Archive BacDiveID:10.13145/bacdive24110.20230509.8.1

Strain identifier

BacDive ID: 24110

Type strain:

Species: Oryzihumus terrae

Strain Designation: KIS22-12

Strain history: <- S. W. Kwon, KACC; KIS22-12

NCBI tax ID(s): 1443800 (species)

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

General

@ref: 20702

BacDive-ID: 24110

DSM-Number: 27161

keywords: 16S sequence, Bacteria, mesophilic

description: Oryzihumus terrae KIS22-12 is a mesophilic bacterium that was isolated from soil.

NCBI tax id

NCBI tax id: 1443800
Matching level: species

strain history

@ref: 20702
history: <- S. W. Kwon, KACC; KIS22-12

doi: 10.13145/bacdive24110.20230509.8.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/actinomycetota
domain: Bacteria
phylum: Actinomycetota
class: Actinomycetes
order: Micrococcales
family: Intrasporangiaceae
genus: Oryzihumus
species: Oryzihumus terrae
full scientific name: Oryzihumus terrae Lim et al. 2014

@ref: 20702

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Intrasporangiaceae

genus: Oryzihumus

species: Oryzihumus terrae

full scientific name: Oryzihumus terrae Lim et al. 2014

strain designation: KIS22-12

type strain: yes

Culture and growth conditions

culture medium

@ref	name	growth	link	composition
20702	GLYCEROL-YEAST EXTRACT-PEPTONE MEDIUM (DSMZ Medium 1484)	yes	https://mediadive.dsmz.de/medium/1484	Name: Glycerol-Yeast extract-Peptone Medium (DSMZ Medium 1484) Composition: Agar 15.0 g/l Yeast extract 5.0 g/l Bacto peptone 3.0 g/l Betaine 1.25 g/l Sodium pyruvate 1.25 g/l MgSO4 x 7 H2O 0.03 g/l Nitrilotriacetic acid 0.015 g/l NaCl 0.01 g/l MnSO4 x H2O 0.005 g/l ZnSO4 x 7 H2O 0.0018 g/l CoSO4 x 7 H2O 0.0018 g/l FeSO4 x 7 H2O 0.001 g/l CaCl2 x 2 H2O 0.001 g/l NiCl2 x 6 H2O 0.0003 g/l AlK(SO4)2 x 12 H2O 0.0002 g/l Pyridoxine hydrochloride 0.0001 g/l Na2MoO4 x 2 H2O 0.0001 g/l H3BO3 0.0001 g/l CuSO4 x 5 H2O 0.0001 g/l (DL)-alpha-Lipoic acid 5e-05 g/l p-Aminobenzoic acid 5e-05 g/l Calcium D-(+)-pantothenate 5e-05 g/l Nicotinic acid 5e-05 g/l Riboflavin 5e-05 g/l Thiamine HCl 5e-05 g/l Folic acid 2e-05 g/l Biotin 2e-05 g/l Na2WO4 x 2 H2O 4e-06 g/l Na2SeO3 x 5 H2O 3e-06 g/l Vitamin B12 1e-06 g/l Glycerol Distilled water
20702	R2A MEDIUM (DSMZ Medium 830)	yes	https://mediadive.dsmz.de/medium/830	Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water

culture temp

@ref: 20702
growth: positive
type: growth
temperature: 28
range: mesophilic

Isolation, sampling and environmental information

isolation

@ref: 20702
sample type: soil
geographic location: Baengnyeong Island, Onjin county
country: Republic of Korea
origin.country: KOR
continent: Asia

isolation source categories

Cat1: #Environmental
Cat2: #Terrestrial
Cat3: #Soil

taxonmaps

@ref: 69479
File name: preview.99_66051.png
url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_18649;97_23075;98_46613;99_66051&stattab=map
Last taxonomy: Oryzihumus terrae subclade
16S sequence: KF749263
Sequence Identity:
Total samples: 15595
soil counts: 10993
aquatic counts: 701
animal counts: 611
plant counts: 3290

Safety information

risk assessment

@ref: 20702
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref: 20702
description: Oryzihumus terrae strain KIS22-12 16S ribosomal RNA gene, partial sequence
accession: KF749263
length: 1457
database: ena
NCBI tax ID: 1443800

GC content

@ref: 20702
GC-content: 75.0
method: fluorimetric

External links

@ref: 20702

culture collection no.: DSM 27161, KACC 16543, NBRC 109596

straininfo link

@ref: 88070
straininfo: 406071

literature

topic	Pubmed-ID	title	authors	journal	DOI	year	mesh	topic2
Phylogeny	24760799	Oryzihumus terrae sp. nov., isolated from soil and emended description of the genus Oryzihumus.	Lim JM, Kim SJ, Hamada M, Ahn JH, Weon HY, Suzuki KI, Ahn TY, Kwon SW	Int J Syst Evol Microbiol	10.1099/ijs.0.060897-0	2014	Actinomycetales/classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Peptidoglycan/chemistry, Phospholipids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry	Genetics
Phylogeny	28884678	Oryzihumus soli sp. nov., isolated from soil and emended description of the genus Oryzihumus.	Kim DU, Kim SG, Lee H, Park AY, Ka JO	Int J Syst Evol Microbiol	10.1099/ijsem.0.002231	2017	Actinomycetales/classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Glycolipids/chemistry, Peptidoglycan/chemistry, Phospholipids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry	Transcriptome

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
20702	Curators of the DSMZ		https://www.dsmz.de/collection/catalogue/details/culture/DSM-27161	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 27161)
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.	MicrobeAtlas 1.0 beta	https://microbeatlas.org/
88070	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-ID406071.1