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
putative homoserine dehydrogenase-like proteinCLV88_12712Not AvailablePositive4554693 - 455603347789.2
choline dehydrogenaseCLV88_12713Not AvailablePositive4556030 - 455766759336.1
aldehyde dehydrogenase (nad+)CLV88_12714Not AvailablePositive4557692 - 455917053381.7
threonine/homoserine/homoserine lactone efflux proteinCLV88_12715Not AvailableNegative4559185 - 455977521046.5
tripartite atp-independent transporter dctm subunitCLV88_12716Not AvailableNegative4559847 - 456131352065.1
trap-type mannitol/chloroaromatic compound transport system permease small subunitCLV88_12717Not AvailableNegative4561313 - 456187620698.9
trap-type mannitol/chloroaromatic compound transport system substrate-binding proteinCLV88_12718Not AvailableNegative4561962 - 456300237771.8
dna-binding transcriptional lysr family regulatorCLV88_12719Not AvailableNegative4563126 - 456402532593.2
hypothetical proteinCLV88_12720Not AvailablePositive4564383 - 45646379376.59
uncharacterized protein duf3489CLV88_12721Not AvailablePositive4564727 - 45649819266.12

Displaying genes 4431 – 4440 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.