Name: Chitinophaga caeni 13
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 159860

Type strain:

Species: Chitinophaga caeni

Strain Designation: 13

Culture col. no.: CICC 24262, KCTC 62265

Strain history: <- Decai Jin, Chinese Academy of Sciences

NCBI tax ID(s): 2029983 (species)

Section

Chitinophaga caeni 13 is an obligate aerobe, mesophilic, Gram-negative bacterium that was isolated from activated sludge wastewater treatment plant.

Gram-negative
rod-shaped
mesophilic
obligate 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	*Chitinophaga*
	Species	**Chitinophaga caeni**
	Full Scientific Name (LPSN)	Chitinophaga caeni Jin et al. 2018

Information on morphological and physiological properties Morphology

[Ref.: #66577]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.972

[Ref.: #66577]	Cell length	1.3-4.4 µm

[Ref.: #66577]	Cell width	0.4-0.6 µm

[Ref.: #66577]	Cell shape	rod-shaped

[Ref.: #66577]	Colony color	fresh yellow
[Ref.: #66577]	Incubation period	3 days
[Ref.: #66577]	Cultivation medium used	Nutrient agar (NA)

[Ref.: #66577]	Pigment production	yes
[Ref.: #66577]	Pigment name	flexirubin-type

Information on culture and growth conditions Culture and growth conditions

[Ref.: #66577]

Culture medium

Nutrient agar (NA)

[Ref.: #66577]

Culture medium growth

		Temperature
[Ref.: #66577]	optimum	30 °C
[Ref.: #66577]	growth	10-34 °C
[Ref.: #67771]	growth	30 °C

[Ref.: #66577]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #66577]			optimum	7
[Ref.: #66577]			growth	6.0-9.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #66577]	Oxygen tolerance	obligate aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #66577]	Ability of spore formation	no
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.964
[Ref.: #69481]	Ability of spore formation	no Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #66577]		NaCl		growth	0-4.0	%(w/v)
[Ref.: #66577]		NaCl		optimum	0	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #66577]	2-dehydro-D-gluconate ChEBI	-	builds acid from
[Ref.: #66577]	5-dehydro-D-gluconate ChEBI	-	builds acid from
[Ref.: #66577]	adipate ChEBI	-	assimilation
[Ref.: #66577]	amygdalin ChEBI	+	builds acid from
[Ref.: #66577]	arbutin ChEBI	-	builds acid from
[Ref.: #66577]	cellobiose ChEBI	-	builds acid from
[Ref.: #66577]	citric acid ChEBI	-	assimilation
[Ref.: #66577]	D-arabinose ChEBI	+	builds acid from
[Ref.: #66577]	D-arabitol ChEBI	-	builds acid from
[Ref.: #66577]	D-fructose ChEBI	-	builds acid from
[Ref.: #66577]	D-fucose ChEBI	+	builds acid from
[Ref.: #66577]	D-galactose ChEBI	+	builds acid from
[Ref.: #66577]	D-glucose ChEBI	+	builds acid from
[Ref.: #66577]	D-lyxose ChEBI	-	builds acid from
[Ref.: #66577]	D-mannose ChEBI	-	builds acid from
[Ref.: #66577]	D-ribose ChEBI	-	builds acid from
[Ref.: #66577]	D-tagatose ChEBI	-	builds acid from
[Ref.: #66577]	D-xylose ChEBI	-	builds acid from
[Ref.: #66577]	decanoate ChEBI	-	assimilation
[Ref.: #66577]	erythritol ChEBI	-	builds acid from
[Ref.: #66577]	esculin ChEBI	-	builds acid from
[Ref.: #66577]	esculin ChEBI	+	hydrolysis
[Ref.: #66577]	galactitol ChEBI	-	builds acid from
[Ref.: #66577]	gelatin ChEBI	+	hydrolysis
[Ref.: #66577]	gentiobiose ChEBI	+	builds acid from
[Ref.: #66577]	glucose ChEBI	-	builds acid from
[Ref.: #66577]	glycerol ChEBI	-	builds acid from
[Ref.: #66577]	glycogen ChEBI	-	builds acid from
[Ref.: #66577]	inulin ChEBI	-	builds acid from
[Ref.: #66577]	L-arabinose ChEBI	-	builds acid from
[Ref.: #66577]	L-arabitol ChEBI	-	builds acid from
[Ref.: #66577]	L-fucose ChEBI	-	builds acid from
[Ref.: #66577]	L-sorbose ChEBI	-	builds acid from
[Ref.: #66577]	L-xylose ChEBI	-	builds acid from
[Ref.: #66577]	lactose ChEBI	-	builds acid from
[Ref.: #66577]	malate ChEBI	+	assimilation
[Ref.: #66577]	maltose ChEBI	-	builds acid from
[Ref.: #66577]	mannitol ChEBI	-	builds acid from
[Ref.: #66577]	melezitose ChEBI	-	builds acid from
[Ref.: #66577]	melibiose ChEBI	-	builds acid from
[Ref.: #66577]	methyl alpha-D-glucopyranoside ChEBI	+	builds acid from
[Ref.: #66577]	methyl alpha-D-mannoside ChEBI	+	builds acid from
[Ref.: #66577]	methyl beta-D-xylopyranoside ChEBI	-	builds acid from
[Ref.: #66577]	myo-inositol ChEBI	-	builds acid from
[Ref.: #66577]	N-acetylglucosamine ChEBI	+	assimilation
[Ref.: #66577]	N-acetylglucosamine ChEBI	+	builds acid from
[Ref.: #66577]	nitrate ChEBI	+	reduction
[Ref.: #66577]	phenylacetate ChEBI	-	assimilation
[Ref.: #66577]	potassium gluconate ChEBI	-	builds acid from
[Ref.: #66577]	raffinose ChEBI	-	builds acid from
[Ref.: #66577]	rhamnose ChEBI	-	builds acid from
[Ref.: #66577]	ribitol ChEBI	-	builds acid from
[Ref.: #66577]	salicin ChEBI	-	builds acid from
[Ref.: #66577]	sorbitol ChEBI	-	builds acid from
[Ref.: #66577]	starch ChEBI	-	builds acid from
[Ref.: #66577]	sucrose ChEBI	-	builds acid from
[Ref.: #66577]	trehalose ChEBI	+	builds acid from
[Ref.: #66577]	turanose ChEBI	-	builds acid from
[Ref.: #66577]	xylitol ChEBI	-	builds acid from
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Antibiotic sensitivity	Concentration		Antibiotic resistance	Concentration
[Ref.: #66577]	chloramphenicol ChEBI				yes	30	µg (disc)
[Ref.: #66577]	gentamicin ChEBI	yes	10	µg (disc)
[Ref.: #66577]	kanamycin ChEBI	yes	5	µg (disc)
[Ref.: #66577]	penicillin g ChEBI	yes	10	Unit (disc)
[Ref.: #66577]	rifampicin ChEBI				yes	5	µg (disc)
[Ref.: #66577]	streptomycin ChEBI				yes	10	µg (disc)
[Ref.: #66577]	tetracycline ChEBI				yes	30	µg (disc)
[Ref.: #66577]	vancomycin ChEBI				yes	30	µg (disc)

	Metabolite production	Metabolite	Production
[Ref.: #66577]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #66577]	acid phosphatase	+	3.1.3.2
[Ref.: #66577]	alkaline phosphatase	+	3.1.3.1
[Ref.: #66577]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #66577]	alpha-galactosidase	+	3.2.1.22
[Ref.: #66577]	alpha-glucosidase	-	3.2.1.20
[Ref.: #66577]	alpha-mannosidase	-	3.2.1.24
[Ref.: #66577]	arginine dihydrolase	-	3.5.3.6
[Ref.: #66577]	beta-D-fucosidase	-	3.2.1.38
[Ref.: #66577]	beta-galactosidase	-	3.2.1.23
[Ref.: #66577]	beta-glucosidase	-	3.2.1.21
[Ref.: #66577]	beta-glucuronidase	-	3.2.1.31
[Ref.: #66577]	catalase	+	1.11.1.6
[Ref.: #66577]	cystine arylamidase	+	3.4.11.3
[Ref.: #66577]	cytochrome oxidase	+	1.9.3.1
[Ref.: #66577]	esterase (C 4)	-
[Ref.: #66577]	esterase Lipase (C 8)	+
[Ref.: #66577]	leucine arylamidase	+	3.4.11.1
[Ref.: #66577]	lipase (C 14)	-
[Ref.: #66577]	N-acetyl-beta-glucosaminidase	+	3.2.1.52
[Ref.: #66577]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #66577]	trypsin	-	3.4.21.4
[Ref.: #66577]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #66577]

Fatty acid	Percentage
C15:0 iso	37.8
C16:1 w5c	20.6
C17:0 iso 3OH	10.8
C16:1 w7c / C16:1 w6c	7.1
C16:0 3OH	4.9
C16:0	4.8
C15:0 iso 3OH	3.9
C14:0	1.4

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

[Ref.: #66577]	Sample type/isolated from	activated sludge wastewater treatment plant
[Ref.: #66577]	Geographic location (country and/or sea, region)	Beijing
[Ref.: #66577]	Country	China
[Ref.: #66577]	Country ISO 3 Code	CHN
[Ref.: #66577]	Continent	Asia

[Ref.: #67771]	Sample type/isolated from	From activated sludge
[Ref.: #67771]	Geographic location (country and/or sea, region)	Beijing
[Ref.: #67771]	Country	China
[Ref.: #67771]	Country ISO 3 Code	CHN
[Ref.: #67771]	Continent	Asia
[Ref.: #67771]	Geographic location	39.8945°/116.5330°
* marker position based on {}

Isolation sources categories

#Engineered	#Waste	#Activated sludge
#Engineered	#Waste	#Water treatment plant

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.: #66577]	Chitinophagaceae bacterium 13 16S ribosomal RNA gene, partial sequence	MF770265	1490	ENA	2029983 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Chitinophaga caeni 13	GCA_002557795	complete	GenBank	2029983 tax ID	*

[Ref.: #66577]

GC-content

42.50 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: Chitinophaga caeni 13 NCBI: GCA_002557795.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Chitinophaga caeni 13 NCBI: GCA_002557795.1
[Ref.: #69480]	flagellated	no	98.628	no
[Ref.: #69480]	gram-positive	no	98.11	no
[Ref.: #69480]	anaerobic	no	99.179	yes
[Ref.: #69480]	aerobic	yes	92.721	no
[Ref.: #69480]	halophile	no	92.924	yes
[Ref.: #69480]	spore-forming	no	93.648	no
[Ref.: #69480]	glucose-util	yes	87.837	no
[Ref.: #69480]	thermophile	no	97.897	yes
[Ref.: #69480]	motile	no	95.783	no
[Ref.: #69480]	glucose-ferment	no	84.584	no

Availability in culture collections External links

[Ref.: #66577]

Culture collection no.

CICC 24262, KCTC 62265

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Chitinophaga caeni sp. nov., isolated from activated sludge.	Jin D, Kong X, Wang J, Sun J, Yu X, Zhuang X, Deng Y, Bai Z	Int J Syst Evol Microbiol	10.1099/ijsem.0.002811	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 )

#66577

Decai Jin, Xiao Kong, Jie Wang, Jiajun Sun, Xiangyang Yu, Xuliang Zhuang, Ye Deng and Zhihui Bai: Chitinophaga caeni sp. nov., isolated from activated sludge. IJSEM 68: 2209 - 2213 2018 ( DOI 10.1099/ijsem.0.002811 , PubMed 29749924 )

#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;

#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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