Archive BacDiveID:10.13145/bacdive10892.20221219.7.1

Strain identifier

BacDive ID: 10892

Type strain:

Species: Rhodococcus marinonascens

Strain Designation: 3438W

Strain history: DSM 43752 <-- H. Weyland 3438W.

NCBI tax ID(s): 1219020 (strain), 38311 (species)

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

General

@ref: 11249

BacDive-ID: 10892

DSM-Number: 43752

keywords: genome sequence, 16S sequence, Bacteria, mesophilic

description: Rhodococcus marinonascens 3438W is a mesophilic bacterium that was isolated from marine sediment.

NCBI tax id

NCBI tax id	Matching level
1219020	strain
38311	species

strain history

doi: 10.13145/bacdive10892.20221219.7.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/actinomycetota
domain: Bacteria
phylum: Actinomycetota
class: Actinomycetes
order: Mycobacteriales
family: Nocardiaceae
genus: Rhodococcus
species: Rhodococcus marinonascens
full scientific name: Rhodococcus marinonascens Helmke and Weyland 1984

@ref: 11249

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Nocardiaceae

genus: Rhodococcus

species: Rhodococcus marinonascens

full scientific name: Rhodococcus marinonascens Helmke and Weyland 1984

strain designation: 3438W

type strain: yes

Morphology

cell morphology

@ref: 69480
gram stain: positive
confidence: 96.305

Culture and growth conditions

culture medium

@ref	name	growth	link	composition
11249	ARTIFICIAL SEA WATER – TRYPTONE SOY BROTH MEDIUM (ASW TSB MEDIUM) (DSMZ Medium 1691)	yes	https://mediadive.dsmz.de/medium/1691	Name: Artificial sea water - Tryptone soy broth Medium (ASW TSB Medium) (DSMZ Medium 1691) Composition: NaCl 27.2 g/l Agar 20.0 g/l Trypticase peptone 17.0 g/l MgSO4 x 7 H2O 11.88 g/l MgCl2 x 6 H2O 9.06 g/l Soy peptone 3.0 g/l CaCl2 x 2 H2O 2.6 g/l D-Glucose 2.5 g/l KCl 1.28 g/l Na2HPO4 x 2 H2O 0.02 g/l NH4NO3 0.0042 g/l HCl 0.0025 g/l FeCl2 x 4 H2O 0.0015 g/l CoCl2 x 6 H2O 0.00019 g/l MnCl2 x 4 H2O 0.0001 g/l ZnCl2 7e-05 g/l Na2MoO4 x 2 H2O 3.6e-05 g/l NiCl2 x 6 H2O 2.4e-05 g/l Pyridoxine hydrochloride 1e-05 g/l H3BO3 6e-06 g/l Lipoic acid 5e-06 g/l p-Aminobenzoic acid 5e-06 g/l D-Calcium pantothenate 5e-06 g/l Nicotinic acid 5e-06 g/l Riboflavin 5e-06 g/l Thiamine-HCl x 2 H2O 5e-06 g/l Folic acid 2e-06 g/l Biotin 2e-06 g/l CuCl2 x 2 H2O 2e-06 g/l Vitamin B12 1e-07 g/l Double distilled water Distilled water
11249	LB (Luria-Bertani) MEDIUM (DSMZ Medium 381)	yes	https://mediadive.dsmz.de/medium/381	Name: LB (Luria-Bertani) MEDIUM (DSMZ Medium 381; with strain-specific modifications) Composition: NaCl 30.0 g/l Agar 20.0 g/l Tryptone 10.0 g/l Yeast extract 5.0 g/l Distilled water
11249	SEA WATER AGAR (DSMZ Medium 246)	yes	https://mediadive.dsmz.de/medium/246	Name: SEA WATER AGAR (DSMZ Medium 246) Composition: Agar 20.0 g/l Peptone 10.0 g/l Beef extract 10.0 g/l Tap water Sea water
34041	Marine agar (MA)	yes		Distilled water make up to (1000.000 ml);Marine agar (55.100 g)

culture temp

@ref	growth	type	temperature	range
11249	positive	growth	28	mesophilic
11249	positive	growth	18	psychrophilic
34041	positive	growth	18	psychrophilic
67770	positive	growth	18	psychrophilic

Physiology and metabolism

spore formation

@ref: 69480
spore formation: no
confidence: 69.558

halophily

@ref: 69480
halophily level: non-halophilic
confidence: 90.328

Isolation, sampling and environmental information

isolation

@ref	sample type
11249	marine sediment
67770	Marine sediment

isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment

taxonmaps

@ref: 69479
File name: preview.99_6550.png
url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_181;97_445;98_509;99_6550&stattab=map
Last taxonomy: Rhodococcus marinonascens
16S sequence: X80617
Sequence Identity:
Total samples: 1517
soil counts: 1055
aquatic counts: 143
animal counts: 192
plant counts: 127

Safety information

risk assessment

@ref	biosafety level	biosafety level comment
11249	1	Risk group (German classification)
19584	1	Risk group (German classification)

Sequence information

16S sequences

@ref	description	accession	length	database	NCBI tax ID
20218	R.marinonanscens 16S rRNA gene (ATCC 35653T)	X81933	1315	ena	38311
20218	Rhodococcus marinonascens 16S rRNA gene, strain DSM43752T	X80617	1474	ena	38311

Genome sequences

@ref	description	accession	assembly level	database	NCBI tax ID
66792	Rhodococcus marinonascens NBRC 14363	1219020.3	wgs	patric	1219020
66792	Rhodococcus marinonascens NBRC 14363	2867152395	draft	img	1219020
67770	Rhodococcus marinonascens NBRC 14363 NBRC 14363	GCA_001894885	contig	ncbi	1219020
66792	Klebsiella pneumoniae SIKP188	GCA_004833185	contig	patric	573

GC content

@ref	GC-content	method
11249	64.9
67770	64.9	thermal denaturation, midpoint method (Tm)

External links

@ref: 11249

culture collection no.: DSM 43752, ATCC 35653, IFO 14363, JCM 6241, NBRC 14363, NCMB 2246, BCRC 13696, CECT 4621, CGMCC 4.1726, CIP 104177, KCTC 9809, NCIMB 2246, NRRL B-16940, VKM Ac-1182

straininfo link

@ref	passport
20218	http://www.straininfo.net/strains/111020
20218	http://www.straininfo.net/strains/111019
20218	http://www.straininfo.net/strains/154614
20218	http://www.straininfo.net/strains/154615
20218	http://www.straininfo.net/strains/335151
20218	http://www.straininfo.net/strains/168632

Reference

@id	authors	catalogue	doi/url	title	journal	pubmed
11249	Curators of the DSMZ	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43752)	https://www.dsmz.de/collection/catalogue/details/culture/DSM-43752
19584	Wink, J.		http://www.dsmz.de/microorganisms/wink_pdf/DSM43752.pdf	Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.		10.1016/j.syapm.2013.11.002	StrainInfo introduces electronic passports for microorganisms.	Syst Appl Microbiol. 37: 42-50 2014	24321274
34041	Curators of the CIP		https://brclims.pasteur.fr/brcWeb/souche/detail/1/16057
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)
67770	Curators of the JCM		https://jcm.brc.riken.jp/en/
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)