Kosakonia oryzendophytica (LMG 26432, NCCB 100390, REICA_082)

Name: Kosakonia oryzendophytica (LMG 26432, NCCB 100390, REICA_082)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 140802

Type strain

Strain Designation REICA_082

Culture col. no. LMG 26432 NCCB 100390 REICA_082

NCBI tax ID(s) 1005665

Special Collections Literature strains

Links

Kosakonia oryzendophytica REICA_082 is a bacterium of the family Enterobacteriaceae.

genome sequence Bacteria

Name and taxonomic classification

SI-ID 377656

LMG 26432,NCCB 100390

@ref 20215

Last LPSN update 2026-05-29 08:39:48

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Enterobacterales

Family Enterobacteriaceae

Genus Kosakonia

Species Kosakonia oryzendophytica

Full scientific name Kosakonia oryzendophytica (Hardoim et al. 2015) Li et al. 2016

Synonyms (1)

Enterobacter oryzendophyticus

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	100
125439	negative	93.474

Culture and growth conditions

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	aerobe	92.438

Spore formation

@ref	Spore formation	Confidence
125438		90.3
125439		98.72

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
43582	18333 ChEBI	D-arabitol	+	carbon source
43582	4853 ChEBI	esculin	+	hydrolysis
43582	18287 ChEBI	L-fucose	+	carbon source
43582	28053 ChEBI	melibiose	+	carbon source
43582	17268 ChEBI	myo-inositol	+	carbon source
43582	17148 ChEBI	putrescine	-	carbon source
43582	16634 ChEBI	raffinose	+	carbon source
43582	32528 ChEBI	turanose	+	carbon source

Enzymes

@ref	Value	Activity	Ec
43582	arginine dihydrolase	+	3.5.3.6
43582	lysine decarboxylase	-	4.1.1.18
43582	ornithine decarboxylase	+	4.1.1.17

Isolation, sampling and environmental information

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	IMG-taxon 2617270737 annotated assembly for Kosakonia oryzendophytica REICA_082	scaffold	GCA_900094925	1005665.7	2617270737	1005665	72.06

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: IMG-taxon 2617270737 annotated assembly for Kosakonia oryzendophytica REICA_082
NCBI: GCA_900094925

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	92.44	no
125439	gram_stain	BacteriaNetⓘ	negative	93.47	no
125439	spore_formation	BacteriaNetⓘ	no	98.72	no
125439	motility	BacteriaNetⓘ	yes	69.03	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Kosakonia oryzendophytica REICA_082
NCBI: GCA_900094925.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	100.00	no
125438	anaerobic	anaerobicⓘ	no	96.60	no
125438	aerobic	aerobicⓘ	no	74.45	no
125438	spore-forming	spore-formingⓘ	no	90.30	no
125438	thermophilic	thermophileⓘ	no	100.00	no
125438	flagellated	motile2+ⓘ	yes	73.23	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Comparative Genomics Reveal a Flagellar System, a Type VI Secretion System and Plant Growth-Promoting Gene Clusters Unique to the Endophytic Bacterium Kosakonia radicincitans.	Becker M, Patz S, Becker Y, Berger B, Drungowski M, Bunk B, Overmann J, Sproer C, Reetz J, Tchuisseu Tchakounte GV, Ruppel S.	Front Microbiol	10.3389/fmicb.2018.01997	2018
Phylogeny	Reclassification of Enterobacter oryziphilus and Enterobacter oryzendophyticus as Kosakonia oryziphila comb. nov. and Kosakonia oryzendophytica comb. nov.	Li CY, Zhou YL, Ji J, Gu CT	Int J Syst Evol Microbiol	10.1099/ijsem.0.001054	2016
	Precise Species Identification for Enterobacter: a Genome Sequence-Based Study with Reporting of Two Novel Species, Enterobacter quasiroggenkampii sp. nov. and Enterobacter quasimori sp. nov.	Wu W, Feng Y, Zong Z.	mSystems	10.1128/msystems.00527-20	2020
Phylogeny	Kosakonia pseudosacchari sp. nov., an endophyte of Zea mays.	Kampfer P, McInroy JA, Doijad S, Chakraborty T, Glaeser SP	Syst Appl Microbiol	10.1016/j.syapm.2015.09.004	2015
Phylogeny	The new species Enterobacter oryziphilus sp. nov. and Enterobacter oryzendophyticus sp. nov. are key inhabitants of the endosphere of rice.	Hardoim PR, Nazir R, Sessitsch A, Elhottova D, Korenblum E, van Overbeek LS, van Elsas JD	BMC Microbiol	10.1186/1471-2180-13-164	2013

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 )
#43582	Chun Yan Li, Yuan Liang Zhou, Jing Ji, Chun Tao Gu: Reclassification of Enterobacter oryziphilus and Enterobacter oryzendophyticus as Kosakonia oryziphila comb. nov. and Kosakonia oryzendophytica comb. nov.. IJSEM 66: 2780 - 2783 2016 ( DOI 10.1099/ijsem.0.001054 , PubMed 27045188 )
#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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Kosakonia oryzendophytica (LMG 26432, NCCB 100390, REICA_082)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Physiology and metabolism

Oxygen tolerance

Spore formation

Metabolite utilization

Enzymes

Isolation, sampling and environmental information

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_900094925

Genome-based predictions

Predictions

Literature

Literature

References

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