Acetobacter syzygii (DSM 15548, IFO 16604, JCM 11197)

Name: Acetobacter syzygii (DSM 15548, IFO 16604, JCM 11197)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 14

Type strain

Strain Designation 9H-2

Culture col. no. DSM 15548 IFO 16604 JCM 11197 NBRC 16604 NRIC 0483 2 more

NCBI tax ID(s) 1307919 146476

Special Collections DSMZ JCM CIP

History <- IFO NRIC 0483 <-- P. Lisdiyanti 9H-2. CIP <- 2002, JCM <- 2001, NRIC <- P. Lisdiyanti: strain 9H-2

Links

Acetobacter syzygii 9H-2 is an obligate aerobe, Gram-negative, motile bacterium that was isolated from fruit of Malay rose apple, Syzygium malaccense.

Gram-negative motile rod-shaped obligate aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 130934

JCM 11197,IFO 16604,CIP 107378,NBRC 16604,DSM 15548,LMG 21419

@ref 20215

Last LPSN update 2026-02-09 11:17:46

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Rhodospirillales

Family Acetobacteraceae

Genus Acetobacter

Species Acetobacter syzygii

Full scientific name Acetobacter syzygii Lisdiyanti et al. 2002

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
123402	negative	rod-shaped
125438	negative		97.333
125439	negative		99

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
5994	ACETIC ACID BACTERIUM MEDIUM (DSMZ Medium 989)	Medium recipe at MediaDive	Name: ACETIC ACID BACTERIUM MEDIUM (DSMZ Medium 989) Composition: Agar 15.0 g/l Glucose 5.0 g/l Yeast extract 5.0 g/l Bacto peptone 5.0 g/l MgSO4 x 7 H2O 1.0 g/l Distilled water
33119	MEDIUM 314 - for Gluconacetobacter xylinus subsp. sucrofermentans		Distilled water make up to (1000.000 ml);Agar (15.000 g);Glucose (100.000 g);Yeast extract (10.000 g);Calcium carbonate (30.000 g)
123402	CIP Medium 314	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
5994	positive	growth	30
33119	positive	growth	30
67770	positive	growth	30
123402	positive	growth	22-37
123402	negative	growth	10
123402	negative	growth	41
123402	negative	growth	45

Physiology and metabolism

Oxygen tolerance

123402

Oxygen toleranceobligate aerobe

Spore formation

@ref	Spore formation	Confidence
125438		93.922
125439		98.1

Halophily

@ref	Salt	Growth	Tested relation	Concentration
123402	NaCl	positive	growth	0 %
123402	NaCl		growth	2 %
123402	NaCl		growth	4 %
123402	NaCl		growth	6 %
123402	NaCl		growth	8 %
123402	NaCl		growth	10 %

Observation

67770

Observationquinones: Q-9

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
123402	606565 ChEBI	hippurate	-	hydrolysis
123402	17632 ChEBI	nitrate	-	reduction
123402	16301 ChEBI	nitrite	-	reduction

Antibiotic resistance

@ref	Metabolite	Is sensitive	Is resistant
123402	0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)

Metabolite production

@ref	Chebi-ID	Metabolite	Production
123402	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
123402	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
123402	beta-galactosidase	-	3.2.1.23
68382	beta-galactosidase	-	3.2.1.23	from API zym
68382	beta-glucosidase	-	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
123402	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
123402	gamma-glutamyltransferase	-	2.3.2.2
123402	gelatinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
68382	lipase (C 14)	-		from API zym
123402	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
123402	ornithine decarboxylase	-	4.1.1.17
123402	oxidase	-
68382	trypsin	-	3.4.21.4	from API zym
123402	urease	-	3.5.1.5
68382	valine arylamidase	-		from API zym

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
123402	-	-	+	+	-	+	-	-	-	-	+	+	-	-	-	-	-	-	-	-

API biotype100

@ref	ControlQ	D-glucose as carbon sourceGLU	D-fructose as carbon sourceFRU	D-galactose as carbon sourceGAL	D-trehalose as carbon sourceTRE	D-mannose as carbon sourceMNE	L-sorbose as carbon sourceSBE	D-melibiose as carbon sourceMEL	sucrose as carbon sourceSAC	D-raffinose as carbon sourceRAF	maltotriose as carbon sourceMTE	maltose as carbon sourceMAL	lactose as carbon sourceLAC	lactulose as carbon sourceLTE	1-O-methyl-beta-galactopyranoside as carbon sourceMbGa	1-O-methyl-alpha-galactopyranoside as carbon sourceMaGa	D-cellobiose as carbon sourceCEL	gentiobiose as carbon sourceGEN	1-O-methyl-beta-D-glucopyranoside as carbon sourceMbGu	esculin as carbon sourceESC	D-ribose as carbon sourceRIB	L-arabinose as carbon sourceARA	D-xylose as carbon sourceXYL	palatinose as carbon sourcePLE	L-rhamnose as carbon sourceRHA	L-fucose as carbon sourceFUC	D-melezitose as carbon sourceMLZ	D-arabitol as carbon sourceDARL	L-arabitol as carbon sourceLARL	xylitol as carbon sourceXLT	dulcitol as carbon sourceDUL	D-tagatose as carbon sourceTAG	glycerol as carbon sourceGLY	myo-inositol as carbon sourceINO	D-mannitol as carbon sourceMAN	maltitol as carbon sourceMTL	D-turanose as carbon sourceTUR	D-sorbitol as carbon sourceSOR	adonitol as carbon sourceADO	hydroxyquinoline-beta-glucuronide as carbon sourceHBG	D-lyxose as carbon sourceLYX	i-erythritol as carbon sourceERY	1-O-methyl-alpha-D-glucoside as carbon sourceMDG	3-O-methyl-D-glucose as carbon source3MDG	D-saccharate as carbon sourceSAT	mucate as carbon sourceMUC	L-tartrate as carbon sourceLTAT	D-tartrate as carbon sourceDTAT	meso-tartrate as carbon sourceMTAT	D-malate as carbon sourceDMLT	L-malate as carbon sourceLMLT	cis-aconitate as carbon sourceCATE	trans-aconitate as carbon sourceTATE	tricarballylate as carbon sourceTTE	citrate as carbon sourceCIT	D-glucuronate as carbon sourceGRT	D-galacturonate as carbon sourceGAT	2-ketogluconate as carbon source2KG	5-ketogluconate as carbon source5KG	tryptophan as carbon sourceTRY	N-acetyl-D-glucosamine as carbon sourceNAG	D-gluconate as carbon sourceGNT	phenylacetate as carbon sourcePAC	protocatechuate as carbon sourcePAT	4-hydroxybenzoate as carbon sourcepOBE	quinate as carbon sourceQAT	gentisate as carbon sourceGTE	3-hydroxybenzoate as carbon sourcemOBE	benzoate as carbon sourceBAT	3-phenylpropionate as carbon sourcePPAT	m-coumarate as carbon sourceCMT	trigonelline as carbon sourceTGE	betaine as carbon sourceBET	putrescine as carbon sourcePCE	4-aminobutyrate as carbon sourceABT	histamine as carbon sourceHIN	DL-lactate as carbon sourceLAT	caprate as carbon sourceCAP	caprylate as carbon sourceCYT	L-histidine as carbon sourceHIS	succinate as carbon sourceSUC	fumarate as carbon sourceFUM	glutarate as carbon sourceGRE	DL-glycerate as carbon sourceGYT	5-aminovalerate as carbon sourceAVT	ethanolamine as carbon sourceETN	tryptamine as carbon sourceTTN	D-glucosamine as carbon sourceGLN	itaconate as carbon sourceITA	3-hydroxybutyrate as carbon source3OBU	L-aspartate as carbon sourceAPT	L-glutamate as carbon sourceGTT	L-proline as carbon sourcePRO	D-alanine as carbon sourceDALA	L-alanine as carbon sourceLALA	L-serine as carbon sourceSER	malonate as carbon sourceMNT	propionate as carbon sourcePROP	L-tyrosine as carbon sourceTYR	2-ketoglutarate as carbon source2KT
123402	not determinedn.d.	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Tree
#Host Body-Site	#Plant	#Fruit (Seed)

Isolation

@ref	Sample type	Host species	Country	Country ISO 3 Code	Continent	Isolation date
5994	fruit of Malay rose apple, Syzygium malaccense	Syzygium malaccense	Indonesia	IDN	Asia
67770	Fruit of Malay rose apple (Syzygium malaccense)	Syzygium malaccense	Indonesia	IDN	Asia
123402	Food, Fruit, Malay rose apple		Indonesia	IDN	Asia	1996

Taxonmaps

69479

Global distribution of 16S sequence AB681084 (>99% sequence identity) for Acetobacter from Microbeatlas

Aquatic Samples	428
Soil Samples	352
Animal Samples	2157
Plant Samples	309
Total Samples	3246

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
5994	1	Risk group (German classification) According to TRBA 466
123402	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	ASM798928v1 assembly for Acetobacter syzygii NBRC 16604	contig	GCA_007989285	146476.13		146476	67.08
124043	ASM2599539v1 assembly for Acetobacter syzygii NRIC 0483	contig	GCA_025995395	1307919.3	8116978318	1307919	63.76
67770	ASM96422v1 assembly for Acetobacter syzygii 9H-2	scaffold	GCA_000964225	1231343.3	2905254764	146476	57.7

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Acetobacter syzygii gene for 16S rRNA, partial sequence, strain: JCM 11197	AB665078	1412	146476
20218	Acetobacter syzygii gene for 16S rRNA, partial sequence, strain: NBRC 16604	AB681084	1415	146476
5994	Acetobacter syzygii gene for 16S ribosomal RNA, strain: 9H-2	AB052712	1412	146476

GC content

@ref	GC-content (mol%)	Method
67770	55.3	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: Acetobacter syzygii 9H-2
NCBI: GCA_000964225

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	66.40	no
125439	gram_stain	BacteriaNetⓘ	negative	99.00	no
125439	motility	BacteriaNetⓘ	yes	80.30	no
125439	spore_formation	BacteriaNetⓘ	no	98.10	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Acetobacter syzygii 9H-2
PATRIC: 1231343.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.33	no
125438	anaerobic	anaerobicⓘ	no	93.27	yes
125438	spore-forming	spore-formingⓘ	no	93.92	no
125438	aerobic	aerobicⓘ	yes	80.32	yes
125438	thermophilic	thermophileⓘ	no	96.77	yes
125438	flagellated	motile2+ⓘ	yes	57.08	no

Literature

References

#5994	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15548
#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 )
#33119	; 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) .
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#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 .
#123402	Collection of Institut Pasteur ; Curators of the CIP; CIP 107378
#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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