of pH		pH
[Ref.: #68004]			optimum	6
[Ref.: #68004]			growth	5.0-9.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #68004]

Oxygen tolerance

aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #68004]		NaCl		growth	0.0-8.0	%(w/v)
[Ref.: #68004]		NaCl		optimum	4	%(w/v)

[Ref.: #67770]	Observation	quinones: Q-10
[Ref.: #68004]	Observation	The predominant respiratory quinone is ubiquinone 10 (Q-10)
[Ref.: #68004]	Observation	The polar lipids are consisted of phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol, an unidentified glycolipid and two unidentified lipids

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68004]	adipate ChEBI	+	assimilation
[Ref.: #68004]	amygdalin ChEBI	-	builds acid from
[Ref.: #68004]	arbutin ChEBI	-	builds acid from
[Ref.: #68004]	casein	+	hydrolysis
[Ref.: #68004]	cellobiose ChEBI	-	builds acid from
[Ref.: #68004]	D-arabinose ChEBI	-	builds acid from
[Ref.: #68004]	D-arabitol ChEBI	+	builds acid from
[Ref.: #68004]	D-fructose ChEBI	+	builds acid from
[Ref.: #68004]	D-fucose ChEBI	+	builds acid from
[Ref.: #68004]	D-galactose ChEBI	+	builds acid from
[Ref.: #68004]	D-glucose ChEBI	+	assimilation
[Ref.: #68004]	D-glucose ChEBI	+	builds acid from
[Ref.: #68004]	D-lyxose ChEBI	+	builds acid from
[Ref.: #68004]	D-mannitol ChEBI	+	assimilation
[Ref.: #68004]	D-mannitol ChEBI	+	builds acid from
[Ref.: #68004]	D-mannose ChEBI	+	assimilation
[Ref.: #68004]	D-mannose ChEBI	+	builds acid from
[Ref.: #68004]	D-ribose ChEBI	+	builds acid from
[Ref.: #68004]	D-sorbitol ChEBI	-	builds acid from
[Ref.: #68004]	D-tagatose ChEBI	-	builds acid from
[Ref.: #68004]	D-xylose ChEBI	+	builds acid from
[Ref.: #68004]	decanoate ChEBI	-	assimilation
[Ref.: #68004]	erythritol ChEBI	-	builds acid from
[Ref.: #68004]	esculin ChEBI	+	hydrolysis
[Ref.: #68004]	esculin ferric citrate	+	builds acid from
[Ref.: #68004]	galactitol ChEBI	-	builds acid from
[Ref.: #68004]	gentiobiose ChEBI	-	builds acid from
[Ref.: #68004]	glycerol ChEBI	-	builds acid from
[Ref.: #68004]	glycogen ChEBI	-	builds acid from
[Ref.: #68004]	inulin ChEBI	-	builds acid from
[Ref.: #68004]	L-arabinose ChEBI	+	assimilation
[Ref.: #68004]	L-arabinose ChEBI	+	builds acid from
[Ref.: #68004]	L-fucose ChEBI	-	builds acid from
[Ref.: #68004]	L-rhamnose ChEBI	-	builds acid from
[Ref.: #68004]	L-sorbose ChEBI	-	builds acid from
[Ref.: #68004]	L-xylose ChEBI	-	builds acid from
[Ref.: #68004]	lactose ChEBI	-	builds acid from
[Ref.: #68004]	malate ChEBI	+	assimilation
[Ref.: #68004]	maltose ChEBI	+	assimilation
[Ref.: #68004]	maltose ChEBI	-	builds acid from
[Ref.: #68004]	melezitose ChEBI	-	builds acid from
[Ref.: #68004]	melibiose ChEBI	-	builds acid from
[Ref.: #68004]	methyl alpha-D-glucopyranoside ChEBI	-	builds acid from
[Ref.: #68004]	methyl alpha-D-mannoside ChEBI	-	builds acid from
[Ref.: #68004]	methyl beta-D-xylopyranoside ChEBI	-	builds acid from
[Ref.: #68004]	myo-inositol ChEBI	-	builds acid from
[Ref.: #68004]	N-acetylglucosamine ChEBI	+	assimilation
[Ref.: #68004]	N-acetylglucosamine ChEBI	-	builds acid from
[Ref.: #68004]	nitrate ChEBI	+	reduction
[Ref.: #68004]	phenylacetate ChEBI	+	assimilation
[Ref.: #68004]	potassium 2-dehydro-D-gluconate	-	builds acid from
[Ref.: #68004]	potassium 5-dehydro-D-gluconate	+	builds acid from
[Ref.: #68004]	potassium gluconate ChEBI	+	assimilation
[Ref.: #68004]	potassium gluconate ChEBI	-	builds acid from
[Ref.: #68004]	raffinose ChEBI	-	builds acid from
[Ref.: #68004]	ribitol ChEBI	-	builds acid from
[Ref.: #68004]	salicin ChEBI	-	builds acid from
[Ref.: #68004]	sodium citrate ChEBI	-	assimilation
[Ref.: #68004]	starch ChEBI	-	hydrolysis
[Ref.: #68004]	starch ChEBI	-	builds acid from
[Ref.: #68004]	sucrose ChEBI	+	builds acid from
[Ref.: #68004]	trehalose ChEBI	-	builds acid from
[Ref.: #68004]	turanose ChEBI	+	builds acid from
[Ref.: #68004]	tween 20 ChEBI	+	hydrolysis
[Ref.: #68004]	tween 40 ChEBI	-	hydrolysis
[Ref.: #68004]	tween 60 ChEBI	-	hydrolysis
[Ref.: #68004]	tween 80 ChEBI	-	hydrolysis
[Ref.: #68004]	urea ChEBI	-	hydrolysis
[Ref.: #68004]	xylitol ChEBI	-	builds acid from
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #68004]		hydrogen sulfide ChEBI	no
[Ref.: #68004]		indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test	Methylred-test
[Ref.: #68004]		acetoin ChEBI	-
[Ref.: #68004]		glucose ChEBI		-

	Enzyme	Enzyme activity	EC number
[Ref.: #68004]	acid phosphatase	+	3.1.3.2
[Ref.: #68004]	alkaline phosphatase	+	3.1.3.1
[Ref.: #68004]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #68004]	alpha-fucosidase	-	3.2.1.51
[Ref.: #68004]	alpha-galactosidase	+	3.2.1.22
[Ref.: #68004]	alpha-glucosidase	+	3.2.1.20
[Ref.: #68004]	alpha-mannosidase	-	3.2.1.24
[Ref.: #68004]	arginine dihydrolase	-	3.5.3.6
[Ref.: #68004]	beta-galactosidase	-	3.2.1.23
[Ref.: #68004]	beta-glucosidase	-	3.2.1.21
[Ref.: #68004]	beta-glucuronidase	-	3.2.1.31
[Ref.: #68004]	catalase	+	1.11.1.6
[Ref.: #68004]	cystine arylamidase	-	3.4.11.3
[Ref.: #68004]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68004]	DNase	-
[Ref.: #68004]	esterase (C 4)	+
[Ref.: #68004]	esterase Lipase (C 8)	+
[Ref.: #68004]	leucine arylamidase	+	3.4.11.1
[Ref.: #68004]	lipase (C 14)	-
[Ref.: #68004]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #68004]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #68004]	trypsin	-	3.4.21.4
[Ref.: #68004]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #68004]

Fatty acid	Percentage
C18:1 w7c / C18:1 w6c	89
C18:0	4.1
C10:0 3OH	2.5
C18:1 w9c	0.7
C18:0 iso	0.7
C16:1 w7c / C16:1 w6c	0.7
C16:0	0.5

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

[Ref.: #67500]	Sample type/isolated from	Gut of blood cockle
[Ref.: #67500]	Country	Republic of Korea
[Ref.: #67500]	Country ISO 3 Code	KOR
[Ref.: #67500]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Gastrointestinal tract of a blood cockle, Tegillarca granosa
[Ref.: #67770]	Host species	Tegillarca granosa
[Ref.: #67770]	Geographic location (country and/or sea, region)	foreshore of Beolgyo-eup
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia

[Ref.: #68004]	Sample type/isolated from	gastrointestinal tract of a blood cockle, Tegillarca granosa, collected from aforeshore
[Ref.: #68004]	Geographic location (country and/or sea, region)	Beolgyoeup
[Ref.: #68004]	Country	Republic of Korea
[Ref.: #68004]	Country ISO 3 Code	KOR
[Ref.: #68004]	Continent	Asia
* marker position based on {}

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.: #67770]	Paracoccus sp. BM15 16S ribosomal RNA gene, partial sequence	KJ789958	1387	ENA	1529068 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #68004]	Paracoccus tegillarcae BM15	GCA_002847305	complete	GenBank	1529068 tax ID

[Ref.: #67770]

GC-content

62.2 mol%

genome sequence analysis

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Paracoccus tegillarcae BM15 NCBI: GCA_002847305.1
[Ref.: #69480]	flagellated	no	87.716	yes
[Ref.: #69480]	gram-positive	no	98.013	yes
[Ref.: #69480]	anaerobic	no	98.579	yes
[Ref.: #69480]	aerobic	yes	92.716	no
[Ref.: #69480]	halophile	yes	54.435	no
[Ref.: #69480]	spore-forming	no	96.486	no
[Ref.: #69480]	thermophile	no	93.918	yes
[Ref.: #69480]	glucose-util	yes	88.012	yes
[Ref.: #69480]	motile	no	70.56	no
[Ref.: #69480]	glucose-ferment	no	89.522	no

Availability in culture collections External links

[Ref.: #67500]

Culture collection no.

DSM 107723, KCTC 72032, JCM 33289

[Ref.: #112831]

SI-ID 407014

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Paracoccus tegillarcae sp. nov., isolated from the gastrointestinal tract of a blood cockle (Tegillarca granosa).	Lee JY, Hyun DW, Yun JH, Jung MJ, Shin NR, Bae JW	Int J Syst Evol Microbiol	10.1099/ijsem.0.003561	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 )

#67500

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 107723

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

#68004

June-Young Lee, Dong-Wook Hyun, Ji-Hyun Yun, Mi-Ja Jung, Na-Ri Shin, Jin-Woo Bae: Paracoccus tegillarcae sp. nov., isolated from the gastrointestinal tract of a blood cockle (Tegillarca granosa). IJSEM 69: 2815 - 2822 2019 ( DOI 10.1099/ijsem.0.003561 )

#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) .

#112831

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-ID407014.1 )

* These data were automatically processed and therefore are not curated

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