Demequina phytophila (DSM 28150, H12-45, NBRC 109391)

Name: Demequina phytophila (DSM 28150, H12-45, NBRC 109391)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 131533

Type strain

Strain Designation H12-45, HI12-45

Culture col. no. DSM 28150 H12-45 NBRC 109391 HI12-45

NCBI tax ID(s) 1638981

Special Collections DSMZ

Links

Demequina phytophila H12-45 is a mesophilic prokaryote that was isolated from rhizosphere soil of mangrove.

mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 405742

NBRC 109391,DSM 28150

@ref 20215

Last LPSN update 2025-12-16 10:01:16

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Micrococcales

Family Demequinaceae

Genus Demequina

Species Demequina phytophila

Full scientific name Demequina phytophila Nouioui et al. 2018

Synonyms (1)

Lysinimicrobium flavum

Morphology

Cell morphology

@ref	Motility	Confidence	Gram stain
125438		91
125439		99.6	positive

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
22760	TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)		Medium recipe at MediaDive	Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
22760	positive	growth	28	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	95.3

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Mangrove
#Environmental	#Terrestrial	#Soil
#Host	#Plants	-
#Host Body-Site	#Plant	#Rhizosphere

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
22760	rhizosphere soil of mangrove	Okinawa, Iriomote Island	Japan	JPN	Asia

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
22760	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM97113v1 assembly for Demequina phytophila NBRC 109391	contig	GCA_000971135	1536633.3	2690315966	1638981	76.18

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
22760	Lysinimicrobium flavum gene for 16S ribosomal RNA, partial sequence	LC042201	1477		1638981

GC content

@ref	GC-content (mol%)	Method
22760	71.7	sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Demequina phytophila NBRC 109391
NCBI: GCA_000971135

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	65.60	no
125439	motility	BacteriaNetⓘ	no	78.80	no
125439	gram_stain	BacteriaNetⓘ	positive	99.60	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	95.30	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Lysinimicrobium sp. NBRC 109391
PATRIC: 1536633.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	88.82	no
125438	anaerobic	anaerobicⓘ	no	91.77	no
125438	spore-forming	spore-formingⓘ	no	69.16	no
125438	aerobic	aerobicⓘ	yes	63.47	no
125438	thermophilic	thermophileⓘ	no	96.50	no
125438	flagellated	motile2+ⓘ	no	91.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Genome-Based Taxonomic Classification of the Phylum Actinobacteria.	Nouioui I, Carro L, Garcia-Lopez M, Meier-Kolthoff JP, Woyke T, Kyrpides NC, Pukall R, Klenk HP, Goodfellow M, Goker M.	Front Microbiol	10.3389/fmicb.2018.02007	2018
Phylogeny	Proposal of nine novel species of the genus Lysinimicrobium and emended description of the genus Lysinimicrobium.	Hamada M, Shibata C, Saitou S, Tamura T, Komaki H, Ichikawa N, Oguchi A, Hosoyama A, Fujita N, Yamamura H, Hayakawa M, Suzuki KI	Int J Syst Evol Microbiol	10.1099/ijsem.0.000587	2015

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 )
#22760	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 28150
#66792	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .
#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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Demequina phytophila (DSM 28150, H12-45, NBRC 109391)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000971135

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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