Dokdonella koreensis DS-123

rodaerobic

Kingdom

Pseudomonadati

Phylum

Pseudomonadota

Class

Gammaproteobacteria

Order

Lysobacterales

Family

Rhodanobacteraceae

Genus

Dokdonella

Description

Dokdonella koreensis DS-123 is a Gram-negative, aerobic bacterium characterized by its rod shape. This organism thrives optimally at a temperature of 29°C and falls within the mesophilic temperature range. It is non-spore-forming and possesses a single replicon, indicating a simpler genomic structure compared to those with multiple replicons. The classification of Dokdonella koreensis DS-123 as a Gram-negative organism suggests that it has a thin peptidoglycan layer and an outer membrane containing lipopolysaccharides, which can influence its interactions with the environment and host organisms. The aerobic nature of this bacterium indicates its reliance on oxygen for metabolic processes, highlighting its potential role in oxygen-rich environments. The optimal growth temperature of 29°C positions Dokdonella koreensis DS-123 within a range that is typical for many mesophilic bacteria, suggesting that it may occupy ecological niches where such temperatures are prevalent. This could include various soil and aquatic environments, where it may contribute to nutrient cycling and organic matter decomposition. Overall, the traits of Dokdonella koreensis DS-123 provide insights into its ecological roles and potential applications in biotechnological processes, especially in environments where aerobic conditions prevail and temperatures are moderate. Further studies on its metabolic pathways and interactions with other microorganisms could enhance our understanding of its ecological significance. The genomic details are accessible via accession number NZ_CP015249.1.

Taxonomy

KingdomPseudomonadati
PhylumPseudomonadota
ClassGammaproteobacteria
OrderLysobacterales
FamilyRhodanobacteraceae
GenusDokdonella
SpeciesDokdonella koreensis
StrainDS-123

Profile

Physiology
Gram staining propertiesGram-negative
Shaperod
MobilityNot Available
Flagellar presenceNot Available
Number of membranesNot Available
Ecology, Host, and Life Cycle
Oxygen requirementsaerobic
Optimal temperature29
Temperature rangemesophilic
HabitatNot Available
Biotic relationshipNot Available
Host(s)Not Available
Cell arrangementNot Available
Sporulationnon-spore-forming
Energy sourceNot Available
PathogenicityNot Available

Genome Summary

Dokdonella koreensis DS-123


Gene Summary

Adenine Count

659180 bp

Thymine Count

659388 bp

Guanine Count

1564911 bp

Cytosine Count

1563140 bp

Genome Length

4446619 bp

Protein-coding Genes

3590 genes

Non-Coding Genes

58 genes

# of Chromosomes/Plasmids

1

Genes

NameLocus TagUniProt IDStrand OrientationGene Start/EndProtein Molecular Weight
exodeoxyribonuclease iiiI596_RS00110O26314Negative36880 - 3765028813.4
hypothetical proteinI596_RS00115Not AvailablePositive38004 - 3929946798.6
hypothetical proteinI596_RS00120Not AvailablePositive39416 - 4046235070.8
low-specificity l-threonine aldolaseI596_RS00125P58319Positive40887 - 4190635573.9
m3 family metallopeptidaseI596_RS00130P27298Negative41888 - 4393075121.7
spor domain-containing proteinI596_RS00135Not AvailableNegative43971 - 4464224694.6
type iii pantothenate kinaseI596_RS00140Q4UPF9Negative44718 - 4547325743.0
biotin--[acetyl-coa-carboxylase] ligaseI596_RS00145P37416Negative45470 - 4645333779.8
hypothetical proteinI596_RS00150Not AvailablePositive46722 - 4713813632.1
zinc-dependent peptidaseI596_RS00155A7MJM0Positive47191 - 4793727517.5

Displaying genes 21 – 30 of 3648 in total

Pathways

0 pathways

No pathways found

No metabolic pathways have been associated with this bacterium yet.

Metabolites

167 records
Metabolite IDMetabolite nameStructureCAS number
BASm0000234(3R)-hydroxybutanoate dimerC8H13O5Chemical structure of (3R)-hydroxybutanoate dimerNot available
Average189.188Da
Monoisotopic189.0768471Da
BASm0000237(R)-4'-phosphopantothenateC9H18NO8PChemical structure of (R)-4'-phosphopantothenateNot available
Average299.2149Da
Monoisotopic299.0770031Da
BASm00002512-dehydropantoateC6H9O4Chemical structure of 2-dehydropantoateNot available
Average145.1333Da
Monoisotopic145.050083776Da
BASm00002543-hydroxy-2-methylpropanoateC4H7O3Chemical structure of 3-hydroxy-2-methylpropanoateNot available
Average103.098Da
Monoisotopic103.0400677Da
BASm0000315acetylpyruvateC5H6O4Chemical structure of acetylpyruvateNot available
Average130.099Da
Monoisotopic130.0266087Da
BASm0000377(S)-malateC4H4O5Chemical structure of (S)-malateNot available
Average132.0716Da
Monoisotopic132.005873238Da
BASm0000387(6R)-5,10-methylene-5,6,7,8-tetrahydrofolateC20H21N7O6Chemical structure of (6R)-5,10-methylene-5,6,7,8-tetrahydrofolateNot available
Average455.432Da
Monoisotopic455.1564286Da
BASm0000401(S)-2-succinylamino-6-oxoheptanedioateC11H12NO8Chemical structure of (S)-2-succinylamino-6-oxoheptanedioateNot available
Average286.218Da
Monoisotopic286.0579371Da
BASm0000592(S)-1-phenylethanolC8H10OChemical structure of (S)-1-phenylethanolNot available
Average122.1644Da
Monoisotopic122.0731649Da
BASm0000642S-adenosyl-4-methylsulfanyl-2-oxobutanoateC15H19N5O6SChemical structure of S-adenosyl-4-methylsulfanyl-2-oxobutanoateNot available
Average397.406Da
Monoisotopic397.105604055Da

Displaying 1–10 of 167 metabolites

Health Effects

No health effects information available for this bacterium.