Paracoccus tegillarcae (DSM 107723, BM15, KCTC 72032)

Name: Paracoccus tegillarcae (DSM 107723, BM15, KCTC 72032)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 160592

Type strain

Strain Designation BM15

Culture col. no. DSM 107723 BM15 KCTC 72032 JCM 33289 DSM 108927

NCBI tax ID(s) 1529068

Special Collections DSMZ JCM KCTC Literature strains

History <- J. Y. Lee, Dept. Biology, Kyung Hee Univ., Seoul, Republic of Korea; BM15 <- J.-W. Bae; Kyung Hee Univ., South Korea; BM15.

Links

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

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

Name and taxonomic classification

SI-ID 407014

KCTC 72032,JCM 33289,DSM 107723,DSM 108927

@ref 20215

Last LPSN update 2026-02-09 11:38:55

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Rhodobacterales

Family Paracoccaceae

Genus Paracoccus

Species Paracoccus tegillarcae

Full scientific name Paracoccus tegillarcae Lee et al. 2019

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
68004	negative	1.50-1.63 µm	0.78-0.84 µm	rod-shaped
125439	negative				97.7
125438	negative				98

Colony morphology

@ref	Colony color	Colony shape	Medium used
68004	pale yellow	circular	Marine agar (MA)

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
67500	BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)		Medium recipe at MediaDive	Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
67500	positive	growth	25
67770	positive	growth	20
68004	positive	growth	10-30
68004	positive	optimum	20

Culture pH

@ref	Ability	Type	PH	PH range
68004	positive	optimum	6
68004	positive	growth	5.0-9.0	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
68004	aerobe
125439	obligate aerobe	98.5

Spore formation

@ref	Spore formation	Confidence
125439		94.4
125438		93.943

Halophily

@ref	Salt	Growth	Tested relation	Concentration
68004	NaCl	positive	growth	0.0-8.0 %(w/v)
68004	NaCl	positive	optimum	4 %(w/v)

Observation

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

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68004	17128 ChEBI	adipate	+	assimilation
68004	27613 ChEBI	amygdalin	-	builds acid from
68004	18305 ChEBI	arbutin	-	builds acid from
68004		casein	+	hydrolysis
68004	17057 ChEBI	cellobiose	-	builds acid from
68004	17108 ChEBI	D-arabinose	-	builds acid from
68004	18333 ChEBI	D-arabitol	+	builds acid from
68004	15824 ChEBI	D-fructose	+	builds acid from
68004	28847 ChEBI	D-fucose	+	builds acid from
68004	12936 ChEBI	D-galactose	+	builds acid from
68004	17634 ChEBI	D-glucose	+	assimilation
68004	17634 ChEBI	D-glucose	+	builds acid from
68004	62318 ChEBI	D-lyxose	+	builds acid from
68004	16899 ChEBI	D-mannitol	+	assimilation
68004	16899 ChEBI	D-mannitol	+	builds acid from
68004	16024 ChEBI	D-mannose	+	assimilation
68004	16024 ChEBI	D-mannose	+	builds acid from
68004	16988 ChEBI	D-ribose	+	builds acid from
68004	17924 ChEBI	D-sorbitol	-	builds acid from
68004	16443 ChEBI	D-tagatose	-	builds acid from
68004	65327 ChEBI	D-xylose	+	builds acid from
68004	27689 ChEBI	decanoate	-	assimilation
68004	17113 ChEBI	erythritol	-	builds acid from
68004	4853 ChEBI	esculin	+	hydrolysis
68004		esculin ferric citrate	+	builds acid from
68004	16813 ChEBI	galactitol	-	builds acid from
68004	28066 ChEBI	gentiobiose	-	builds acid from
68004	17754 ChEBI	glycerol	-	builds acid from
68004	28087 ChEBI	glycogen	-	builds acid from
68004	15443 ChEBI	inulin	-	builds acid from
68004	30849 ChEBI	L-arabinose	+	assimilation
68004	30849 ChEBI	L-arabinose	+	builds acid from
68004	18287 ChEBI	L-fucose	-	builds acid from
68004	62345 ChEBI	L-rhamnose	-	builds acid from
68004	17266 ChEBI	L-sorbose	-	builds acid from
68004	65328 ChEBI	L-xylose	-	builds acid from
68004	17716 ChEBI	lactose	-	builds acid from
68004	25115 ChEBI	malate	+	assimilation
68004	17306 ChEBI	maltose	+	assimilation
68004	17306 ChEBI	maltose	-	builds acid from
68004	6731 ChEBI	melezitose	-	builds acid from
68004	28053 ChEBI	melibiose	-	builds acid from
68004	320061 ChEBI	methyl alpha-D-glucopyranoside	-	builds acid from
68004	43943 ChEBI	methyl alpha-D-mannoside	-	builds acid from
68004	74863 ChEBI	methyl beta-D-xylopyranoside	-	builds acid from
68004	17268 ChEBI	myo-inositol	-	builds acid from
68004	59640 ChEBI	N-acetylglucosamine	+	assimilation
68004	59640 ChEBI	N-acetylglucosamine	-	builds acid from
68004	17632 ChEBI	nitrate	+	reduction
68004	18401 ChEBI	phenylacetate	+	assimilation
68004		potassium 2-dehydro-D-gluconate	-	builds acid from
68004		potassium 5-dehydro-D-gluconate	+	builds acid from
68004	32032 ChEBI	potassium gluconate	+	assimilation
68004	32032 ChEBI	potassium gluconate	-	builds acid from
68004	16634 ChEBI	raffinose	-	builds acid from
68004	15963 ChEBI	ribitol	-	builds acid from
68004	17814 ChEBI	salicin	-	builds acid from
68004	53258 ChEBI	sodium citrate	-	assimilation
68004	28017 ChEBI	starch	-	hydrolysis
68004	28017 ChEBI	starch	-	builds acid from
68004	17992 ChEBI	sucrose	+	builds acid from
68004	27082 ChEBI	trehalose	-	builds acid from
68004	32528 ChEBI	turanose	+	builds acid from
68004	53424 ChEBI	tween 20	+	hydrolysis
68004	53423 ChEBI	tween 40	-	hydrolysis
68004	53425 ChEBI	tween 60	-	hydrolysis
68004	53426 ChEBI	tween 80	-	hydrolysis
68004	16199 ChEBI	urea	-	hydrolysis
68004	17151 ChEBI	xylitol	-	builds acid from

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68004	16136 ChEBI	hydrogen sulfide
68004	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test
68004	15688 ChEBI	acetoin	-
68004	17234 ChEBI	glucose		-

Enzymes

@ref	Value	Activity	Ec
68004	acid phosphatase	+	3.1.3.2
68004	alkaline phosphatase	+	3.1.3.1
68004	alpha-chymotrypsin	-	3.4.21.1
68004	alpha-fucosidase	-	3.2.1.51
68004	alpha-galactosidase	+	3.2.1.22
68004	alpha-glucosidase	+	3.2.1.20
68004	alpha-mannosidase	-	3.2.1.24
68004	arginine dihydrolase	-	3.5.3.6
68004	beta-galactosidase	-	3.2.1.23
68004	beta-glucosidase	-	3.2.1.21
68004	beta-glucuronidase	-	3.2.1.31
68004	catalase	+	1.11.1.6
68004	cystine arylamidase	-	3.4.11.3
68004	cytochrome oxidase	+	1.9.3.1
68004	DNase	-
68004	esterase (C 4)	+
68004	esterase Lipase (C 8)	+
68004	leucine arylamidase	+	3.4.11.1
68004	lipase (C 14)	-
68004	N-acetyl-beta-glucosaminidase	-	3.2.1.52
68004	naphthol-AS-BI-phosphohydrolase	+
68004	trypsin	-	3.4.21.4
68004	valine arylamidase	+

Fatty acid profile

Metadata FA analysis

@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

Isolation, sampling and environmental information

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent
67500	Gut of blood cockle			Republic of Korea	KOR	Asia
67770	Gastrointestinal tract of a blood cockle, Tegillarca granosa	Tegillarca granosa	foreshore of Beolgyo-eup	Republic of Korea	KOR	Asia
68004	gastrointestinal tract of a blood cockle, Tegillarca granosa, collected from aforeshore		Beolgyoeup	Republic of Korea	KOR	Asia

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
68004	ASM284730v1 assembly for Paracoccus tegillarcae BM15	complete	GCA_002847305	1529068.3	2775506982	1529068	96.44

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
67770	Paracoccus tegillarcae strain BM15 16S ribosomal RNA gene, partial sequence	KJ789958	1387		1529068

GC content

@ref	GC-content (mol%)	Method
67770	62.2	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Paracoccus tegillarcae BM15
NCBI: GCA_002847305

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	94.40	no
125439	motility	BacteriaNetⓘ	yes	62.00	no
125439	gram_stain	BacteriaNetⓘ	negative	97.70	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.50	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Paracoccus tegillarcae BM15
NCBI: GCA_002847305.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.00	yes
125438	anaerobic	anaerobicⓘ	no	94.12	yes
125438	aerobic	aerobicⓘ	yes	82.58	no
125438	spore-forming	spore-formingⓘ	no	93.94	no
125438	thermophilic	thermophileⓘ	no	96.37	yes
125438	flagellated	motile2+ⓘ	no	58.36	no

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 )
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#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 )

Rate our new design

Content

About us

Paracoccus tegillarcae (DSM 107723, BM15, KCTC 72032)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

Fatty acid profile

Isolation, sampling and environmental information

Isolation

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_002847305

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

Help

Social Media