Lysinibacillus odysseyi (DSM 18869, ATCC PTA-4993, CIP 108263)

Name: Lysinibacillus odysseyi (DSM 18869, ATCC PTA-4993, CIP 108263)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 1537

Type strain

Strain Designation 34hs-1

Culture col. no. DSM 18869 ATCC PTA-4993 CIP 108263 KCTC 3961 NBRC 100172 2 more

NCBI tax ID(s) 1220589 202611

Special Collections DSMZ KCTC CIP Literature strains

History <- CIP <- K. Venkateswaran; 34hs-1 CIP <- 2004, K. Venkateswaran, Passadena, USA: strain 34hs-1

Links

Lysinibacillus odysseyi 34hs-1 is an aerobe, spore-forming, mesophilic prokaryote that was isolated from Mars Odyssey spacecraft.

spore-forming Gram-positive motile rod-shaped aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 129635

NBRC 100172,NRRL B-30641,KCTC 3961,DSM 18869,LMG 24110,CIP 108263

@ref 20215

Last LPSN update 2026-02-09 11:18:07

Domain Bacteria

Phylum Bacillota

Class Bacilli

Order Caryophanales

Family Caryophanaceae

Genus Lysinibacillus

Species Lysinibacillus odysseyi

Full scientific name Lysinibacillus odysseyi (La Duc et al. 2004) Jung et al. 2012

Synonyms (1)

Bacillus odysseyi

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
29961	positive	04-05 µm	1 µm	rod-shaped
121397	positive			rod-shaped
125439					90.4

Colony morphology

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
7756	NUTRIENT AGAR (DSMZ Medium 1)	Medium recipe at MediaDive	Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
38265	Marine agar (MA)		Distilled water make up to (1000.000 ml);Marine agar (55.100 g)
121397	CIP Medium 72	Medium recipe at CIP
121397	CIP Medium 13	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
7756	positive	growth	30	mesophilic
29961	positive	growth	25-42
29961	positive	optimum	30-35	mesophilic
38265	positive	growth	30	mesophilic
121397	positive	growth	22-45
121397	negative	growth	10
121397	negative	growth	55

Culture pH

@ref	Ability	Type	PH	PH range
29961	positive	optimum	7
29961	positive	growth	06-10	alkaliphile
121397	positive	growth	6

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
29961	aerobe
121397	obligate aerobe
125439	obligate aerobe	91.2

Spore formation

@ref	Spore formation	Confidence
29961
121397
125438		92.539
125439		93.9

Halophily

@ref	Salt	Growth	Tested relation	Concentration
29961	NaCl	positive	growth	0-5 %
29961	NaCl	positive	optimum	2.5 %
121397	NaCl	positive	growth	0-6 %
121397	NaCl		growth	8 %
121397	NaCl		growth	10 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
29961	30089 ChEBI	acetate	+	carbon source
29961	16449 ChEBI	alanine	+	carbon source
121397	16947 ChEBI	citrate	-	carbon source
121397	4853 ChEBI	esculin	-	hydrolysis
121397	606565 ChEBI	hippurate	+	hydrolysis
29961	17596 ChEBI	inosine	+	carbon source
121397	17632 ChEBI	nitrate	-	reduction
121397	17632 ChEBI	nitrate	-	respiration
121397	16301 ChEBI	nitrite	-	reduction
29961	15361 ChEBI	pyruvate	+	carbon source

Metabolite production

@ref	Chebi-ID	Metabolite	Production
121397	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test
121397	15688 ChEBI	acetoin	-
121397	17234 ChEBI	glucose		-

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
121397	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
121397	amylase	-
68382	beta-galactosidase	-	3.2.1.23	from API zym
121397	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
121397	caseinase	+	3.4.21.50
29961	catalase	+	1.11.1.6
121397	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
121397	DNase	+
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
121397	gamma-glutamyltransferase	-	2.3.2.2
121397	gelatinase	+
121397	lecithinase	-
68382	leucine arylamidase	-	3.4.11.1	from API zym
121397	lipase	-
68382	lipase (C 14)	-		from API zym
121397	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
121397	ornithine decarboxylase	-	4.1.1.17
121397	oxidase	+
121397	protease	+
68382	trypsin	-	3.4.21.4	from API zym
121397	tween esterase	-
121397	urease	-	3.5.1.5
68382	valine arylamidase	-		from API zym

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	adipate degradation	100	2 of 2
66794	methylglyoxal degradation	100	5 of 5
66794	ribulose monophosphate pathway	100	2 of 2
66794	L-lactaldehyde degradation	100	3 of 3
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	biotin biosynthesis	100	4 of 4
66794	aspartate and asparagine metabolism	100	9 of 9
66794	acetate fermentation	100	4 of 4
66794	metabolism of amino sugars and derivatives	100	5 of 5
66794	palmitate biosynthesis	100	22 of 22
66794	ppGpp biosynthesis	100	4 of 4
66794	gluconeogenesis	100	8 of 8
66794	vitamin K metabolism	100	5 of 5
66794	suberin monomers biosynthesis	100	2 of 2
66794	folate polyglutamylation	100	1 of 1
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	sulfopterin metabolism	100	4 of 4
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	coenzyme A metabolism	100	4 of 4
66794	formaldehyde oxidation	100	3 of 3
66794	tetrahydrofolate metabolism	92.86	13 of 14
66794	vitamin B1 metabolism	92.31	12 of 13
66794	valine metabolism	88.89	8 of 9
66794	serine metabolism	88.89	8 of 9
66794	chorismate metabolism	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	peptidoglycan biosynthesis	86.67	13 of 15
66794	photosynthesis	85.71	12 of 14
66794	heme metabolism	85.71	12 of 14
66794	propanol degradation	85.71	6 of 7
66794	leucine metabolism	84.62	11 of 13
66794	alanine metabolism	82.76	24 of 29
66794	cellulose degradation	80	4 of 5
66794	lipoate biosynthesis	80	4 of 5
66794	threonine metabolism	80	8 of 10
66794	glycine betaine biosynthesis	80	4 of 5
66794	propionate fermentation	80	8 of 10
66794	vitamin B12 metabolism	79.41	27 of 34
66794	tryptophan metabolism	78.95	30 of 38
66794	citric acid cycle	78.57	11 of 14
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	phenylalanine metabolism	76.92	10 of 13
66794	glycolysis	76.47	13 of 17
66794	glycogen biosynthesis	75	3 of 4
66794	isoleucine metabolism	75	6 of 8
66794	glutamate and glutamine metabolism	75	21 of 28
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	flavin biosynthesis	73.33	11 of 15
66794	pyrimidine metabolism	73.33	33 of 45
66794	pentose phosphate pathway	72.73	8 of 11
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	purine metabolism	71.28	67 of 94
66794	starch degradation	70	7 of 10
66794	urea cycle	69.23	9 of 13
66794	arginine metabolism	66.67	16 of 24
66794	enterobactin biosynthesis	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	cyanate degradation	66.67	2 of 3
66794	histidine metabolism	65.52	19 of 29
66794	methionine metabolism	65.38	17 of 26
66794	phenol degradation	65	13 of 20
66794	proline metabolism	63.64	7 of 11
66794	ketogluconate metabolism	62.5	5 of 8
66794	lysine metabolism	61.9	26 of 42
66794	isoprenoid biosynthesis	61.54	16 of 26
66794	cysteine metabolism	61.11	11 of 18
66794	oxidative phosphorylation	60.44	55 of 91
66794	factor 420 biosynthesis	60	3 of 5
66794	glycine metabolism	60	6 of 10
66794	gallate degradation	60	3 of 5
66794	Entner Doudoroff pathway	60	6 of 10
66794	3-chlorocatechol degradation	60	3 of 5
66794	lipid metabolism	58.06	18 of 31
66794	ubiquinone biosynthesis	57.14	4 of 7
66794	degradation of sugar alcohols	56.25	9 of 16
66794	d-mannose degradation	55.56	5 of 9
66794	non-pathway related	55.26	21 of 38
66794	sulfate reduction	53.85	7 of 13
66794	degradation of aromatic, nitrogen containing compounds	50	6 of 12
66794	pantothenate biosynthesis	50	3 of 6
66794	glycolate and glyoxylate degradation	50	3 of 6
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	selenocysteine biosynthesis	50	3 of 6
66794	toluene degradation	50	2 of 4
66794	CMP-KDO biosynthesis	50	2 of 4
66794	ethanol fermentation	50	1 of 2
66794	butanoate fermentation	50	2 of 4
66794	vitamin B6 metabolism	45.45	5 of 11
66794	4-hydroxymandelate degradation	44.44	4 of 9
66794	polyamine pathway	43.48	10 of 23
66794	glutathione metabolism	42.86	6 of 14
66794	reductive acetyl coenzyme A pathway	42.86	3 of 7
66794	3-phenylpropionate degradation	40	6 of 15
66794	phenylacetate degradation (aerobic)	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	4-hydroxyphenylacetate degradation	40	4 of 10
66794	androgen and estrogen metabolism	37.5	6 of 16
66794	cholesterol biosynthesis	36.36	4 of 11
66794	degradation of pentoses	35.71	10 of 28
66794	tyrosine metabolism	35.71	5 of 14
66794	molybdenum cofactor biosynthesis	33.33	3 of 9
66794	octane oxidation	33.33	1 of 3
66794	IAA biosynthesis	33.33	1 of 3
66794	lipid A biosynthesis	33.33	3 of 9
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	phosphatidylethanolamine bioynthesis	30.77	4 of 13
66794	phenylpropanoid biosynthesis	30.77	4 of 13
66794	coenzyme M biosynthesis	30	3 of 10
66794	bile acid biosynthesis, neutral pathway	29.41	5 of 17
66794	degradation of sugar acids	28	7 of 25
66794	ascorbate metabolism	27.27	6 of 22
66794	metabolism of disaccharids	27.27	3 of 11
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	cyclohexanol degradation	25	1 of 4
66794	lactate fermentation	25	1 of 4
66794	dTDPLrhamnose biosynthesis	25	2 of 8
66794	degradation of hexoses	22.22	4 of 18
66794	allantoin degradation	22.22	2 of 9
66794	arachidonic acid metabolism	22.22	4 of 18
66794	nitrate assimilation	22.22	2 of 9

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
121397	-	+	+	+	-	-	-	-	-	+	+	+	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2
#Engineered	#Built environment

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Isolation date
7756	Mars Odyssey spacecraft	Florida	USA	USA	North America
121397	Mars Odyssey spacecraft	Florida	United States of America	USA	North America	2001

Taxonmaps

69479

Global distribution of 16S sequence AF526913 (>99% sequence identity) for Lysinibacillus odysseyi subclade from Microbeatlas

Aquatic Samples	34
Soil Samples	120
Animal Samples	64
Plant Samples	14
Total Samples	232

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
7756	1	Risk group (German classification) According to TRBA 466
121397	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
66792	ASM159196v1 assembly for Lysinibacillus odysseyi 34hs-1 = NBRC 100172	contig	GCA_001591965	1220589.4	2731957675	1220589	62.35
66792	ASM77301v1 assembly for Lysinibacillus odysseyi 34hs-1 = NBRC 100172	contig	GCA_000773015	1220589.3	2627854238	1220589	57.15
66792	ASM220083v1 assembly for Lysinibacillus odysseyi 34hs-1 = NBRC 100172	contig	GCA_002200835	1220589.5		1220589	51.97

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Bacillus odysseyi gene for 16S rRNA, partial sequence, strain: NBRC 100172	AB681147	1480	1220589
7756	Bacillus odysseyi strain 34hs1 16S ribosomal RNA (rrn) gene, partial sequence	AF526913	1516	1220589
124043	Lysinibacillus odysseyi 34hs-1 = NBRC 100172 16S ribosomal RNA gene, partial sequence.	KY174337	1231	1220589
124043	Lysinibacillus odysseyi strain 34hs-1 NBRC 100172 16S ribosomal RNA gene, partial sequence.	PV834960	1231	202611

GC content

@ref	GC-content (mol%)	Method
7756	35.6	fluorimetric

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Lysinibacillus odysseyi 34hs-1 = NBRC 100172
NCBI: GCA_001591965

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	91.20	no
125439	gram_stain	BacteriaNetⓘ	variable	85.90	no
125439	motility	BacteriaNetⓘ	yes	90.40	no
125439	spore_formation	BacteriaNetⓘ	yes	93.90	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Lysinibacillus odysseyi 34hs-1 = NBRC 100172
PATRIC: 1220589.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	76.49	yes
125438	anaerobic	anaerobicⓘ	no	96.21	yes
125438	spore-forming	spore-formingⓘ	yes	92.54	yes
125438	aerobic	aerobicⓘ	yes	81.04	yes
125438	thermophilic	thermophileⓘ	no	93.63	yes
125438	flagellated	motile2+ⓘ	yes	87.22	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Robust Demarcation of the Family Caryophanaceae (Planococcaceae) and Its Different Genera Including Three Novel Genera Based on Phylogenomics and Highly Specific Molecular Signatures.	Gupta RS, Patel S.	Front Microbiol	10.3389/fmicb.2019.02821	2019
Phylogeny	Lysinibacillus louembei sp. nov., a spore-forming bacterium isolated from Ntoba Mbodi, alkaline fermented leaves of cassava from the Republic of the Congo.	Ouoba LII, Vouidibio Mbozo AB, Thorsen L, Anyogu A, Nielsen DS, Kobawila SC, Sutherland JP	Int J Syst Evol Microbiol	10.1099/ijsem.0.000570	2015
Phylogeny	Lysinibacillus fluoroglycofenilyticus sp. nov., a bacterium isolated from fluoroglycofen contaminated soil.	Cheng M, Zhang H, Zhang J, Hu G, Zhang J, He J, Huang X	Antonie Van Leeuwenhoek	10.1007/s10482-014-0313-2	2014
Phylogeny	Lysinibacillus chungkukjangi sp. nov., isolated from Chungkukjang, Korean fermented soybean food.	Kim SJ, Jang YH, Hamada M, Ahn JH, Weon HY, Suzuki K, Whang KS, Kwon SW	J Microbiol	10.1007/s12275-013-2664-1	2013
Phylogeny	Lysinibacillus meyeri sp. nov., isolated from a medical practice.	Seiler H, Scherer S, Wenning M	Int J Syst Evol Microbiol	10.1099/ijs.0.039420-0	2012
Phylogeny	Description of Lysinibacillus sinduriensis sp. nov., and transfer of Bacillus massiliensis and Bacillus odysseyi to the genus Lysinibacillus as Lysinibacillus massiliensis comb. nov. and Lysinibacillus odysseyi comb. nov. with emended description of the genus Lysinibacillus.	Jung MY, Kim JS, Paek WK, Styrak I, Park IS, Sin Y, Paek J, Park KA, Kim H, Kim HL, Chang YH	Int J Syst Evol Microbiol	10.1099/ijs.0.033837-0	2011
Phylogeny	Bacillus decisifrondis sp. nov., isolated from soil underlying decaying leaf foliage.	Zhang L, Xu Z, Patel BKC	Int J Syst Evol Microbiol	10.1099/ijs.0.64440-0	2007
Phylogeny	Bacillus odysseyi sp. nov., a round-spore-forming bacillus isolated from the Mars Odyssey spacecraft.	Duc MT, Satomi M, Venkateswaran K	Int J Syst Evol Microbiol	10.1099/ijs.0.02747-0	2004

References

#7756	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 18869
#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 )
#26330	IJSEM 195 2004 ( DOI 10.1099/ijs.0.02747-0 , PubMed 14742480 )
#29961	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 #26330
#38265	; Curators of the CIP;
#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 )
#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 .
#121397	Collection of Institut Pasteur ; Curators of the CIP; CIP 108263
#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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Lysinibacillus odysseyi (DSM 18869, ATCC PTA-4993, CIP 108263)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

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_001591965

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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