Name: Flavobacterium endophyticum 522
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 131510

Type strain:

Species: Flavobacterium endophyticum

Strain Designation: 522

Culture col. no.: DSM 29537, ACCC 19708

Strain history: <- J. L. Gao, Beijing Academy of Agriculture and Forestry Science, China; 522

NCBI tax ID(s): 1540163 (species)

SI-ID 405744

DSM 29537

Special Collections

DSMZ

Section

When using BacDive for research please cite our paper

Flavobacterium endophyticum 522 is a mesophilic bacterium that was isolated from surface-sterilized root tissue of maize.

mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Bacteroidota*
	Class	*Flavobacteriia*
	Order	*Flavobacteriales*
	Family	*Flavobacteriaceae*
	Genus	*Flavobacterium*
	Species	**Flavobacterium endophyticum**
	Full Scientific Name (LPSN)	Flavobacterium endophyticum Gao et al. 2015

Information on morphological and physiological properties Morphology

[Ref.: #125439]	Gram stain	negative Confidence in %100
[Ref.: #125438]	Gram stain	negative Confidence in %98.93

[Ref.: #125438]	Motility	no Confidence in %92

Information on culture and growth conditions Culture and growth conditions

[Ref.: #22737]

Culture medium

PYG MEDIUM (B) (DSMZ Medium 1139)

[Ref.: #22737]

Culture medium growth

[Ref.: #22737]

Culture medium link

Medium recipe at MediaDive

[Ref.: #22737]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #22737]			growth	28 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #125439]

Ability of spore formation

no Confidence in %99.9

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #22737]	Sample type/isolated from	surface-sterilized root tissue of maize
[Ref.: #22737]	Geographic location (country and/or sea, region)	Beijing, Fangshan District
[Ref.: #22737]	Country	China
[Ref.: #22737]	Country ISO 3 Code	CHN
[Ref.: #22737]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Root (Rhizome)
#Host Body-Site	#Plant	#Sterilized plant part

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KJ873109 (>99% sequence identity) for Flavobacterium endophyticum from Microbeatlas

Aquatic Samples	21
Soil Samples	122
Animal Samples	104
Plant Samples	15
Total Samples	262

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #22737]

Biosafety level

Risk group (German classification)
According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #22737]	Flavobacterium endophyticum strain 522 16S ribosomal RNA gene, partial sequence	KJ873109	1402	GenBank ENA	1540163 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Flavobacterium endophyticum DSM 29537	GCA_003634455	scaffold	GenBank ENA	1540163 tax ID	*
[Ref.: #66792]	Flavobacterium endophyticum strain DSM 29537	1540163.3	wgs	PATRIC	1540163 tax ID	*
[Ref.: #66792]	Flavobacterium endophyticum DSM 29537	2731639186	draft	JGI IMG/M	1540163 tax ID	*

[Ref.: #22737]

GC-content

37.7 mol%

thermal denaturation, midpoint method (Tm)

Data predicted using genome information as a basis Genome-based predictions

	Model	Trait	Prediction	Confidence in %	In training data
	Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Flavobacterium endophyticum DSM 29537 NCBI: GCA_003634455.1
[Ref.: #125438]	gram-positive	gram-positiveⓘ	no	98.93	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	95.386	no
[Ref.: #125438]	aerobic	aerobicⓘ	yes	88.735	no
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	88.803	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	96.924	yes
[Ref.: #125438]	motile2+	flagellatedⓘ	no	92	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Flavobacterium endophyticum DSM 29537 NCBI: GCA_003634455
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	no	99.9
[Ref.: #125439]	BacteriaNet	motilityⓘ	no	65.5
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	negative	100
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	obligate aerobe	85.8

Availability in culture collections External links

[Ref.: #22737]

Culture collection no.

DSM 29537, ACCC 19708

[Ref.: #89925]

SI-ID 405744

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Flavobacterium endophyticum sp. nov., a nifH gene-harbouring endophytic bacterium isolated from maize root.	Gao JL, Lv FY, Wang XM, Yuan M, Li JW, Wu QY, Sun JG	Int J Syst Evol Microbiol	10.1099/ijsem.0.000513	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 )

#22737

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 29537

#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) .

#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 .

#89925

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID405744.1 )

#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 .

* These data were automatically processed and therefore are not curated

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Flavobacterium endophyticum DSM 29537

Flavobacterium endophyticum DSM 29537

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