Loktanella salsilacus (DSM 16199, LMG 21507, R-8904)

Name: Loktanella salsilacus (DSM 16199, LMG 21507, R-8904)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 13672

Type strain

Strain Designation R-8904

Culture col. no. DSM 16199 LMG 21507 R-8904 NBRC 102486 IAM 15181 2 more

NCBI tax ID(s) 195913

Special Collections DSMZ JCM CIP Literature strains

History DSMZ <- J. Mergaert, Univ. Ghent, Belgium; R-8904 JCM <-- IAM 15181 <-- LMG 21507 <-- J. Mergaert R-8904. CIP <- 2004, S. Van Trappen, Ghent Univ., Ghent, Belgium <- 2002, J. Mergaert, Ghent Univ., Ghent, Belgium: strain R-8904

Links

Loktanella salsilacus R-8904 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from microbial mat.

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

Name and taxonomic classification

SI-ID 22684

LMG 21507,CIP 108322,DSM 16199,NBRC 102486,IAM 15181,JCM 21636

@ref 20215

Last LPSN update 2026-05-29 08:28:06

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Rhodobacterales

Family Roseobacteraceae

Genus Loktanella

Species Loktanella salsilacus

Full scientific name Loktanella salsilacus Van Trappen et al. 2004

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
30155	negative	3.5 µm	1 µm	rod-shaped
125438	negative				97.982
122405	negative			rod-shaped

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
6321	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
37382	Marine agar (MA)		Distilled water make up to (1000.000 ml);Marine agar (55.100 g)
122405	CIP Medium 13	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
6321	positive	growth	20
30155	positive	growth	5.0-30
30155	positive	optimum	25
37382	positive	growth	25
67770	positive	growth	25
122405	positive	growth	15-30
122405	negative	growth	5
122405	negative	growth	37
122405	negative	growth	41

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
30155	aerobe
125439	obligate aerobe	94.507

Spore formation

@ref	Spore formation	Confidence
30155
125439		99.156

Halophily

@ref	Salt	Growth	Tested relation	Concentration
30155	NaCl	positive	growth	0.0-10 %
30155	NaCl	positive	optimum	2.5 %
122405	NaCl		growth	0 %
122405	NaCl		growth	2 %
122405	NaCl		growth	4 %
122405	NaCl		growth	6 %
122405	NaCl		growth	8 %
122405	NaCl		growth	10 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
122405	16947 ChEBI	citrate	-	carbon source
30155	4853 ChEBI	esculin	+	hydrolysis
122405	4853 ChEBI	esculin	+	hydrolysis
122405	17234 ChEBI	glucose	-	degradation
122405	17632 ChEBI	nitrate	-	reduction
122405	16301 ChEBI	nitrite	-	reduction
122405	132112 ChEBI	sodium thiosulfate	-	builds gas from
30155	53426 ChEBI	tween 80	+	carbon source

Metabolite production

@ref	Chebi-ID	Metabolite	Production
122405	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test
122405	15688 ChEBI	acetoin	-
122405	17234 ChEBI	glucose		-

Enzymes

@ref	Value	Activity	Ec
30155	acid phosphatase	+	3.1.3.2
68382	acid phosphatase	+	3.1.3.2	from API zym
122405	alcohol dehydrogenase	-	1.1.1.1
30155	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
30155	alpha-galactosidase	+	3.2.1.22
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
122405	amylase	-
68382	beta-galactosidase	+	3.2.1.23	from API zym
122405	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
122405	caseinase	-	3.4.21.50
30155	catalase	+	1.11.1.6
122405	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
30155	cytochrome oxidase	+	1.9.3.1
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
122405	gamma-glutamyltransferase	+	2.3.2.2
122405	gelatinase	-
122405	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
122405	lipase	-
68382	lipase (C 14)	-		from API zym
122405	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
122405	ornithine decarboxylase	-	4.1.1.17
122405	oxidase	+
122405	phenylalanine ammonia-lyase	-	4.3.1.24
68382	trypsin	-	3.4.21.4	from API zym
122405	tryptophan deaminase	-
122405	tween esterase	+
122405	urease	-	3.5.1.5
68382	valine arylamidase	-		from API zym

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	reductive acetyl coenzyme A pathway	100	7 of 7
66794	alginate biosynthesis	100	4 of 4
66794	gluconeogenesis	100	8 of 8
66794	C4 and CAM-carbon fixation	100	8 of 8
66794	palmitate biosynthesis	100	22 of 22
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	octane oxidation	100	3 of 3
66794	Entner Doudoroff pathway	100	10 of 10
66794	suberin monomers biosynthesis	100	2 of 2
66794	adipate degradation	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	folate polyglutamylation	100	1 of 1
66794	ppGpp biosynthesis	100	4 of 4
66794	formaldehyde oxidation	100	3 of 3
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	coenzyme A metabolism	100	4 of 4
66794	methylglyoxal degradation	100	5 of 5
66794	pentose phosphate pathway	90.91	10 of 11
66794	threonine metabolism	90	9 of 10
66794	myo-inositol biosynthesis	90	9 of 10
66794	molybdenum cofactor biosynthesis	88.89	8 of 9
66794	serine metabolism	88.89	8 of 9
66794	valine metabolism	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	lipid A biosynthesis	88.89	8 of 9
66794	vitamin B12 metabolism	88.24	30 of 34
66794	ketogluconate metabolism	87.5	7 of 8
66794	glutathione metabolism	85.71	12 of 14
66794	vitamin B1 metabolism	84.62	11 of 13
66794	phenylalanine metabolism	84.62	11 of 13
66794	alanine metabolism	82.76	24 of 29
66794	pyrimidine metabolism	82.22	37 of 45
66794	proline metabolism	81.82	9 of 11
66794	phenylacetate degradation (aerobic)	80	4 of 5
66794	ethylmalonyl-CoA pathway	80	4 of 5
66794	vitamin K metabolism	80	4 of 5
66794	peptidoglycan biosynthesis	80	12 of 15
66794	purine metabolism	79.79	75 of 94
66794	glutamate and glutamine metabolism	78.57	22 of 28
66794	citric acid cycle	78.57	11 of 14
66794	photosynthesis	78.57	11 of 14
66794	NAD metabolism	77.78	14 of 18
66794	d-mannose degradation	77.78	7 of 9
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	allantoin degradation	77.78	7 of 9
66794	leucine metabolism	76.92	10 of 13
66794	urea cycle	76.92	10 of 13
66794	sulfopterin metabolism	75	3 of 4
66794	CMP-KDO biosynthesis	75	3 of 4
66794	butanoate fermentation	75	3 of 4
66794	isoleucine metabolism	75	6 of 8
66794	acetate fermentation	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	degradation of sugar alcohols	75	12 of 16
66794	methionine metabolism	73.08	19 of 26
66794	d-xylose degradation	72.73	8 of 11
66794	heme metabolism	71.43	10 of 14
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	ubiquinone biosynthesis	71.43	5 of 7
66794	lysine metabolism	71.43	30 of 42
66794	lipid metabolism	70.97	22 of 31
66794	arginine metabolism	70.83	17 of 24
66794	non-pathway related	68.42	26 of 38
66794	degradation of sugar acids	68	17 of 25
66794	glycolate and glyoxylate degradation	66.67	4 of 6
66794	flavin biosynthesis	66.67	10 of 15
66794	sulfoquinovose degradation	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	cyanate degradation	66.67	2 of 3
66794	aspartate and asparagine metabolism	66.67	6 of 9
66794	methane metabolism	66.67	2 of 3
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	4-hydroxymandelate degradation	66.67	6 of 9
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	glycolysis	64.71	11 of 17
66794	tyrosine metabolism	64.29	9 of 14
66794	degradation of pentoses	64.29	18 of 28
66794	tetrahydrofolate metabolism	64.29	9 of 14
66794	oxidative phosphorylation	63.74	58 of 91
66794	vitamin B6 metabolism	63.64	7 of 11
66794	dTDPLrhamnose biosynthesis	62.5	5 of 8
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	carnitine metabolism	62.5	5 of 8
66794	phosphatidylethanolamine bioynthesis	61.54	8 of 13
66794	isoprenoid biosynthesis	61.54	16 of 26
66794	degradation of hexoses	61.11	11 of 18
66794	tryptophan metabolism	60.53	23 of 38
66794	gallate degradation	60	3 of 5
66794	propionate fermentation	60	6 of 10
66794	glycogen metabolism	60	3 of 5
66794	starch degradation	60	6 of 10
66794	glycine betaine biosynthesis	60	3 of 5
66794	degradation of aromatic, nitrogen containing compounds	58.33	7 of 12
66794	propanol degradation	57.14	4 of 7
66794	cysteine metabolism	55.56	10 of 18
66794	histidine metabolism	55.17	16 of 29
66794	metabolism of disaccharids	54.55	6 of 11
66794	sulfate reduction	53.85	7 of 13
66794	3-phenylpropionate degradation	53.33	8 of 15
66794	polyamine pathway	52.17	12 of 23
66794	kanosamine biosynthesis II	50	1 of 2
66794	ribulose monophosphate pathway	50	1 of 2
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	androgen and estrogen metabolism	50	8 of 16
66794	ethanol fermentation	50	1 of 2
66794	glycine metabolism	50	5 of 10
66794	toluene degradation	50	2 of 4
66794	selenocysteine biosynthesis	50	3 of 6
66794	phenol degradation	50	10 of 20
66794	cyclohexanol degradation	50	2 of 4
66794	4-hydroxyphenylacetate degradation	50	5 of 10
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	phenylmercury acetate degradation	50	1 of 2
66794	nitrate assimilation	44.44	4 of 9
66794	benzoyl-CoA degradation	42.86	3 of 7
66794	creatinine degradation	40	2 of 5
66794	cellulose degradation	40	2 of 5
66794	factor 420 biosynthesis	40	2 of 5
66794	coenzyme M biosynthesis	40	4 of 10
66794	hydrogen production	40	2 of 5
66794	3-chlorocatechol degradation	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	lipoate biosynthesis	40	2 of 5
66794	metabolism of amino sugars and derivatives	40	2 of 5
66794	arachidonic acid metabolism	38.89	7 of 18
66794	ascorbate metabolism	36.36	8 of 22
66794	bile acid biosynthesis, neutral pathway	35.29	6 of 17
66794	IAA biosynthesis	33.33	1 of 3
66794	pantothenate biosynthesis	33.33	2 of 6
66794	sphingosine metabolism	33.33	2 of 6
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	enterobactin biosynthesis	33.33	1 of 3
66794	carotenoid biosynthesis	31.82	7 of 22
66794	mevalonate metabolism	28.57	2 of 7
66794	cholesterol biosynthesis	27.27	3 of 11
66794	lactate fermentation	25	1 of 4
66794	chlorophyll metabolism	22.22	4 of 18

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
122405	-	+	+	+	-	+	-	-	-	-	+	+	+	+	-	+	+	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Microbial community	#Microbial mat

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Isolation date
6321	microbial mat	Lake Ace Vestfold Hills			Australia and Oceania
67770	Microbial mat from Ace Lake in the Vestfold Hills		Antarctica	ATA	Antarctica
122405	Microbial material	Ace lake, Vestfold hills	Antarctica	ATA	Antarctica	1999

Taxonmaps

69479

Global distribution of 16S sequence DQ915610 (>99% sequence identity) for Loktanella salsilacus from Microbeatlas

Aquatic Samples	4218
Soil Samples	383
Animal Samples	272
Plant Samples	64
Total Samples	4937

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
6321	1	Risk group (German classification) According to TRBA 466
122405	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	IMG-taxon 2622736595 annotated assembly for Loktanella salsilacus DSM 16199	contig	GCA_900114485	195913.7	2622736595	195913	61.76

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Loktanella salsilacus strain LMG21507 16S ribosomal RNA gene, partial sequence	DQ915610	1306	195913
6321	Loktanella salsilacus partial 16S rRNA gene, type strain LMG 21507T	AJ440997	1415	195913
124043	Loktanella salsilacus gene for 16S rRNA, partial sequence, strain: NBRC 102486.	AB681825	1388	195913

GC content

@ref	GC-content (mol%)	Method
6321	59.4
30155	59.9
67770	60.4	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: IMG-taxon 2622736595 annotated assembly for Loktanella salsilacus DSM 16199
BV-BRC: 195913.7

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	94.51	no
125439	gram_stain	BacteriaNetⓘ	negative	86.25	no
125439	motility	BacteriaNetⓘ	yes	59.34	no
125439	spore_formation	BacteriaNetⓘ	no	99.16	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Loktanella salsilacus strain DSM 16199
PATRIC: 195913.7

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.98	yes
125438	anaerobic	anaerobicⓘ	no	93.48	no
125438	spore-forming	spore-formingⓘ	no	89.90	yes
125438	aerobic	aerobicⓘ	yes	86.24	no
125438	thermophilic	thermophileⓘ	no	96.61	yes
125438	flagellated	motile2+ⓘ	yes	53.06	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Vitamin B₁₂ is not shared by all marine prototrophic bacteria with their environment.	Sultana S, Bruns S, Wilkes H, Simon M, Wienhausen G.	ISME J	10.1038/s41396-023-01391-3	2023
Phylogeny	Loktanella salsilacus gen. nov., sp. nov., Loktanella fryxellensis sp. nov. and Loktanella vestfoldensis sp. nov., new members of the Rhodobacter group, isolated from microbial mats in Antarctic lakes.	Van Trappen S, Mergaert J, Swings J	Int J Syst Evol Microbiol	10.1099/ijs.0.03006-0	2004

References

#6321	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 16199
#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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#26506	IJSEM 1263 2004 ( DOI 10.1099/ijs.0.03006-0 , PubMed 15280301 )
#30155	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 #26506
#37382	; Curators of the CIP;
#66794	Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )
#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 .
#122405	Collection of Institut Pasteur ; Curators of the CIP; CIP 108322
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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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Loktanella salsilacus (DSM 16199, LMG 21507, R-8904)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

Pathway annotation

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900114485

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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