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
tripartite-type tricarboxylate transporter receptor subunit tctcCLV88_1037Not AvailablePositive1329726 - 133073334497.9
hypothetical proteinCLV88_1038Not AvailablePositive1330805 - 133155427368.9
putative tricarboxylic transport membrane proteinCLV88_1039Not AvailablePositive1331556 - 133306752816.5
quinol monooxygenase yginCLV88_10310Not AvailablePositive1333067 - 133334810752.0
glyoxylase-like metal-dependent hydrolase (beta-lactamase superfamily ii)CLV88_10311Not AvailablePositive1333345 - 133414229597.2
uncharacterized protein ygbk (duf1537 family)CLV88_10312Not AvailablePositive1334139 - 133536842320.4
ribulose-5-phosphate 4-epimerase/fuculose-1-phosphate aldolaseCLV88_10313Not AvailablePositive1335365 - 133600923067.8
antibiotic biosynthesis monooxygenaseCLV88_10314Not AvailableNegative1336546 - 133696514993.6
dna-binding transcriptional lysr family regulatorCLV88_10315Not AvailableNegative1337381 - 133826532471.9
3-isopropylmalate/(r)-2-methylmalate dehydratase small subunitCLV88_10316Not AvailableNegative1338285 - 133889021550.7

Displaying genes 1341 – 1350 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.