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
StrainDFL 12 = DSM 16493

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

25010 bp

Thymine Count

24845 bp

Guanine Count

38109 bp

Cytosine Count

38340 bp

Genome Length

126304 bp

Protein-coding Genes

138 genes

Non-Coding Genes

0 genes

# of Chromosomes/Plasmids

6

Genes

NameLocus TagUniProtStrandCoordinatesMolecular Weight
Carboxy-terminal protease for penicillin-binding protein 3DSHI_RS00445Not Available+89783 - 9112047854.5
Nude nudix hydrolaseDSHI_RS00450Not Available+91122 - 9160418358.7
hypothetical proteinDSHI_RS00455Not Available-91896 - 9226413360.9
Mu-like prophage i proteinDSHI_RS21205Not Available-92411 - 9334333325.5
Mu-like prophage major head subunit gptDSHI_RS00465Not Available-93348 - 9424733834.0
helix-turn-helix domain-containing proteinDSHI_RS00470Not Available-94244 - 9468416189.7
Gp02DSHI_RS00475Not Available-95154 - 9556415052.5
hypothetical proteinDSHI_RS00480Not Available-95564 - 9584810446.5
hypothetical proteinDSHI_RS00485Not Available-95841 - 9614011140.4
Dna transposition proteinDSHI_RS00490Not Available-96161 - 9693127920.8

Displaying genes 1 – 10 of 4329 in total

Metabolites

1701 records
Metabolite IDMetabolite nameStructureCAS number
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
BASm00004283-oxoadipateC6H6O5Chemical structure of 3-oxoadipateNot available
Average158.11Da
Monoisotopic158.022620453Da
BASm00005166-deoxyerythronolide BC21H38O6Chemical structure of 6-deoxyerythronolide BNot available
Average386.5228Da
Monoisotopic386.2668389Da
BASm0000553biphenyl-2,3-diolC12H10O2Chemical structure of biphenyl-2,3-diolNot available
Average186.2066Da
Monoisotopic186.0680796Da
BASm0000592(S)-1-phenylethanolC8H10OChemical structure of (S)-1-phenylethanolNot available
Average122.1644Da
Monoisotopic122.0731649Da
BASm0000893crotonobetaineC7H13NO2Chemical structure of crotonobetaine927-89-9
Average143.1836Da
Monoisotopic143.0946287Da
BASm0000989GlycerolC3H8O3Chemical structure of Glycerol56-81-5
Average92.0938Da
Monoisotopic92.04734412Da

Displaying 1–10 of 1701 metabolites