Name: Marinifilum fragile JC2469
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 133508

Type strain:

Species: Marinifilum fragile

Strain Designation: JC2469

Culture col. no.: IMSNU 14138, KCTC 22488, JCM 15579

Strain history: J. Chun JC2469.

NCBI tax ID(s): 1236979 (strain), 570161 (species)

Section

Marinifilum fragile JC2469 is a facultative anaerobe, Gram-negative, rod-shaped bacterium that was isolated from marine sediment.

Gram-negative
rod-shaped
facultative anaerobe
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	07-12-2022 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Bacteroidota*
	Class	*Bacteroidia*
	Order	*Bacteroidales*
	Family	*Marinifilaceae*
	Genus	*Marinifilum*
	Species	**Marinifilum fragile**
	Full Scientific Name (PNU)	Marinifilum fragile Na et al. 2009

Information on morphological and physiological properties Morphology

[Ref.: #29231]	Gram stain	negative
[Ref.: #29231]	Cell width	0.5 µm
[Ref.: #29231]	Cell shape	rod-shaped
[Ref.: #29231]	Motility	no

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

Information on culture and growth conditions Culture and growth conditions

		Temperature
[Ref.: #29231]	growth	20-37.4 °C
[Ref.: #29231]	optimum	33.8 °C
[Ref.: #67770]	growth	30 °C

[Ref.: #29231]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #29231]			optimum	7
[Ref.: #29231]			growth	06-08

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29231]

Oxygen tolerance

facultative anaerobe

[Ref.: #29231]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %99
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.967

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29231]		NaCl		growth	01-07	%
[Ref.: #29231]		NaCl		optimum	3	%

[Ref.: #67770]

Observation

quinones: MK-7

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29231]	galactose ChEBI	+	carbon source
[Ref.: #29231]	glucose ChEBI	+	carbon source
[Ref.: #29231]	glycerol ChEBI	+	carbon source
[Ref.: #29231]	lactose ChEBI	+	carbon source
[Ref.: #29231]	maltose ChEBI	+	carbon source
[Ref.: #29231]	melibiose ChEBI	+	carbon source
[Ref.: #29231]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #29231]	nitrate ChEBI	+	reduction

	Enzyme	Enzyme activity	EC number
[Ref.: #29231]	acid phosphatase	+	3.1.3.2
[Ref.: #29231]	alkaline phosphatase	+	3.1.3.1
[Ref.: #29231]	cytochrome oxidase	+	1.9.3.1
[Ref.: #29231]	gelatinase	+

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

[Ref.: #29231]	Sample type/isolated from	marine sediment

[Ref.: #67770]	Sample type/isolated from	Tidal flat sediment of Yeocha
[Ref.: #67770]	Geographic location (country and/or sea, region)	Ganghwa Island
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	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 FJ394546 (>99% sequence identity) for Marinifilum fragile subclade from Microbeatlas

Aquatic Samples	2183
Soil Samples	343
Animal Samples	2588
Plant Samples	66
Total Samples	5180

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.: #29231]	Marinifilum fragile CECT 7942 strain JC2469 16S ribosomal RNA gene, partial sequence	FJ394546	1452	GenBank	1218172 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Marinifilum fragile JCM 15579 JCM 15579	GCA_001310955	contig	GenBank	1236979 tax ID
[Ref.: #66792]	Marinifilum fragile JCM 15579	1236979.6	wgs	PATRIC	1236979 tax ID	*
[Ref.: #66792]	Marinifilum fragile JCM 15579	2728369664	draft	JGI IMG/M	1236979 tax ID	*

[Ref.: #29231]	GC-content	45 mol%
[Ref.: #67770]	GC-content	45 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 Diaspora project based on: Marinifilum fragile JCM 15579 PATRIC: 1236979.6
[Ref.: #69480]	gram-positive	no	99.999	yes
[Ref.: #69480]	anaerobic	no	61.456	yes
[Ref.: #69480]	spore-forming	no	99.967	yes
[Ref.: #69480]	thermophile	no	99.882	no
[Ref.: #69480]	motile	no	74.356	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Marinifilum fragile JCM 15579 PATRIC: 1236979.6
[Ref.: #69481]	spore-forming	no	99	no

Availability in culture collections External links

[Ref.: #29231]

Culture collection no.

IMSNU 14138, KCTC 22488, JCM 15579

[Ref.: #20218]

Associated Passport(s) in StrainInfo

844620, 844621

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Marinifilum fragile gen. nov., sp. nov., isolated from tidal flat sediment.	Na H, Kim S, Moon EY, Chun J	Int J Syst Evol Microbiol	10.1099/ijs.0.009027-0	2009	*
Phylogeny	Marinifilum breve sp. nov., a marine bacterium isolated from the Yongle Blue Hole in the South China Sea and emended description of the genus Marinifilum.	Fu T, Jia C, Fu L, Zhou S, Yao P, Du R, Sun H, Yang Z, Shi X, Zhang XH	Int J Syst Evol Microbiol	10.1099/ijsem.0.003027	2018	*
Phylogeny	Marinifilum albidiflavum sp. nov., isolated from coastal sediment.	Xu ZX, Mu X, Zhang HX, Chen GJ, Du ZJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.001395	2016	*
Phylogeny	Description of Ancylomarina subtilis gen. nov., sp. nov., isolated from coastal sediment, proposal of Marinilabiliales ord. nov. and transfer of Marinilabiliaceae, Prolixibacteraceae and Marinifilaceae to the order Marinilabiliales.	Wu WJ, Zhao JX, Chen GJ, Du ZJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.001342	2016	*
Phylogeny	Marinifilum flexuosum sp. nov., a new Bacteroidetes isolated from coastal Mediterranean Sea water and emended description of the genus Marinifilum Na et al., 2009.	Ruvira MA, Lucena T, Pujalte MJ, Arahal DR, Macian MC	Syst Appl Microbiol	10.1016/j.syapm.2012.12.003	2013	*

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 )

#20218

Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )

#29231

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #25652 (see below)

#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;

#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 )

#25652

IJSEM 2241 2009 ( DOI 10.1099/ijs.0.009027-0 , PubMed 19620374 )

* These data were automatically processed and therefore are not curated

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Marinifilum fragile JCM 15579

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