Salinispira pacifica (DSM 27196, JCM 18663, L21-RPul-D2)

Name: Salinispira pacifica (DSM 27196, JCM 18663, L21-RPul-D2)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 130689

Type strain

Strain Designation L21-RPul-D2

Culture col. no. DSM 27196 JCM 18663 L21-RPul-D2

NCBI tax ID(s) 1307761

Special Collections DSMZ JCM

History <- S. Spring, Leibniz-Institut DSMZ GmbH, Braunschweig, Germany; L21-RPul-D2 <- S. Spring; {2011} DSM 27196 <-- S. Spring; DSMZ, Germany; L21-RPul-D2.

Links

Salinispira pacifica L21-RPul-D2 is an anaerobe bacterium that was isolated from suboxic zone of a hypersaline microbial mat.

anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 407297

JCM 18663,DSM 27196

@ref 20215

Last LPSN update 2026-02-09 11:31:17

Domain Bacteria

Phylum Spirochaetota

Class Spirochaetia

Order Spirochaetales

Family Spirochaetaceae

Genus Salinispira

Species Salinispira pacifica

Full scientific name Salinispira pacifica Ben Hania et al. 2015

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	91.6

Colony morphology

22141

Incubation period2-3 days

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
22141	SALINISPIRA (L21 LS) MEDIUM (DSMZ Medium 1526)		Medium recipe at MediaDive	Name: SALINISPIRA (L21 LS) MEDIUM (DSMZ Medium 1526) Composition: MgCl2 x 6 H2O 5.93472 g/l Na2CO3 1.48368 g/l KCl 1.48368 g/l Yeast extract 0.98912 g/l Na2SO4 0.98912 g/l NH4Cl 0.98912 g/l Trypticase peptone 0.98912 g/l D-Glucose 0.98912 g/l Na2S x 9 H2O 0.49456 g/l L-Cysteine HCl x H2O 0.49456 g/l K2HPO4 0.395648 g/l MgSO4 x 7 H2O 0.0296736 g/l Nitrilotriacetic acid 0.0148368 g/l NaCl 0.0098912 g/l MnSO4 x H2O 0.0049456 g/l CoSO4 x 7 H2O 0.00178042 g/l ZnSO4 x 7 H2O 0.00178042 g/l FeSO4 x 7 H2O 0.00098912 g/l CaCl2 x 2 H2O 0.00098912 g/l Sodium resazurin 0.00049456 g/l NiCl2 x 6 H2O 0.000296736 g/l AlK(SO4)2 x 12 H2O 0.000197824 g/l CuSO4 x 5 H2O 9.8912e-05 g/l H3BO3 9.8912e-05 g/l Na2MoO4 x 2 H2O 9.8912e-05 g/l Pyridoxine hydrochloride 9.8912e-05 g/l Riboflavin 4.9456e-05 g/l Nicotinic acid 4.9456e-05 g/l p-Aminobenzoic acid 4.9456e-05 g/l (DL)-alpha-Lipoic acid 4.9456e-05 g/l Calcium D-(+)-pantothenate 4.9456e-05 g/l Thiamine HCl 4.9456e-05 g/l Folic acid 1.97824e-05 g/l Biotin 1.97824e-05 g/l Na2WO4 x 2 H2O 3.95648e-06 g/l Na2SeO3 x 5 H2O 2.96736e-06 g/l Vitamin B12 9.8912e-07 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
22141	positive	growth	35
67770	positive	growth	30

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
22141	anaerobe
125439	anaerobe	91.8

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	cellulose degradation	100	5 of 5
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	threonine metabolism	100	10 of 10
66794	octane oxidation	100	3 of 3
66794	palmitate biosynthesis	100	22 of 22
66794	ppGpp biosynthesis	100	4 of 4
66794	lipoate biosynthesis	100	5 of 5
66794	starch degradation	100	10 of 10
66794	adipate degradation	100	2 of 2
66794	L-lactaldehyde degradation	100	3 of 3
66794	coenzyme A metabolism	100	4 of 4
66794	sulfopterin metabolism	100	4 of 4
66794	folate polyglutamylation	100	1 of 1
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	suberin monomers biosynthesis	100	2 of 2
66794	chorismate metabolism	88.89	8 of 9
66794	CO2 fixation in Crenarchaeota	88.89	8 of 9
66794	d-mannose degradation	88.89	8 of 9
66794	NAD metabolism	88.89	16 of 18
66794	C4 and CAM-carbon fixation	87.5	7 of 8
66794	tetrahydrofolate metabolism	85.71	12 of 14
66794	photosynthesis	85.71	12 of 14
66794	glycolate and glyoxylate degradation	83.33	5 of 6
66794	hydrogen production	80	4 of 5
66794	glycogen metabolism	80	4 of 5
66794	Entner Doudoroff pathway	80	8 of 10
66794	peptidoglycan biosynthesis	80	12 of 15
66794	glutamate and glutamine metabolism	78.57	22 of 28
66794	purine metabolism	76.6	72 of 94
66794	gluconeogenesis	75	6 of 8
66794	isoleucine metabolism	75	6 of 8
66794	acetate fermentation	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	pyrimidine metabolism	73.33	33 of 45
66794	proline metabolism	72.73	8 of 11
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	reductive acetyl coenzyme A pathway	71.43	5 of 7
66794	glycolysis	70.59	12 of 17
66794	urea cycle	69.23	9 of 13
66794	methionine metabolism	69.23	18 of 26
66794	leucine metabolism	69.23	9 of 13
66794	phenylalanine metabolism	69.23	9 of 13
66794	alanine metabolism	68.97	20 of 29
66794	valine metabolism	66.67	6 of 9
66794	acetoin degradation	66.67	2 of 3
66794	cyanate degradation	66.67	2 of 3
66794	formaldehyde oxidation	66.67	2 of 3
66794	serine metabolism	66.67	6 of 9
66794	aspartate and asparagine metabolism	66.67	6 of 9
66794	non-pathway related	65.79	25 of 38
66794	glutathione metabolism	64.29	9 of 14
66794	citric acid cycle	64.29	9 of 14
66794	oxidative phosphorylation	63.74	58 of 91
66794	pentose phosphate pathway	63.64	7 of 11
66794	d-xylose degradation	63.64	7 of 11
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	methylglyoxal degradation	60	3 of 5
66794	propionate fermentation	60	6 of 10
66794	flavin biosynthesis	60	9 of 15
66794	metabolism of amino sugars and derivatives	60	3 of 5
66794	lysine metabolism	59.52	25 of 42
66794	propanol degradation	57.14	4 of 7
66794	ubiquinone biosynthesis	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	lipid metabolism	51.61	16 of 31
66794	tryptophan metabolism	50	19 of 38
66794	ketogluconate metabolism	50	4 of 8
66794	ethanol fermentation	50	1 of 2
66794	degradation of sugar alcohols	50	8 of 16
66794	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
66794	kanosamine biosynthesis II	50	1 of 2
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	CMP-KDO biosynthesis	50	2 of 4
66794	vitamin E metabolism	50	2 of 4
66794	butanoate fermentation	50	2 of 4
66794	resorcinol degradation	50	1 of 2
66794	biotin biosynthesis	50	2 of 4
66794	degradation of aromatic, nitrogen containing compounds	50	6 of 12
66794	phenylmercury acetate degradation	50	1 of 2
66794	degradation of pentoses	46.43	13 of 28
66794	isoprenoid biosynthesis	46.15	12 of 26
66794	arginine metabolism	45.83	11 of 24
66794	mevalonate metabolism	42.86	3 of 7
66794	glycine betaine biosynthesis	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	glycine metabolism	40	4 of 10
66794	polyamine pathway	39.13	9 of 23
66794	chlorophyll metabolism	38.89	7 of 18
66794	vitamin B1 metabolism	38.46	5 of 13
66794	vitamin B12 metabolism	38.24	13 of 34
66794	dTDPLrhamnose biosynthesis	37.5	3 of 8
66794	carotenoid biosynthesis	36.36	8 of 22
66794	tyrosine metabolism	35.71	5 of 14
66794	methane metabolism	33.33	1 of 3
66794	molybdenum cofactor biosynthesis	33.33	3 of 9
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	lipid A biosynthesis	33.33	3 of 9
66794	enterobactin biosynthesis	33.33	1 of 3
66794	nitrate assimilation	33.33	3 of 9
66794	IAA biosynthesis	33.33	1 of 3
66794	degradation of hexoses	33.33	6 of 18
66794	ascorbate metabolism	31.82	7 of 22
66794	myo-inositol biosynthesis	30	3 of 10
66794	coenzyme M biosynthesis	30	3 of 10
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	cholesterol biosynthesis	27.27	3 of 11
66794	carnitine metabolism	25	2 of 8
66794	lactate fermentation	25	1 of 4
66794	cyclohexanol degradation	25	1 of 4
66794	toluene degradation	25	1 of 4
66794	phenol degradation	25	5 of 20
66794	androgen and estrogen metabolism	25	4 of 16
66794	degradation of sugar acids	24	6 of 25
66794	phenylpropanoid biosynthesis	23.08	3 of 13
66794	allantoin degradation	22.22	2 of 9
66794	4-hydroxymandelate degradation	22.22	2 of 9
66794	heme metabolism	21.43	3 of 14

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Microbial community	#Microbial mat
#Condition	#Saline	-

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude
22141	suboxic zone of a hypersaline microbial mat	Kiritimati, Lake 21	Kiribati	KIR	Australia and Oceania	1.9645	-157.334 1.9645/-157.334
67770	Suboxic zone of a hypersaline microbial mat at the shore of Lake 21	Kiritimati	Kiribati	KIR	Australia and Oceania

Taxonmaps

69479

Global distribution of 16S sequence KC665949 (>99% sequence identity) for Salinispira pacifica subclade from Microbeatlas

Aquatic Samples	1240
Soil Samples	163
Animal Samples	37
Plant Samples	45
Total Samples	1485

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
22141	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	ASM50724v1 assembly for Salinispira pacifica L21-RPul-D2	complete	GCA_000507245	1307761.12	2556921662	1307761	98.72

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
22141	Salinispira pacifica strain L21-RPul-D2 16S ribosomal RNA gene, partial sequence	KC665949	1501		1307761

GC content

@ref	GC-content (mol%)	Method
22141	51.9	sequence analysis
67770	51.9	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Salinispira pacifica L21-RPul-D2
IMG: 2556921662

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	89.10	no
125439	motility	BacteriaNetⓘ	no	67.30	no
125439	gram_stain	BacteriaNetⓘ	negative	91.60	no
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	91.80	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Salinispira pacifica L21-RPul-D2
NCBI: GCA_000507245.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	81.60	no
125438	anaerobic	anaerobicⓘ	yes	71.51	yes
125438	aerobic	aerobicⓘ	no	76.78	yes
125438	spore-forming	spore-formingⓘ	no	77.43	no
125438	thermophilic	thermophileⓘ	no	88.77	yes
125438	flagellated	motile2+ⓘ	yes	64.34	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Complete genome sequence and description of Salinispira pacifica gen. nov., sp. nov., a novel spirochaete isolated form a hypersaline microbial mat.	Ben Hania W, Joseph M, Schumann P, Bunk B, Fiebig A, Sproer C, Klenk HP, Fardeau ML, Spring S	Stand Genomic Sci	10.1186/1944-3277-10-7	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 )
#22141	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 27196
#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) .
#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;
#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 )

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Salinispira pacifica (DSM 27196, JCM 18663, L21-RPul-D2)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000507245

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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