Paracoccus aestuariivivens (KCTC 52214, NBRC 111993, GHD-30)

Name: Paracoccus aestuariivivens (KCTC 52214, NBRC 111993, GHD-30)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 140807

Type strain

Strain Designation GHD-30

Culture col. no. KCTC 52214 NBRC 111993 GHD-30

NCBI tax ID(s) 1820333

Special Collections KCTC Literature strains

Links

Paracoccus aestuariivivens GHD-30 is a Gram-negative, pleomorphic-shaped bacterium that forms circular colonies and was isolated from a tidal flat at Gangwha Island on the Yellow Sea.

Gram-negative pleomorphic-shaped colony-forming genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 26600

KCTC 52214,NBRC 111993

@ref 20215

Last LPSN update 2026-02-09 11:33:43

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Rhodobacterales

Family Paracoccaceae

Genus Paracoccus

Species Paracoccus aestuariivivens

Full scientific name Paracoccus aestuariivivens Park et al. 2016

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
43591	negative	0.4-1.5 µm	0.4-0.7 µm	pleomorphic-shaped
125438	negative				97.5
125439	negative				98.6

Colony morphology

@ref	Colony size	Colony color	Colony shape	Incubation period	Medium used
43591	1-2 mm	Yellowish white	circular	3 days	MA agar

Culture and growth conditions

Culture medium

@ref	Name	Growth
43591	Marine agar (MA)

Culture temp

@ref	Growth	Type	Temperature (°C)
43591	positive	growth	15-45
43591	negative	growth	10
43591	negative	growth	50
43591	positive	optimum	30

Culture pH

@ref	Ability	Type	PH
43591	positive	optimum	6.5-7.5
43591	positive	growth	5
43591		growth	4.5

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	aerobe	95.2

Spore formation

@ref	Spore formation	Confidence
43591
125438		91.866
125439		97.9

Halophily

@ref	Salt	Growth	Tested relation	Concentration
43591	NaCl	positive	growth	0-8 %(w/v)
43591	NaCl	positive	optimum	2 %(w/v)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
43591	30089 ChEBI	acetate	+	carbon source
43591	30089 ChEBI	acetate	+	energy source
43591	16150 ChEBI	benzoate	-	carbon source
43591	16150 ChEBI	benzoate	-	energy source
43591		casein	+	hydrolysis
43591	17057 ChEBI	cellobiose	+	carbon source
43591	17057 ChEBI	cellobiose	+	energy source
43591	16947 ChEBI	citrate	+	carbon source
43591	16947 ChEBI	citrate	+	energy source
43591	15824 ChEBI	D-fructose	+	carbon source
43591	15824 ChEBI	D-fructose	+	energy source
43591	12936 ChEBI	D-galactose	+	carbon source
43591	12936 ChEBI	D-galactose	+	energy source
43591	17634 ChEBI	D-glucose	+	carbon source
43591	17634 ChEBI	D-glucose	+	energy source
43591	16024 ChEBI	D-mannose	+	carbon source
43591	16024 ChEBI	D-mannose	+	energy source
43591	16551 ChEBI	D-trehalose	+	carbon source
43591	16551 ChEBI	D-trehalose	+	energy source
43591	65327 ChEBI	D-xylose	+	carbon source
43591	65327 ChEBI	D-xylose	+	energy source
43591	4853 ChEBI	esculin	+	hydrolysis
43591	15740 ChEBI	formate	-	carbon source
43591	15740 ChEBI	formate	-	energy source
43591	5291 ChEBI	gelatin	-	hydrolysis
43591	17368 ChEBI	hypoxanthine	+	hydrolysis
43591	30849 ChEBI	L-arabinose	+	carbon source
43591	30849 ChEBI	L-arabinose	+	energy source
43591	29985 ChEBI	L-glutamate	-	carbon source
43591	29985 ChEBI	L-glutamate	-	energy source
43591	15589 ChEBI	L-malate	+	carbon source
43591	15589 ChEBI	L-malate	+	energy source
43591	17895 ChEBI	L-tyrosine	+	hydrolysis
43591	17306 ChEBI	maltose	-	carbon source
43591	17306 ChEBI	maltose	-	energy source
43591	17632 ChEBI	nitrate	+	reduction
43591	15361 ChEBI	pyruvate	+	carbon source
43591	15361 ChEBI	pyruvate	+	energy source
43591	17814 ChEBI	salicin	-	carbon source
43591	17814 ChEBI	salicin	-	energy source
43591	28017 ChEBI	starch	-	hydrolysis
43591	30031 ChEBI	succinate	+	carbon source
43591	30031 ChEBI	succinate	+	energy source
43591	17992 ChEBI	sucrose	+	carbon source
43591	17992 ChEBI	sucrose	+	energy source
43591	53426 ChEBI	tween 80	-	hydrolysis
43591	16199 ChEBI	urea	+	hydrolysis
43591	15318 ChEBI	xanthine	+	hydrolysis

Antibiotic resistance

@ref	ChEBI	Metabolite	Sensitivity conc.	Resistance conc.
43591	28971	ampicillin	10 µg (disc)
43591	3393	carbenicillin	100 µg (disc)
43591	3542	cephalothin	30 µg (disc)
43591	17698	chloramphenicol	100 µg (disc)
43591	17833	gentamicin	30 µg (disc)
43591	6104	kanamycin	30 µg (disc)
43591	6472	lincomycin		15 µg (disc)
43591	7507	neomycin	30 µg (disc)
43591	28368	novobiocin	5 µg (disc)
43591	16869	oleandomycin	15 µg (disc)
43591	18208	penicillin g	20 Unit (disc)
43591	8309	polymyxin b	100 Unit (disc)
43591	17076	streptomycin	50 µg (disc)
43591	27902	tetracycline	30 µg (disc)

Enzymes

@ref	Value	Activity	Ec
43591	acid phosphatase	+	3.1.3.2
43591	alkaline phosphatase	+	3.1.3.1
43591	alpha-chymotrypsin	-	3.4.21.1
43591	alpha-fucosidase	-	3.2.1.51
43591	alpha-galactosidase	-	3.2.1.22
43591	alpha-glucosidase	+	3.2.1.20
43591	alpha-mannosidase	-	3.2.1.24
43591	beta-galactosidase	-	3.2.1.23
43591	beta-glucosidase	-	3.2.1.21
43591	beta-glucuronidase	-	3.2.1.31
43591	catalase	+	1.11.1.6
43591	cystine arylamidase	+	3.4.11.3
43591	cytochrome oxidase	+	1.9.3.1
43591	esterase (C 4)	+
43591	esterase Lipase (C 8)	+
43591	leucine arylamidase	+	3.4.11.1
43591	lipase (C 14)	-
43591	N-acetyl-beta-glucosaminidase	+	3.2.1.52
43591	naphthol-AS-BI-phosphohydrolase	+
43591	trypsin	-	3.4.21.4
43591	valine arylamidase	+

Fatty acid profile

Metadata FA analysis

@ref

43591

Fatty acid	Percentage	ECL
C18:1ω6c / C18:1ω7c	33.5
C16:0	26
C16:1ω6c / C16:1ω7c	19.8
C12:0	5.8
C14:0	5.5
C12:0aldehyde / unknown ECL 10.928	4.8	10928
C18:0	1.1

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Marine
#Environmental	#Terrestrial	#Tidal flat

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
43591	a tidal flat at Gangwha Island on the Yellow Sea	Gangwha Island	Republic of Korea	KOR	Asia

Taxonmaps

69479

Global distribution of 16S sequence KU696538 (>99% sequence identity) for Paracoccus from Microbeatlas

Aquatic Samples	49
Soil Samples	19
Animal Samples	103
Plant Samples	2
Total Samples	173

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM971122v1 assembly for Paracoccus aestuariivivens NBRC 111993	contig	GCA_009711225	1820333.3	2989540798	1820333	61.96

16S sequences

@ref	Description	Accession	Database
43591	Paracoccus aestuariivivens strain GHD-30 16S ribosomal RNA gene, partial sequence	KU696538

GC content

@ref	GC-content (mol%)	Method
43591	62	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Paracoccus aestuariivivens NBRC 111993
NCBI: GCA_009711225

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	97.90	no
125439	motility	BacteriaNetⓘ	yes	66.50	no
125439	gram_stain	BacteriaNetⓘ	negative	98.60	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	95.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Paracoccus aestuariivivens strain NBRC 111993
PATRIC: 1820333.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.50	yes
125438	anaerobic	anaerobicⓘ	no	96.80	no
125438	spore-forming	spore-formingⓘ	no	91.87	no
125438	aerobic	aerobicⓘ	yes	85.56	no
125438	thermophilic	thermophileⓘ	no	98.10	yes
125438	flagellated	motile2+ⓘ	no	52.49	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Polyphasic taxonomic analysis of Paracoccus ravus sp. nov., an alphaproteobacterium isolated from marine sediment.	Yoon J, Maharjan S, Choi H	FEMS Microbiol Lett	10.1093/femsle/fnz184	2019
Phylogeny	Paracoccus sordidisoli sp. nov., isolated from an agricultural field contaminated with hexachlorocyclohexane isomers.	Singh AK, Kohli P, Mahato NK, Lal R	Int J Syst Evol Microbiol	10.1099/ijsem.0.002289	2017
Phylogeny	Paracoccus aestuariivivens sp. nov., isolated from a tidal flat.	Park S, Yoon SY, Jung YT, Won SM, Park DS, Yoon JH	Int J Syst Evol Microbiol	10.1099/ijsem.0.001133	2016

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 )
#43591	Sooyeon Park, Sun Young Yoon, Yong-Taek Jung, Sung-Min Won, Doo-Sang Park, Jung-Hoon Yoon: Paracoccus aestuariivivens sp. nov., isolated from a tidal flat. IJSEM 66: 2992 - 2998 2016 ( DOI 10.1099/ijsem.0.001133 , PubMed 27150589 )
#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) .
#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 .
#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 )

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Paracoccus aestuariivivens (KCTC 52214, NBRC 111993, GHD-30)

Name and taxonomic classification