Archive BacDiveID:10.13145/bacdive17890.20230509.8.1

Strain identifier

BacDive ID: 17890

Type strain:

Species: Aciditerrimonas ferrireducens

Strain Designation: IC-180

Strain history: T. Itoh IC-180.

NCBI tax ID(s): 1294026 (strain), 667306 (species)

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

General

@ref: 16166

BacDive-ID: 17890

DSM-Number: 45281

keywords: genome sequence, 16S sequence, Bacteria, thermophilic, Gram-positive

description: Aciditerrimonas ferrireducens IC-180 is a thermophilic, Gram-positive bacterium that was isolated from solfataric soil.

NCBI tax id

NCBI tax id	Matching level
667306	species
1294026	strain

strain history

@ref	history
16166	<- T. Itoh; JCM 15389
67770	T. Itoh IC-180.

doi: 10.13145/bacdive17890.20230509.8.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/actinomycetota
domain: Bacteria
phylum: Actinomycetota
class: Acidimicrobiia
order: Acidimicrobiales
family: Acidimicrobiales, not assigned to family
genus: Aciditerrimonas
species: Aciditerrimonas ferrireducens
full scientific name: Aciditerrimonas ferrireducens Itoh et al. 2011

@ref: 16166

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Acidimicrobiales

family: Acidimicrobiaceae

genus: Aciditerrimonas

species: Aciditerrimonas ferrireducens

full scientific name: Aciditerrimonas ferrireducens Itoh et al. 2011

strain designation: IC-180

type strain: yes

Morphology

cell morphology

@ref: 69480
gram stain: positive
confidence: 94.793

Culture and growth conditions

culture medium

@ref: 16166
name: AEROBIC SULFOLOBALES MEDIUM WITHOUT SULFUR (DSMZ Medium 1189)
growth: yes
link: https://mediadive.dsmz.de/medium/1189
composition: Name: AEROBIC SULFOLOBALES MEDIUM WITHOUT SULFUR (DSMZ Medium 1189) Composition: (NH4)2SO4 1.3 g/l Yeast extract 0.5 g/l KH2PO4 0.28 g/l MgSO4 x 7 H2O 0.25 g/l ZnSO4 x 7 H2O 0.22 g/l CaCl2 x 2 H2O 0.07 g/l Na2B4O7 x 10 H2O 0.0045 g/l MnCl2 x 4 H2O 0.0018 g/l CuCl2 x 2 H2O 5e-05 g/l Na2MoO4 x 2 H2O 3e-05 g/l VOSO4 x n H2O 3e-05 g/l CoSO4 x 7 H2O 1e-05 g/l Distilled water

culture temp

@ref	growth	type	temperature	range
16166	positive	growth	50	thermophilic
67770	positive	growth	50	thermophilic

Physiology and metabolism

spore formation

@ref	spore formation	confidence
69481	no	94
69480	no	99.999

observation

@ref: 67770
observation: quinones: MK-7

Isolation, sampling and environmental information

isolation

@ref	sample type	geographic location	country	origin.country	continent
16166	solfataric soil	Kanagawa, Hakone, Ohwaku-dani	Japan	JPN	Asia
67770	Solfataric field in Hakone		Japan	JPN	Asia

isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil
#Environmental	#Terrestrial	#Volcanic

taxonmaps

@ref: 69479
File name: preview.99_24958.png
url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_1007;96_12489;97_15163;98_18762;99_24958&stattab=map
Last taxonomy: Aciditerrimonas ferrireducens subclade
16S sequence: AB517669
Sequence Identity:
Total samples: 1243
soil counts: 963
aquatic counts: 215
animal counts: 35
plant counts: 30

Safety information

risk assessment

@ref: 16166
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref: 16166
description: Aciditerrimonas ferrireducens gene for 16S rRNA, partial sequence
accession: AB517669
length: 1483
database: ena
NCBI tax ID: 1294026

Genome sequences

@ref	description	accession	assembly level	database	NCBI tax ID
66792	Aciditerrimonas ferrireducens JCM 15389	1294026.5	wgs	patric	1294026
66792	Aciditerrimonas ferrireducens JCM 15389	2728369701	draft	img	1294026
67770	Aciditerrimonas ferrireducens JCM 15389	GCA_001311945	contig	ncbi	1294026

GC content

@ref: 16166
GC-content: 74.1
method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

trait	prediction	confidence	training_data
spore-forming	no	94	no
motile	yes	58.998	no
gram-positive	no	65.09	no
anaerobic	no	91.418	no
aerobic	yes	68.011	no
halophile	no	94.962	no
spore-forming	no	93.899	no
thermophile	yes	69.408	yes
glucose-util	yes	85.868	no
flagellated	no	93.73	no
glucose-ferment	no	72.027	no

External links

@ref: 16166

culture collection no.: DSM 45281, JCM 15389

straininfo link

@ref: 86879
straininfo: 399275

literature

topic	Pubmed-ID	title	authors	journal	DOI	year	mesh	topic2
Phylogeny	20639230	Aciditerrimonas ferrireducens gen. nov., sp. nov., an iron-reducing thermoacidophilic actinobacterium isolated from a solfataric field.	Itoh T, Yamanoi K, Kudo T, Ohkuma M, Takashina T	Int J Syst Evol Microbiol	10.1099/ijs.0.023044-0	2010	Actinobacteria/classification/genetics/isolation & purification/physiology, Aerobiosis, Autotrophic Processes, Base Composition, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Heterotrophic Processes, Hydrogen-Ion Concentration, Iron/metabolism, Japan, Locomotion, Molecular Sequence Data, Oxidation-Reduction, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil Microbiology, Temperature, Vitamin K 2/analysis	Genetics
Phylogeny	32375942	Acidiferrimicrobium australe gen. nov., sp. nov., an acidophilic and obligately heterotrophic, member of the Actinobacteria that catalyses dissimilatory oxido-reduction of iron isolated from metal-rich acidic water in Chile.	Gonzalez D, Huber KJ, Tindall B, Hedrich S, Rojas-Villalobos C, Quatrini R, Dinamarca MA, Ibacache-Quiroga C, Schwarz A, Canales C, Nancucheo I	Int J Syst Evol Microbiol	10.1099/ijsem.0.004179	2020	Acids, Actinobacteria/classification/isolation & purification, Bacterial Typing Techniques, Base Composition, Chile, DNA, Bacterial/genetics, Fatty Acids/chemistry, Heterotrophic Processes, Hydrogen-Ion Concentration, Iron/metabolism, Mining, Oxidation-Reduction, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Water Microbiology	Transcriptome
Metabolism	33891590	Elucidating the effect of biofertilizers on bacterial diversity in maize rhizosphere soil.	Wang J, Liu L, Gao X, Hao J, Wang M	PLoS One	10.1371/journal.pone.0249834	2021	Bacillus subtilis/pathogenicity, Crop Production/methods, Fertilizers/microbiology, Microbiota, Rhizosphere, Soil Microbiology, Zea mays/growth & development/metabolism/*microbiology

Reference

@id	authors	catalogue	doi/url	title
16166	Curators of the DSMZ	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45281)	https://www.dsmz.de/collection/catalogue/details/culture/DSM-45281
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
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)
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
86879	Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.		10.60712/SI-ID399275.1	StrainInfo: A central database for resolving microbial strain identifiers