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
carbohydrate abc transporter membrane protein 1 (cut1 family)CLV88_11928Not AvailableNegative4106952 - 410783332692.3
carbohydrate abc transporter substrate-binding protein (cut1 family)CLV88_11929Not AvailableNegative4107891 - 410920147038.8
dna-binding transcriptional lysr family regulatorCLV88_11930Not AvailablePositive4109379 - 411028733773.9
iron(iii) transport system substrate-binding proteinCLV88_11931Not AvailablePositive4110485 - 411151036808.1
iron(iii) transport system permease proteinCLV88_11932Not AvailablePositive4111553 - 411373378625.3
iron(iii) transport system atp-binding proteinCLV88_11933Not AvailablePositive4113730 - 411480338442.2
2,4-dienoyl-coa reductase-like nadh-dependent reductase (old yellow enzyme family)CLV88_11934Not AvailablePositive4114896 - 411609241823.8
acrylyl-coa reductase (nadph)CLV88_11935Not AvailableNegative4116202 - 411719434626.8
dimethylsulfoniopropionate demethylaseCLV88_11936Not AvailableNegative4117251 - 411835440690.8
putative damage-inducible protein dinbCLV88_11937Not AvailableNegative4118345 - 411887519784.6

Displaying genes 4031 – 4040 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.