Name: Agarilytica rhodophyticola 17
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 141010

Type strain:

Species: Agarilytica rhodophyticola

Strain Designation: 17, 017

Culture col. no.: KCTC 42584, MCCC 1H00123

Strain history: <- Zongjun Du, Shandong Univ..

NCBI tax ID(s): 1737490 (species)

Section

Agarilytica rhodophyticola 17 is an aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from Gracilaria blodgettii collected at the coast of Lingshui county, Hainan province, China.

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	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Cellvibrionales*
	Family	*Cellvibrionaceae*
	Genus	*Agarilytica*
	Species	**Agarilytica rhodophyticola**
	Full Scientific Name (LPSN)	Agarilytica rhodophyticola Ling et al. 2017

Information on morphological and physiological properties Morphology

[Ref.: #43906]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.997

[Ref.: #43906]	Cell length	1.7-5.7 µm

[Ref.: #43906]	Cell width	0.3-1.1 µm

[Ref.: #43906]	Cell shape	rod-shaped

[Ref.: #43906]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %92.376

[Ref.: #43906]	Flagellum arrangement	polar

[Ref.: #43906]	Colony size	2-3 mm
[Ref.: #43906]	Colony color	yellow
[Ref.: #43906]	Colony shape	circular
[Ref.: #43906]	Incubation period	2 days
[Ref.: #43906]	Cultivation medium used	Marine agar 2216

Information on culture and growth conditions Culture and growth conditions

[Ref.: #43906]

Culture medium

Marine agar (MA)

[Ref.: #43906]

Culture medium growth

		Temperature
[Ref.: #43906]	optimum	28-33 °C
[Ref.: #43906]	growth	15-40 °C
[Ref.: #67771]	growth	28-33 °C

[Ref.: #43906]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #43906]			optimum	8
[Ref.: #43906]			growth	6.5-8.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43906]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #43906]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.897

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43906]		NaCl		optimum	3	%(w/v)
[Ref.: #43906]		NaCl		growth	2-4	%(w/v)

[Ref.: #43906]

Observation

quinone Q-8

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43906]	5-dehydro-D-gluconate ChEBI	+	builds acid from
[Ref.: #43906]	D-galactose ChEBI	+	oxidation
[Ref.: #43906]	D-galacturonic acid ChEBI	+	oxidation
[Ref.: #43906]	D-glucuronate ChEBI	+	oxidation
[Ref.: #43906]	dextrin ChEBI	+	oxidation
[Ref.: #43906]	esculin ChEBI	+	builds acid from
[Ref.: #43906]	glucuronamide ChEBI	+	oxidation
[Ref.: #43906]	maltose ChEBI	+	builds acid from
[Ref.: #43906]	nitrate ChEBI	+	reduction
[Ref.: #43906]	sodium citrate ChEBI	-	carbon source
[Ref.: #43906]	starch ChEBI	+	hydrolysis
[Ref.: #43906]	sucrose ChEBI	+	oxidation
[Ref.: #43906]	turanose ChEBI	+	oxidation
[Ref.: #43906]	tween 80 ChEBI	-	hydrolysis
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Antibiotic sensitivity	Concentration		Antibiotic resistance	Concentration
[Ref.: #43906]	acetylspiramycin ChEBI				yes	30	µg (disc)
[Ref.: #43906]	ampicillin ChEBI	yes	10	µg (disc)
[Ref.: #43906]	cefotaxime ChEBI	yes	30	µg (disc)
[Ref.: #43906]	ceftriaxone ChEBI	yes	30	µg (disc)
[Ref.: #43906]	chloramphenicol ChEBI	yes	30	µg (disc)
[Ref.: #43906]	clindamycin ChEBI				yes	30	µg (disc)
[Ref.: #43906]	erythromycin ChEBI	yes	15	µg (disc)
[Ref.: #43906]	gentamicin ChEBI	yes	10	µg (disc)
[Ref.: #43906]	kanamycin ChEBI	yes	30	µg (disc)
[Ref.: #43906]	lincomycin ChEBI				yes	2	µg (disc)
[Ref.: #43906]	nalidixic acid ChEBI	yes	30	µg (disc)
[Ref.: #43906]	neomycin ChEBI	yes	30	µg (disc)
[Ref.: #43906]	norfloxacin ChEBI	yes	30	µg (disc)
[Ref.: #43906]	ofloxacin ChEBI	yes	5	µg (disc)
[Ref.: #43906]	penicillin ChEBI				yes	10	µg (disc)
[Ref.: #43906]	rifampicin ChEBI	yes	5	µg (disc)
[Ref.: #43906]	streptomycin ChEBI	yes	10	µg (disc)
[Ref.: #43906]	sulfamethoxydiazine ChEBI	yes	5	µg (disc)
[Ref.: #43906]	tetracycline ChEBI				yes	30	µg (disc)
[Ref.: #43906]	tobramycin ChEBI	yes	10	µg (disc)
[Ref.: #43906]	vancomycin ChEBI				yes	30	µg (disc)
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #43906]		acetoin ChEBI	no
[Ref.: #43906]		indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test
[Ref.: #43906]		acetoin ChEBI	-

	Enzyme	Enzyme activity	EC number
[Ref.: #43906]	acid phosphatase	-	3.1.3.2
[Ref.: #43906]	alginase	-	3.2.1.16
[Ref.: #43906]	alkaline phosphatase	+	3.1.3.1
[Ref.: #43906]	alpha-galactosidase	-	3.2.1.22
[Ref.: #43906]	alpha-glucosidase	-	3.2.1.20
[Ref.: #43906]	alpha-mannosidase	-	3.2.1.24
[Ref.: #43906]	arginine dihydrolase	-	3.5.3.6
[Ref.: #43906]	beta-D-fucosidase	-	3.2.1.38
[Ref.: #43906]	beta-galactosidase	-	3.2.1.23
[Ref.: #43906]	beta-glucosidase	-	3.2.1.21
[Ref.: #43906]	beta-glucuronidase	-	3.2.1.31
[Ref.: #43906]	catalase	+	1.11.1.6
[Ref.: #43906]	cellulase	-	3.2.1.4
[Ref.: #43906]	chymotrypsin	-	3.4.4.5
[Ref.: #43906]	cystine arylamidase	-	3.4.11.3
[Ref.: #43906]	cytochrome oxidase	-	1.9.3.1
[Ref.: #43906]	esterase (C 4)	-
[Ref.: #43906]	esterase Lipase (C 8)	-
[Ref.: #43906]	gelatinase	+
[Ref.: #43906]	leucine arylamidase	+	3.4.11.1
[Ref.: #43906]	lipase (C 14)	-
[Ref.: #43906]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #43906]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #43906]	trypsin	+	3.4.21.4
[Ref.: #43906]	urease	-	3.5.1.5
[Ref.: #43906]	valine arylamidase	-
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #43906]

Fatty acid	Percentage
C16:0	30.81
C18:1ω7c	23.14
C16:1ω7c / C15:0 iso 2OH	12.2
C12:0	8.98
C10:0	6.82
C14:0 3OH / C16:1 iso	6.4
C10:0 3OH	5.96
C16:0 iso 3OH	3.16
C12:0 3OH	2.24
C15:0	1.16
C17:0	0.97
C18:0	0.78
C17:0 iso	0.74
C11:0	0.51

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

[Ref.: #43906]	Sample type/isolated from	Gracilaria blodgettii collected at the coast of Lingshui county, Hainan province, China
[Ref.: #43906]	Sampling date	2014-06
[Ref.: #43906]	Geographic location (country and/or sea, region)	Lingshui county, Hainan province
[Ref.: #43906]	Country	China
[Ref.: #43906]	Country ISO 3 Code	CHN
[Ref.: #43906]	Continent	Asia
[Ref.: #43906]	Geographic location	18.4083°/110.0620°
[Ref.: #43906]	Enrichment culture	Marine agar 2216
[Ref.: #43906]	Enrichment culture duration	3 days
[Ref.: #43906]	Enrichment culture temperature	28 ̊C

[Ref.: #67771]	Sample type/isolated from	From Gracilaria blodgettii collected at the coast of Lingshui county
[Ref.: #67771]	Geographic location (country and/or sea, region)	Hainan province
[Ref.: #67771]	Country	China
[Ref.: #67771]	Country ISO 3 Code	CHN
[Ref.: #67771]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Coast
#Host	#Algae	#Red algae

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KR610527 (>99% sequence identity) for Agarilytica rhodophyticola subclade from Microbeatlas

Aquatic Samples	977
Soil Samples	10
Animal Samples	26
Plant Samples	5
Total Samples	1018

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.: #43906]	16S rRNA gene sequence	KR610527		GenBank

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Agarilytica rhodophyticola 017	GCA_002157225	complete	GenBank	1737490 tax ID	*

[Ref.: #43906]	GC-content	40.9 mol%	genome sequence analysis
[Ref.: #43906]	GC-content	40.2 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 GenomeNet Sporulation v. 1 based on: Agarilytica rhodophyticola 017 NCBI: GCA_002157225.2
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Agarilytica rhodophyticola 017 NCBI: GCA_002157225.1
[Ref.: #69480]	flagellated	yes	84.435	yes
[Ref.: #69480]	gram-positive	no	98.694	yes
[Ref.: #69480]	anaerobic	no	98.498	no
[Ref.: #69480]	aerobic	yes	91.6	yes
[Ref.: #69480]	halophile	yes	58.899	no
[Ref.: #69480]	spore-forming	no	93.825	yes
[Ref.: #69480]	thermophile	no	98.735	yes
[Ref.: #69480]	glucose-util	yes	93.204	no
[Ref.: #69480]	glucose-ferment	no	84.675	no
[Ref.: #69480]	motile	yes	89.652	no
[Ref.: #69480]	flagellated	yes	84.435	yes
[Ref.: #69480]	gram-positive	no	98.694	yes
[Ref.: #69480]	anaerobic	no	98.498	no
[Ref.: #69480]	aerobic	yes	91.6	yes
[Ref.: #69480]	halophile	yes	58.899	no
[Ref.: #69480]	spore-forming	no	93.825	yes
[Ref.: #69480]	thermophile	no	98.735	yes
[Ref.: #69480]	glucose-util	yes	93.204	no
[Ref.: #69480]	motile	yes	89.652	no
[Ref.: #69480]	glucose-ferment	no	84.675	no

Availability in culture collections External links

[Ref.: #43906]

Culture collection no.

KCTC 42584, MCCC 1H00123

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Agarilytica rhodophyticola gen. nov., sp. nov., isolated from Gracilaria blodgettii.	Ling SK, Xia J, Liu Y, Chen GJ, Du ZJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.002193	2017	*

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 )

#43906

Si-Kai Ling, Jun Xia, Yan Liu, Guan-Jun Chen, Zong-Jun Du: Agarilytica rhodophyticola gen. nov., sp. nov., isolated from Gracilaria blodgettii. IJSEM 67: 3778 - 3783 2017 ( DOI 10.1099/ijsem.0.002193 , PubMed 28879838 )

#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;

#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 )

* These data were automatically processed and therefore are not curated

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Agarilytica rhodophyticola 017

Agarilytica rhodophyticola 017

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