Name: Flavihumibacter sediminis CJ663
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 133189

Type strain:

Species: Flavihumibacter sediminis

Strain Designation: CJ663

Culture col. no.: KACC 18874, JCM 31431

Strain history: C.-J. Cha; Dept. of Syst. Biotechnol., Chung-Ang Univ., South Korea; CJ663.

NCBI tax ID(s): 1571481 (species)

Section

Flavihumibacter sediminis CJ663 is an aerobe, Gram-positive, rod-shaped bacterium that forms circular colonies and was isolated from tidal flat sedimen.

colony-forming
Gram-positive
rod-shaped
aerobe
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	*Chitinophagia*
	Order	*Chitinophagales*
	Family	*Chitinophagaceae*
	Genus	*Flavihumibacter*
	Species	**Flavihumibacter sediminis**
	Full Scientific Name (LPSN)	Flavihumibacter sediminis Lee and Cha 2016

Information on morphological and physiological properties Morphology

[Ref.: #24983]	Gram stain	positive

[Ref.: #24983]	Cell length	2.2 µm

[Ref.: #24983]	Cell width	0.5 µm

[Ref.: #24983]	Cell shape	rod-shaped

[Ref.: #24983]	Motility	no

[Ref.: #24983]	Colony color	light yellow
[Ref.: #24983]	Colony shape	circular
[Ref.: #24983]	Cultivation medium used	R2A agar (Reasoner's 2A agar)

Information on culture and growth conditions Culture and growth conditions

[Ref.: #24983]

Culture medium

Reasoner's 2A agar (R2A)

[Ref.: #24983]

Culture medium growth

		Temperature
[Ref.: #24983]	growth	20.0-37.0 °C
[Ref.: #24983]	optimum	30 °C
[Ref.: #67770]	growth	30 °C

[Ref.: #24983]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #24983]			optimum	7
[Ref.: #24983]			growth	5.0-8.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #24983]

Oxygen tolerance

aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #24983]		NaCl		growth	0.0-1.0	%
[Ref.: #24983]		NaCl		optimum	0	%

[Ref.: #67770]

Observation

quinones: MK-7

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #24983]	2-dehydro-D-gluconate ChEBI	-	builds acid from
[Ref.: #24983]	2-deoxyadenosine ChEBI	-	builds acid from
[Ref.: #24983]	2-oxoglutarate ChEBI	+	carbon source
[Ref.: #24983]	3-hydroxybutyrate ChEBI	-	builds acid from
[Ref.: #24983]	4-hydroxybutyrate ChEBI	-	builds acid from
[Ref.: #24983]	4-hydroxyphenylacetic acid ChEBI	-	builds acid from
[Ref.: #24983]	5-dehydro-D-gluconate ChEBI	-	builds acid from
[Ref.: #24983]	acetate ChEBI	+	carbon source
[Ref.: #24983]	adenosine ChEBI	-	builds acid from
[Ref.: #24983]	adenosine ChEBI	+	carbon source
[Ref.: #24983]	alpha-cyclodextrin ChEBI	+	carbon source
[Ref.: #24983]	alpha-D-glucose ChEBI	+	carbon source
[Ref.: #24983]	amygdalin ChEBI	+	builds acid from
[Ref.: #24983]	amygdalin ChEBI	+	carbon source
[Ref.: #24983]	arbutin ChEBI	+	builds acid from
[Ref.: #24983]	arbutin ChEBI	+	carbon source
[Ref.: #24983]	beta-cyclodextrin ChEBI	+	carbon source
[Ref.: #24983]	casein	+	hydrolysis
[Ref.: #24983]	cellobiose ChEBI	+	builds acid from
[Ref.: #24983]	cellobiose ChEBI	+	carbon source
[Ref.: #24983]	cellulose ChEBI	+	hydrolysis
[Ref.: #24983]	D-arabinose ChEBI	+	builds acid from
[Ref.: #24983]	D-arabitol ChEBI	-	builds acid from
[Ref.: #24983]	D-fructose ChEBI	+	builds acid from
[Ref.: #24983]	D-fructose ChEBI	+	carbon source
[Ref.: #24983]	D-fucose ChEBI	-	builds acid from
[Ref.: #24983]	D-galactose ChEBI	+	builds acid from
[Ref.: #24983]	D-galactose ChEBI	+	carbon source
[Ref.: #24983]	D-gluconate ChEBI	-	builds acid from
[Ref.: #24983]	D-glucose ChEBI	+	assimilation
[Ref.: #24983]	D-glucose ChEBI	+	builds acid from
[Ref.: #24983]	D-glucose 6-phosphate ChEBI	+	carbon source
[Ref.: #24983]	D-lyxose ChEBI	-	builds acid from
[Ref.: #24983]	D-mannitol ChEBI	-	assimilation
[Ref.: #24983]	D-mannitol ChEBI	-	builds acid from
[Ref.: #24983]	D-mannose ChEBI	+	assimilation
[Ref.: #24983]	D-mannose ChEBI	+	builds acid from
[Ref.: #24983]	D-ribose ChEBI	-	builds acid from
[Ref.: #24983]	D-sorbitol ChEBI	-	builds acid from
[Ref.: #24983]	D-tagatose ChEBI	-	builds acid from
[Ref.: #24983]	D-xylose ChEBI	-	builds acid from
[Ref.: #24983]	D-xylose ChEBI	+	builds acid from
[Ref.: #24983]	decanoate ChEBI	-	assimilation
[Ref.: #24983]	dextrin ChEBI	+	carbon source
[Ref.: #24983]	dna ChEBI	-	hydrolysis
[Ref.: #24983]	erythritol ChEBI	-	builds acid from
[Ref.: #24983]	esculin ChEBI	+	hydrolysis
[Ref.: #24983]	esculin ferric citrate	+	builds acid from
[Ref.: #24983]	galactitol ChEBI	-	builds acid from
[Ref.: #24983]	gelatin ChEBI	+	hydrolysis
[Ref.: #24983]	gentiobiose ChEBI	+	builds acid from
[Ref.: #24983]	gentiobiose ChEBI	+	carbon source
[Ref.: #24983]	glucose 1-phosphate ChEBI	+	carbon source
[Ref.: #24983]	glycerol ChEBI	-	builds acid from
[Ref.: #24983]	glycogen ChEBI	+	builds acid from
[Ref.: #24983]	glycogen ChEBI	+	carbon source
[Ref.: #24983]	inulin ChEBI	+	builds acid from
[Ref.: #24983]	inulin ChEBI	+	carbon source
[Ref.: #24983]	L-alaninamide ChEBI	+	carbon source
[Ref.: #24983]	L-arabinose ChEBI	+	assimilation
[Ref.: #24983]	L-arabinose ChEBI	+	builds acid from
[Ref.: #24983]	L-arabitol ChEBI	-	builds acid from
[Ref.: #24983]	L-asparagine ChEBI	-	builds acid from
[Ref.: #24983]	L-fucose ChEBI	+	builds acid from
[Ref.: #24983]	L-rhamnose ChEBI	-	builds acid from
[Ref.: #24983]	L-sorbose ChEBI	-	builds acid from
[Ref.: #24983]	L-xylose ChEBI	-	builds acid from
[Ref.: #24983]	lactose ChEBI	+	builds acid from
[Ref.: #24983]	maltose ChEBI	+	assimilation
[Ref.: #24983]	maltose ChEBI	+	builds acid from
[Ref.: #24983]	maltotriose ChEBI	+	carbon source
[Ref.: #24983]	melezitose ChEBI	+	builds acid from
[Ref.: #24983]	melibiose ChEBI	+	builds acid from
[Ref.: #24983]	methyl alpha-D-glucopyranoside ChEBI	+	builds acid from
[Ref.: #24983]	methyl alpha-D-mannoside ChEBI	+	builds acid from
[Ref.: #24983]	methyl alpha-D-mannoside ChEBI	+	carbon source
[Ref.: #24983]	methyl beta-D-xylopyranoside ChEBI	+	builds acid from
[Ref.: #24983]	methyl D-glucoside ChEBI	+	carbon source
[Ref.: #24983]	methyl pyruvate ChEBI	+	carbon source
[Ref.: #24983]	monomethyl succinate ChEBI	+	carbon source
[Ref.: #24983]	myo-inositol ChEBI	-	builds acid from
[Ref.: #24983]	N-acetyl-beta-D-mannosamine ChEBI	+	carbon source
[Ref.: #24983]	N-acetyl-L-glutamate ChEBI	+	carbon source
[Ref.: #24983]	N-acetylglucosamine ChEBI	+	assimilation
[Ref.: #24983]	N-acetylglucosamine ChEBI	+	builds acid from
[Ref.: #24983]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #24983]	nitrate ChEBI	-	reduction
[Ref.: #24983]	nitrite ChEBI	-	reduction
[Ref.: #24983]	palatinose ChEBI	+	carbon source
[Ref.: #24983]	phenylacetate ChEBI	-	assimilation
[Ref.: #24983]	potassium gluconate ChEBI	-	builds acid from
[Ref.: #24983]	pyruvate ChEBI	+	carbon source
[Ref.: #24983]	raffinose ChEBI	+	builds acid from
[Ref.: #24983]	raffinose ChEBI	+	carbon source
[Ref.: #24983]	ribitol ChEBI	-	builds acid from
[Ref.: #24983]	salicin ChEBI	+	builds acid from
[Ref.: #24983]	salicin ChEBI	+	carbon source
[Ref.: #24983]	sodium citrate ChEBI	-	assimilation
[Ref.: #24983]	stachyose ChEBI	+	carbon source
[Ref.: #24983]	starch ChEBI	-	hydrolysis
[Ref.: #24983]	starch ChEBI	+	builds acid from
[Ref.: #24983]	succinate ChEBI	-	builds acid from
[Ref.: #24983]	sucrose ChEBI	+	builds acid from
[Ref.: #24983]	sucrose ChEBI	+	carbon source
[Ref.: #24983]	thymidine ChEBI	-	builds acid from
[Ref.: #24983]	trehalose ChEBI	+	builds acid from
[Ref.: #24983]	trehalose ChEBI	+	carbon source
[Ref.: #24983]	turanose ChEBI	+	builds acid from
[Ref.: #24983]	turanose ChEBI	+	carbon source
[Ref.: #24983]	tween 80 ChEBI	-	hydrolysis
[Ref.: #24983]	uridine ChEBI	-	builds acid from
[Ref.: #24983]	uridine 5'-monophosphate ChEBI	+	carbon source
[Ref.: #24983]	xylitol ChEBI	-	builds acid from
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #24983]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #24983]	acid phosphatase	+	3.1.3.2
[Ref.: #24983]	alkaline phosphatase	+	3.1.3.1
[Ref.: #24983]	alpha-chymotrypsin	+	3.4.21.1
[Ref.: #24983]	alpha-fucosidase	-	3.2.1.51
[Ref.: #24983]	alpha-galactosidase	+	3.2.1.22
[Ref.: #24983]	alpha-glucosidase	+	3.2.1.20
[Ref.: #24983]	alpha-mannosidase	+	3.2.1.24
[Ref.: #24983]	arginine dihydrolase	+	3.5.3.6
[Ref.: #24983]	beta-galactosidase	+	3.2.1.23
[Ref.: #24983]	beta-glucosidase	+	3.2.1.21
[Ref.: #24983]	beta-glucuronidase	-	3.2.1.31
[Ref.: #24983]	catalase	+	1.11.1.6
[Ref.: #24983]	cystine arylamidase	+	3.4.11.3
[Ref.: #24983]	esterase (C 4)	+
[Ref.: #24983]	esterase Lipase (C 8)	+
[Ref.: #24983]	leucine arylamidase	+	3.4.11.1
[Ref.: #24983]	lipase (C 14)	-
[Ref.: #24983]	N-acetyl-beta-glucosaminidase	+	3.2.1.52
[Ref.: #24983]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #24983]	trypsin	+	3.4.21.4
[Ref.: #24983]	urease	+	3.5.1.5
[Ref.: #24983]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #24983]	Sample type/isolated from	tidal flat sedimen
[Ref.: #24983]	Geographic location (country and/or sea, region)	Ganghwa-do
[Ref.: #24983]	Country	Republic of Korea
[Ref.: #24983]	Country ISO 3 Code	KOR
[Ref.: #24983]	Continent	Asia
[Ref.: #24983]	Geographic location	37.5922°/126.4570°
[Ref.: #24983]	Enrichment culture	R2A agar (Reasoner's 2A agar;BD)

[Ref.: #67770]	Sample type/isolated from	Tidal flat sediment in Ganghwa-do
[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	#Sediment
#Environmental	#Terrestrial	#Tidal flat

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KP126826 (>99% sequence identity) for Flavihumibacter sediminis subclade from Microbeatlas

Aquatic Samples	39
Soil Samples	76
Animal Samples	61
Plant Samples	1
Total Samples	177

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.: #24983]	Flavihumibacter sp. CJ663 16S ribosomal RNA gene, partial sequence	KP126826	1420	GenBank	1571481 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Flavihumibacter sediminis CJ663	GCA_022352285	contig	GenBank	1571481 tax ID	*

[Ref.: #67770]

GC-content

47.7 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 Diaspora project based on: Flavihumibacter sediminis CJ663 NCBI: GCA_022352285.1
[Ref.: #69480]	flagellated	no	97.857	yes
[Ref.: #69480]	gram-positive	no	97.225	no
[Ref.: #69480]	anaerobic	no	99.315	no
[Ref.: #69480]	aerobic	yes	90.819	yes
[Ref.: #69480]	halophile	no	96.402	yes
[Ref.: #69480]	spore-forming	no	95.95	no
[Ref.: #69480]	motile	no	93.44	no
[Ref.: #69480]	glucose-ferment	no	89.857	no
[Ref.: #69480]	thermophile	no	98.066	yes
[Ref.: #69480]	glucose-util	yes	88.978	yes

Availability in culture collections External links

[Ref.: #24983]

Culture collection no.

KACC 18874, JCM 31431

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Pinibacter aurantiacus gen. nov., sp. nov., isolated from rhizospheric soil of a pine tree.	Huq MA, Siddiqi MZ, Balusamy SR, Rahman MM, Ashrafudoulla M, Apu MAI, Maitra P, Naserkheil M, Park JH, Akter S	Int J Syst Evol Microbiol	10.1099/ijsem.0.005132	2021	*
Phylogeny	Flavihumibacter profundi sp. nov., isolated from eutrophic freshwater sediment.	Ren TT, Jin CZ, Jin FJ, Li T, Kim CJ, Oh HM, Lee HG, Jin L	J Microbiol	10.1007/s12275-018-7567-8	2018	*
Phylogeny	Flavihumibacter sediminis sp. nov., isolated from tidal flat sediment.	Lee DH, Cha CJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.001349	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 )

#24983

D.-H. C. Lee, Chang-Jun: Flavihumibacter sediminis sp. nov., isolated from tidal flat sediment. IJSEM 66: 4310 - 4314 2016 ( DOI 10.1099/ijsem.0.001349 , PubMed 27472918 )

#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) .

* These data were automatically processed and therefore are not curated

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