Name: Phyllobacterium endophyticum PEPV15
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 133801

Type strain:

Species: Phyllobacterium endophyticum

Strain Designation: PEPV15

Culture col. no.: LMG 26470, CECT 7949

NCBI tax ID(s): 1149773 (species)

SI-ID 377657

LMG 26470, CECT 7949

Section

Phyllobacterium endophyticum PEPV15 is an aerobe, Gram-negative, motile bacterium that was isolated from plant associated.

Gram-negative
motile
rod-shaped
aerobe
Bacteria
genome sequence

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

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Alphaproteobacteria*
	Order	*Hyphomicrobiales*
	Family	*Phyllobacteriaceae*
	Genus	*Phyllobacterium*
	Species	**Phyllobacterium endophyticum**
	Full Scientific Name (LPSN)	Phyllobacterium endophyticum Flores-Félix et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #30551]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.989

[Ref.: #30551]	Cell shape	rod-shaped

[Ref.: #30551]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %92.344

[Ref.: #30551]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

	Temperatures	Kind of temperature		Temperature
[Ref.: #30551]			growth	05-39 °C
[Ref.: #30551]			optimum	28 °C

[Ref.: #30551]

Temperature range

mesophilic

	pH	Kind of pH		pH
[Ref.: #30551]			optimum	7
[Ref.: #30551]			growth	06-08

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30551]

Oxygen tolerance

aerobe

[Ref.: #30551]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.992

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30551]		NaCl		growth	0-2	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30551]	3-hydroxybutyrate ChEBI	+	carbon source
[Ref.: #30551]	alanine ChEBI	+	carbon source
[Ref.: #30551]	arabinose ChEBI	+	carbon source
[Ref.: #30551]	esculin ChEBI	+	hydrolysis
[Ref.: #30551]	fucose ChEBI	+	carbon source
[Ref.: #30551]	glucose ChEBI	+	carbon source
[Ref.: #30551]	lactate ChEBI	+	carbon source
[Ref.: #30551]	malate ChEBI	+	carbon source
[Ref.: #30551]	mannitol ChEBI	+	carbon source
[Ref.: #30551]	mannose ChEBI	+	carbon source
[Ref.: #30551]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #30551]	nitrate ChEBI	+	reduction
[Ref.: #30551]	proline ChEBI	+	carbon source
[Ref.: #30551]	rhamnose ChEBI	+	carbon source
[Ref.: #30551]	ribose ChEBI	+	carbon source
[Ref.: #30551]	sorbitol ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #30551]	Sample type/isolated from	plant associated
* marker position based on {}

Isolation sources categories

#Host

#Plants

What are isolation sources categories?

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

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Phyllobacterium endophyticum PEPV15	GCA_003010935	contig	GenBank	1149773 tax ID	*
[Ref.: #66792]	Phyllobacterium endophyticum CECT 7949	GCA_014192255	scaffold	GenBank	1149773 tax ID	*
[Ref.: #66792]	Phyllobacterium endophyticum PEPV15	GCA_008180215	scaffold	GenBank	1149773 tax ID	*
[Ref.: #66792]	Phyllobacterium endophyticum strain CECT 7949	1149773.6	wgs	PATRIC	1149773 tax ID	*
[Ref.: #66792]	Phyllobacterium endophyticum strain PEPV15	1149773.3	wgs	PATRIC	1149773 tax ID	*
[Ref.: #66792]	Phyllobacterium endophyticum PEPV15	2839993093	draft	JGI IMG/M	1149773 tax ID	*

[Ref.: #30551]

GC-content

52 mol%

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Phyllobacterium endophyticum strain PEPV15 PATRIC: 1149773.4
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Phyllobacterium endophyticum CECT 7949 NCBI: GCA_014192255.1
[Ref.: #69480]	flagellated	no	82.414	no
[Ref.: #69480]	gram-positive	no	97.837	yes
[Ref.: #69480]	anaerobic	no	99.092	yes
[Ref.: #69480]	aerobic	yes	94.826	no
[Ref.: #69480]	halophile	no	92.31	no
[Ref.: #69480]	spore-forming	no	96.255	no
[Ref.: #69480]	glucose-util	yes	89.989	yes
[Ref.: #69480]	thermophile	no	97.677	no
[Ref.: #69480]	motile	yes	88.369	yes
[Ref.: #69480]	glucose-ferment	no	90.182	no

Availability in culture collections External links

[Ref.: #30551]

Culture collection no.

LMG 26470, CECT 7949

[Ref.: #91598]

SI-ID 377657

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Phyllobacterium endophyticum sp. nov., isolated from nodules of Phaseolus vulgaris.	Flores-Felix JD, Carro L, Velazquez E, Valverde A, Cerda-Castillo E, Garcia-Fraile P, Rivas R	Int J Syst Evol Microbiol	10.1099/ijs.0.038497-0	2012	*
Phylogeny	Phyllobacterium zundukense sp. nov., a novel species of rhizobia isolated from root nodules of the legume species Oxytropis triphylla (Pall.) Pers.	Safronova VI, Sazanova AL, Kuznetsova IG, Belimov AA, Andronov EE, Chirak ER, Popova JP, Verkhozina AV, Willems A, Tikhonovich IA	Int J Syst Evol Microbiol	10.1099/ijsem.0.002722	2018	*
Phylogeny	Phyllobacterium sophorae sp. nov., a symbiotic bacterium isolated from root nodules of Sophora flavescens.	Jiao YS, Yan H, Ji ZJ, Liu YH, Sui XH, Zhang XX, Wang ET, Chen WX, Chen WF	Int J Syst Evol Microbiol	10.1099/ijs.0.067017-0	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 )

#30551

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #26882 (see below)

#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) .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#91598

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-ID377657.1 )

#26882

IJSEM 821 2013 ( DOI 10.1099/ijs.0.038497-0 , PubMed 22611197 )

* These data were automatically processed and therefore are not curated

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Phyllobacterium endophyticum strain PEPV15

Phyllobacterium endophyticum CECT 7949

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