Archive BacDiveID:10.13145/bacdive17769.20230509.8.1

Strain identifier

BacDive ID: 17769

Type strain:

Species: Aminomonas paucivorans

Strain Designation: GLU-3

Strain history: <- J.-L. Garcia, Université de Provence, Marseille, France; GLU-3 <- S. Baena {1996}

NCBI tax ID(s): 584708 (strain), 81412 (species)

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

General

@ref: 4660

BacDive-ID: 17769

DSM-Number: 12260

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

description: Aminomonas paucivorans GLU-3 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from anaerobic lagoon of a dairy wastewater treatment plant.

NCBI tax id

NCBI tax id	Matching level
81412	species
584708	strain

strain history

@ref: 4660
history: <- J.-L. Garcia, Université de Provence, Marseille, France; GLU-3 <- S. Baena {1996}

doi: 10.13145/bacdive17769.20230509.8.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/synergistota
domain: Bacteria
phylum: Synergistota
class: Synergistia
order: Synergistales
family: Synergistaceae
genus: Aminomonas
species: Aminomonas paucivorans
full scientific name: Aminomonas paucivorans Baena et al. 1999

@ref: 4660

domain: Bacteria

phylum: Synergistetes

class: Synergistia

order: Synergistales

family: Synergistaceae

genus: Aminomonas

species: Aminomonas paucivorans

full scientific name: Aminomonas paucivorans Baena et al. 1999

strain designation: GLU-3

type strain: yes

Morphology

cell morphology

@ref: 69480
gram stain: negative
confidence: 99.935

multimedia

@ref: 66793
multimedia content: EM_DSM_12260_1.jpg
caption: electron microscopic image
intellectual property rights: © HZI/Manfred Rohde

Culture and growth conditions

culture medium

@ref: 4660
name: AMINOMONAS MEDIUM (DSMZ Medium 846)
growth: yes
link: https://mediadive.dsmz.de/medium/846
composition: Name: AMINOMONAS MEDIUM (DSMZ Medium 846; with strain-specific modifications) Composition: Yeast extract 1.99402 g/l L-Arginine x HCl 1.7348 g/l Na2CO3 1.49551 g/l NaCl 0.997009 g/l Na2S x 9 H2O 0.498504 g/l KCl 0.498504 g/l L-Cysteine HCl x H2O 0.498504 g/l MgCl2 x 6 H2O 0.398804 g/l NH4Cl 0.299103 g/l KH2PO4 0.299103 g/l K2HPO4 0.199402 g/l CaCl2 x 2 H2O 0.149551 g/l HCl 0.00249252 g/l FeCl2 x 4 H2O 0.00149551 g/l Sodium resazurin 0.000498504 g/l NaOH 0.000498504 g/l CoCl2 x 6 H2O 0.000189432 g/l Pyridoxine hydrochloride 9.97009e-05 g/l MnCl2 x 4 H2O 9.97009e-05 g/l ZnCl2 6.97906e-05 g/l p-Aminobenzoic acid 4.98504e-05 g/l (DL)-alpha-Lipoic acid 4.98504e-05 g/l Thiamine HCl 4.98504e-05 g/l Calcium D-(+)-pantothenate 4.98504e-05 g/l Riboflavin 4.98504e-05 g/l Nicotinic acid 4.98504e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l Folic acid 1.99402e-05 g/l Biotin 1.99402e-05 g/l H3BO3 5.98205e-06 g/l Na2WO4 x 2 H2O 3.98804e-06 g/l Na2SeO3 x 5 H2O 2.99103e-06 g/l CuCl2 x 2 H2O 1.99402e-06 g/l Vitamin B12 9.97009e-07 g/l Distilled water

culture temp

@ref: 4660
growth: positive
type: growth
temperature: 37
range: mesophilic

Physiology and metabolism

oxygen tolerance

@ref	oxygen tolerance	confidence
4660	anaerobe
69480	anaerobe	100

spore formation

@ref: 69480
spore formation: no
confidence: 99.942

Isolation, sampling and environmental information

isolation

@ref: 4660
sample type: anaerobic lagoon of a dairy wastewater treatment plant
country: Colombia
origin.country: COL
continent: Middle and South America

isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Food production	#Dairy product
#Engineered	#Waste	#Water treatment plant
#Condition	#Anoxic (anaerobic)

Safety information

risk assessment

@ref: 4660
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref: 4660
description: Aminomonas paucivorans 16S ribosomal RNA gene, partial sequence
accession: AF072581
length: 1504
database: ena
NCBI tax ID: 584708

Genome sequences

@ref	description	accession	assembly level	database	NCBI tax ID
66792	Aminomonas paucivorans DSM 12260	GCA_000165795	chromosome	ncbi	584708
66792	Aminomonas paucivorans DSM 12260	584708.3	wgs	patric	584708
66792	Aminomonas paucivorans GLU-3, DSM 12260	2502790015	draft	img	584708

GC content

@ref: 4660
GC-content: 43
method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

trait	prediction	confidence	training_data
spore-forming	yes	72	no
motile	yes	87.941	no
flagellated	no	85.478	no
gram-positive	no	98.236	no
anaerobic	yes	99.998	yes
aerobic	no	98.424	yes
halophile	no	94.91	no
spore-forming	no	84.011	no
thermophile	yes	85.151	no
glucose-util	yes	63.803	no
glucose-ferment	no	69.233	no

External links

@ref: 4660

culture collection no.: DSM 12260, ATCC BAA 6

straininfo link

@ref: 86760
straininfo: 44248

literature

topic	Pubmed-ID	title	authors	journal	DOI	year	mesh	topic2
Phylogeny	10425753	Aminomonas paucivorans gen. nov., sp. nov., a mesophilic, anaerobic, amino-acid-utilizing bacterium.	Baena S, Fardeau ML, Ollivier B, Labat M, Thomas P, Garcia JL, Patel BK	Int J Syst Bacteriol	10.1099/00207713-49-3-975	1999	Amino Acids/metabolism, Base Composition, DNA, Bacterial/chemistry/genetics, Dairying, Gram-Negative Anaerobic Bacteria/classification/growth & development/isolation & purification/metabolism, Methanobacterium/growth & development/metabolism, Molecular Sequence Data, Phenotype, Phylogeny, Polymerase Chain Reaction/methods, RNA, Ribosomal, 16S/genetics, Waste Disposal, Fluid	Metabolism
Genetics	21304733	Non-contiguous finished genome sequence of Aminomonas paucivorans type strain (GLU-3).	Pitluck S, Yasawong M, Held B, Lapidus A, Nolan M, Copeland A, Lucas S, Del Rio TG, Tice H, Cheng JF, Chertkov O, Goodwin L, Tapia R, Han C, Liolios K, Ivanova N, Mavromatis K, Ovchinnikova G, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Pukall R, Spring S, Rohde M, Sikorski J, Goker M, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides NC, Klenk HP	Stand Genomic Sci	10.4056/sigs.1253298	2010

Reference

@id	authors	catalogue	doi/url	title	journal	pubmed
4660	Curators of the DSMZ	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 12260)	https://www.dsmz.de/collection/catalogue/details/culture/DSM-12260
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)
66793	Mukherjee et al.		10.1038/nbt.3886	GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life	35: 676-683 2017	28604660
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
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)
86760	Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.		10.60712/SI-ID44248.1	StrainInfo: A central database for resolving microbial strain identifiers