Undibacterium squillarum (DSM 103672, BCRC 80404, KCTC 23917)

Name: Undibacterium squillarum (DSM 103672, BCRC 80404, KCTC 23917)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 132183

Type strain

Strain Designation CMJ-15

Culture col. no. DSM 103672 BCRC 80404 KCTC 23917 LMG 26892 CMJ-15

NCBI tax ID(s) 1131567

Special Collections DSMZ KCTC

History <- KCTC <- S.-Y. Sheu, Department of Marine Biotechnology, National Kaohsiung Marine University, Taiwan, and others

Links

Undibacterium squillarum CMJ-15 is a bacterium that was isolated from freshwater shrimp culture pond, pH 8.5.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 379389

LMG 26892,BCRC 80404,KCTC 23917,DSM 103672

@ref 20215

Last LPSN update 2026-02-09 11:31:39

Domain Bacteria

Phylum Pseudomonadota

Class Betaproteobacteria

Order Burkholderiales

Family Oxalobacteraceae

Genus Undibacterium

Species Undibacterium squillarum

Full scientific name Undibacterium squillarum Sheu et al. 2014

Synonyms (1)

"Cognatundibacterium squillarum"

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	95.6
125438	negative	97

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
23972	R2A MEDIUM (DSMZ Medium 830)		Medium recipe at MediaDive	Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
23972	positive	growth	25

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	97.7

Spore formation

@ref	Spore formation	Confidence
125439		96.1

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Food production	#Aquaculture
#Environmental	#Aquatic	#Freshwater
#Environmental	#Aquatic	#Pond (small)
#Host	#Arthropoda	#Crustacea

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude
23972	freshwater shrimp culture pond, pH 8.5	Pingtung countryside	Taiwan, Province of China	TWN	Asia	22.5781	120.604 22.5781/120.604

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
23972	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	ASM1465243v1 assembly for Undibacterium squillarum KCTC 23917	contig	GCA_014652435	1131567.3	2995453770	1131567	74.72

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
23972	Undibacterium squillarum partial 16S rRNA gene, type strain CMJ-15T	HE648174	1525		1131567

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Undibacterium squillarum KCTC 23917
NCBI: GCA_014652435

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	96.10	no
125439	motility	BacteriaNetⓘ	yes	84.00	no
125439	gram_stain	BacteriaNetⓘ	negative	95.60	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	97.70	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Undibacterium squillarum strain KCTC 23917
PATRIC: 1131567.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.00	no
125438	anaerobic	anaerobicⓘ	no	93.81	no
125438	spore-forming	spore-formingⓘ	no	89.27	no
125438	aerobic	aerobicⓘ	yes	77.97	no
125438	thermophilic	thermophileⓘ	no	98.94	no
125438	flagellated	motile2+ⓘ	yes	81.25	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Undibacterium squillarum sp. nov., isolated from a freshwater shrimp culture pond.	Sheu SY, Lin YS, Chen JC, Kwon SW, Chen WM	Int J Syst Evol Microbiol	10.1099/ijs.0.065185-0	2014

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 )
#23972	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 103672
#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) .
#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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Undibacterium squillarum (DSM 103672, BCRC 80404, KCTC 23917)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_014652435

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

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