Occallatibacter riparius (DSM 25168, LMG 26948, 277)

Name: Occallatibacter riparius (DSM 25168, LMG 26948, 277)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 132351

Type strain

Strain Designation 277

Culture col. no. DSM 25168 LMG 26948 277

NCBI tax ID(s) 1002689

Special Collections DSMZ Literature strains

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Occallatibacter riparius 277 is an obligate aerobe, chemoorganotroph, Gram-negative prokaryote that has multiple antibiotic resistances and was isolated from sandy river-bank soil covered with water and grown with the wild rice species Oryza longistaminata.

antibiotic resistance Gram-negative motile rod-shaped obligate aerobe chemoorganotroph genome sequence 16S sequence

Name and taxonomic classification

SI-ID 379789

LMG 26948,DSM 25168

@ref 20215

Last LPSN update 2025-12-16 10:01:29

Domain Pseudomonadati

Phylum Acidobacteriota

Class Terriglobia

Order Terriglobales

Family Acidobacteriaceae

Genus Occallatibacter

Species Occallatibacter riparius

Full scientific name Occallatibacter riparius Foesel et al. 2016

BacDive ID	Other strains from **Occallatibacter riparius** (1)	Type strain
132352	O. riparius 307, DSM 25169, LMG 26947

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility	Confidence
44065	negative	1.0-2.0 µm	0.6-0.7 µm	rod-shaped
125439	negative					94.5

Colony morphology

@ref	Colony size	Colony color	Medium used
44065	2 mm	white-cream-pink	SSE/HD

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
44065	SSE/HD			1:10
24140	SSE/HD1:10 (DSMZ Medium 1426)		Medium recipe at MediaDive	Name: SSE/HD 1:10 MEDIUM (DSMZ Medium 1426) Composition: MES 1.95 g/l Peptone 0.5 g/l CaSO4 x 2 H2O 0.4303 g/l MgSO4 x 7 H2O 0.3695 g/l Yeast extract 0.25 g/l Na NO3 0.212 g/l CaCl2 x 2 H2O 0.1469 g/l Ca(NO3)2 x 4 H2O 0.118 g/l MgCl2 x 6 H2O 0.1018 g/l Glucose 0.1 g/l (NH4)2SO4 0.09915 g/l NH4Cl 0.05345 g/l K2SO4 0.0435 g/l FeSO4 x 7 H2O 0.00555 g/l KH2PO4 0.00340213 g/l HCl 0.0025 g/l FeCl2 x 4 H2O 0.0015 g/l CoCl2 x 6 H2O 0.00019 g/l MnCl2 x 4 H2O 0.0001 g/l ZnCl2 7e-05 g/l Na2MoO4 x 2 H2O 3.6e-05 g/l NiCl2 x 6 H2O 2.4e-05 g/l Pyridoxine hydrochloride 1e-05 g/l H3BO3 6e-06 g/l Lipoic acid 5e-06 g/l D-Calcium pantothenate 5e-06 g/l Nicotinic acid 5e-06 g/l Riboflavin 5e-06 g/l Thiamine-HCl x 2 H2O 5e-06 g/l p-Aminobenzoic acid 5e-06 g/l Folic acid 2e-06 g/l Biotin 2e-06 g/l CuCl2 x 2 H2O 2e-06 g/l Vitamin B12 1e-07 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
24140	positive	growth	28	mesophilic
44065	positive	growth	11-40
44065	positive	optimum	26-37	mesophilic

Culture pH

@ref	Ability	Type	PH	PH range
44065	positive	optimum	5.0-6.5
44065	positive	growth	3.5-8.5	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
44065	obligate aerobe
125439	obligate aerobe	99

Nutrition type

44065

Typechemoorganotroph

Antibiotic susceptibility testing

	Test 1
@ref	24140
Medium	M 1426
Incubation temperature	28
Oxygen condition	aerob
Manual_annotation	1
	Inhibition zone diameter in mm
Penicillin G	0
Oxacillin	0
Ampicillin	0
Ticarcillin	0
Mezlocillin	0
Cefalotin	0
Cefazolin	0
Cefotaxime	0
Aztreonam	0
Imipenem	0
Tetracycline	0
Chloramphenicol	0
Gentamicin	0
Amikacin	0
Vancomycin	0
Erythromycin	0
Lincomycin	0
Ofloxacin	0
Norfloxacin	0
Colistin	0
Pipemidic acid	6
Nitrofurantoin	0
Bacitracin	0
Polymyxin b	0
Kanamycin	0
Neomycin	0
Doxycycline	0
Ceftriaxone	0
Clindamycin	0
Fosfomycin	>50
Moxifloxacin	0
Linezolid	0
Nystatin	0
Quinupristin/dalfopristin	0
Teicoplanin	>50
Piperacillin/tazobactam	0

Spore formation

@ref	Type of spore	Spore formation
44065	spore

Halophily

@ref	Salt	Growth	Tested relation	Concentration
44065	NaCl	positive	growth	0-1 %(w/v)
44065	NaCl	positive	optimum	0.5 %(w/v)

Observation

44065

Observationbinary fission

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
44065	30089 ChEBI	acetate	+	growth
68369	17128 ChEBI	adipate	-	assimilation	from API 20NE
44065	16449 ChEBI	alanine	-	growth
44065	22605 ChEBI	arabinitol	-	growth
44065	22599 ChEBI	arabinose	-	growth
44065	29016 ChEBI	arginine	+	growth
68369	29016 ChEBI	arginine	-	hydrolysis	from API 20NE
44065	35391 ChEBI	aspartate	+	growth
44065	28885 ChEBI	butanol	-	growth
44065	17968 ChEBI	butyrate	-	growth
44065		casamino acids	+	growth
44065		casein hydrolysate	+	growth
44065	17057 ChEBI	cellobiose	+	growth
44065	62968 ChEBI	cellulose	-	growth
44065	17029 ChEBI	chitin	-	growth
44065	16947 ChEBI	citrate	-	growth
44065	35899 ChEBI	crotonate	-	growth
44065	15356 ChEBI	cysteine	-	growth
68369	17634 ChEBI	D-glucose	-	assimilation	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
44065	4853 ChEBI	esculin	+	hydrolysis
68369	4853 ChEBI	esculin	+	hydrolysis	from API 20NE
44065	16236 ChEBI	ethanol	-	growth
44065	15740 ChEBI	formate	-	growth
44065	28757 ChEBI	fructose	+	growth
44065	33984 ChEBI	fucose	+	growth
44065	29806 ChEBI	fumarate	-	growth
44065	28260 ChEBI	galactose	+	growth
44065	5291 ChEBI	gelatin	+	hydrolysis
68369	5291 ChEBI	gelatin	-	hydrolysis	from API 20NE
44065	24265 ChEBI	gluconate	+	growth
68369	24265 ChEBI	gluconate	-	assimilation	from API 20NE
44065	17234 ChEBI	glucose	+	growth
44065	29987 ChEBI	glutamate	+	growth
44065	17754 ChEBI	glycerol	+	growth
44065	15428 ChEBI	glycine	-	growth
44065	29805 ChEBI	glycolate	-	growth
44065	27570 ChEBI	histidine	-	growth
44065	24741 ChEBI	hydroxyproline	-	growth
44065	24898 ChEBI	isoleucine	-	growth
44065	48942 ChEBI	isovalerate	-	growth
68369	30849 ChEBI	L-arabinose	-	assimilation	from API 20NE
44065	24996 ChEBI	lactate	-	growth
44065	17716 ChEBI	lactose	+	growth
44065	6364 ChEBI	laminarin	+	growth
44065	25017 ChEBI	leucine	-	growth
44065	25094 ChEBI	lysine	+	growth
44065	25097 ChEBI	lyxose	-	growth
44065	25115 ChEBI	malate	-	growth
68369	25115 ChEBI	malate	-	assimilation	from API 20NE
44065	15792 ChEBI	malonate	-	growth
44065	17306 ChEBI	maltose	+	growth
68369	17306 ChEBI	maltose	-	assimilation	from API 20NE
44065	29864 ChEBI	mannitol	-	growth
44065	37684 ChEBI	mannose	+	growth
44065	6731 ChEBI	melezitose	+	growth
44065	17790 ChEBI	methanol	-	growth
44065	16811 ChEBI	methionine	-	growth
44065	17268 ChEBI	myo-inositol	-	growth
68369	59640 ChEBI	N-acetylglucosamine	-	assimilation	from API 20NE
44065	32544 ChEBI	nicotinate	-	growth
68369	17632 ChEBI	nitrate	-	reduction	from API 20NE
44065	18257 ChEBI	ornithine	+	growth
44065	16452 ChEBI	oxaloacetate	-	growth
44065	17309 ChEBI	pectin	-	growth
44065		peptone	+	growth
44065	28044 ChEBI	phenylalanine	-	growth
44065	26271 ChEBI	proline	-	growth
44065	28831 ChEBI	propanol	-	growth
44065	17272 ChEBI	propionate	-	growth
44065	15361 ChEBI	pyruvate	-	growth
44065	16634 ChEBI	raffinose	+	growth
44065	26546 ChEBI	rhamnose	+	growth
44065	15963 ChEBI	ribitol	-	growth
44065	17822 ChEBI	serine	-	growth
44065	30911 ChEBI	sorbitol	+	growth
44065	27922 ChEBI	sorbose	-	growth
44065	28017 ChEBI	starch	+	growth
44065	30031 ChEBI	succinate	+	growth
44065	17992 ChEBI	sucrose	+	growth
44065	30929 ChEBI	tartrate	-	growth
44065	26986 ChEBI	threonine	-	growth
44065	27082 ChEBI	trehalose	+	growth
44065	27897 ChEBI	tryptophan	-	growth
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
44065	53426 ChEBI	tween 80	-	growth
44065	18186 ChEBI	tyrosine	+	growth
68369	16199 ChEBI	urea	-	hydrolysis	from API 20NE
44065	27266 ChEBI	valine	-	growth
44065	37166 ChEBI	xylan	-	growth
44065	17151 ChEBI	xylitol	-	growth
44065	18222 ChEBI	xylose	+	growth
44065		yeast extract	+	growth

Antibiotic resistance

@ref	ChEBI	Metabolite	Resistance conc.
24140	2637	Amikacin	30 µg (disc)	from Antibiotic test
24140	28971	Ampicillin	10 µg (disc)	from Antibiotic test
24140	161680	Aztreonam	30 µg (disc)	from Antibiotic test
24140	28669	Bacitracin	10 Unit	from Antibiotic test
24140	124991	Cefalotin	30 µg (disc)	from Antibiotic test
24140	474053	Cefazolin	30 µg (disc)	from Antibiotic test
24140	204928	Cefotaxime	30 µg (disc)	from Antibiotic test
24140	29007	Ceftriaxone	30 µg (disc)	from Antibiotic test
24140	17698	Chloramphenicol	30 µg (disc)	from Antibiotic test
24140	3745	Clindamycin	10 µg (disc)	from Antibiotic test
24140	37943	Colistin	10 µg (disc)	from Antibiotic test
24140	50845	Doxycycline	30 µg (disc)	from Antibiotic test
24140	48923	Erythromycin	15 µg (disc)	from Antibiotic test
24140	17833	Gentamycin	10 µg (disc)	from Antibiotic test
24140	471744	Imipenem	10 µg (disc)	from Antibiotic test
24140	6104	Kanamycin	30 µg (disc)	from Antibiotic test
24140	6472	Lincomycin	15 µg (disc)	from Antibiotic test
24140	63607	Linezolid	10 µg (disc)	from Antibiotic test
24140	6919	Mezlocillin	30 µg (disc)	from Antibiotic test
24140	63611	Moxifloxacin	5 µg (disc)	from Antibiotic test
24140	7507	Neomycin	30 µg (disc)	from Antibiotic test
24140	71415	Nitrofurantoin	100 µg (disc)	from Antibiotic test
24140	100246	Norfloxacin	10 µg (disc)	from Antibiotic test
24140	7660	Nystatin	100 Unit	from Antibiotic test
24140	7731	Ofloxacin	5 µg (disc)	from Antibiotic test
24140	7809	Oxacillin	5 µg (disc)	from Antibiotic test
24140	18208	Penicillin G	6 µg (disc)	from Antibiotic test
24140		Piperacillin/Tazobactam	40 µg (disc)	from Antibiotic test
24140	8309	Polymyxin B	300 Unit	from Antibiotic test
24140		Quinupristin/Dalfopristin	15 µg (disc)	from Antibiotic test
24140	27902	Tetracycline	30 µg (disc)	from Antibiotic test
24140	9587	Ticarcillin	75 µg (disc)	from Antibiotic test
24140	28001	Vancomycin	30 µg (disc)	from Antibiotic test

Metabolite production

@ref	Chebi-ID	Metabolite
44065	15688 ChEBI	acetoin
44065	35581 ChEBI	indole
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
44065	acid phosphatase	+	3.1.3.2
44065	alkaline phosphatase	+	3.1.3.1
44065	alpha-chymotrypsin	+/-	3.4.21.1
44065	alpha-fucosidase	+	3.2.1.51
44065	alpha-galactosidase	+	3.2.1.22
44065	alpha-glucosidase	+/-	3.2.1.20
44065	alpha-mannosidase	+/-	3.2.1.24
44065	arginine dihydrolase	-	3.5.3.6
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
44065	beta-galactosidase	+	3.2.1.23
44065	beta-glucosidase	+	3.2.1.21
68369	beta-glucosidase	+	3.2.1.21	from API 20NE
44065	beta-glucuronidase	+	3.2.1.31
44065	catalase	+	1.11.1.6
44065	cystine arylamidase	+/-	3.4.11.3
44065	cytochrome oxidase	+	1.9.3.1
44065	esterase (C 4)	+
44065	esterase Lipase (C 8)	+
68369	gelatinase	-		from API 20NE
44065	leucine arylamidase	+	3.4.11.1
44065	lipase (C 14)	+/-
44065	N-acetyl-beta-glucosaminidase	+	3.2.1.52
44065	naphthol-AS-BI-phosphohydrolase	+
44065	trypsin	+/-	3.4.21.4
44065	urease	-	3.5.1.5
68369	urease	-	3.5.1.5	from API 20NE
44065	valine arylamidase	+

Fatty acid profile

Metadata FA analysis

@ref

44065

Fatty acid	Percentage
C15:0-iso	61.9
C17:1-iso-ω7c	29
C17:0-iso	5.3
C17:0 anteiso	1.1
C15:1-iso_H / 13:0-3OH	0.7
C17:1-iso-I / anteiso-C17:1-B	0.6
C16:0	0.5
C16:0-iso	0.4
C16:1ω7c / 15:0-iso-2-OH	0.4

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
24140	-	-	-	-	-	+	-	+	-	-	-	-	-	-	-	-	-	-	-	-	not determinedn.d.

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Environmental	#Aquatic	#River (Creek)
#Environmental	#Terrestrial	#Sandy
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Sampling date	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude	Enrichment culture	Enrichment culture composition	Enrichment culture duration	Enrichment culture temperature	Isolation procedure	Host species
24140	sandy river-bank soil covered with water and grown with the wild rice species Oryza longistaminata		North-East, Okavango river (17° 51' 59'' S 19° 54' 24'' E, 1065 m above sea level)	Namibia	NAM	Africa	-17.8664	19.9067 -17.8664/19.9067						Oryza longistaminata
44065	sandy river-bank soil	2010	Okavango River	Namibia	NAM	Africa	-17.8664	19.9067 -17.8664/19.9067	soil solution equivalent (SSE)/Cmix medium	pH 5.8 with MES	6-8 weeks	15	high-throughput cultivation experiments set up in sterile 96-well microtitre plates

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
24140	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	ASM2526462v1 assembly for Occallatibacter riparius DSM 25168	complete	GCA_025264625	1002689.3	8047753082	1002689	96.44

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
24140	Occallatibacter riparius strain 277 16S ribosomal RNA gene, partial sequence	HQ995659	1463		1002689

GC content

@ref	GC-content (mol%)	Method
24140	59.6	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Occallatibacter riparius strain DSM 25168
PATRIC: 1002689.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.00	no
125439	gram_stain	BacteriaNetⓘ	negative	94.50	no
125439	motility	BacteriaNetⓘ	no	73.50	no
125439	spore_formation	BacteriaNetⓘ	no	77.10	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Occallatibacter riparius DSM 25168
NCBI: GCA_025264625.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	86.42	no
125438	anaerobic	anaerobicⓘ	no	88.39	yes
125438	aerobic	aerobicⓘ	yes	83.33	yes
125438	spore-forming	spore-formingⓘ	no	81.88	yes
125438	thermophilic	thermophileⓘ	no	93.66	yes
125438	flagellated	motile2+ⓘ	yes	50.56	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	deep-Sep: a deep learning-based method for fast and accurate prediction of selenoprotein genes in bacteria.	Xiao Y, Zhang Y.	mSystems	10.1128/msystems.01258-24	2025
Phylogeny	Occallatibacter riparius gen. nov., sp. nov. and Occallatibacter savannae sp. nov., acidobacteria isolated from Namibian soils, and emended description of the family Acidobacteriaceae.	Foesel BU, Mayer S, Luckner M, Wanner G, Rohde M, Overmann J	Int J Syst Evol Microbiol	10.1099/ijsem.0.000700	2015

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 )
#24140	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 25168
#44065	Bärbel U. Foesel, Susanne Mayer, Manja Luckner, Gerhard Wanner, Manfred Rohde and Jörg Overmann: Occallatibacter riparius gen. nov., sp. nov. and Occallatibacter savannae sp. nov., acidobacteria isolated from Namibian soils, and emended description of the family Acidobacteriaceae. IJSEM 66: 219 - 229 2016 ( DOI 10.1099/ijsem.0.000700 , PubMed 26486590 )
#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) .
#68369	Automatically annotated from API 20NE .
#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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Occallatibacter riparius (DSM 25168, LMG 26948, 277)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Nutrition type

Antibiotic susceptibility testing

Spore formation

Halophily

Observation

Metabolite utilization

Antibiotic resistance

Metabolite production

Metabolite tests

Enzymes

Fatty acid profile?

API 20NE

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_025264625

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

Help

Social Media

Fatty acid profile