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
rcc01693 family proteinDSHI_RS11035Not Available-2298929 - 22991447847.49
gene transfer agent family proteinDSHI_RS11040Not Available-2299141 - 229947011302.6
Gene transfer aget (gta) orfg9-like phage major tail proteinDSHI_RS11045Not Available-2299476 - 229988914634.3
Gp33DSHI_RS11050Not Available-2299911 - 230032114748.5
head-tail adaptor proteinDSHI_RS11055Not Available-2300318 - 230065612561.0
Dna packaging/head-tail-connectorDSHI_RS11060Not Available-2300653 - 230124321772.2
Phage major capsid proteinDSHI_RS11065Not Available-2301398 - 230261543165.6
Putative prohead proteaseDSHI_RS11070Not Available-2302612 - 230322922065.0
hypothetical proteinDSHI_RS11075Not Available-2303242 - 23035029786.74
Portal proteinDSHI_RS11080Not Available-2303499 - 230468943230.4

Displaying genes 21 – 30 of 4329 in total

Metabolites

1800 records
Metabolite IDMetabolite nameStructureCAS number
BASm0000237(R)-4'-phosphopantothenateC9H18NO8PChemical structure of (R)-4'-phosphopantothenateNot available
Average299.2149Da
Monoisotopic299.0770031Da
BASm00002502,5-didehydro-D-gluconateC6H7O7Chemical structure of 2,5-didehydro-D-gluconate53736-12-2
Average191.1156Da
Monoisotopic191.019177578Da
BASm00002532-oxopent-4-enoateC5H5O3Chemical structure of 2-oxopent-4-enoateNot available
Average113.093Da
Monoisotopic113.024417601Da
BASm00002603alpha,7alpha-dihydroxy-12-oxo-5beta-cholanateC24H37O5Chemical structure of 3alpha,7alpha-dihydroxy-12-oxo-5beta-cholanateNot available
Average405.556Da
Monoisotopic405.264647871Da
BASm0000274aldehydo-D-galacturonateC6H9O7Chemical structure of aldehydo-D-galacturonateNot available
Average193.132Da
Monoisotopic193.0353762Da
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
BASm00004283-oxoadipateC6H6O5Chemical structure of 3-oxoadipateNot available
Average158.11Da
Monoisotopic158.022620453Da
BASm00005166-deoxyerythronolide BC21H38O6Chemical structure of 6-deoxyerythronolide BNot available
Average386.5228Da
Monoisotopic386.2668389Da

Displaying 1–10 of 1800 metabolites