Microbacterium endophyticum (DSM 27099, CECT 8354, PA15)

Name: Microbacterium endophyticum (DSM 27099, CECT 8354, PA15)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 130412

Type strain

Strain Designation PA15

Culture col. no. DSM 27099 CECT 8354 PA15

NCBI tax ID(s) 1526412

Special Collections DSMZ

Links

Microbacterium endophyticum PA15 is a mesophilic prokaryote that was isolated from surface sterilized roots and aerial parts of sea purslane , a salt-marsh halophyte.

mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 395114

CECT 8354,DSM 27099

@ref 20215

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

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Micrococcales

Family Microbacteriaceae

Genus Microbacterium

Species Microbacterium endophyticum

Full scientific name Microbacterium endophyticum Alves et al. 2015

Morphology

Cell morphology

@ref	Confidence	Gram stain
125438	93.5
125438	91.46	positive
125439	93.1	positive
125439	90.4

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
21665	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
21665	positive	growth	28	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	93.8

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Shrub (Scrub)
#Host Body-Site	#Plant	#Root (Rhizome)
#Host Body-Site	#Plant	#Sterilized plant part

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude
21665	surface sterilized roots and aerial parts of sea purslane (Halimione portulacoides), a salt-marsh halophyte	Halimione portulacoides	Murtosa, Largo do Laranjo, Ria de Aveiro (40°43'48.0''N 8°36'45.5''W)	Portugal	PRT	Europe	40.73	-8.6126 40.73/-8.6126

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
21665	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	ASM1104713v1 assembly for Microbacterium endophyticum DSM 27099	complete	GCA_011047135	1526412.3	8004186018	1526412	99.3
66792	ASM1176144v1 assembly for Microbacterium endophyticum CECT 8354	scaffold	GCA_011761445	1526412.4	2824462937	1526412	77.5
66792	ASM1419146v1 assembly for Microbacterium endophyticum DSM 27099	contig	GCA_014191465	1526412.6	2824230971	1526412	73.57

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
21665	Microbacterium endophyticum strain PA15 16S ribosomal RNA gene, partial sequence	KJ920264	1438		1526412

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Microbacterium endophyticum DSM 27099
NCBI: GCA_011047135

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	79.80	no
125439	motility	BacteriaNetⓘ	no	90.40	no
125439	gram_stain	BacteriaNetⓘ	positive	93.10	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	93.80	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Microbacterium endophyticum DSM 27099
NCBI: GCA_011047135.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	91.46	no
125438	anaerobic	anaerobicⓘ	no	97.29	no
125438	aerobic	aerobicⓘ	yes	80.88	no
125438	spore-forming	spore-formingⓘ	no	76.55	no
125438	thermophilic	thermophileⓘ	no	93.93	yes
125438	flagellated	motile2+ⓘ	no	93.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Microbacterium endophyticum sp. nov. and Microbacterium halimionae sp. nov., endophytes isolated from the salt-marsh plant Halimione portulacoides and emended description of the genus Microbacterium.	Alves A, Correia A, Igual JM, Trujillo ME	Syst Appl Microbiol	10.1016/j.syapm.2014.08.004	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 )
#21665	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 27099
#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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Microbacterium endophyticum (DSM 27099, CECT 8354, PA15)

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_011047135

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

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