Name: Marinicella sediminis F2
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 159708

Type strain:

Species: Marinicella sediminis

Strain Designation: F2

Culture col. no.: KCTC 42953, MCCC 1H00149

Strain history: <- Zongjun Du, Shandong Univ., China

NCBI tax ID(s): 1792834 (species)

Special Collections

Section

Marinicella sediminis F2 is an aerobe, heterotroph, Gram-negative bacterium that forms circular colonies and was isolated from marine sediment sample.

colony-forming
Gram-negative
rod-shaped
aerobe
heterotroph
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	*Gammaproteobacteria*
	Order	*Lysobacterales*
	Family	"Marinicellaceae"
	Genus	*Marinicella*
	Species	**Marinicella sediminis**
	Full Scientific Name (LPSN)	Marinicella sediminis Wang et al. 2018

Information on morphological and physiological properties Morphology

[Ref.: #66592]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %97.5

[Ref.: #66592]	Cell length	3-4 µm

[Ref.: #66592]	Cell width	0.4-0.6 µm

[Ref.: #66592]	Cell shape	rod-shaped

[Ref.: #66592]	Motility	no

[Ref.: #66592]	Colony size	1 mm
[Ref.: #66592]	Colony color	pale yellow
[Ref.: #66592]	Colony shape	circular
[Ref.: #66592]	Incubation period	2 days
[Ref.: #66592]	Cultivation medium used	Marine agar (MA) 2216

Information on culture and growth conditions Culture and growth conditions

[Ref.: #66592]

Culture medium

Marine agar (MA) 2216

[Ref.: #66592]

Culture medium growth

	Kind of temperature		Temperature
[Ref.: #66592]		optimum	33 °C
[Ref.: #66592]	no	growth	<10 °C
[Ref.: #66592]	no	growth	>37 °C
[Ref.: #66592]		growth	10-37 °C
[Ref.: #67771]		growth	33 °C

	pH	Kind of pH		pH
[Ref.: #66592]			optimum	7.5-8
[Ref.: #66592]			growth	6.5-9

Information on physiology and metabolism Physiology and metabolism

[Ref.: #66592]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #66592]

Nutrition type

heterotroph

[Ref.: #66592]	Ability of spore formation	no
[Ref.: #69480]	Ability of spore formation	no Confidence in %92.5
[Ref.: #69481]	Ability of spore formation	no Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #66592]		NaCl		growth	1-8	%(w/v)
[Ref.: #66592]		NaCl		optimum	3-4	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #66592]	citric acid ChEBI	-	assimilation
[Ref.: #66592]	D-fructose ChEBI	+	carbon source
[Ref.: #66592]	D-fructose ChEBI	+	energy source
[Ref.: #66592]	D-fructose ChEBI	+	oxidation
[Ref.: #66592]	D-galactose ChEBI	+	carbon source
[Ref.: #66592]	D-galactose ChEBI	+	energy source
[Ref.: #66592]	D-galactose ChEBI	+	oxidation
[Ref.: #66592]	D-lyxose ChEBI	+	builds acid from
[Ref.: #66592]	D-mannose ChEBI	+	carbon source
[Ref.: #66592]	D-mannose ChEBI	+	energy source
[Ref.: #66592]	D-ribose ChEBI	+	builds acid from
[Ref.: #66592]	D-tagatose ChEBI	+	builds acid from
[Ref.: #66592]	gelatin ChEBI	+	hydrolysis
[Ref.: #66592]	glucuronamide ChEBI	+	oxidation
[Ref.: #66592]	L-rhamnose ChEBI	+	oxidation
[Ref.: #66592]	lactose ChEBI	+	carbon source
[Ref.: #66592]	lactose ChEBI	+	energy source
[Ref.: #66592]	potassium 5-dehydro-D-gluconate	+	builds acid from
[Ref.: #66592]	stachyose ChEBI	+	oxidation
[Ref.: #66592]	turanose ChEBI	+	oxidation
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #66592]	acetoin ChEBI	no
[Ref.: #66592]	hydrogen sulfide ChEBI	no
[Ref.: #66592]	indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test
[Ref.: #66592]		acetoin ChEBI	-

	Enzyme	Enzyme activity	EC number
[Ref.: #66592]	acid phosphatase	+	3.1.3.2
[Ref.: #66592]	alkaline phosphatase	+	3.1.3.1
[Ref.: #66592]	arginine dihydrolase	-	3.5.3.6
[Ref.: #66592]	beta-galactosidase	-	3.2.1.23
[Ref.: #66592]	esterase (C 4)	+
[Ref.: #66592]	esterase Lipase (C 8)	+
[Ref.: #66592]	leucine arylamidase	+	3.4.11.1
[Ref.: #66592]	lysine decarboxylase	-	4.1.1.18
[Ref.: #66592]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #66592]	trypsin	+	3.4.21.4
[Ref.: #66592]	tryptophan deaminase	-	4.1.99.1
[Ref.: #66592]	urease	-	3.5.1.5
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #66592]

Fatty acid	Percentage
C15:0 iso	46.6
C11:0 iso 3OH	6.7
C16:1 w7c and/or iso-C15:0 2OH	6.6
C13:0 iso	6
C11:0 iso	5.9
C17:0 iso	5.2
C16:0	5
C15:1 iso H and/or C13:0 3OH	4.8
C17:1 iso w9c	4.7
C15:0 anteiso	2.1

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

[Ref.: #66592]	Sample type/isolated from	marine sediment sample
[Ref.: #66592]	Sampling date	2015-03
[Ref.: #66592]	Geographic location (country and/or sea, region)	Weihai coast, Shandong Province
[Ref.: #66592]	Country	China
[Ref.: #66592]	Country ISO 3 Code	CHN
[Ref.: #66592]	Continent	Asia
[Ref.: #66592]	Geographic location	36.9090°/122.2550°
[Ref.: #66592]	Enrichment culture	marine agar 2216
[Ref.: #66592]	Enrichment culture duration	5 days
[Ref.: #66592]	Enrichment culture temperature	28 ̊C
[Ref.: #66592]	Isolation/enrichment procedure	The sediment sample was serially diluted to 10-4 with sterile seawater and 0.1 ml aliquots of each dilution were spread onto marine agar 2216. The isolate was grown aerobically at 28°C on MA for 5 days.

[Ref.: #67771]	Sample type/isolated from	From marine sediment
[Ref.: #67771]	Geographic location (country and/or sea, region)	Weihai
[Ref.: #67771]	Country	China
[Ref.: #67771]	Country ISO 3 Code	CHN
[Ref.: #67771]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KU647740 (>99% sequence identity) for Marinicella sediminis subclade from Microbeatlas

Aquatic Samples	1016
Soil Samples	35
Animal Samples	21
Plant Samples	26
Total Samples	1098

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.: #66592]	Marinicella sediminis strain F2 16S ribosomal RNA gene, partial sequence	KU647740	1469	GenBank ENA	1792834 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Marinicella sediminis F2	GCA_002000055	scaffold	GenBank ENA	1792834 tax ID	*

[Ref.: #66592]	GC-content	48.1 mol%	genome sequence analysis
[Ref.: #66592]	GC-content	48.7 mol%	high performance liquid chromatography (HPLC)

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Marinicella sediminis F2 NCBI: GCA_002000055.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Marinicella sediminis F2 NCBI: GCA_002000055.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	97.5	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	94.398	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	80.443	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	92.5	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	96.455	no
[Ref.: #69480]	flagellated	motile2+ⓘ	no	70.875	yes

Availability in culture collections External links

[Ref.: #66592]

Culture collection no.

KCTC 42953, MCCC 1H00149

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Marinicella sediminis sp. nov., isolated from marine sediment.	Wang XQ, Li CM, Dunlap CA, Rooney AP, Du ZJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.002839	2018	*

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 )

#66592

Xiao-Qun Wang, Chang-Ming Li, Christopher A. Dunlap, Alejandro P. Rooney, Zong-Jun Du: Marinicella sediminis sp. nov., isolated from marine sediment. IJSEM 68: 2335 - 2339 2018 ( DOI 10.1099/ijsem.0.002839 , PubMed 29781795 )

#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) .

#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#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

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