Pectobacterium carotovorum subsp. carotovorum (NBRC 3380, IFO 3380, IAM 12633)

Name: Pectobacterium carotovorum subsp. carotovorum (NBRC 3380, IFO 3380, IAM 12633)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 162985

Type strain

Culture col. no. NBRC 3380 IFO 3380 IAM 12633 JCM 20699

NCBI tax ID(s) 555

Special Collections JCM

History IAM 12633 <-- IFO 3380 <-- H. Muko; Natl. Inst. Agro-Environ. Sci., Japan.

Links

Pectobacterium carotovorum subsp. carotovorum JCM 20699 is a mesophilic prokaryote that was isolated from Soft rot of carrot.

mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 62584

IFO 3380,IAM 12633,NBRC 3380,JCM 20699

@ref 20215

Last LPSN update 2026-02-09 11:39:31

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Enterobacterales

Family Pectobacteriaceae

Genus Pectobacterium

Species Pectobacterium carotovorum subsp. carotovorum

Full scientific name Pectobacterium carotovorum subsp. carotovorum (Jones 1901) Hauben et al. 1999

Synonyms (1)

Erwinia carotovora subsp. carotovora

BacDive ID	Other strains from Pectobacterium carotovorum subsp. carotovorum (2)	Type strain
162939	P. carotovorum subsp. carotovorum JCM 20460, ATCC 12286, IAM 12301
162949	P. carotovorum subsp. carotovorum JCM 20506, ATCC 495, IAM 12350, ICPB EC208

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	99
125439	negative	99.1

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
67770	positive	growth	25	mesophilic

Physiology and metabolism

Spore formation

@ref	Spore formation	Confidence
125439		97.8

Isolation, sampling and environmental information

Isolation

67770

Sample typeSoft rot of carrot

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	NCBI tax ID	Score
66792	ASM2434344v1 assembly for Pectobacterium carotovorum subsp. carotovorum NBRC 3380	contig	GCA_024343445	555.81	555	35.17
124043	ASM3026910v1 assembly for Pectobacterium carotovorum subsp. carotovorum NBRC 3380	scaffold	GCA_030269105	555.95	555	31.57

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
124043	Pectobacterium carotovorum subsp. carotovorum gene for 16S rRNA, partial sequence, strain: NBRC 3380.	AB680074	1467		555

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Pectobacterium carotovorum subsp. carotovorum NBRC 3380
NCBI: GCA_024343445

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	97.80	no
125439	motility	BacteriaNetⓘ	yes	82.10	no
125439	gram_stain	BacteriaNetⓘ	negative	99.10	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	86.50	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Pectobacterium carotovorum subsp. carotovorum NBRC 3380
NCBI: GCA_024343445.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	99.00	no
125438	anaerobic	anaerobicⓘ	no	95.25	no
125438	aerobic	aerobicⓘ	no	74.10	no
125438	spore-forming	spore-formingⓘ	no	88.55	no
125438	thermophilic	thermophileⓘ	no	98.08	yes
125438	flagellated	motile2+ⓘ	yes	79.98	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Metabolism	Genetic and Biochemical Diversity for N-acylhomoserine Lactone Biosynthesis in the Plant Pathogen Pectobacterium carotovorum subsp. carotovorum.	Morohoshi T, Ogasawara Y, Xie X, Hamamoto H, Someya N.	Microbes Environ	10.1264/jsme2.me19105	2019

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 )
#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) .
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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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Pectobacterium carotovorum subsp. carotovorum (NBRC 3380, IFO 3380, IAM 12633)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture temp

Physiology and metabolism

Spore formation

Isolation, sampling and environmental information

Isolation

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_024343445

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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