Dinoroseobacter shibae DFL 12 = DSM 16493

Gram-negativeRodMotileAerobe

Kingdom

Pseudomonadati

Phylum

Pseudomonadota

Class

Alphaproteobacteria

Order

Rhodobacterales

Family

Roseobacteraceae

Genus

Dinoroseobacter

Description

Dinoroseobacter shibae DFL 12 (also designated DSM 16493) is a Gram-negative, rod-shaped bacterium that thrives in freshwater environments. This species is characterized by its phototrophic metabolism, utilizing light as an energy source, which distinguishes it from many other freshwater microbes that may rely on different energy sources. D. shibae exhibits optimal growth at a temperature of 33.0 °C, suggesting a preference for moderately warm aquatic habitats. As an aerobic organism, D. shibae requires oxygen for its metabolic processes, which supports its survival in well-oxygenated freshwater ecosystems. This characteristic may influence its distribution and interactions within its habitat, as it competes for resources with other microbial inhabitants that may possess different metabolic strategies. The ecological role of D. shibae may include contributions to the cycling of organic matter and the production of oxygen in freshwater systems, thereby supporting the broader ecosystem functionality. Its phototrophic capabilities indicate a potential involvement in primary productivity, which is crucial for sustaining aquatic food webs. Furthermore, understanding the traits of D. shibae can provide insights into the adaptability and ecological significance of phototrophic bacteria in changing freshwater environments.

Taxonomy

KingdomPseudomonadati
PhylumPseudomonadota
ClassAlphaproteobacteria
OrderRhodobacterales
FamilyRoseobacteraceae
GenusDinoroseobacter
SpeciesDinoroseobacter shibae
StrainNo strain

Profile

Physiology
Gram staining propertiesNegative
ShapeRod
MobilityYes
Flagellar presenceYes
Number of membranes2
Image of Dinoroseobacter shibae DFL 12 = DSM 16493
AI-generated image based on bacteria physiology
Ecology, Host, and Life Cycle
Oxygen requirementsAerobe
Optimal temperature33
Temperature rangeMesophilic
HabitatFresh water
Biotic relationshipFree living
Host(s)Not Available
Cell arrangementNot Available
SporulationNot Available
Energy sourcePhototroph
PathogenicityNot Available

Genome Summary

Dinoroseobacter shibae DFL 12 = DSM 16493


Gene Summary

Adenine Count

645325 bp

Thymine Count

642548 bp

Guanine Count

1252068 bp

Cytosine Count

1249643 bp

Genome Length

3789584 bp

Protein-coding Genes

3619 genes

Non-Coding Genes

83 genes

# of Chromosomes/Plasmids

6

Genes

NameLocus TagUniProtStrandCoordinatesMolecular Weight
TransposaseDSHI_RS00495Not Available-96999 - 9889170088.2
Putative ci proteinDSHI_RS00500Not Available+99062 - 9953817529.8
Dna polymerase iii alphaDSHI_RS00505Not Available+99840 - 102824109649.0
Serine acetyltransferaseDSHI_RS10995Not Available-2290509 - 229131828556.4
Ribonuclease iiiDSHI_RS11005Not Available-2291686 - 229239324573.9
Tail proteinDSHI_RS11010Not Available-2292386 - 2296303141685.0
Phage cell wall peptidaseDSHI_RS11015Not Available-2296307 - 229674715928.0
Minor tail proteinDSHI_RS11020Not Available-2296744 - 229763432620.4
Tail proteinDSHI_RS11025Not Available-2297631 - 229826323411.4
Putative tail tape measure proteinDSHI_RS11030Not Available-2298277 - 229894523067.4

Displaying genes 11 – 20 of 4329 in total

Pathways

23 pathways

Metabolites

147 records
Metabolite IDMetabolite nameStructureCAS number
BASm0000237(R)-4'-phosphopantothenateC9H18NO8PChemical structure of (R)-4'-phosphopantothenateNot available
Average299.2149Da
Monoisotopic299.0770031Da
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
BASm0001415beta-L-rhamnoseC6H12O5Chemical structure of beta-L-rhamnoseNot available
Average164.1565Da
Monoisotopic164.0684735Da
BASm0001463alpha-L-rhamnoseC6H12O5Chemical structure of alpha-L-rhamnose3615-41-6
Average164.1565Da
Monoisotopic164.068473494Da
BASm0001717fumarateC4H2O4Chemical structure of fumarateNot available
Average114.0563Da
Monoisotopic113.9953086Da
BASm0001779orotateC5H3N2O4Chemical structure of orotateNot available
Average155.09Da
Monoisotopic155.0098302Da
BASm0001865diphosphateHO7P2Chemical structure of diphosphateNot available
Average174.95Da
Monoisotopic174.9213971Da
BASm0001921(S)-3-methyl-2-oxopentanoateC6H9O3Chemical structure of (S)-3-methyl-2-oxopentanoate1460-34-0
Average129.1339Da
Monoisotopic129.0551692Da

Displaying 1–10 of 147 metabolites