Archive BacDiveID:10.13145/bacdive6338.20230509.8.1

Strain identifier

BacDive ID: 6338

Type strain:

Species: Acetitomaculum ruminis

Strain Designation: 12185, 139 B

Strain history: <- R.C. Greening, 139 B (Upjohn company 12185)

NCBI tax ID(s): 1120918 (strain), 2382 (species)

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

General

@ref: 2090

BacDive-ID: 6338

DSM-Number: 5522

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

description: Acetitomaculum ruminis 12185 is an anaerobe, mesophilic, Gram-positive bacterium that was isolated from rumen, bovine.

NCBI tax id

NCBI tax id	Matching level
2382	species
1120918	strain

strain history

@ref: 2090
history: <- R.C. Greening, 139 B (Upjohn company 12185)

doi: 10.13145/bacdive6338.20230509.8.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/bacillota
domain: Bacteria
phylum: Bacillota
class: Clostridia
order: Eubacteriales
family: Lachnospiraceae
genus: Acetitomaculum
species: Acetitomaculum ruminis
full scientific name: Acetitomaculum ruminis Greening and Leedle 1995

@ref: 2090

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Clostridiales

family: Lachnospiraceae

genus: Acetitomaculum

species: Acetitomaculum ruminis

full scientific name: Acetitomaculum ruminis Greening and Leedle 1995

strain designation: 12185, 139 B

type strain: yes

Morphology

cell morphology

@ref: 69480
gram stain: positive
confidence: 100

Culture and growth conditions

culture medium

@ref	name	growth	link	composition
2090	METHANOBACTERIUM MEDIUM (DSMZ Medium 119)	yes	https://mediadive.dsmz.de/medium/119	Name: METHANOBACTERIUM MEDIUM (DSMZ Medium 119) Composition: NaHCO3 3.98804 g/l Na-formate 1.99402 g/l Na-acetate 0.997009 g/l Na2S x 9 H2O 0.498504 g/l L-Cysteine HCl x H2O 0.498504 g/l KH2PO4 0.498504 g/l NH4Cl 0.398804 g/l NaCl 0.398804 g/l MgSO4 x 7 H2O 0.398804 g/l Yeast extract 0.199402 g/l CaCl2 x 2 H2O 0.0498504 g/l HCl 0.00249252 g/l FeSO4 x 7 H2O 0.00199402 g/l FeCl2 x 4 H2O 0.00149551 g/l Sodium resazurin 0.000498504 g/l CoCl2 x 6 H2O 0.000189432 g/l MnCl2 x 4 H2O 9.97009e-05 g/l ZnCl2 6.97906e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l H3BO3 5.98205e-06 g/l CuCl2 x 2 H2O 1.99402e-06 g/l Isobutyric acid DL-2-Methylbutyric acid Valeric acid Isovaleric acid H2SO4 Sludge Distilled water
2090	ACETITOMACULUM MEDIUM (DSMZ Medium 540)	yes	https://mediadive.dsmz.de/medium/540	Name: ACETITOMACULUM MEDIUM (DSMZ Medium 540) Composition: D-Glucose 4.92611 g/l NaHCO3 3.94089 g/l Yeast extract 1.47783 g/l MgCl2 x 6 H2O 1.18227 g/l KCl 0.492611 g/l NH4Cl 0.295566 g/l Na2S x 9 H2O 0.295566 g/l L-Cysteine HCl x H2O 0.295566 g/l KH2PO4 0.197044 g/l Na2SO4 0.0985222 g/l MgSO4 x 7 H2O 0.0295567 g/l Nitrilotriacetic acid 0.0147783 g/l NaCl 0.00985222 g/l MnSO4 x H2O 0.00492611 g/l ZnSO4 x 7 H2O 0.0017734 g/l CoSO4 x 7 H2O 0.0017734 g/l FeSO4 x 7 H2O 0.000985222 g/l CaCl2 x 2 H2O 0.000985222 g/l NiCl2 x 6 H2O 0.000985222 g/l Sodium resazurin 0.000492611 g/l AlK(SO4)2 x 12 H2O 0.000197044 g/l CuSO4 x 5 H2O 9.85222e-05 g/l H3BO3 9.85222e-05 g/l Na2MoO4 x 2 H2O 9.85222e-05 g/l Na2WO4 x 2 H2O 9.85222e-05 g/l Pyridoxine hydrochloride 9.85222e-05 g/l Niacinamide 4.92611e-05 g/l Myo-inositol 4.92611e-05 g/l Ascorbic acid 4.92611e-05 g/l (DL)-alpha-Lipoic acid 4.92611e-05 g/l p-Aminobenzoic acid 4.92611e-05 g/l Choline chloride 4.92611e-05 g/l Calcium D-(+)-pantothenate 4.92611e-05 g/l Nicotinic acid 4.92611e-05 g/l Riboflavin 4.92611e-05 g/l Thiamine HCl 4.92611e-05 g/l Folic acid 1.97044e-05 g/l Biotin 1.97044e-05 g/l Na2SeO3 x 5 H2O 2.95566e-06 g/l Vitamin B12 9.85222e-07 g/l Distilled water

culture temp

@ref: 2090
growth: positive
type: growth
temperature: 37
range: mesophilic

Physiology and metabolism

oxygen tolerance

@ref	oxygen tolerance	confidence
2090	anaerobe
69480	anaerobe	98.648

spore formation

@ref: 69480
spore formation: no
confidence: 99.75

metabolite utilization

@ref	Chebi-ID	metabolite	utilization activity	kind of utilization tested
68368	27613	amygdalin	-	fermentation
68368	28053	melibiose	+	fermentation
68368	17992	sucrose	-	fermentation

API 20E

@ref	SAC	MEL	AMY
2090	-	+	-

Isolation, sampling and environmental information

isolation

@ref: 2090
sample type: rumen, bovine
country: USA
origin.country: USA
continent: North America

isolation source categories

Cat1	Cat2	Cat3
#Host	#Mammals	#Bovinae (Cow, Cattle)
#Host Body-Site	#Organ	#Rumen

Safety information

risk assessment

@ref: 2090
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref: 2090
description: Acetitomaculum ruminis strain 139B 16S ribosomal RNA gene, partial sequence
accession: M59083
length: 1478
database: ena
NCBI tax ID: 2382

Genome sequences

@ref	description	accession	assembly level	database	NCBI tax ID
66792	Acetitomaculum ruminis DSM 5522	GCA_900112085	scaffold	ncbi	1120918
66792	Acetitomaculum ruminis DSM 5522	1120918.3	wgs	patric	1120918
66792	Acetitomaculum ruminis DSM 5522	2651870361	draft	img	1120918

GC content

@ref: 2090
GC-content: 34.0

Genome-based predictions

predictions

trait	prediction	confidence	training_data
spore-forming	no	58	no
motile	yes	67.025	no
flagellated	no	69.469	no
gram-positive	yes	69.814	no
anaerobic	yes	99.625	yes
aerobic	no	98.952	yes
halophile	no	91.614	no
spore-forming	yes	63.527	no
glucose-ferment	yes	74.54	no
thermophile	no	89.195	yes
glucose-util	yes	78.252	no

External links

@ref: 2090

culture collection no.: DSM 5522, ATCC 43876

straininfo link

@ref: 75812
straininfo: 46854

literature

topic: Metabolism
Pubmed-ID: 2500921
title: Enrichment and isolation of Acetitomaculum ruminis, gen. nov., sp. nov.: acetogenic bacteria from the bovine rumen.
authors: Greening RC, Leedle JA
journal: Arch Microbiol
DOI: 10.1007/BF00416597
year: 1989
mesh: Acetates/*metabolism, Amino Acids/analysis, Animals, Bacteria, Anaerobic/*isolation & purification/metabolism/ultrastructure, Carbon Dioxide/metabolism, Carbon Monoxide/metabolism, Cattle, Cell Wall/analysis, Esculin/metabolism, Fermentation, Formates/metabolism, Glucose/metabolism, Hydrogen/metabolism, Hydrolysis, Male, Microscopy, Electron, Microscopy, Electron, Scanning, Rumen/*microbiology
topic2: Phylogeny

Reference

@id	authors	catalogue	doi/url	title	journal	pubmed
2090	Curators of the DSMZ	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 5522)	https://www.dsmz.de/collection/catalogue/details/culture/DSM-5522
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
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
68368				Automatically annotated from API 20E
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)
75812	Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.		10.60712/SI-ID46854.1	StrainInfo: A central database for resolving microbial strain identifiers