Archive BacDiveID:10.13145/bacdive5402.20230509.8.1

Strain identifier

BacDive ID: 5402

Type strain:

Species: Acetobacterium woodii

Strain history: <- S. Schoberth, Univ. Illinois, Urbana, USA; WB1 <- W. E. Balch

NCBI tax ID(s): 931626 (strain), 33952 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.

General

@ref: 478

BacDive-ID: 5402

DSM-Number: 1030

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-positive

description: Acetobacterium woodii DSM 1030 is an anaerobe, mesophilic, Gram-positive bacterium that was isolated from mud.

NCBI tax id

NCBI tax id	Matching level
33952	species
931626	strain

strain history

@ref: 478
history: <- S. Schoberth, Univ. Illinois, Urbana, USA; WB1 <- W. E. Balch

doi: 10.13145/bacdive5402.20230509.8.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/bacillota
domain: Bacteria
phylum: Bacillota
class: Clostridia
order: Eubacteriales
family: Eubacteriaceae
genus: Acetobacterium
species: Acetobacterium woodii
full scientific name: Acetobacterium woodii Balch et al. 1977 (Approved Lists 1980)

@ref: 478

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Clostridiales

family: Eubacteriaceae

genus: Acetobacterium

species: Acetobacterium woodii

full scientific name: Acetobacterium woodii Balch et al. 1977

type strain: yes

Morphology

cell morphology

@ref: 69480
gram stain: positive
confidence: 100

Culture and growth conditions

culture medium

@ref: 478
name: ACETOBACTERIUM MEDIUM (DSMZ Medium 135)
growth: yes
link: https://mediadive.dsmz.de/medium/135
composition: Name: ACETOBACTERIUM MEDIUM (DSMZ Medium 135) Composition: NaHCO3 9.79432 g/l D-Fructose 9.79432 g/l Yeast extract 1.95886 g/l NH4Cl 0.979432 g/l Na2S x 9 H2O 0.489716 g/l L-Cysteine HCl x H2O 0.489716 g/l K2HPO4 0.440744 g/l KH2PO4 0.323213 g/l MgSO4 x 7 H2O 0.0587659 g/l Nitrilotriacetic acid 0.029383 g/l NaCl 0.0195886 g/l MnSO4 x H2O 0.00979432 g/l ZnSO4 x 7 H2O 0.00352595 g/l CoSO4 x 7 H2O 0.00352595 g/l FeSO4 x 7 H2O 0.00195886 g/l CaCl2 x 2 H2O 0.00195886 g/l NiCl2 x 6 H2O 0.000587659 g/l Sodium resazurin 0.000489716 g/l AlK(SO4)2 x 12 H2O 0.000391773 g/l CuSO4 x 5 H2O 0.000195886 g/l H3BO3 0.000195886 g/l Na2MoO4 x 2 H2O 0.000195886 g/l Pyridoxine hydrochloride 9.79432e-05 g/l Calcium D-(+)-pantothenate 4.89716e-05 g/l Nicotinic acid 4.89716e-05 g/l Riboflavin 4.89716e-05 g/l (DL)-alpha-Lipoic acid 4.89716e-05 g/l p-Aminobenzoic acid 4.89716e-05 g/l Thiamine HCl 4.89716e-05 g/l Folic acid 1.95886e-05 g/l Biotin 1.95886e-05 g/l Na2WO4 x 2 H2O 7.83546e-06 g/l Na2SeO3 x 5 H2O 5.87659e-06 g/l Vitamin B12 9.79432e-07 g/l Distilled water

culture temp

@ref: 478
growth: positive
type: growth
temperature: 30
range: mesophilic

Physiology and metabolism

oxygen tolerance

@ref	oxygen tolerance	confidence
478	anaerobe
69480	anaerobe	99.431

spore formation

@ref: 69480
spore formation: no
confidence: 99.665

compound production

@ref: 478
compound: hydrogenase

Isolation, sampling and environmental information

isolation

@ref: 478
sample type: mud
geographic location: Massachusetts, Woods Hole, Oyster Pond Inlet
country: USA
origin.country: USA
continent: North America

isolation source categories

Cat1: #Environmental
Cat2: #Terrestrial
Cat3: #Mud (Sludge)

taxonmaps

@ref: 69479
File name: preview.99_2057.png
url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_30;96_1134;97_1330;98_1608;99_2057&stattab=map
Last taxonomy: Acetobacterium woodii
16S sequence: X96954
Sequence Identity:
Total samples: 773
soil counts: 49
aquatic counts: 568
animal counts: 115
plant counts: 41

Safety information

risk assessment

@ref: 478
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref	description	accession	length	database	NCBI tax ID
20218	Acetobacterium woodii strain DSM 1030 16S ribosomal RNA gene, partial sequence; 16S-23S ribosomal RNA intergenic spacer, complete sequence; and 23S ribosomal RNA gene, partial sequence	DQ834681	391	ena	931626
478	A.woodii 16S rRNA gene	X96954	1475	ena	931626

Genome sequences

@ref	description	accession	assembly level	database	NCBI tax ID
66792	Acetobacterium woodii DSM 1030	GCA_000247605	complete	ncbi	931626
66792	Acetobacterium woodii DSM 1030	931626.3	complete	patric	931626
66792	Acetobacterium woodii WB1, DSM 1030	2512047040	complete	img	931626

GC content

@ref: 478
GC-content: 39.0

Genome-based predictions

predictions

trait	prediction	confidence	training_data
spore-forming	no	69	no
motile	yes	73.852	no
flagellated	no	57.739	no
gram-positive	yes	77.226	no
anaerobic	yes	98.799	yes
aerobic	no	97.785	yes
halophile	no	91.892	no
spore-forming	yes	52.888	no
glucose-util	yes	74.561	no
thermophile	no	99.15	yes
glucose-ferment	yes	58.312	no

External links

@ref: 478

culture collection no.: DSM 1030, ATCC 29683, JCM 2381, WB 1

straininfo link

@ref: 74892
straininfo: 39655

literature

topic	Pubmed-ID	title	authors	journal	DOI	year	mesh	topic2
Metabolism	1575495	Importance of tetrahydrofolate and ATP in the anaerobic O-demethylation reaction for phenylmethylethers.	Berman MH, Frazer AC	Appl Environ Microbiol	10.1128/aem.58.3.925-931.1992	1992	Adenosine Triphosphate/metabolism, Anaerobiosis, Ethers/metabolism, Gram-Positive Asporogenous Rods/metabolism, Methylation, Phenols/metabolism, Tetrahydrofolates/*metabolism
Metabolism	10508086	Enhanced biotransformation of carbon tetrachloride by Acetobacterium woodii upon addition of hydroxocobalamin and fructose.	Hashsham SA, Freedman DL	Appl Environ Microbiol	10.1128/AEM.65.10.4537-4542.1999	1999	Bacteria, Anaerobic/metabolism, Biotransformation, Carbon Tetrachloride/pharmacokinetics, Fructose/pharmacology, Hydroxocobalamin/pharmacology	Enzymology
Metabolism	11133459	Non-growth-associated demethylation of dimethylsulfoniopropionate by (homo)acetogenic bacteria.	Jansen M, Hansen TA	Appl Environ Microbiol	10.1128/AEM.67.1.300-306.2001	2001	Acetyl Coenzyme A/biosynthesis, Betaine/metabolism, Culture Media, Eubacterium/growth & development/metabolism, Genes, rRNA, Gram-Positive Rods/growth & development/metabolism, Methylation, Molecular Sequence Data, Phylogeny, Propionates/metabolism, RNA, Ribosomal, 16S/genetics, Sarcosine/analogs & derivatives/metabolism, Sequence Analysis, DNA, Sulfonium Compounds/*metabolism	Phylogeny
	33817956	Growth of the acetogenic bacterium Acetobacterium woodii on glycerol and dihydroxyacetone.	Trifunovic D, Moon J, Poehlein A, Daniel R, Muller V	Environ Microbiol	10.1111/1462-2920.15503	2021	Acetobacterium/genetics, Dihydroxyacetone, Glycerol, Oxidation-Reduction

Reference

@id	authors	catalogue	doi/url	title	journal	pubmed
478	Curators of the DSMZ	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 1030)	https://www.dsmz.de/collection/catalogue/details/culture/DSM-1030
20215	Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.		10.1099/ijsem.0.004332	List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.		10.1016/j.syapm.2013.11.002	StrainInfo introduces electronic passports for microorganisms.	Syst Appl Microbiol. 37: 42-50 2014	24321274
66792	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann		https://diaspora-project.de/progress.html#genomes	Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
66794	Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg		10.1093/nar/gkaa1025	BRENDA, the ELIXIR core data resource in 2021: new developments and updates	Nucleic Acids Res. 49: D498-D508 2020	33211880
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.		https://microbeatlas.org/	MicrobeAtlas 1.0 beta
69480	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann		https://diaspora-project.de/progress.html#genomes	Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
74892	Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.		10.60712/SI-ID39655.1	StrainInfo: A central database for resolving microbial strain identifiers