Psychroserpens magnus (DSM 26283, JCM 18636, KCTC 32140)

Name: Psychroserpens magnus (DSM 26283, JCM 18636, KCTC 32140)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 131330

Type strain

Strain Designation Th6

Culture col. no. DSM 26283 JCM 18636 KCTC 32140 Th6

NCBI tax ID(s) 1230530

Special Collections DSMZ JCM KCTC

Links

Psychroserpens magnus Th6 is a mesophilic prokaryote that was isolated from intestine of cultured flounder Paralichthys olivaceus.

mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 400331

KCTC 32140,JCM 18636,DSM 26283

@ref 20215

Last LPSN update 2025-12-16 10:01:13

Domain Pseudomonadati

Phylum Bacteroidota

Class Flavobacteriia

Order Flavobacteriales

Family Flavobacteriaceae

Genus Psychroserpens

Species Psychroserpens magnus

Full scientific name Psychroserpens magnus (Shakeela et al. 2015) Ping et al. 2023

Synonyms (1)

Ichthyenterobacterium magnum

Morphology

Cell morphology

@ref	Confidence	Gram stain
125438	94.5
125438	97.981	negative
125439	99.9	negative

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
22557	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
22557	positive	growth	28	mesophilic
67770	positive	growth	30	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	98.3

Spore formation

@ref	Spore formation	Confidence
125438		92.333
125439		99.4

Observation

67770

Observationquinones: MK-6

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	octane oxidation	100	3 of 3
66794	adipate degradation	100	2 of 2
66794	CMP-KDO biosynthesis	100	4 of 4
66794	vitamin K metabolism	100	5 of 5
66794	ppGpp biosynthesis	100	4 of 4
66794	phenylacetate degradation (aerobic)	100	5 of 5
66794	formaldehyde oxidation	100	3 of 3
66794	coenzyme A metabolism	100	4 of 4
66794	sulfopterin metabolism	100	4 of 4
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	methylglyoxal degradation	100	5 of 5
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	folate polyglutamylation	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	biotin biosynthesis	100	4 of 4
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	palmitate biosynthesis	95.45	21 of 22
66794	chorismate metabolism	88.89	8 of 9
66794	gluconeogenesis	87.5	7 of 8
66794	C4 and CAM-carbon fixation	87.5	7 of 8
66794	tryptophan metabolism	81.58	31 of 38
66794	peptidoglycan biosynthesis	80	12 of 15
66794	threonine metabolism	80	8 of 10
66794	cellulose degradation	80	4 of 5
66794	photosynthesis	78.57	11 of 14
66794	serine metabolism	77.78	7 of 9
66794	NAD metabolism	77.78	14 of 18
66794	pyrimidine metabolism	77.78	35 of 45
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	lipid A biosynthesis	77.78	7 of 9
66794	aspartate and asparagine metabolism	77.78	7 of 9
66794	phenylalanine metabolism	76.92	10 of 13
66794	alanine metabolism	75.86	22 of 29
66794	acetate fermentation	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	purine metabolism	74.47	70 of 94
66794	flavin biosynthesis	73.33	11 of 15
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	tetrahydrofolate metabolism	71.43	10 of 14
66794	propionate fermentation	70	7 of 10
66794	acetoin degradation	66.67	2 of 3
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	d-mannose degradation	66.67	6 of 9
66794	glutamate and glutamine metabolism	64.29	18 of 28
66794	tyrosine metabolism	64.29	9 of 14
66794	citric acid cycle	64.29	9 of 14
66794	proline metabolism	63.64	7 of 11
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	gallate degradation	60	3 of 5
66794	glycine betaine biosynthesis	60	3 of 5
66794	lysine metabolism	59.52	25 of 42
66794	glycolysis	58.82	10 of 17
66794	lipid metabolism	58.06	18 of 31
66794	non-pathway related	57.89	22 of 38
66794	glutathione metabolism	57.14	8 of 14
66794	ubiquinone biosynthesis	57.14	4 of 7
66794	allantoin degradation	55.56	5 of 9
66794	cysteine metabolism	55.56	10 of 18
66794	leucine metabolism	53.85	7 of 13
66794	isoleucine metabolism	50	4 of 8
66794	phenylmercury acetate degradation	50	1 of 2
66794	heme metabolism	50	7 of 14
66794	ethanol fermentation	50	1 of 2
66794	isoprenoid biosynthesis	50	13 of 26
66794	methionine metabolism	50	13 of 26
66794	cyclohexanol degradation	50	2 of 4
66794	kanosamine biosynthesis II	50	1 of 2
66794	cis-vaccenate biosynthesis	50	1 of 2
66794	glycolate and glyoxylate degradation	50	3 of 6
66794	dTDPLrhamnose biosynthesis	50	4 of 8
66794	vitamin B6 metabolism	45.45	5 of 11
66794	reductive acetyl coenzyme A pathway	42.86	3 of 7
66794	propanol degradation	42.86	3 of 7
66794	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
66794	histidine metabolism	41.38	12 of 29
66794	oxidative phosphorylation	40.66	37 of 91
66794	D-cycloserine biosynthesis	40	2 of 5
66794	Entner Doudoroff pathway	40	4 of 10
66794	glycine metabolism	40	4 of 10
66794	lipoate biosynthesis	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	3-chlorocatechol degradation	40	2 of 5
66794	metabolism of amino sugars and derivatives	40	2 of 5
66794	starch degradation	40	4 of 10
66794	ketogluconate metabolism	37.5	3 of 8
66794	pentose phosphate pathway	36.36	4 of 11
66794	polyamine pathway	34.78	8 of 23
66794	pantothenate biosynthesis	33.33	2 of 6
66794	IAA biosynthesis	33.33	1 of 3
66794	cyanate degradation	33.33	1 of 3
66794	valine metabolism	33.33	3 of 9
66794	selenocysteine 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	arginine metabolism	33.33	8 of 24
66794	enterobactin biosynthesis	33.33	1 of 3
66794	vitamin B1 metabolism	30.77	4 of 13
66794	coenzyme M biosynthesis	30	3 of 10
66794	phenol degradation	30	6 of 20
66794	mevalonate metabolism	28.57	2 of 7
66794	degradation of pentoses	28.57	8 of 28
66794	degradation of hexoses	27.78	5 of 18
66794	metabolism of disaccharids	27.27	3 of 11
66794	catecholamine biosynthesis	25	1 of 4
66794	butanoate fermentation	25	1 of 4
66794	carnitine metabolism	25	2 of 8
66794	lactate fermentation	25	1 of 4
66794	toluene degradation	25	1 of 4
66794	phosphatidylethanolamine bioynthesis	23.08	3 of 13
66794	urea cycle	23.08	3 of 13
66794	sulfate reduction	23.08	3 of 13
66794	carotenoid biosynthesis	22.73	5 of 22
66794	chlorophyll metabolism	22.22	4 of 18
66794	4-hydroxymandelate degradation	22.22	2 of 9
66794	molybdenum cofactor biosynthesis	22.22	2 of 9
66794	nitrate assimilation	22.22	2 of 9

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Food production	#Aquaculture
#Host	#Fishes	-
#Host Body-Site	#Gastrointestinal tract	-

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent
22557	intestine of cultured flounder Paralichthys olivaceus	Paralichthys olivaceus	Shandong province	China	CHN	Asia
67770	Intestine of cultured flounder (Paralichthys olivaceus) collected from a fish farm in Shandong Province	Paralichthys olivaceus		China	CHN	Asia

Taxonmaps

69479

Global distribution of 16S sequence JX412959 (>99% sequence identity) for Ichthyenterobacterium magnum subclade from Microbeatlas

Aquatic Samples	70
Soil Samples	8
Animal Samples	4
Plant Samples
Total Samples	82

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
22557	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM361063v1 assembly for Ichthyenterobacterium magnum DSM 26283	scaffold	GCA_003610635	1230530.3	2728369274	1230530	75.79

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
22557	Ichthyenterobacterium magnum strain Th6 16S ribosomal RNA gene, partial sequence	JX412959	1488		1230530

GC content

@ref	GC-content (mol%)	Method
22557	29	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: Ichthyenterobacterium magnum DSM 26283
NCBI: GCA_003610635

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	99.40	no
125439	motility	BacteriaNetⓘ	no	65.70	no
125439	gram_stain	BacteriaNetⓘ	negative	99.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.30	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Ichthyenterobacterium magnum strain DSM 26283
PATRIC: 1230530.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.98	no
125438	anaerobic	anaerobicⓘ	no	97.05	no
125438	spore-forming	spore-formingⓘ	no	92.33	no
125438	aerobic	aerobicⓘ	yes	88.31	no
125438	thermophilic	thermophileⓘ	no	95.98	no
125438	flagellated	motile2+ⓘ	no	94.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Ichthyenterobacterium magnum gen. nov., sp. nov., a member of the family Flavobacteriaceae isolated from olive flounder (Paralichthys olivaceus).	Shakeela Q, Shehzad A, Tang K, Zhang Y, Zhang XH	Int J Syst Evol Microbiol	10.1099/ijs.0.000078	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 )
#22557	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 26283
#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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Psychroserpens magnus (DSM 26283, JCM 18636, KCTC 32140)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Observation

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_003610635

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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