Name: Emticicia agri 17J42-9
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 164447

Type strain:

Species: Emticicia agri

Strain Designation: 17J42-9

Culture col. no.: JCM 33056, KCTC 62270

Strain history: H.-Y. Jung and M. K. Kim; Kyungpook Natl. Univ., South Korea; 17J42-9.

NCBI tax ID(s): 2492393 (species)

Section

Emticicia agri 17J42-9 is an aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from Soil on Jeju Island.

colony-forming
Gram-negative
motile
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	*Cytophagia*
	Order	*Cytophagales*
	Family	*Spirosomataceae*
	Genus	*Emticicia*
	Species	**Emticicia agri**
	Full Scientific Name (LPSN)	Emticicia agri Ten et al. 2019

Information on morphological and physiological properties Morphology

[Ref.: #68212]	Gram stain	negative

[Ref.: #68212]	Cell length	4.7-10.8 µm

[Ref.: #68212]	Cell width	0.8-1.1 µm

[Ref.: #68212]	Cell shape	rod-shaped

[Ref.: #68212]	Motility	yes

[Ref.: #68212]	Flagellum arrangement	gliding

[Ref.: #68212]	Colony size	2 mm
[Ref.: #68212]	Colony color	orange
[Ref.: #68212]	Colony shape	circular
[Ref.: #68212]	Incubation period	3 days
[Ref.: #68212]	Cultivation medium used	Reasoner's 2A agar (R2A)

Information on culture and growth conditions Culture and growth conditions

	Temperatures	Kind of temperature		Temperature
[Ref.: #67770]			growth	25 °C
[Ref.: #68212]			growth	10-37 °C

[Ref.: #67770]

Temperature range

mesophilic

	pH	Kind of pH		pH
[Ref.: #68212]			growth	6.0-8.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #68212]

Oxygen tolerance

aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #68212]		NaCl		growth	0.5	%(w/v)
[Ref.: #68212]		NaCl	no	growth	1	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68212]	2-dehydro-D-gluconate ChEBI	-	assimilation
[Ref.: #68212]	3-hydroxybenzoate ChEBI	-	assimilation
[Ref.: #68212]	3-hydroxybutyrate ChEBI	-	assimilation
[Ref.: #68212]	4-hydroxybenzoate ChEBI	-	assimilation
[Ref.: #68212]	5-dehydro-D-gluconate ChEBI	-	assimilation
[Ref.: #68212]	acetate ChEBI	-	assimilation
[Ref.: #68212]	adipate ChEBI	-	assimilation
[Ref.: #68212]	citrate ChEBI	-	assimilation
[Ref.: #68212]	D-glucose ChEBI	-	assimilation
[Ref.: #68212]	D-mannitol ChEBI	+	assimilation
[Ref.: #68212]	D-mannose ChEBI	-	assimilation
[Ref.: #68212]	D-ribose ChEBI	-	assimilation
[Ref.: #68212]	D-sorbitol ChEBI	-	assimilation
[Ref.: #68212]	decanoate ChEBI	-	assimilation
[Ref.: #68212]	esculin ChEBI	+	hydrolysis
[Ref.: #68212]	gluconate ChEBI	-	assimilation
[Ref.: #68212]	glucose ChEBI	-	builds acid from
[Ref.: #68212]	glycogen ChEBI	-	assimilation
[Ref.: #68212]	hexanoate ChEBI	-	assimilation
[Ref.: #68212]	indole ChEBI	-	hydrolysis
[Ref.: #68212]	itaconate ChEBI	-	assimilation
[Ref.: #68212]	L-alanine ChEBI	-	assimilation
[Ref.: #68212]	L-arabinose ChEBI	-	assimilation
[Ref.: #68212]	L-fucose ChEBI	-	assimilation
[Ref.: #68212]	L-histidine ChEBI	-	assimilation
[Ref.: #68212]	L-malate ChEBI	-	assimilation
[Ref.: #68212]	L-proline ChEBI	+	assimilation
[Ref.: #68212]	L-rhamnose ChEBI	+	assimilation
[Ref.: #68212]	L-serine ChEBI	-	assimilation
[Ref.: #68212]	lactate ChEBI	-	assimilation
[Ref.: #68212]	malonate ChEBI	-	assimilation
[Ref.: #68212]	maltose ChEBI	-	assimilation
[Ref.: #68212]	melibiose ChEBI	-	assimilation
[Ref.: #68212]	myo-inositol ChEBI	-	assimilation
[Ref.: #68212]	N-acetyl-D-glucosamine ChEBI	+	assimilation
[Ref.: #68212]	nitrate ChEBI	-	reduction
[Ref.: #68212]	phenylacetate ChEBI	-	assimilation
[Ref.: #68212]	propionate ChEBI	-	assimilation
[Ref.: #68212]	salicin ChEBI	-	assimilation
[Ref.: #68212]	suberate ChEBI	-	assimilation
[Ref.: #68212]	sucrose ChEBI	+	assimilation
[Ref.: #68212]	tween 80 ChEBI	+/-	hydrolysis
[Ref.: #68212]	urea ChEBI	-	hydrolysis
[Ref.: #68212]	valerate ChEBI	-	assimilation
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #68212]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #68212]	acid phosphatase	+	3.1.3.2
[Ref.: #68212]	alkaline phosphatase	+	3.1.3.1
[Ref.: #68212]	alpha-chymotrypsin	+	3.4.21.1
[Ref.: #68212]	alpha-fucosidase	+	3.2.1.51
[Ref.: #68212]	alpha-galactosidase	+	3.2.1.22
[Ref.: #68212]	alpha-glucosidase	+	3.2.1.20
[Ref.: #68212]	alpha-mannosidase	+	3.2.1.24
[Ref.: #68212]	arginine dihydrolase	-	3.5.3.6
[Ref.: #68212]	beta-galactosidase	+	3.2.1.23
[Ref.: #68212]	beta-glucosidase	+	3.2.1.21
[Ref.: #68212]	beta-glucuronidase	-	3.2.1.31
[Ref.: #68212]	catalase	+	1.11.1.6
[Ref.: #68212]	cystine arylamidase	+	3.4.11.3
[Ref.: #68212]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68212]	esterase (C 4)	+
[Ref.: #68212]	esterase Lipase (C 8)	+/-
[Ref.: #68212]	gelatinase	-
[Ref.: #68212]	leucine arylamidase	+	3.4.11.1
[Ref.: #68212]	lipase (C 14)	-
[Ref.: #68212]	N-acetyl-beta-glucosaminidase	+	3.2.1.52
[Ref.: #68212]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #68212]	trypsin	+	3.4.21.4
[Ref.: #68212]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #68212]

Fatty acid	Percentage
C16:1 w7c/C16:1 w6c	34.1
C15:0 iso	23.4
C17:0 iso 3OH	10.8
C16:0	5.7
C16:1 w5c	5.7
C15:0 iso 3OH	4.7
C16:0 N alcohol	4.7
C16:0 3OH	3
C18:0	1.8
C15:1 iso G	1.2
C14:0	1

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

[Ref.: #67770]	Sample type/isolated from	Soil on Jeju Island
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia

[Ref.: #68212]	Sample type/isolated from	soil
[Ref.: #68212]	Geographic location (country and/or sea, region)	Jeju Island
[Ref.: #68212]	Country	Republic of Korea
[Ref.: #68212]	Country ISO 3 Code	KOR
[Ref.: #68212]	Continent	Asia
[Ref.: #68212]	Geographic location	33.3259°/126.8420°
[Ref.: #68212]	Enrichment culture	Reasoner's 2A
* marker position based on {}

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.: #67770]	Emticicia sp. 17J42-9 gene for 16S ribosomal RNA, partial sequence	LC434627	1431	ENA	2492393 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #68212]	Emticicia agri 17J42-9	GCA_004168285	contig	GenBank	2492393 tax ID

[Ref.: #68212]

GC-content

38.6 mol%

genome sequence analysis

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Emticicia agri 17J42-9 NCBI: GCA_004168285.1
[Ref.: #69480]	flagellated	no	97.403	no
[Ref.: #69480]	gram-positive	no	97.379	no
[Ref.: #69480]	anaerobic	no	99.098	no
[Ref.: #69480]	aerobic	yes	89.471	yes
[Ref.: #69480]	halophile	no	96.555	yes
[Ref.: #69480]	spore-forming	no	93.955	no
[Ref.: #69480]	glucose-util	yes	86.99	no
[Ref.: #69480]	thermophile	no	99.029	no
[Ref.: #69480]	motile	no	94.912	no
[Ref.: #69480]	glucose-ferment	no	87.973	no

Availability in culture collections External links

[Ref.: #67770]

Culture collection no.

JCM 33056, KCTC 62270

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Emticicia agri sp. nov., a novel member of the family Cytophagaceae.	Ten LN, Li W, Ha A, Kim MK, Rooney AP, Jung HY	Int J Syst Evol Microbiol	10.1099/ijsem.0.003651	2019	*

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 )

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#68212

Leonid N. Ten, Weilan Li, Aeri Ha, Myung Kyum Kim, Alejandro P. Rooney and Hee-Young Jung: Emticicia agri sp. nov., a novel member of the family Cytophagaceae. IJSEM 69: 3492 - 3499 2019 ( DOI 10.1099/ijsem.0.003651 )

#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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