Shimia abyssi str. DSM 100673

star/dumbbell/pleomorphicaerobic

Kingdom

Pseudomonadati

Phylum

Pseudomonadota

Class

Alphaproteobacteria

Order

Rhodobacterales

Family

Roseobacteraceae

Genus

Shimia

Description

Shimia abyssi str. DSM 100673 is a Gram-negative bacterium that thrives in deep seawater environments. This organism is classified as an organotroph and chemotroph, utilizing organic compounds as its primary energy source. It demonstrates an aerobic metabolism, requiring oxygen for growth. Morphologically, Shimia abyssi exhibits a pleomorphic shape, with star or dumbbell configurations, and is characterized as non-motile. It is mesophilic, with an optimal growth temperature of 25°C, indicating its adaptation to relatively moderate thermal conditions typically found in deep-sea ecosystems. This bacterium has a single replicon and does not form spores, which may reflect its specialized adaptation to the stable and nutrient-rich conditions of its deep-sea habitat. The genome accession number for Shimia abyssi is PYGJ00000000.1. The ecological significance of Shimia abyssi str. DSM 100673 lies in its role in the deep-sea microbial community, where it may contribute to nutrient cycling and organic matter degradation. As an aerobic organism in a habitat where oxygen levels can vary, it may also play a part in the dynamics of oxygen utilization within its ecosystem, showcasing how deep-sea microbes can adapt to specific environmental niches.

Taxonomy

KingdomPseudomonadati
PhylumPseudomonadota
ClassAlphaproteobacteria
OrderRhodobacterales
FamilyRoseobacteraceae
GenusShimia
SpeciesShimia abyssi
StrainDSM 100673

Profile

Physiology
Gram staining propertiesGram-negative
Shapestar/dumbbell/pleomorphic
Mobilitynon-motile
Flagellar presenceNot Available
Number of membranesNot Available
Ecology, Host, and Life Cycle
Oxygen requirementsaerobic
Optimal temperature25
Temperature rangemesophilic
Habitatdeep seawater
Biotic relationshipNot Available
Host(s)Not Available
Cell arrangementNot Available
Sporulationnon-spore-forming
Energy sourceorganotroph; chemotroph
PathogenicityNot Available

Genome Summary

Shimia abyssi strain DSM 100673 Ga0181044_148, whole genome

Gene Summary

Adenine Count

1044865 bp

Thymine Count

1029763 bp

Guanine Count

1300044 bp

Cytosine Count

1357929 bp

Genome Length

4732601 bp

Protein-coding Genes

4533 genes

Non-Coding Genes

68 genes

# of Chromosomes/Plasmids

1

Genes

NameLocus TagUniProt IDStrand OrientationGene Start/EndProtein Molecular Weight
lysr substrate binding domain-containing proteinCLV88_104161Not AvailablePositive1870295 - 187078318357.3
lysr substrate binding domain-containing proteinCLV88_104162Not AvailablePositive1870752 - 187120416928.4
phosphonate degradation associated hdig domain proteinCLV88_104163Not AvailableNegative1871941 - 187253422242.0
gamma-butyrobetaine dioxygenaseCLV88_104164Not AvailableNegative1872531 - 187367941552.6
lysr family transcriptional regulatorCLV88_104165Not AvailablePositive1873793 - 187465331342.4
cholesterol transport system auxiliary componentCLV88_104166Not AvailableNegative1874643 - 187531724221.9
abc-type transporter mla subunit mladCLV88_104167Not AvailableNegative1875314 - 187740773479.0
phospholipid/cholesterol/gamma-hch transport system atp-binding proteinCLV88_104168Not AvailableNegative1877412 - 187824529740.0
phospholipid/cholesterol/gamma-hch transport system permease proteinCLV88_104169Not AvailableNegative1878245 - 187936939907.2
glycine/d-amino acid oxidase-like deaminating enzymeCLV88_104170Not AvailableNegative1879460 - 188080048342.6

Displaying genes 1881 – 1890 of 4601 in total

Pathways

0 pathways

No pathways found

No metabolic pathways have been associated with this bacterium yet.

Metabolites

0 records
Metabolite IDMetabolite nameStructureCAS number
No metabolites foundTry different search terms or mass values.

Displaying 0 metabolites

Health Effects

No health effects information available for this bacterium.