Paracoccus lutimaris (HDM-25, KCTC 42007, CECT 8525)

Name: Paracoccus lutimaris (HDM-25, KCTC 42007, CECT 8525)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 169144

Type strain

Strain Designation HDM-25

Culture col. no. HDM-25 KCTC 42007 CECT 8525

NCBI tax ID(s) 1490030

Special Collections KCTC

Links

Paracoccus lutimaris HDM-25 is a bacterium of the family Paracoccaceae.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 287510

KCTC 42007,CECT 8525

@ref 20215

Last LPSN update 2026-02-09 11:40:58

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Rhodobacterales

Family Paracoccaceae

Genus Paracoccus

Species Paracoccus lutimaris

Full scientific name Paracoccus lutimaris Jung et al. 2014

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	94.75
125439	negative	99.3

Culture and growth conditions

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	96.5

Spore formation

@ref	Spore formation	Confidence
125439		97.9
125438		91.579

Isolation, sampling and environmental information

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
20215	1	Risk group

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM333756v1 assembly for Paracoccus lutimaris CECT 8525	scaffold	GCA_003337565	1490030.4	2770939605	1490030	60.04

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20215	Paracoccus lutimaris strain HDM-25 16S ribosomal RNA gene, partial sequence	KJ451483	1418		1490030

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Paracoccus lutimaris CECT 8525
NCBI: GCA_003337565

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	97.90	no
125439	motility	BacteriaNetⓘ	yes	59.30	no
125439	gram_stain	BacteriaNetⓘ	negative	99.30	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	96.50	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Paracoccus lutimaris CECT 8525
NCBI: GCA_003337565.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	94.75	no
125438	anaerobic	anaerobicⓘ	no	94.30	no
125438	aerobic	aerobicⓘ	yes	83.29	no
125438	spore-forming	spore-formingⓘ	no	91.58	no
125438	thermophilic	thermophileⓘ	no	98.86	no
125438	flagellated	motile2+ⓘ	no	61.35	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Paracoccus xiamenensis sp. nov., isolated from seawater on the Xiamen.	Lyu L, Zhi B, Lai Q, Shao Z, Yu Z	Int J Syst Evol Microbiol	10.1099/ijsem.0.004284	2020
Phylogeny	Paracoccus tegillarcae sp. nov., isolated from the gastrointestinal tract of a blood cockle (Tegillarca granosa).	Lee JY, Hyun DW, Yun JH, Jung MJ, Shin NR, Bae JW	Int J Syst Evol Microbiol	10.1099/ijsem.0.003561	2019
Phylogeny	Paracoccus mangrovi sp. nov., isolated from a mangrove.	Chen WM, Li YS, Young CC, Sheu SY	Int J Syst Evol Microbiol	10.1099/ijsem.0.001993	2017
Phylogeny	Paracoccus lutimaris sp. nov., isolated from a tidal flat sediment.	Jung YT, Park S, Lee JS, Yoon JH	Int J Syst Evol Microbiol	10.1099/ijs.0.064865-0	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 )
#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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Paracoccus lutimaris (HDM-25, KCTC 42007, CECT 8525)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Physiology and metabolism

Oxygen tolerance

Spore formation

Isolation, sampling and environmental information

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_003337565

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

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