Thiofilum flexile (DSM 14609, JCM 11135, EJ2M-B)

Name: Thiofilum flexile (DSM 14609, JCM 11135, EJ2M-B)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 17082

Type strain

Strain Designation EJ2M-B

Culture col. no. DSM 14609 JCM 11135 EJ2M-B

NCBI tax ID(s) 1123400 125627

Special Collections DSMZ JCM

History <- T. Kohno, Yamanashi Univ., Kofu, Japan T. Kohno EJ2M-B.

Links

Thiofilum flexile EJ2M-B is a bacterium that was isolated from bulking activated sludge.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 101038

DSM 14609,JCM 11135

@ref 20215

Last LPSN update 2026-02-09 11:22:07

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Beggiatoales

Family Leucotrichaceae

Genus Thiofilum

Species Thiofilum flexile

Full scientific name Thiofilum flexile (Aruga et al. 2002) Boden and Scott 2018

Synonyms (1)

Thiothrix flexilis

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	99
125439	negative	94

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
5409	EGGC (DSMZ Medium 1191)		Medium recipe at MediaDive	Name: EGGC (DSMZ Medium 1191) Composition: Agar 15.0 g/l Glucose 0.6 g/l Casamino acids 0.3 g/l Na-acetate 0.3 g/l Na2HPO4 0.248 g/l NaH2PO4 0.0308 g/l (NH4)2SO4 0.01 g/l MgSO4 x 7 H2O 0.005 g/l KCl 0.005 g/l Thiamine-HCl x 2 H2O 0.0025 g/l Nicotinic acid 0.0025 g/l Pyridoxine hydrochloride 0.0025 g/l Calcium pantothenate 0.0025 g/l CaCl2 x 2 H2O 0.002 g/l CaCO3 0.002 g/l Riboflavin 0.0005 g/l FeCl3 x 6 H2O 5e-05 g/l Vitamin B12 5e-05 g/l Folic acid 1e-05 g/l Biotin 5e-06 g/l Demineralized water

Culture temp

@ref	Growth	Type	Temperature (°C)
5409	positive	growth	25
67770	positive	growth	25

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	98.2

Spore formation

@ref	Spore formation	Confidence
125439		98.6

Observation

67770

Observationquinones: Q-8

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Waste	#Activated sludge

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent
5409	bulking activated sludge	Japan	JPN	Asia
67770	Bulking activated sludge of pickle manufacturing wastewater treatment plant of pickle manufacturing	Japan	JPN	Asia

Taxonmaps

69479

Global distribution of 16S sequence AB042545 (>99% sequence identity) for Thiotrichales from Microbeatlas

Aquatic Samples	1995
Soil Samples	127
Animal Samples	3155
Plant Samples	46
Total Samples	5323

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
5409	1	Risk group (German 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	ASM38018v1 assembly for Thiofilum flexile DSM 14609	scaffold	GCA_000380185	1123400.3	2515154111	1123400	64.23

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
5409	Thiothrix sp. EJ2M-B gene for 16S ribosomal RNA, partial sequence	AB042545	1417		125627

GC content

@ref	GC-content (mol%)	Method
5409	44	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: Thiofilum flexile DSM 14609
NCBI: GCA_000380185

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	98.60	no
125439	motility	BacteriaNetⓘ	yes	65.60	no
125439	gram_stain	BacteriaNetⓘ	negative	94.00	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Thiothrix flexilis DSM 14609
PATRIC: 1123400.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	99.00	no
125438	anaerobic	anaerobicⓘ	no	89.85	no
125438	spore-forming	spore-formingⓘ	no	89.20	no
125438	aerobic	aerobicⓘ	yes	70.91	no
125438	thermophilic	thermophileⓘ	no	93.80	yes
125438	flagellated	motile2+ⓘ	yes	64.96	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Characterization of filamentous Eikelboom type 021N bacteria and description of Thiothrix disciformis sp. nov. and Thiothrix flexilis sp. nov.	Aruga S, Kamagata Y, Kohno T, Hanada S, Nakamura K, Kanagawa T	Int J Syst Evol Microbiol	10.1099/00207713-52-4-1309	2002

References

#5409	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 14609
#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 )
#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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Thiofilum flexile (DSM 14609, JCM 11135, EJ2M-B)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Observation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000380185

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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