Halalkalibacterium ligniniphilum (DSM 26145, JCM 18543, L1)

Name: Halalkalibacterium ligniniphilum (DSM 26145, JCM 18543, L1)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 23714

Type strain

Strain Designation L1

Culture col. no. DSM 26145 JCM 18543 L1

NCBI tax ID(s) 1134413

Special Collections DSMZ JCM

History <- D. Zhu, Jiangsu Univ., Zhenjiang, People's Republic of China; L1 D. Zhu L1.

Links

Halalkalibacterium ligniniphilum L1 is a bacterium that was isolated from marine benthic sediment.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 408188

JCM 18543,DSM 26145

@ref 20215

Last LPSN update 2026-02-09 11:23:47

Domain Bacteria

Phylum Bacillota

Class Bacilli

Order Caryophanales

Family Bacillaceae

Genus Halalkalibacterium

Species Halalkalibacterium ligniniphilum

Full scientific name Halalkalibacterium ligniniphilum (Zhu et al. 2014) Joshi et al. 2022

Synonyms (2)

Alkalihalobacillus ligniniphilus
Bacillus ligniniphilus

Morphology

Cell morphology

@ref	Motility	Confidence
125439		90.3

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
20442	ALKALINE NUTRIENT AGAR (DSMZ Medium 31)		Medium recipe at MediaDive	Name: ALKALINE NUTRIENT AGAR (DSMZ Medium 31) Composition: Agar 15.0 g/l Na2CO3 anhydrous 5.3 g/l Peptone 5.0 g/l NaHCO3 4.2 g/l Meat extract 3.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
20442	positive	growth	30
67770	positive	growth	30

Physiology and metabolism

Spore formation

@ref	Spore formation	Confidence
125438		91.475
125439		93.8

Observation

67770

Observationquinones: MK-7

Isolation, sampling and environmental information

Isolation source categories

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

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude
20442	marine benthic sediment	South China Sea (18° 44.606' N, 119° 44.263' W at a depth of 3415 m)	China	CHN	Asia	18.7434	119.738 18.7434/119.738
67770	Sediment sample from the South China Sea

Taxonmaps

69479

Global distribution of 16S sequence JQ044788 (>99% sequence identity) for Alkalihalobacillus ligniniphilus subclade from Microbeatlas

Aquatic Samples	12
Soil Samples	91
Animal Samples	229
Plant Samples	4
Total Samples	336

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
20442	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	L1 assembly for Halalkalibacterium ligniniphilum L1	contig	GCA_000334155	1134413.3	2551306660	1134413	34.27

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20442	Bacillus sp. L1(2012) 16S ribosomal RNA gene, partial sequence	JQ044788	1469		1134413

GC content

@ref	GC-content (mol%)	Method
20442	40.76	sequence analysis
67770	40.76	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Halalkalibacterium ligniniphilum L1
NCBI: GCA_000334155

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	93.80	no
125439	motility	BacteriaNetⓘ	yes	90.30	no
125439	gram_stain	BacteriaNetⓘ	variable	82.60	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	83.80	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Halalkalibacterium ligniniphilum L1
NCBI: GCA_000334155.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	78.37	no
125438	anaerobic	anaerobicⓘ	no	89.24	no
125438	aerobic	aerobicⓘ	yes	79.42	no
125438	spore-forming	spore-formingⓘ	yes	91.48	no
125438	thermophilic	thermophileⓘ	no	92.90	yes
125438	flagellated	motile2+ⓘ	yes	83.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Phylogenetic survey of the subtilase family and a data-mining-based search for new subtilisins from Bacillaceae.	Falkenberg F, Bott M, Bongaerts J, Siegert P.	Front Microbiol	10.3389/fmicb.2022.1017978	2022
	Alkalihalobacterium elongatum gen. nov. sp. nov.: An Antibiotic-Producing Bacterium Isolated From Lonar Lake and Reclassification of the Genus Alkalihalobacillus Into Seven Novel Genera.	Joshi A, Thite S, Karodi P, Joseph N, Lodha T.	Front Microbiol	10.3389/fmicb.2021.722369	2021
Phylogeny	Bacillus ligniniphilus sp. nov., an alkaliphilic and halotolerant bacterium isolated from sediments of the South China Sea.	Zhu D, Tanabe SH, Xie C, Honda D, Sun J, Ai L	Int J Syst Evol Microbiol	10.1099/ijs.0.058610-0	2014

References

#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. IJSEM ( DOI 10.1099/ijsem.0.004332 )
#20442	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 26145
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#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 .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Halalkalibacterium ligniniphilum (DSM 26145, JCM 18543, L1)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Spore formation

Observation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000334155

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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