Archive BacDiveID:10.13145/bacdive134335.20230509.8.1

Strain identifier

BacDive ID: 134335

Type strain:

Species: Halobacterium salinarum

Strain Designation: HPC1-2

Strain history: W. Visessanguan HPC1-2.

NCBI tax ID(s): 2242 (species)

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

General

@ref: 32504

BacDive-ID: 134335

keywords: 16S sequence, Archaea, facultative anaerobe, Gram-negative, motile, rod-shaped

description: Halobacterium salinarum HPC1-2 is a facultative anaerobe, Gram-negative, motile archaeon that was isolated from salt fermented fish.

NCBI tax id

NCBI tax id: 2242
Matching level: species

strain history

@ref: 67770
history: W. Visessanguan HPC1-2.

doi: 10.13145/bacdive134335.20230509.8.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/archaea
keyword: phylum/methanobacteriota
domain: Archaea
phylum: Methanobacteriota
class: Halobacteria
order: Halobacteriales
family: Halobacteriaceae
genus: Halobacterium
species: Halobacterium salinarum
full scientific name: Halobacterium salinarum corrig. (Harrison and Kennedy 1922) Elazari-Volcani 1957 (Approved Lists 1980)

synonyms

@ref	synonym
20215	Serratia cutirubra
20215	Halobacterium cutirubrum
20215	Halobacterium halobium
20215	Bacterium halobium
20215	Halobacterium salinarium
20215	Halobacterium piscisalsi
20215	Pseudomonas salinaria
20215	Halobacter salinaria
20215	Halobacter cutirubrum

@ref: 32504

domain: Archaea

phylum: Euryarchaeota

class: Halobacteria

order: Halobacteriales

family: Halobacteriaceae

genus: Halobacterium

species: Halobacterium salinarum

strain designation: HPC1-2

type strain: no

Morphology

cell morphology

@ref: 32504
gram stain: negative
cell length: 01-02 µm
cell width: 0.5-1 µm
cell shape: rod-shaped
motility: yes

pigmentation

@ref: 32504
production: yes

Culture and growth conditions

culture temp

@ref	growth	type	temperature	range
32504	positive	growth	20-60
32504	positive	optimum	37-40
67770	positive	growth	37	mesophilic

culture pH

@ref	ability	type	pH
32504	positive	growth	05-08
32504	positive	optimum	7-7.5

Physiology and metabolism

oxygen tolerance

@ref: 32504
oxygen tolerance: facultative anaerobe

spore formation

@ref: 32504
spore formation: no

halophily

@ref	salt	growth	tested relation	concentration
32504	NaCl	positive	growth	15.08-24.94 %
32504	NaCl	positive	optimum	19.72-24.94 %

observation

@ref	observation
32504	aggregates in chains
67770	quinones: MK-8

metabolite utilization

@ref	Chebi-ID	metabolite	utilization activity	kind of utilization tested
32504	16947	citrate	+	carbon source
32504	17754	glycerol	+	carbon source
32504	17716	lactose	+	carbon source

enzymes

@ref	value	activity	ec
32504	catalase	+	1.11.1.6
32504	cytochrome oxidase	+	1.9.3.1

Isolation, sampling and environmental information

isolation

@ref	sample type
32504	salt fermented fish
67770	Salt-fermented fish product (pla-ra) of Thailand

isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Food production	#Seafood
#Host	#Fishes
#Condition	#Saline
#Engineered	#Food production	#Fermented

taxonmaps

@ref: 69479
File name: preview.99_187322.png
url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17654;96_68930;97_89585;98_121877;99_187322&stattab=map
Last taxonomy: Halobacterium salinarum
16S sequence: AB545861
Sequence Identity:
Total samples: 33
soil counts: 5
aquatic counts: 26
animal counts: 2

Sequence information

16S sequences

@ref	description	accession	length	database	NCBI tax ID
32504	Halobacterium sp. HPC1-2 gene for 16S ribosomal RNA, partial sequence	AB285020	1375	nuccore	2242
67770	Halobacterium piscisalsi gene for 16S ribosomal RNA, partial sequence, strain: JCM 14661	AB545861	1473	ena	2242

GC content

@ref	GC-content	method
32504	65.5
67770	65.5	high performance liquid chromatography (HPLC)

External links

@ref: 32504

culture collection no.: BCC 24372, JCM 14661, PCU 302

literature

topic	Pubmed-ID	title	authors	journal	DOI	year	mesh	topic2
Phylogeny	18768619	Halobacterium piscisalsi sp. nov., from fermented fish (pla-ra) in Thailand.	Yachai M, Tanasupawat S, Itoh T, Benjakul S, Visessanguan W, Valyasevi R	Int J Syst Evol Microbiol	10.1099/ijs.0.65592-0	2008	Base Composition, Carbohydrate Metabolism, DNA, Archaeal/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fish Products/microbiology, Genes, rRNA, Halobacterium/classification/genetics/*isolation & purification/physiology, Hydrogen-Ion Concentration, Hypotonic Solutions/toxicity, Locomotion, Microbial Viability, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, RNA, Archaeal/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Sodium Chloride/metabolism, Temperature, Thailand	Metabolism
Phylogeny	22058320	Halobacterium piscisalsi Yachai et al. 2008 is a later heterotypic synonym of Halobacterium salinarum Elazari-Volcani 1957.	Minegishi H, Echigo A, Shimane Y, Kamekura M, Tanasupawat S, Visessanguan W, Usami R	Int J Syst Evol Microbiol	10.1099/ijs.0.036905-0	2011	DNA, Archaeal/genetics, DNA-Directed RNA Polymerases/genetics, Food Microbiology, Halobacterium/classification/genetics/isolation & purification, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Thailand	Biotechnology

Reference

@id	authors	title	doi/url	ID_cross_reference	pubmed
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
32504	Barberan A, Caceres Velazquez H, Jones S, Fierer N.	Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information	10.1128/mSphere.00237-17	28724	28776041
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.	MicrobeAtlas 1.0 beta	https://microbeatlas.org/