Labedella endophytica (DSM 28746, CPCC 203961, JCM 30092)

Name: Labedella endophytica (DSM 28746, CPCC 203961, JCM 30092)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 130416

Type strain

Culture col. no. DSM 28746 CPCC 203961 JCM 30092 KCTC 29494 EGI 6500705

NCBI tax ID(s) 1523160

Special Collections DSMZ JCM KCTC

Links

Labedella endophytica DSM 28746 is an aerobe, mesophilic prokaryote that was isolated from stem of a healthy halophyte sample of Anabasis eliator Schischk.

aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 401638

KCTC 29494,JCM 30092,DSM 28746

@ref 20215

Last LPSN update 2025-12-16 10:00:59

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Micrococcales

Family Microbacteriaceae

Genus Labedella

Species Labedella endophytica

Full scientific name Labedella endophytica Wang et al. 2015

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	positive	98.1
125438		90
125438	positive	90.139

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
22059	GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)		Medium recipe at MediaDive	Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
22059	positive	growth	28	mesophilic
67770	positive	growth	28	mesophilic
67771	positive	growth	28	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
67771	aerobe
125439	obligate aerobe

Observation

67770

Observationquinones: MK-9, MK-10, MK-11

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host	#Plants	#Shrub (Scrub)
#Host Body-Site	#Plant	#Stem (Branch)

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent
22059	stem of a healthy halophyte sample of Anabasis eliator (C. A. Mey.) Schischk	Anabasis elatior	Xinjiang Province, Urumqi	China	CHN	Asia
67770	Stem of a healthy halophyte Anabasis elatior (C. A. Mey.) Schischk	Anabasis elatior	suburban district of Urumqi, Xinjiang Province, north-west China	China	CHN	Asia
67771	Plant			China	CHN	Asia

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
22059	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	ASM399004v1 assembly for Labedella endophytica EGI 6500705	contig	GCA_003990045	1523160.3	2866561495	1523160	76.4

Genome browser: GCA_003990045

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
22059	Labedella endophytica strain EGI 6500705 16S ribosomal RNA gene, partial sequence	KM095501	1542		1523160

GC content

@ref	GC-content (mol%)	Method
22059	69.2	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Labedella endophytica EGI 6500705
NCBI: GCA_003990045

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	83.70	no
125439	motility	BacteriaNetⓘ	no	64.80	no
125439	gram_stain	BacteriaNetⓘ	positive	98.10	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	97.70	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Labedella endophytica EGI 6500705
NCBI: GCA_003990045.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	90.14	no
125438	anaerobic	anaerobicⓘ	no	98.40	yes
125438	aerobic	aerobicⓘ	yes	78.95	yes
125438	spore-forming	spore-formingⓘ	no	71.18	no
125438	thermophilic	thermophileⓘ	no	97.43	yes
125438	flagellated	motile2+ⓘ	no	90.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Metabolism	Biochemical identification of a hyperthermostable l-ribulose 3-epimerase from Labedella endophytica and its application for d-allulose bioconversion.	Chen D, Chen J, Liu X, Guang C, Zhang W, Mu W.	Int J Biol Macromol	10.1016/j.ijbiomac.2021.08.131	2021
Phylogeny	Labedella phragmitis sp. nov. and Labedella populi sp. nov., two endophytic actinobacteria isolated from plants in the Taklamakan Desert and emended description of the genus Labedella.	Li FN, Lu Q, Liao SL, Jin T, Li W, Sun CH	Syst Appl Microbiol	10.1016/j.syapm.2019.126004	2019
Phylogeny	Labedella endophytica sp. nov., a novel endophytic actinobacterium isolated from stem of Anabasis elatior (C. A. Mey.) Schischk.	Wang HF, Zhang YG, Cheng J, Hozzein WN, Liu WH, Li L, Chen JY, Guo JW, Zhang YM, Li WJ	Antonie Van Leeuwenhoek	10.1007/s10482-014-0307-0	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 )
#22059	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 28746
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#67771	Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
#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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Labedella endophytica (DSM 28746, CPCC 203961, JCM 30092)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Observation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_003990045

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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