Name: Flavobacterium pallidum HYN0049
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 159808

Type strain:

Species: Flavobacterium pallidum

Strain Designation: HYN0049

Culture col. no.: KACC 19181, NBRC 112741

NCBI tax ID(s): 2172098 (species)

Section

Flavobacterium pallidum HYN0049 is an aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from freshwater.

colony-forming
Gram-negative
rod-shaped
aerobe
mesophilic
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	*Bacteroidota*
	Class	*Flavobacteriia*
	Order	*Flavobacteriales*
	Family	*Flavobacteriaceae*
	Genus	*Flavobacterium*
	Species	**Flavobacterium pallidum**
	Full Scientific Name (LPSN)	Flavobacterium pallidum Baek et al. 2018

Information on morphological and physiological properties Morphology

[Ref.: #66771]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.989

[Ref.: #66771]	Cell length	0.43-0.48 µm

[Ref.: #66771]	Cell width	0.47-1.6 µm

[Ref.: #66771]	Cell shape	rod-shaped

[Ref.: #66771]	Motility	no

[Ref.: #66771]	Flagellum arrangement	monotrichous, polar

[Ref.: #66771]	Colony color	pale yellow
[Ref.: #66771]	Colony shape	circular
[Ref.: #66771]	Cultivation medium used	R2A medium

[Ref.: #66771]	Pigment production	no
[Ref.: #66771]	Pigment name	flexirubin-type pigment

Information on culture and growth conditions Culture and growth conditions

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Culture medium

Nutrient agar (NA)

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Culture medium growth

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Culture medium

Reasoner's 2A agar (R2A)

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Culture medium growth

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Culture medium

MacConkey agar

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Culture medium growth

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Culture medium

Marine agar (MA)

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Culture medium growth

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Culture medium

tryptic soy agar (TSA)

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Culture medium growth

	Temperatures	Kind of temperature		Temperature
[Ref.: #66771]			optimum	25 °C
[Ref.: #66771]			growth	4-30 °C

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Temperature range

mesophilic

	pH	Kind of pH		pH
[Ref.: #66771]			optimum	6.5
[Ref.: #66771]			growth	6-7

Information on physiology and metabolism Physiology and metabolism

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Oxygen tolerance

aerobe

[Ref.: #69480]	Ability of spore formation	no Confidence in %99.997
[Ref.: #69481]	Ability of spore formation	no Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #66771]		NaCl		growth	0	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #66771]	4-nitrophenyl beta-D-galactopyranoside ChEBI	-	carbon source
[Ref.: #66771]	adenine ChEBI	-	hydrolysis
[Ref.: #66771]	adipate ChEBI	-	carbon source
[Ref.: #66771]	alginate ChEBI	-	hydrolysis
[Ref.: #66771]	casein	+	hydrolysis
[Ref.: #66771]	chitin ChEBI	-	hydrolysis
[Ref.: #66771]	crystalline cellulose	-	hydrolysis
[Ref.: #66771]	D-glucose ChEBI	-	builds acid from
[Ref.: #66771]	D-glucose ChEBI	-	carbon source
[Ref.: #66771]	D-mannitol ChEBI	-	carbon source
[Ref.: #66771]	D-mannose ChEBI	-	carbon source
[Ref.: #66771]	decanoate ChEBI	-	carbon source
[Ref.: #66771]	dna ChEBI	-	hydrolysis
[Ref.: #66771]	esculin ChEBI	-	hydrolysis
[Ref.: #66771]	gelatin ChEBI	-	hydrolysis
[Ref.: #66771]	hypoxanthine ChEBI	-	hydrolysis
[Ref.: #66771]	L-arabinose ChEBI	-	carbon source
[Ref.: #66771]	L-tyrosine ChEBI	-	hydrolysis
[Ref.: #66771]	malate ChEBI	-	carbon source
[Ref.: #66771]	maltose ChEBI	-	carbon source
[Ref.: #66771]	N-acetylglucosamine ChEBI	-	carbon source
[Ref.: #66771]	phenylacetate ChEBI	-	carbon source
[Ref.: #66771]	potassium gluconate ChEBI	-	carbon source
[Ref.: #66771]	sodium citrate ChEBI	-	carbon source
[Ref.: #66771]	starch ChEBI	-	hydrolysis
[Ref.: #66771]	tryptophan ChEBI	-	assimilation
[Ref.: #66771]	tween 20 ChEBI	+	hydrolysis
[Ref.: #66771]	tween 40 ChEBI	-	hydrolysis
[Ref.: #66771]	tween 60 ChEBI	-	hydrolysis
[Ref.: #66771]	tween 80 ChEBI	-	hydrolysis
[Ref.: #66771]	xanthine ChEBI	-	hydrolysis
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #66771]		hydrogen sulfide ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #66771]	acid phosphatase	-	3.1.3.2
[Ref.: #66771]	alkaline phosphatase	+	3.1.3.1
[Ref.: #66771]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #66771]	alpha-fucosidase	-	3.2.1.51
[Ref.: #66771]	alpha-galactosidase	-	3.2.1.22
[Ref.: #66771]	alpha-glucosidase	-	3.2.1.20
[Ref.: #66771]	alpha-mannosidase	-	3.2.1.24
[Ref.: #66771]	arginine dihydrolase	-	3.5.3.6
[Ref.: #66771]	beta-galactosidase	-	3.2.1.23
[Ref.: #66771]	beta-glucosidase	-	3.2.1.21
[Ref.: #66771]	beta-glucuronidase	-	3.2.1.31
[Ref.: #66771]	catalase	-	1.11.1.6
[Ref.: #66771]	cystine arylamidase	-	3.4.11.3
[Ref.: #66771]	cytochrome oxidase	+	1.9.3.1
[Ref.: #66771]	esterase (C 4)	-
[Ref.: #66771]	esterase Lipase (C 8)	-
[Ref.: #66771]	leucine arylamidase	+	3.4.11.1
[Ref.: #66771]	lipase (C 14)	-
[Ref.: #66771]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #66771]	naphthol-AS-BI-phosphohydrolase	-
[Ref.: #66771]	nitrate reductase	-	1.7.99.4
[Ref.: #66771]	trypsin	-	3.4.21.4
[Ref.: #66771]	urease	-	3.5.1.5
[Ref.: #66771]	valine arylamidase	-
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #66771]

Fatty acid	Percentage
C15:0 iso	15.1
C17:0 iso 3OH	14.5
C15:1 iso G	11.3
C15:0 iso 3OH	11
C16:0 iso 3OH	5.2
C16:0 iso	3.7
C16:0	3.2
C15:1 w6c	2.9
C15:0 2OH	2.9
C13:0 iso	2.6
C17:1 w8c	2.1
C18:1 w5c	1.5
C17:1 w6c	1.4
C15:0 3OH	1.3
C14:0 iso	1.2

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

[Ref.: #66771]	Sample type/isolated from	freshwater
[Ref.: #66771]	Geographic location (country and/or sea, region)	Hapcheonho Lake
[Ref.: #66771]	Country	Republic of Korea
[Ref.: #66771]	Country ISO 3 Code	KOR
[Ref.: #66771]	Continent	Asia
[Ref.: #66771]	Geographic location	35.5278°/128.0220°
[Ref.: #66771]	Enrichment culture	R2A
[Ref.: #66771]	Enrichment culture temperature	25 ̊C
[Ref.: #66771]	Isolation/enrichment procedure	A standard plating technique on R2A agar (BD) was used for isolation.
* marker position based on {}

Isolation sources categories

#Environmental

#Aquatic

#Freshwater

What are isolation sources categories?

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.: #66771]	Flavobacterium cutihirudinis strain HYN0049 16S ribosomal RNA gene, partial sequence	KY077155	1448	ENA	1265740 tax ID
[Ref.: #66771]	Flavobacterium soli strain HYN0048 16S ribosomal RNA gene, partial sequence	KY077154	1449	ENA	344881 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Flavobacterium pallidum HYN0049	GCA_003097535	complete	GenBank	2172098 tax ID	*
[Ref.: #66792]	Flavobacterium pallidum HYN0049	2847327234	complete	JGI IMG/M	2172098 tax ID	*

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GC-content

43.7 mol%

genome sequence analysis

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: Flavobacterium pallidum HYN0049 NCBI: GCA_003097535.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Flavobacterium pallidum HYN0049 NCBI: GCA_003097535.1
[Ref.: #69480]	flagellated	no	94.389	no
[Ref.: #69480]	gram-positive	no	98.642	no
[Ref.: #69480]	anaerobic	no	99.497	no
[Ref.: #69480]	halophile	no	92.505	no
[Ref.: #69480]	spore-forming	no	94.621	no
[Ref.: #69480]	glucose-util	yes	80.43	no
[Ref.: #69480]	aerobic	yes	93.491	yes
[Ref.: #69480]	thermophile	no	98.657	no
[Ref.: #69480]	motile	no	88.296	no
[Ref.: #69480]	glucose-ferment	no	93.032	no

Availability in culture collections External links

[Ref.: #66771]

Culture collection no.

KACC 19181, NBRC 112741

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Flavobacterium magnum sp. nov., Flavobacterium pallidum sp. nov., Flavobacterium crocinum sp. nov. and Flavobacterium album sp. nov.	Baek C, Shin SK, Yi H	Int J Syst Evol Microbiol	10.1099/ijsem.0.003067	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 )

#66771

Chaeyun Baek, Su-Kyoung Shin and Hana Yi: Flavobacterium magnum sp. nov., Flavobacterium pallidum sp. nov., Flavobacterium crocinum sp. nov. and Flavobacterium album sp. nov. IJSEM 68: 3837 - 3843 2018 ( DOI 10.1099/ijsem.0.003067 , PubMed 30320543 )

#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) .

#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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