Name: Zongyanglinia marina DSW4-44
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 164616

Type strain:

Species: Zongyanglinia marina

Strain Designation: DSW4-44

Culture col. no.: JCM 33637, KCCM 43261, KCTC 62762

Strain history: D.-H. Roh; Dept. of Microbiol., Chungbuk Natl. Univ., South Korea; DSW4-44.

NCBI tax ID(s): 2578117 (species)

Section

Zongyanglinia marina DSW4-44 is an aerobe, psychrophilic, Gram-negative bacterium that forms circular colonies and was isolated from 200-500 m deep seawater .

colony-forming
Gram-negative
rod-shaped
aerobe
psychrophilic
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	*Zongyanglinia*
	Species	**Zongyanglinia marina**
	Full Scientific Name (LPSN)	Zongyanglinia marina corrig. (Choi et al. 2019) Xu et al. 2021

	Synonym	Zongyanglinia marinus
	Synonym	Pelagicola marinus

Information on morphological and physiological properties Morphology

[Ref.: #68249]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.999

[Ref.: #68249]	Cell length	1.5-6.0 µm

[Ref.: #68249]	Cell width	0.3-0.5 µm

[Ref.: #68249]	Cell shape	rod-shaped

[Ref.: #68249]	Motility	no

[Ref.: #68249]	Colony size	0.5-1 mm
[Ref.: #68249]	Colony color	creamy
[Ref.: #68249]	Colony shape	circular
[Ref.: #68249]	Incubation period	7 days
[Ref.: #68249]	Cultivation medium used	Marine agar (MA)

Information on culture and growth conditions Culture and growth conditions

		Temperature
[Ref.: #67770]	growth	20 °C
[Ref.: #68249]	growth	10-30 °C
[Ref.: #68249]	optimum	25 °C

[Ref.: #67770]	Temperature range	psychrophilic
[Ref.: #68249]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #68249]			optimum	7.5
[Ref.: #68249]			growth	6.5-8.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #68249]

Oxygen tolerance

aerobe

[Ref.: #69480]	Ability of spore formation	no Confidence in %99.998
[Ref.: #69481]	Ability of spore formation	no Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #68249]		NaCl		growth	1-6	%(w/v)
[Ref.: #68249]		NaCl		optimum	3-4	%(w/v)

[Ref.: #67770]

Observation

quinones: Q-10

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68249]	2-dehydro-D-gluconate ChEBI	+	assimilation
[Ref.: #68249]	3-hydroxybenzoate ChEBI	-	assimilation
[Ref.: #68249]	3-hydroxybutyrate ChEBI	+	assimilation
[Ref.: #68249]	4-hydroxybenzoate ChEBI	-	assimilation
[Ref.: #68249]	5-dehydro-D-gluconate ChEBI	-	assimilation
[Ref.: #68249]	acetate ChEBI	+	assimilation
[Ref.: #68249]	adipate ChEBI	-	assimilation
[Ref.: #68249]	agar ChEBI	-	hydrolysis
[Ref.: #68249]	cellobiose ChEBI	-	assimilation
[Ref.: #68249]	citrate ChEBI	-	assimilation
[Ref.: #68249]	D-arabinose ChEBI	-	assimilation
[Ref.: #68249]	D-fructose ChEBI	+	assimilation
[Ref.: #68249]	D-glucose ChEBI	-	fermentation
[Ref.: #68249]	D-glucose ChEBI	-	assimilation
[Ref.: #68249]	D-ribose ChEBI	-	assimilation
[Ref.: #68249]	D-sorbitol ChEBI	-	assimilation
[Ref.: #68249]	D-trehalose ChEBI	+	assimilation
[Ref.: #68249]	esculin ChEBI	+	hydrolysis
[Ref.: #68249]	glycerol ChEBI	-	assimilation
[Ref.: #68249]	glycogen ChEBI	-	assimilation
[Ref.: #68249]	hexanoate ChEBI	-	assimilation
[Ref.: #68249]	itaconate ChEBI	-	assimilation
[Ref.: #68249]	L-alanine ChEBI	-	assimilation
[Ref.: #68249]	L-arabinose ChEBI	-	assimilation
[Ref.: #68249]	L-fucose ChEBI	-	assimilation
[Ref.: #68249]	L-glutamate ChEBI	-	assimilation
[Ref.: #68249]	L-histidine ChEBI	+	assimilation
[Ref.: #68249]	L-lysine ChEBI	+	assimilation
[Ref.: #68249]	L-proline ChEBI	-	assimilation
[Ref.: #68249]	L-rhamnose ChEBI	-	assimilation
[Ref.: #68249]	L-serine ChEBI	-	assimilation
[Ref.: #68249]	lactate ChEBI	-	assimilation
[Ref.: #68249]	malate ChEBI	-	assimilation
[Ref.: #68249]	malonate ChEBI	-	assimilation
[Ref.: #68249]	maltose ChEBI	-	assimilation
[Ref.: #68249]	mannitol ChEBI	-	assimilation
[Ref.: #68249]	mannose ChEBI	-	assimilation
[Ref.: #68249]	melibiose ChEBI	-	assimilation
[Ref.: #68249]	myo-inositol ChEBI	-	assimilation
[Ref.: #68249]	N-acetyl-D-glucosamine ChEBI	-	assimilation
[Ref.: #68249]	nitrate ChEBI	+	reduction
[Ref.: #68249]	phenylacetate ChEBI	-	assimilation
[Ref.: #68249]	potassium gluconate ChEBI	-	assimilation
[Ref.: #68249]	propionate ChEBI	-	assimilation
[Ref.: #68249]	pyruvate ChEBI	+	assimilation
[Ref.: #68249]	salicin ChEBI	-	assimilation
[Ref.: #68249]	serine ChEBI	-	assimilation
[Ref.: #68249]	skimmed milk	-	hydrolysis
[Ref.: #68249]	starch ChEBI	-	hydrolysis
[Ref.: #68249]	suberate ChEBI	-	assimilation
[Ref.: #68249]	succinate ChEBI	+	assimilation
[Ref.: #68249]	sucrose ChEBI	-	assimilation
[Ref.: #68249]	tween 80 ChEBI	-	hydrolysis
[Ref.: #68249]	valerate ChEBI	-	assimilation
[Ref.: #68249]	xylan ChEBI	-	hydrolysis
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #68249]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #68249]	acid phosphatase	+	3.1.3.2
[Ref.: #68249]	alkaline phosphatase	+	3.1.3.1
[Ref.: #68249]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #68249]	alpha-fucosidase	-	3.2.1.51
[Ref.: #68249]	alpha-galactosidase	-	3.2.1.22
[Ref.: #68249]	alpha-glucosidase	-	3.2.1.20
[Ref.: #68249]	alpha-mannosidase	-	3.2.1.24
[Ref.: #68249]	arginine dihydrolase	-	3.5.3.6
[Ref.: #68249]	beta-galactosidase	+	3.2.1.23
[Ref.: #68249]	beta-galactosidase	-	3.2.1.23
[Ref.: #68249]	beta-glucosidase	-	3.2.1.21
[Ref.: #68249]	beta-glucuronidase	-	3.2.1.31
[Ref.: #68249]	catalase	+	1.11.1.6
[Ref.: #68249]	cystine arylamidase	-	3.4.11.3
[Ref.: #68249]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68249]	esterase (C 4)	+/-
[Ref.: #68249]	esterase Lipase (C 8)	+/-
[Ref.: #68249]	gelatinase	-
[Ref.: #68249]	leucine arylamidase	+	3.4.11.1
[Ref.: #68249]	lipase (C 14)	-
[Ref.: #68249]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #68249]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #68249]	trypsin	-	3.4.21.4
[Ref.: #68249]	urease	-	3.5.1.5
[Ref.: #68249]	valine arylamidase	-
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #68249]

Fatty acid	Percentage
C18:1 w7c/C18:1 w6c	83
C10:0 3OH	4.6
C18:0	4
C16:0 2OH	3.5
C16:0	2.6
C18:1 2OH	1.3
C14:0 3OH/iso-C16:1 I	0.5
C14:0 3OH	0.5
C12:0	0.3
C14:1 w5c	0.2

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

[Ref.: #67770]	Sample type/isolated from	200-500 m deep seawater (38° 21' 25" N, 128° 35' 30" E)
[Ref.: #67770]	Geographic location	38.3569°/128.5920°

[Ref.: #68249]	Sample type/isolated from	200-500 m deep seawater
[Ref.: #68249]	Geographic location	38.3569°/128.5920°
[Ref.: #68249]	Enrichment culture	marine agar 2216
[Ref.: #68249]	Enrichment culture duration	5-15 days
[Ref.: #68249]	Enrichment culture temperature	25 ̊C
* marker position based on {}

[Ref.: #69479]

Global distribution of 16S sequence MF276634 (>99% sequence identity) for Pelagicola marinus from Microbeatlas

Aquatic Samples	42
Soil Samples	13
Animal Samples	1
Plant Samples
Total Samples	56

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]	Pelagicola sp. strain DSW4-44 16S ribosomal RNA gene, partial sequence	MF276634	1309	ENA	1982516 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Zongyanglinia marina DSW4-44	GCA_005771405	scaffold	GenBank	2578117 tax ID
[Ref.: #66792]	Pelagicola sp. DSW4-44	2578117.3	wgs	PATRIC	2578117 tax ID	*

[Ref.: #68249]	GC-content	54.3 mol%	genome sequence analysis
[Ref.: #67770]	GC-content	52.7 mol%	high performance liquid chromatography (HPLC)

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: Zongyanglinia marina DSW4-44 NCBI: GCA_005771405.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Pelagicola sp. DSW4-44 PATRIC: 2578117.3
[Ref.: #69480]	motile	yes	70.959	yes
[Ref.: #69480]	gram-positive	no	98.777	yes
[Ref.: #69480]	anaerobic	no	98.788	yes
[Ref.: #69480]	aerobic	yes	92.518	yes
[Ref.: #69480]	halophile	yes	73.954	no
[Ref.: #69480]	spore-forming	no	94.141	no
[Ref.: #69480]	glucose-util	yes	67.433	yes
[Ref.: #69480]	flagellated	no	57.824	no
[Ref.: #69480]	thermophile	no	99.068	yes
[Ref.: #69480]	glucose-ferment	no	89.508	no

Availability in culture collections External links

[Ref.: #67770]

Culture collection no.

JCM 33637, KCCM 43261, KCTC 62762

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 )

#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;

#68249

Yoon- Soo Choi, Ji- Sung Oh and Dong- Hyun Roh: Pelagicola marinus sp. nov. isolated from deep-sea water. IJSEM 69: 3961 - 3966 2019 ( DOI 10.1099/ijsem.0.003764 )

#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 )

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Pelagicola marinus in external resources:
SILVA
BRENDA
PANGAEA
StrainInfo
GBIF

Zongyanglinia marina DSW4-44

Pelagicola sp. DSW4-44

Change proposal

Change proposal