Archive BacDiveID:10.13145/bacdive132324.20230509.8.1

Strain identifier

BacDive ID: 132324

Type strain:

Species: Phycicoccus sp.

Strain Designation: Root101

Strain history: <- P. Schulze-Lefert, Max Planck Institute for Plant Breeding Research, Cologne, Germany; Root101 <- Y. Bai

NCBI tax ID(s): 1902410 (species)

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

General

@ref: 24113

BacDive-ID: 132324

DSM-Number: 102498

keywords: genome sequence, Bacteria, mesophilic

description: Phycicoccus sp. Root101 is a mesophilic bacterium that was isolated from roots of Arabidopsis thaliana ecotype Shakdara .

NCBI tax id

NCBI tax id: 1902410
Matching level: species

strain history

@ref: 24113
history: <- P. Schulze-Lefert, Max Planck Institute for Plant Breeding Research, Cologne, Germany; Root101 <- Y. Bai

doi: 10.13145/bacdive132324.20230509.8.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/actinomycetota
domain: Bacteria
phylum: Actinomycetota
class: Actinomycetes
order: Micrococcales
family: Intrasporangiaceae
genus: Phycicoccus
species: Phycicoccus sp.
full scientific name: Phycicoccus Lee 2006

@ref: 24113

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Intrasporangiaceae

genus: Phycicoccus

species: Phycicoccus sp.

full scientific name: Phycicoccus sp.

strain designation: Root101

type strain: no

Culture and growth conditions

culture medium

@ref: 24113
name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)
growth: yes
link: https://mediadive.dsmz.de/medium/92
composition: Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water

culture temp

@ref: 24113
growth: positive
type: growth
temperature: 28
range: mesophilic

Isolation, sampling and environmental information

isolation

@ref: 24113
sample type: roots of Arabidopsis thaliana ecotype Shakdara (Sha)
host species: Arabidopsis thaliana
geographic location: Cologne (50.958N 6.856E)
country: Germany
origin.country: DEU
continent: Europe
latitude: 50.958
longitude: 6.856

isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Root (Rhizome)

Sequence information

Genome sequences

@ref	description	accession	assembly level	database	NCBI tax ID
66792	Phycicoccus sp. Root101	GCA_001426245	contig	ncbi	1736421
66792	Phycicoccus sp. Root101	1736421.3	wgs	patric	1736421
66792	Phycicoccus sp. Root101	2643221624	draft	img	1736421

Genome-based predictions

predictions

trait	prediction	confidence	training_data
motile	no	68.96	no
gram-positive	yes	91.42	no
anaerobic	no	99.188	no
aerobic	yes	93.577	no
halophile	no	97.61	no
spore-forming	no	87.391	no
thermophile	no	95.597	no
glucose-util	yes	85.388	no
flagellated	no	94.779	no
glucose-ferment	no	90.038	no

External links

@ref: 24113

culture collection no.: DSM 102498

straininfo link

@ref: 90671
straininfo: 404049

Reference

@id	authors	title	doi/url	catalogue
20215	Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.	List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ	10.1099/ijsem.0.004332
24113	Curators of the DSMZ		https://www.dsmz.de/collection/catalogue/details/culture/DSM-102498	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 102498)
66792	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann	Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)	https://diaspora-project.de/progress.html#genomes
90671	Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.	StrainInfo: A central database for resolving microbial strain identifiers	10.60712/SI-ID404049.1