Archive BacDiveID:10.13145/bacdive11866.20230509.8.1

Strain identifier

BacDive ID: 11866

Type strain:

Species: Aquamicrobium aerolatum

Strain Designation: Sa14

Strain history: <- P. Kämpfer, Univ. Giessen, Germany; Sa14 <- E. Martin

NCBI tax ID(s): 1121003 (strain), 561088 (species)

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

General

@ref: 15994

BacDive-ID: 11866

DSM-Number: 21857

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, rod-shaped

description: Aquamicrobium aerolatum Sa14 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from air sampled in a duck shed.

NCBI tax id

NCBI tax id	Matching level
1121003	strain
561088	species

strain history

@ref: 15994
history: <- P. Kämpfer, Univ. Giessen, Germany; Sa14 <- E. Martin

doi: 10.13145/bacdive11866.20230509.8.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/pseudomonadota
domain: Bacteria
phylum: Pseudomonadota
class: Alphaproteobacteria
order: Hyphomicrobiales
family: Phyllobacteriaceae
genus: Aquamicrobium
species: Aquamicrobium aerolatum
full scientific name: Aquamicrobium aerolatum Kämpfer et al. 2009

@ref: 15994

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Phyllobacteriaceae

genus: Aquamicrobium

species: Aquamicrobium aerolatum

full scientific name: Aquamicrobium aerolatum Kämpfer et al. 2009

strain designation: Sa14

type strain: yes

Morphology

cell morphology

@ref	gram stain	cell length	cell width	cell shape	motility	confidence
29213	negative	1.75 µm	0.4 µm	rod-shaped	yes
69480	negative					99.967

colony morphology

@ref: 61171
incubation period: 2 days

pigmentation

@ref: 29213
production: no

Culture and growth conditions

culture medium

@ref: 15994
name: TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545)
growth: yes
link: https://mediadive.dsmz.de/medium/545
composition: Name: TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545) Composition: Casein peptone 17.0 g/l NaCl 5.0 g/l Soy peptone 3.0 g/l D(+)-Glucose 2.5 g/l K2HPO4 2.5 g/l Distilled water

culture temp

@ref	growth	type	temperature	range
15994	positive	growth	25	mesophilic
61171	positive	growth	30	mesophilic

culture pH

@ref	ability	type	pH	PH range
29213	positive	growth	5.5-10	alkaliphile
29213	positive	optimum	7.75

Physiology and metabolism

oxygen tolerance

@ref	oxygen tolerance
29213	aerobe
61171	aerobe

spore formation

@ref	spore formation	confidence
29213	no
69481	no	100
69480	no	99.99

halophily

@ref: 29213
salt: NaCl
growth: positive
tested relation: optimum
concentration: 3.95 %

observation

@ref: 29213
observation: aggregates in clumps

metabolite utilization

@ref: 29213
Chebi-ID: 4853
metabolite: esculin
utilization activity: +
kind of utilization tested: hydrolysis

enzymes

@ref: 29213
value: cytochrome oxidase
activity: +
ec: 1.9.3.1

Isolation, sampling and environmental information

isolation

@ref	sample type	country	origin.country	continent
15994	air sampled in a duck shed	Germany	DEU	Europe
61171	Air,duck stable

isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Agriculture	#Livestock (Husbandry)
#Environmental	#Air	#Indoor Air
#Host	#Birds

taxonmaps

@ref: 69479
File name: preview.99_25912.png
url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_12964;97_15740;98_19478;99_25912&stattab=map
Last taxonomy: Aquamicrobium aerolatum subclade
16S sequence: FM210786
Sequence Identity:
Total samples: 611
soil counts: 310
aquatic counts: 78
animal counts: 180
plant counts: 43

Safety information

risk assessment

@ref: 15994
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref: 15994
description: Aquamicrobium aerolatum partial 16S rRNA gene, type strain Sa14T
accession: FM210786
length: 1346
database: ena
NCBI tax ID: 561088

Genome sequences

@ref	description	accession	assembly level	database	NCBI tax ID
66792	Aquamicrobium aerolatum DSM 21857	GCA_900113935	scaffold	ncbi	1121003
66792	Aquamicrobium aerolatum DSM 21857	1121003.3	wgs	patric	1121003
66792	Aquamicrobium aerolatum DSM 21857	2595699008	draft	img	1121003

Genome-based predictions

predictions

trait	prediction	confidence	training_data
spore-forming	no	100	no
motile	no	51.883	yes
flagellated	no	90.793	no
gram-positive	no	97.876	yes
anaerobic	no	98.909	yes
aerobic	yes	94.927	yes
halophile	no	81.604	no
spore-forming	no	96.301	yes
glucose-ferment	no	90.898	no
thermophile	no	93.239	yes
glucose-util	yes	77.699	no

External links

@ref: 15994

culture collection no.: DSM 21857, CCUG 57044

straininfo link

@ref: 81083
straininfo: 402571

literature

topic	Pubmed-ID	title	authors	journal	DOI	year	mesh	topic2
Phylogeny	19622662	Transfer of Defluvibacter lusatiensis to the genus Aquamicrobium as Aquamicrobium lusatiense comb. nov. and description of Aquamicrobium aerolatum sp. nov.	Kampfer P, Martin E, Lodders N, Jackel U	Int J Syst Evol Microbiol	10.1099/ijs.0.008730-0	2009	Alphaproteobacteria/classification/genetics/isolation & purification/metabolism, Animals, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Ducks, Fatty Acids/chemistry/metabolism, Feces/microbiology, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics	Metabolism
Phylogeny	34387738	Aquamicrobium zhengzhouense sp. nov., a Bacterium Isolated from Farmland Soil Applied with Amino Acid Fertilizer.	Wang X, Zhou CF, Cheng JR, Cao SF, Yang HX, Zhao JR	Curr Microbiol	10.1007/s00284-021-02600-y	2021	Amino Acids, Bacterial Typing Techniques, China, DNA, Bacterial/genetics, Farms, Fatty Acids/analysis, Fertilizers, Phospholipids/analysis, Phyllobacteriaceae, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil	Transcriptome

Reference

@id	authors	catalogue	doi/url	title	ID_cross_reference	pubmed	journal
15994	Curators of the DSMZ	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21857)	https://www.dsmz.de/collection/catalogue/details/culture/DSM-21857
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
29213	Barberan A, Caceres Velazquez H, Jones S, Fierer N.		10.1128/mSphere.00237-17	Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information	25634	28776041
61171	Curators of the CCUG	Culture Collection University of Gothenburg (CCUG) (CCUG 57044)	https://www.ccug.se/strain?id=57044
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		33211880	Nucleic Acids Res. 49: D498-D508 2020
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)
69481	Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch		10.21203/rs.3.rs-2527258/v1	Predictions based on the model GenomeNet Sporulation v. 1
81083	Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.		10.60712/SI-ID402571.1	StrainInfo: A central database for resolving microbial strain identifiers