Arenibacter latericius (DSM 15913, CCUG 45454, CIP 106861)

Name: Arenibacter latericius (DSM 15913, CCUG 45454, CIP 106861)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 5481

Type strain

Culture col. no. DSM 15913 CCUG 45454 CIP 106861 JCM 13508 KMM 426 3 more

NCBI tax ID(s) 1121012 86104

Special Collections DSMZ CCUG JCM CIP

History <- E. P. Ivanova, Swinburne Univ. Technol., IRIS, Hawthorn, Australia; KMM 426 <- O. I. Nedashkovskaya, Pacific Inst. Bioorg. Chem., RAS, Vladivostok KMM 426 <-- O. I. Nedashkovskaya. CIP <- 2000, E. Ivanova, Russian Academy Sci., Vladivostok, Russia <- O.I. Nedashkovskaya

Links

Arenibacter latericius DSM 15913 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from sandy sediment samples.

Gram-negative rod-shaped aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 264388

LMG 19693,CIP 106861,KCTC 12957,CCUG 45454,NCIMB 13883,DSM 15913,JCM 13508

@ref 20215

Last LPSN update 2026-02-09 11:18:58

Domain Bacteria

Phylum Bacteroidota

Class Flavobacteriia

Order Flavobacteriales

Family Flavobacteriaceae

Genus Arenibacter

Species Arenibacter latericius

Full scientific name Arenibacter latericius Ivanova et al. 2001

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
120568	negative	rod-shaped
125438			93.5
125438	negative		99
125439	negative		99.7

Pigmentation

@ref	Production	Name
120568		flexirubin type pigments

Multimedia

@ref:	66793
multimedia content:	EM_DSM_15913_1.jpg
multimedia.multimedia content:	EM_DSM_15913_1.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

@ref:	66793
multimedia content:	EM_DSM_15913_2.jpg
multimedia.multimedia content:	EM_DSM_15913_2.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

@ref:	66793
multimedia content:	EM_DSM_15913_3.jpg
multimedia.multimedia content:	EM_DSM_15913_3.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

@ref:	66793
multimedia content:	EM_DSM_15913_4.jpg
multimedia.multimedia content:	EM_DSM_15913_4.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

@ref:	66793
multimedia content:	EM_DSM_15913_5.jpg
multimedia.multimedia content:	EM_DSM_15913_5.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
6180	BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)	Medium recipe at MediaDive	Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water
39596	Marine agar (MA)		Distilled water make up to (1000.000 ml);Marine agar (55.100 g)
120568	CIP Medium 13	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
6180	positive	growth	28
39596	positive	growth	30
56790	positive	growth	25-37
67770	positive	growth	25
120568	positive	growth	15-41
120568	negative	growth	5
120568	negative	growth	45

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
56790	aerobe
120568	obligate aerobe

Spore formation

@ref	Spore formation	Confidence
125438		90.33
125439		98.5

Halophily

@ref	Salt	Tested relation	Concentration
120568	NaCl	growth	0 %
120568	NaCl	growth	2 %
120568	NaCl	growth	4 %
120568	NaCl	growth	6 %
120568	NaCl	growth	8 %
120568	NaCl	growth	10 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
120568	4853 ChEBI	esculin	+	hydrolysis
120568	606565 ChEBI	hippurate	+	hydrolysis
120568	15792 ChEBI	malonate	-	assimilation
120568	17632 ChEBI	nitrate	+	reduction
120568	17632 ChEBI	nitrate	-	respiration
120568	16301 ChEBI	nitrite	-	reduction

Antibiotic resistance

@ref	Metabolite	Is sensitive	Is resistant
120568	0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)

Metabolite production

@ref	Chebi-ID	Metabolite	Production
120568	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test
120568	15688 ChEBI	acetoin	-
120568	17234 ChEBI	glucose		+

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
120568	alcohol dehydrogenase	-	1.1.1.1
68382	alkaline phosphatase	+	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68382	alpha-glucosidase	-	3.2.1.20	from API zym
68382	alpha-mannosidase	+	3.2.1.24	from API zym
120568	amylase	-
68382	beta-galactosidase	-	3.2.1.23	from API zym
120568	beta-galactosidase	+	3.2.1.23
68382	beta-glucosidase	+	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
120568	caseinase	-	3.4.21.50
120568	catalase	+	1.11.1.6
68382	cystine arylamidase	+	3.4.11.3	from API zym
120568	DNase	+
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
120568	gamma-glutamyltransferase	+	2.3.2.2
120568	gelatinase	+/-
120568	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
120568	lipase	-
68382	lipase (C 14)	-		from API zym
120568	lysine decarboxylase	-	4.1.1.18
68382	N-acetyl-beta-glucosaminidase	+	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
120568	ornithine decarboxylase	-	4.1.1.17
120568	oxidase	+
120568	phenylalanine ammonia-lyase	-	4.3.1.24
68382	trypsin	-	3.4.21.4	from API zym
120568	tryptophan deaminase	-
120568	tween esterase	-
120568	urease	+	3.5.1.5
68382	valine arylamidase	+		from API zym

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
120568	-	+	+	+	-	+	+	+	-	-	+	+	-	-	-	-	+	+	+	-

API biotype100

@ref	ControlQ	D-glucose as carbon sourceGLU	D-fructose as carbon sourceFRU	D-galactose as carbon sourceGAL	D-trehalose as carbon sourceTRE	D-mannose as carbon sourceMNE	L-sorbose as carbon sourceSBE	D-melibiose as carbon sourceMEL	sucrose as carbon sourceSAC	D-raffinose as carbon sourceRAF	maltotriose as carbon sourceMTE	maltose as carbon sourceMAL	lactose as carbon sourceLAC	lactulose as carbon sourceLTE	1-O-methyl-beta-galactopyranoside as carbon sourceMbGa	1-O-methyl-alpha-galactopyranoside as carbon sourceMaGa	D-cellobiose as carbon sourceCEL	gentiobiose as carbon sourceGEN	1-O-methyl-beta-D-glucopyranoside as carbon sourceMbGu	esculin as carbon sourceESC	D-ribose as carbon sourceRIB	L-arabinose as carbon sourceARA	D-xylose as carbon sourceXYL	palatinose as carbon sourcePLE	L-rhamnose as carbon sourceRHA	L-fucose as carbon sourceFUC	D-melezitose as carbon sourceMLZ	D-arabitol as carbon sourceDARL	L-arabitol as carbon sourceLARL	xylitol as carbon sourceXLT	dulcitol as carbon sourceDUL	D-tagatose as carbon sourceTAG	glycerol as carbon sourceGLY	myo-inositol as carbon sourceINO	D-mannitol as carbon sourceMAN	maltitol as carbon sourceMTL	D-turanose as carbon sourceTUR	D-sorbitol as carbon sourceSOR	adonitol as carbon sourceADO	hydroxyquinoline-beta-glucuronide as carbon sourceHBG	D-lyxose as carbon sourceLYX	i-erythritol as carbon sourceERY	1-O-methyl-alpha-D-glucoside as carbon sourceMDG	3-O-methyl-D-glucose as carbon source3MDG	D-saccharate as carbon sourceSAT	mucate as carbon sourceMUC	L-tartrate as carbon sourceLTAT	D-tartrate as carbon sourceDTAT	meso-tartrate as carbon sourceMTAT	D-malate as carbon sourceDMLT	L-malate as carbon sourceLMLT	cis-aconitate as carbon sourceCATE	trans-aconitate as carbon sourceTATE	tricarballylate as carbon sourceTTE	citrate as carbon sourceCIT	D-glucuronate as carbon sourceGRT	D-galacturonate as carbon sourceGAT	2-ketogluconate as carbon source2KG	5-ketogluconate as carbon source5KG	tryptophan as carbon sourceTRY	N-acetyl-D-glucosamine as carbon sourceNAG	D-gluconate as carbon sourceGNT	phenylacetate as carbon sourcePAC	protocatechuate as carbon sourcePAT	4-hydroxybenzoate as carbon sourcepOBE	quinate as carbon sourceQAT	gentisate as carbon sourceGTE	3-hydroxybenzoate as carbon sourcemOBE	benzoate as carbon sourceBAT	3-phenylpropionate as carbon sourcePPAT	m-coumarate as carbon sourceCMT	trigonelline as carbon sourceTGE	betaine as carbon sourceBET	putrescine as carbon sourcePCE	4-aminobutyrate as carbon sourceABT	histamine as carbon sourceHIN	DL-lactate as carbon sourceLAT	caprate as carbon sourceCAP	caprylate as carbon sourceCYT	L-histidine as carbon sourceHIS	succinate as carbon sourceSUC	fumarate as carbon sourceFUM	glutarate as carbon sourceGRE	DL-glycerate as carbon sourceGYT	5-aminovalerate as carbon sourceAVT	ethanolamine as carbon sourceETN	tryptamine as carbon sourceTTN	D-glucosamine as carbon sourceGLN	itaconate as carbon sourceITA	3-hydroxybutyrate as carbon source3OBU	L-aspartate as carbon sourceAPT	L-glutamate as carbon sourceGTT	L-proline as carbon sourcePRO	D-alanine as carbon sourceDALA	L-alanine as carbon sourceLALA	L-serine as carbon sourceSER	malonate as carbon sourceMNT	propionate as carbon sourcePROP	L-tyrosine as carbon sourceTYR	2-ketoglutarate as carbon source2KT
120568	not determinedn.d.	+	+	+	+	+	-	+	+	+	-	+	+	+	+	-	+	+	+	+	-	-	+	+	+	-	-	-	-	-	-	-	+	-	+	-	+	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	+	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	+	+	+	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Sandy
#Environmental	#Terrestrial	#Sediment

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Isolation date
6180	sandy sediment samples	South China Sea in the Indian Ocean			Asia
56790	Sandy sediments,holothurian,brown alga
67770	Sandy sediment samples
120568	Environment, Sandy sediments	Cu Lao Re Island, Indian Ocean	Vietnam	VNM	Asia	1988

Taxonmaps

69479

Global distribution of 16S sequence AF052742 (>99% sequence identity) for Arenibacter from Microbeatlas

Aquatic Samples	132
Soil Samples	4
Animal Samples	38
Plant Samples	1
Total Samples	175

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
6180	1	Risk group (German classification) According to TRBA 466
120568	1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM42498v1 assembly for Arenibacter latericius DSM 15913	scaffold	GCA_000424985	1121012.3	2524614597	1121012	56.56

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
6180	Arenibacter latericius strain KMM 426 16S ribosomal RNA gene, partial sequence	AF052742	1444		86104

GC content

@ref	GC-content (mol%)	Method
6180	36.8	sequence analysis
67770	37.5	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Arenibacter latericius DSM 15913
NCBI: GCA_000424985

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	98.50	no
125439	motility	BacteriaNetⓘ	no	71.30	no
125439	gram_stain	BacteriaNetⓘ	negative	99.70	no
125439	oxygen_tolerance	BacteriaNetⓘ	facultative aerobe	71.50	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Arenibacter latericius DSM 15913
PATRIC: 1121012.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	99.00	no
125438	anaerobic	anaerobicⓘ	no	97.03	no
125438	spore-forming	spore-formingⓘ	no	90.33	no
125438	aerobic	aerobicⓘ	yes	86.52	yes
125438	thermophilic	thermophileⓘ	no	97.92	yes
125438	flagellated	motile2+ⓘ	no	93.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Metabolism	Comparative analysis of glycoside hydrolases activities from phylogenetically diverse marine bacteria of the genus Arenibacter.	Bakunina I, Nedashkovskaya O, Balabanova L, Zvyagintseva T, Rasskasov V, Mikhailov V.	Mar Drugs	10.3390/md11061977	2013
	Effects of Sponge-Derived Alkaloids on Activities of the Bacterial alpha-D-Galactosidase and Human Cancer Cell alpha-N-Acetylgalactosaminidase.	Utkina N, Likhatskaya G, Malyarenko O, Ermakova S, Balabanova L, Slepchenko L, Bakunina I.	Biomedicines	10.3390/biomedicines9050510	2021
Metabolism	Active transport and accumulation of iodide by newly isolated marine bacteria.	Amachi S, Mishima Y, Shinoyama H, Muramatsu Y, Fujii T.	Appl Environ Microbiol	10.1128/aem.71.2.741-745.2005	2005
Phylogeny	Genome-Based Taxonomic Classification of Bacteroidetes.	Hahnke RL, Meier-Kolthoff JP, Garcia-Lopez M, Mukherjee S, Huntemann M, Ivanova NN, Woyke T, Kyrpides NC, Klenk HP, Goker M.	Front Microbiol	10.3389/fmicb.2016.02003	2016
Metabolism	Effect of Pentacyclic Guanidine Alkaloids from the Sponge Monanchora pulchra on Activity of alpha-Glycosidases from Marine Bacteria.	Bakunina I, Likhatskaya G, Slepchenko L, Balabanova L, Tekutyeva L, Son O, Shubina L, Makarieva T	Mar Drugs	10.3390/md17010022	2019
	Recombinant alpha-NAcetylgalactosaminidase from Marine Bacterium-Modifying A Erythrocyte Antigens.	Balabanova LA, Golotin VA, Bakunina IY, Slepchenko LV, Isakov VV, Podvolotskaya AB, Rasskazov VA	Acta Naturae		2015
Enzymology	Alpha-N-acetylgalactosaminidase from marine bacterium Arenibacter latericius KMM 426T removing blood type specificity of A-erythrocytes.	Bakunina IY, Kuhlmann RA, Likhosherstov LM, Martynova MD, Nedashkovskaya OI, Mikhailov VV, Elyakova LA	Biochemistry (Mosc)	10.1023/a:1016106623655	2002
Phylogeny	Arenibacter amylolyticus sp. nov., an amylase-producing bacterium of the family Flavobacteriaceae isolated from marine water in India.	Sidhu C, Saini MK, Srinivas Tanuku NR, Pinnaka AK	Int J Syst Evol Microbiol	10.1099/ijsem.0.004664	2021
Phylogeny	Arenibacter lacus sp. nov., Isolated from Chilika Lagoon, India.	Kumar D, Smita N, Kumar G, Suresh G, Jagadeeshwari U, Sasikala C, Ramana CV	Curr Microbiol	10.1007/s00284-020-02205-x	2020
Phylogeny	Arenibacter antarcticus sp. nov., isolated from marine sediment.	Li AZ, Lin LZ, Zhang MX, Zhu HH	Int J Syst Evol Microbiol	10.1099/ijsem.0.002340	2017
Phylogeny	Arenibacter gen. nov., new genus of the family flavobacteriaceae and description of a new species, Arenibacter latericius sp. nov.	Ivanova EP, Nedashkovskaya OI, Chun J, Lysenko AM, Frolova GM, Svetashev VI, Vysotskii MV, Mikhailov VV, Huq A, Colwell RR	Int J Syst Evol Microbiol	10.1099/00207713-51-6-1987	2001

References

#6180	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15913
#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 )
#39596	; Curators of the CIP;
#56790	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 45454
#66793	Mukherjee et al.: GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life. 35: 676 - 683 2017 ( DOI 10.1038/nbt.3886 , PubMed 28604660 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#68382	Automatically annotated from API zym .
#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 .
#120568	Collection of Institut Pasteur ; Curators of the CIP; CIP 106861
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Arenibacter latericius (DSM 15913, CCUG 45454, CIP 106861)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Antibiotic resistance

Metabolite production

Metabolite tests

Enzymes

API zym

API biotype100

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000424985

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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