Sphingopyxis alaskensis RB2256

Gram-negativeRodNon-motileAerobe

Kingdom

Pseudomonadati

Phylum

Pseudomonadota

Class

Alphaproteobacteria

Order

Sphingomonadales

Family

Sphingopyxidaceae

Genus

Sphingopyxis

Description

S. alaskensis is an obligate aerobe isolated as one of the most numerically abundant bacteria from Alaskan waters over a period spanning ten years, demonstrating it is one of the most common culturable inhabitants from these environments. Its capacity to thrive in oligotrophic environments at 4-10 degrees Celsius is linked to unique genetic and physiological properties which are fundamentally different from those of the well studied bacteria such as Escherichia coli. It has a constant ultramicro-size (its volume is 0.1 um 3), irrespective of whether it is growing or starved, that provides it with a mechanism for avoiding predation, and a high surface to volume ratio to enhance nutrient uptake. This is coupled with the ability to utilize low concentrations of nutrients using high affinity, broad specificity uptake systems ( e.g. highest reported rates of alanine transport for any bacterium) and the ability to simultaneously take up mixed substrates. It is likely to be an important contributor in terms of biomass and nutrient cycling in marine environments. Ultramicrobacteria (nanobacteria), such as S. alaskensis, have been reported in a range of aquatic, terrestrial and clinical samples, and in fossils; many of which are controversial. The reports have raised questions about the minimum size of a free-living cell. The astrobiology community has been particularly interested, as the minimum cell-size has important implications for cellular evolution and for the search for extraterrestrial life. S. alaskensis is a useful model for these purposes, as it has been shown, for example, to achieve maximum rates of growth with 200 ribosomes per cell. (EBI Integr8)

Taxonomy

KingdomPseudomonadati
PhylumPseudomonadota
ClassAlphaproteobacteria
OrderSphingomonadales
FamilySphingopyxidaceae
GenusSphingopyxis
SpeciesSphingopyxis alaskensis
StrainRB2256

Profile

Physiology
Gram staining propertiesNegative
ShapeRod
MobilityNo
Flagellar presenceNot Available
Number of membranes2
Ecology, Host, and Life Cycle
Oxygen requirementsAerobe
Optimal temperatureNot Available
Temperature rangeMesophilic
HabitatAquatic
Biotic relationshipFree living
Host(s)Not Available
Cell arrangementNot Available
SporulationNonsporulating
Energy sourceOligotroph - Heterotroph
PathogenicityNo

Genome Summary

Sphingopyxis alaskensis RB2256 F plasmid, complete sequence.

Gene Summary

Adenine Count

5446 bp

Thymine Count

5866 bp

Guanine Count

8877 bp

Cytosine Count

8354 bp

Genome Length

28543 bp

Protein-coding Genes

31 genes

Non-Coding Genes

0 genes

# of Chromosomes/Plasmids

2

Genes

NameLocus TagUniProt IDStrand OrientationGene Start/EndProtein Molecular Weight
phage tail assembly chaperoneSALA_RS10135Not AvailableNegative2104697 - 21049007091.4
gene transfer agent family proteinSALA_RS10140Not AvailableNegative2104902 - 210521010642.0
Gene transfer aget (gta) orfg9-like phage major tail proteinSALA_RS10145Not AvailableNegative2105225 - 210563214232.6
hypothetical proteinSALA_RS10150Not AvailablePositive2105680 - 210601512419.6
duf3168 domain-containing proteinSALA_RS10155Not AvailableNegative2106033 - 210642513654.6
hypothetical proteinSALA_RS10160Not AvailableNegative2106422 - 210697018836.8
hypothetical proteinSALA_RS10165Not AvailableNegative2106967 - 210724810056.9
hypothetical proteinSALA_RS17135Not AvailableNegative2107272 - 21074275317.4
Putative tail fiber proteinSALA_RS10170P13390Negative2107424 - 210891751736.4
Major capsid protein precursorSALA_RS10175Not AvailableNegative2109026 - 211016839868.0

Displaying genes 1 – 10 of 3320 in total

Metabolites

1618 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 1618 metabolites

Health Effects

No health effects information available for this bacterium.