Syntrophorhabdus aromaticivorans (DSM 17771, UI, JCM 13376)

Name: Syntrophorhabdus aromaticivorans (DSM 17771, UI, JCM 13376)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 17670

Type strain

Strain Designation UI

Culture col. no. DSM 17771 UI JCM 13376

NCBI tax ID(s) 328301

Special Collections DSMZ JCM

History <- Y.-L. Qiu, National Institute of Advanced Industrial Science and Technology (AIST), Tsukuba, Ibaraki, Japan; UI <- Y.-L. Qiu; {2005} Y. Qiu strain UI.

Links

Syntrophorhabdus aromaticivorans UI is an anaerobe bacterium that was isolated from anaerobic granular sludge.

anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 402167

JCM 13376,DSM 17771

@ref 20215

Last LPSN update 2026-02-09 11:22:16

Domain Bacteria

Phylum Thermodesulfobacteriota

Class Syntrophorhabdia

Order Syntrophorhabdales

Family Syntrophorhabdaceae

Genus Syntrophorhabdus

Species Syntrophorhabdus aromaticivorans

Full scientific name Syntrophorhabdus aromaticivorans Qiu et al. 2008

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	94.131

Colony morphology

7176

Incubation period>14 days

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
7176	PELOTOMACULUM MEDIUM (DSMZ Medium 960)		Medium recipe at MediaDive	Name: PELOTOMACULUM MEDIUM (DSMZ Medium 960; with strain-specific modifications) Composition: Na2CO3 1.49701 g/l Na2SO4 1.41717 g/l NH4Cl 0.538922 g/l 4-Hydroxybenzoic acid 0.409182 g/l Na2S x 9 H2O 0.299401 g/l L-Cysteine HCl x H2O 0.299401 g/l MgCl2 x 6 H2O 0.199601 g/l Yeast extract 0.199601 g/l KH2PO4 0.139721 g/l Nitrilotriacetic acid 0.0127745 g/l NaCl 0.000998004 g/l FeCl2 x 4 H2O 0.000998004 g/l Sodium resazurin 0.000499002 g/l ZnCl2 9.98004e-05 g/l CaCl2 x 2 H2O 9.98004e-05 g/l NiCl2 x 6 H2O 9.98004e-05 g/l Pyridoxine hydrochloride 9.98004e-05 g/l MnCl2 x 4 H2O 9.98004e-05 g/l (DL)-alpha-Lipoic acid 4.99002e-05 g/l p-Aminobenzoic acid 4.99002e-05 g/l Thiamine HCl 4.99002e-05 g/l Riboflavin 4.99002e-05 g/l Nicotinic acid 4.99002e-05 g/l Calcium D-(+)-pantothenate 4.99002e-05 g/l Na2WO4 x 2 H2O 3.99202e-05 g/l CoCl2 x 6 H2O 2.99401e-05 g/l Na2MoO4 x 2 H2O 2.99401e-05 g/l Na2SeO3 x 5 H2O 2.99401e-05 g/l CuCl2 1.99601e-05 g/l Biotin 1.99601e-05 g/l Folic acid 1.99601e-05 g/l H3BO3 9.98004e-06 g/l Vitamin B12 9.98004e-07 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
7176	positive	growth	37
67770	positive	growth	37

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
7176	anaerobe
125438	anaerobe	92.282
125439	anaerobe	97.1

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Waste	#Activated sludge
#Condition	#Anoxic (anaerobic)	-

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
7176	anaerobic granular sludge	Tainan	Taiwan, Province of China	TWN	Asia

Taxonmaps

69479

Global distribution of 16S sequence AB212873 (>99% sequence identity) for Syntrophorhabdus aromaticivorans subclade from Microbeatlas

Aquatic Samples	562
Soil Samples	126
Animal Samples	32
Plant Samples	57
Total Samples	777

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
7176	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	ASM51223v1 assembly for Syntrophorhabdus aromaticivorans UI	scaffold	GCA_000512235	909663.3	2509601044	909663	55.72

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
7176	Syntrophorhabdus aromaticivorans gene for 16S rRNA, partial sequence	AB212873	1482		909663

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Syntrophorhabdus aromaticivorans UI
NCBI: GCA_000512235

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	67.80	no
125439	motility	BacteriaNetⓘ	no	62.20	no
125439	gram_stain	BacteriaNetⓘ	negative	80.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	97.10	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Syntrophorhabdus aromaticivorans UI
PATRIC: 909663.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	94.13	no
125438	anaerobic	anaerobicⓘ	yes	92.28	yes
125438	aerobic	aerobicⓘ	no	90.26	yes
125438	spore-forming	spore-formingⓘ	no	85.17	no
125438	thermophilic	thermophileⓘ	no	77.01	yes
125438	flagellated	motile2+ⓘ	yes	64.65	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Isophthalate:coenzyme A ligase initiates anaerobic degradation of xenobiotic isophthalate.	Junghare M, Frey J, Naji KM, Spiteller D, Vaaje-Kolstad G, Schink B.	BMC Microbiol	10.1186/s12866-022-02630-x	2022
Metabolism	Anaerobic degradation of xenobiotic isophthalate by the fermenting bacterium Syntrophorhabdus aromaticivorans.	Junghare M, Spiteller D, Schink B.	ISME J	10.1038/s41396-019-0348-5	2019

References

#7176	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17771
#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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Syntrophorhabdus aromaticivorans (DSM 17771, UI, JCM 13376)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000512235

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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