Archive BacDiveID:10.13145/bacdive17891.20230509.8.1

Strain identifier

BacDive ID: 17891

Type strain:

Species: Motilibacter peucedani

Strain Designation: RP-AC37

Strain history: <- SD Lee, Cheju Univ.

NCBI tax ID(s): 598650 (species)

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

General

@ref: 16293

BacDive-ID: 17891

DSM-Number: 45328

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

description: Motilibacter peucedani RP-AC37 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from rhizosphere soil of Peucedanum japonicum Thunb..

NCBI tax id

NCBI tax id: 598650
Matching level: species

strain history

@ref	history
16293	<- S. D. Lee, Cheju National Univ., Rep. of Korea; RP-AC37
67771	<- SD Lee, Cheju Univ.

doi: 10.13145/bacdive17891.20230509.8.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/actinomycetota
domain: Bacteria
phylum: Actinomycetota
class: Actinomycetes
order: Motilibacterales
family: Motilibacteraceae
genus: Motilibacter
species: Motilibacter peucedani
full scientific name: Motilibacter peucedani Lee 2012

@ref: 16293

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Motilibacteraceae

genus: Motilibacter

species: Motilibacter peucedani

full scientific name: Motilibacter peucedani Lee 2012 emend. Nouioui et al. 2018

strain designation: RP-AC37

type strain: yes

Morphology

cell morphology

@ref	gram stain	cell length	cell width	cell shape	motility	confidence
30152	positive	1.9-2.4 µm	0.6-0.7 µm	rod-shaped	yes
67771	positive
69480	positive					100

pigmentation

@ref: 30152
production: yes

Culture and growth conditions

culture medium

@ref	name	growth	link	composition
16293	PYGV AGAR (DSMZ Medium 621)	yes	https://mediadive.dsmz.de/medium/621	Name: PYGV AGAR (DSMZ Medium 621) Composition: Agar 15.0 g/l MgSO4 x 7 H2O 0.625264 g/l Glucose 0.25 g/l Peptone 0.25 g/l Yeast extract 0.25 g/l Nitrilotriacetic acid 0.210526 g/l CaCl2 x 2 H2O 0.0703158 g/l FeSO4 x 7 H2O 0.00208422 g/l Na2MoO4 x 2 H2O 0.000266736 g/l Pyridoxine hydrochloride 0.0001 g/l p-Aminobenzoic acid 5e-05 g/l D-Calcium pantothenate 5e-05 g/l Nicotinamide 5e-05 g/l Thiamine-HCl x 2 H2O 5e-05 g/l Riboflavine 5e-05 g/l Folic acid 2e-05 g/l Biotin 2e-05 g/l Vitamin B12 1e-06 g/l Metall salt sol. 44 Distilled water
16293	GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)	yes	https://mediadive.dsmz.de/medium/65	Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water

culture temp

@ref	growth	type	temperature	range
16293	positive	growth	28	mesophilic
30152	positive	growth	20-37
30152	positive	optimum	30	mesophilic
67771	positive	growth	30	mesophilic

culture pH

@ref	ability	type	pH
30152	positive	growth	5.1-7.1
30152	positive	optimum	6.1-7.1

Physiology and metabolism

oxygen tolerance

@ref	oxygen tolerance
30152	aerobe
67771	aerobe

spore formation

@ref	spore formation	confidence
30152	no
69481	no	94
69480	no	94.43

halophily

@ref: 30152
salt: NaCl
growth: positive
tested relation: growth
concentration: <1 %

observation

@ref: 67771
observation: quinones: MK-9(H4)

metabolite utilization

@ref: 30152
Chebi-ID: 4853
metabolite: esculin
utilization activity: +
kind of utilization tested: hydrolysis

enzymes

@ref	value	activity	ec
30152	acid phosphatase	+	3.1.3.2
30152	alkaline phosphatase	+	3.1.3.1
30152	alpha-galactosidase	+	3.2.1.22
30152	catalase	+	1.11.1.6

Isolation, sampling and environmental information

isolation

@ref	sample type	host species	geographic location	country	origin.country	continent
16293	rhizosphere soil of Peucedanum japonicum Thunb.	Peucedanum japonicum	Mara Island of Jeju	Republic of Korea	KOR	Asia
67771	From rhizosphere soil, Peucedanum japonicum thunb.		Mara Island, Jeju	Republic of Korea	KOR	Asia

isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Rhizosphere

taxonmaps

@ref: 69479
File name: preview.99_58443.png
url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_94;96_25869;97_32451;98_41612;99_58443&stattab=map
Last taxonomy: Motilibacter peucedani subclade
16S sequence: FM998003
Sequence Identity:
Total samples: 1948
soil counts: 1097
aquatic counts: 86
animal counts: 240
plant counts: 525

Safety information

risk assessment

@ref: 16293
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref: 16293
description: Motilibacter peucedani partial 16S rRNA gene, type strain RP-AC37T
accession: FM998003
length: 1424
database: ena
NCBI tax ID: 598650

Genome sequences

@ref	description	accession	assembly level	database	NCBI tax ID
66792	Motilibacter peucedani RP-AC37	GCA_003634695	scaffold	ncbi	598650
66792	Motilibacter peucedani DSM 45328	2731639228	draft	img	598650

GC content

@ref	GC-content	method
16293	73.2	high performance liquid chromatography (HPLC)
30152	73.2

Genome-based predictions

predictions

trait	prediction	confidence	training_data
spore-forming	no	94	no
flagellated	no	93.619	no
gram-positive	yes	90.575	no
anaerobic	no	98.792	no
aerobic	yes	89.5	yes
halophile	no	96.98	yes
spore-forming	no	78.781	no
glucose-util	yes	86.778	no
thermophile	no	96.256	no
motile	yes	63.539	yes
glucose-ferment	no	80.139	no

External links

@ref: 16293

culture collection no.: DSM 45328, KCTC 19630

straininfo link

@ref: 86880
straininfo: 397636

literature

topic: Phylogeny
Pubmed-ID: 21421933
title: Motilibacter peucedani gen. nov., sp. nov., isolated from rhizosphere soil.
authors: Lee SD
journal: Int J Syst Evol Microbiol
DOI: 10.1099/ijs.0.030007-0
year: 2011
mesh: Actinomycetales/chemistry/*classification/genetics/*isolation & purification, Apiaceae/*microbiology, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Genes, rRNA, Lipids/analysis, Molecular Sequence Data, Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Republic of Korea, *Rhizosphere, Sequence Analysis, DNA, Species Specificity
topic2: Genetics

Reference

@id	authors	catalogue	doi/url	title	ID_cross_reference	pubmed	journal
16293	Curators of the DSMZ	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45328)	https://www.dsmz.de/collection/catalogue/details/culture/DSM-45328
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
30152	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	26503	28776041
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
67771	Curators of the KCTC		https://kctc.kribb.re.kr/En/Kctc
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
86880	Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.		10.60712/SI-ID397636.1	StrainInfo: A central database for resolving microbial strain identifiers