Acanthopleuribacter pedis (DSM 28897, KCTC 12899, NBRC 101209)

Name: Acanthopleuribacter pedis (DSM 28897, KCTC 12899, NBRC 101209)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 24718

Type strain

Strain Designation FYK2218

Culture col. no. DSM 28897 KCTC 12899 NBRC 101209 FYK2218

NCBI tax ID(s) 442870

Special Collections DSMZ KCTC Literature strains

Links

Acanthopleuribacter pedis FYK2218 is an aerobe, mesophilic, Gram-negative prokaryote that was isolated from chiton Acanthopleura japonica.

Gram-negative motile rod-shaped aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 399724

NBRC 101209,DSM 28897

@ref 20215

Last LPSN update 2025-12-16 09:52:55

Domain Pseudomonadati

Phylum Acidobacteriota

Class Holophagae

Order Acanthopleuribacterales

Family Acanthopleuribacteraceae

Genus Acanthopleuribacter

Species Acanthopleuribacter pedis

Full scientific name Acanthopleuribacter pedis Fukunaga et al. 2008

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Flagellum arrangement	Confidence
32501	negative	2.4-4.7 µm	0.7-1 µm	rod-shaped
67771				rod-shaped	peritrichous
67771	negative
125438	negative					90

Colony morphology

21191

Incubation period3-7 days

Pigmentation

32501

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
21191	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

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
21191	positive	growth	28	mesophilic
32501	positive	growth	15-30
32501	positive	optimum	30	mesophilic
67771	positive	growth	25	mesophilic

Culture pH

@ref	Ability	Type	PH	PH range
32501	positive	optimum	07-08
32501	positive	growth	05-09	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
32501	aerobe
67771	aerobe

Spore formation

@ref	Spore formation	Confidence
32501
125439		95.4

Observation

@ref	Observation
32501	aggregates in chains
67771	quinones: MK-6(57.8%), MK-7(42.2%)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68369	17128 ChEBI	adipate	-	assimilation	from API 20NE
32501	16449 ChEBI	alanine	+	carbon source
68369	29016 ChEBI	arginine	-	hydrolysis	from API 20NE
68369	17634 ChEBI	D-glucose	-	fermentation	from API 20NE
68369	16899 ChEBI	D-mannitol	-	assimilation	from API 20NE
68369	16024 ChEBI	D-mannose	-	assimilation	from API 20NE
68369	27689 ChEBI	decanoate	-	assimilation	from API 20NE
32501	17234 ChEBI	glucose	+	carbon source
68369	25115 ChEBI	malate	-	assimilation	from API 20NE
68369	17306 ChEBI	maltose	-	assimilation	from API 20NE
68369	59640 ChEBI	N-acetylglucosamine	-	assimilation	from API 20NE
68369	17632 ChEBI	nitrate	-	reduction	from API 20NE
32501	17822 ChEBI	serine	+	carbon source
32501	26986 ChEBI	threonine	+	carbon source
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
68369	16199 ChEBI	urea	-	hydrolysis	from API 20NE

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68369	35581 ChEBI	indole		from API 20NE

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
68369	35581 ChEBI	indole	-	from API 20NE

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
32501	alkaline phosphatase	+	3.1.3.1
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
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
68382	beta-galactosidase	-	3.2.1.23	from API zym
68382	beta-glucosidase	-	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
21191	catalase	+	1.11.1.6
32501	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
32501	cytochrome oxidase	+	1.9.3.1
68369	cytochrome oxidase	+	1.9.3.1	from API 20NE
21191	cytochrome-c oxidase	+	1.9.3.1
68382	esterase (C 4)	-		from API zym
68382	esterase lipase (C 8)	-		from API zym
68382	leucine arylamidase	-	3.4.11.1	from API zym
68382	lipase (C 14)	-		from API zym
68382	N-acetyl-beta-glucosaminidase	+	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	-		from API zym
68369	urease	-	3.5.1.5	from API 20NE
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
21191	-	+	-	-	-	-	-	-	+/-	-	+	-	-	-	-	-	-	+	-	-

API 20NE

@ref	Reduction of nitratesNO3	TRP	GLU_ Ferm	ADH (Arg)	URE	ESC	GEL	PNPG	GLU_ Assim	ARA	MNE	MAN	NAG	MAL	GNT	CAP	ADI	MLT	CIT	PAC	OX
21191	-	-	-	-	-	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	+
21191	-	-	-	-	-	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	not determinedn.d.
21191	-	-	-	-	-	-	-	-	+/-	+/-	-	-	-	-	+/-	-	-	-	-	-	not determinedn.d.

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Invertebrates (Other)	#Mollusca

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent
21191	chiton Acanthopleura japonica	Acanthopleura japonica	Chia, Katsuura	Japan	JPN	Asia
67771	From chitone, `Acanthopleura japonica`		Katsuura, Chiba	Japan	JPN	Asia

Taxonmaps

69479

Global distribution of 16S sequence AB303221 (>99% sequence identity) for Acanthopleuribacter pedis subclade from Microbeatlas

Aquatic Samples	1219
Soil Samples	60
Animal Samples	112
Plant Samples	12
Total Samples	1403

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
21191	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	Acanthopleuribacter pedis strain KCTC 12899	contig		442870.4		442870	55.03
66792	ASM1737785v1 assembly for Acanthopleuribacter pedis KCTC 12899	contig	GCA_017377855	442870.5	2932994958	442870	36.97

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
21191	Acanthopleuribacter pedis gene for 16S rRNA, partial sequence	AB303221	1453		442870

GC content

32501

GC-content (mol%)56.7

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Acanthopleuribacter pedis KCTC 12899
NCBI: GCA_017377855

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	95.40	no
125439	motility	BacteriaNetⓘ	no	55.60	no
125439	gram_stain	BacteriaNetⓘ	negative	86.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	63.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Acanthopleuribacter pedis strain KCTC 12899
PATRIC: 442870.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	90.00	no
125438	anaerobic	anaerobicⓘ	no	90.35	yes
125438	spore-forming	spore-formingⓘ	no	81.63	yes
125438	aerobic	aerobicⓘ	yes	73.79	no
125438	thermophilic	thermophileⓘ	no	88.88	yes
125438	flagellated	motile2+ⓘ	yes	69.78	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
	Life without a cell membrane: challenging the specificity of bacterial endophytes within Bryopsis (Bryopsidales, Chlorophyta).	Hollants J, Decleyre H, Leliaert F, De Clerck O, Willems A.	BMC Microbiol	10.1186/1471-2180-11-255	2011
Genetics	Comparative Genomics Reveal the Animal-Associated Features of the Acanthopleuribacteraceae Bacteria, and Description of Sulfidibacter corallicola gen. nov., sp., nov.	Wang G, Li Y, Liu J, Chen B, Su H, Liang J, Huang W, Yu K	Front Microbiol	10.3389/fmicb.2022.778535	2022
Phylogeny	Acanthopleuribacter pedis gen. nov., sp. nov., a marine bacterium isolated from a chiton, and description of Acanthopleuribacteraceae fam. nov., Acanthopleuribacterales ord. nov., Holophagaceae fam. nov., Holophagales ord. nov. and Holophagae classis nov. in the phylum 'Acidobacteria'.	Fukunaga Y, Kurahashi M, Yanagi K, Yokota A, Harayama S	Int J Syst Evol Microbiol	10.1099/ijs.0.65589-0	2008

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 )
#21191	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 28897
#32501	Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #28721 (see below)
#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;
#68369	Automatically annotated from API 20NE .
#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 .
#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 )

Rate our new design

Content

About us

Acanthopleuribacter pedis (DSM 28897, KCTC 12899, NBRC 101209)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Observation

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API zym

API 20NE

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_017377855

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

Help

Social Media