Shewanella loihica PV-4

Gram-negativeRodMotileFacultative

Kingdom

Pseudomonadati

Phylum

Pseudomonadota

Class

Gammaproteobacteria

Order

Alteromonadales

Family

Shewanellaceae

Genus

Shewanella

Description

Shewanella are facultatively anaerobic, Gram-negative bacteria, motile by polar flagella, rod-like, and generally associated with aquatic or marine environments. . They are capable of using a variety of compounds as electron acceptors, including oxygen, iron, manganese, uranium, nitrate, nitrite, fumarate, to name but a few. This ability makes Shewanella important for bioremediation of contaminated metals and radioactive wastes. The genus Shewanella comprises 36 recognized and hundreds of uncharacterized cultivable species. Shewanella loihica , formerly Shewanella sp. strain PV-4, was isolated from iron-rich microbial mats at an active, deep sea, hydrothermal Naha Vent (1325 m below sea level), located on the South Rift of Loihi Seamount, Hawaii. PV-4 is an orange colour, psychrotolerant, capable of reducing metals at temperatures from 0 to 37 degrees C, and has a temperature optimum of 18 degrees C. Growth is observed in a salinity range of 0.05 to 5%. Metal reduction is observed at pH 7.0-8.9, while growth is observed in a pH range of 5.5 to 10 aerobically. The electron donors lactate, formate, pyruvate as well as hydrogen can be utilized with a reduction of Fe(III)-citrate, Mn(IV)-oxide, Co(III)-EDTA, Cr(VI), and U(VI). The strain can not use acetate as an electron donor. PV-4 produces single domain magnetite at temperatures from 14 to 37 degrees C (adapted from http://genome.jgi-psf.org/she_p/she_p.home.html). (HAMAP: SHELP)

Taxonomy

KingdomPseudomonadati
PhylumPseudomonadota
ClassGammaproteobacteria
OrderAlteromonadales
FamilyShewanellaceae
GenusShewanella
SpeciesShewanella loihica
StrainPV-4

Profile

Physiology
Gram staining propertiesNegative
ShapeRod
MobilityYes
Flagellar presenceYes
Number of membranes2
Image of Shewanella loihica PV-4
AI-generated image based on bacteria physiology
Ecology, Host, and Life Cycle
Oxygen requirementsFacultative
Optimal temperature16
Temperature rangeMesophilic
HabitatMultiple
Biotic relationshipFree living
Host(s)Not Available
Cell arrangementPairs - Singles
SporulationNonsporulating
Energy sourceHeterotroph
PathogenicityNo

Genome Summary

Shewanella loihica PV-4, complete sequence.

Gene Summary

Adenine Count

1065761 bp

Thymine Count

1066759 bp

Guanine Count

1233876 bp

Cytosine Count

1236198 bp

Genome Length

4602594 bp

Protein-coding Genes

3913 genes

Non-Coding Genes

124 genes

# of Chromosomes/Plasmids

1

Genes

NameLocus TagUniProt IDStrand OrientationGene Start/EndProtein Molecular Weight
integration host factor subunit betaSHEW_RS10120Not AvailablePositive2261338 - 226162510664.8
lapa family proteinSHEW_RS10125Not AvailablePositive2261748 - 226206511856.9
lipopolysaccharide assembly protein lapbSHEW_RS10130Not AvailablePositive2262067 - 226322744341.5
orotidine-5'-phosphate decarboxylaseSHEW_RS10135Not AvailablePositive2263263 - 226395824757.2
sdr family oxidoreductaseSHEW_RS10140Not AvailablePositive2264022 - 226483728242.1
duf2058 domain-containing proteinSHEW_RS10145Not AvailablePositive2264876 - 226541820638.7
acyl-coa dehydrogenaseSHEW_RS10150Not AvailablePositive2265581 - 226733263132.2
d-alanyl-d-alanine carboxypeptidase/d-alanyl-d-alanine-endopeptidaseSHEW_RS10155Not AvailableNegative2267440 - 226907158768.7
hypothetical proteinSHEW_RS20585Not AvailableNegative2269106 - 22692826694.53
duf1904 domain-containing proteinSHEW_RS10160Not AvailablePositive2269513 - 226984512760.5

Displaying genes 2041 – 2050 of 4037 in total

Metabolites

1848 records
Metabolite IDMetabolite nameStructureCAS number
BASm0000237(R)-4'-phosphopantothenateC9H18NO8PChemical structure of (R)-4'-phosphopantothenateNot available
Average299.2149Da
Monoisotopic299.0770031Da
BASm00002502,5-didehydro-D-gluconateC6H7O7Chemical structure of 2,5-didehydro-D-gluconate53736-12-2
Average191.1156Da
Monoisotopic191.019177578Da
BASm00002512-dehydropantoateC6H9O4Chemical structure of 2-dehydropantoateNot available
Average145.1333Da
Monoisotopic145.050083776Da
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
BASm0000377(S)-malateC4H4O5Chemical structure of (S)-malateNot available
Average132.0716Da
Monoisotopic132.005873238Da
BASm0000387(6R)-5,10-methylene-5,6,7,8-tetrahydrofolateC20H21N7O6Chemical structure of (6R)-5,10-methylene-5,6,7,8-tetrahydrofolateNot available
Average455.432Da
Monoisotopic455.1564286Da
BASm0000401(S)-2-succinylamino-6-oxoheptanedioateC11H12NO8Chemical structure of (S)-2-succinylamino-6-oxoheptanedioateNot available
Average286.218Da
Monoisotopic286.0579371Da
BASm00004283-oxoadipateC6H6O5Chemical structure of 3-oxoadipateNot available
Average158.11Da
Monoisotopic158.022620453Da
BASm0000553biphenyl-2,3-diolC12H10O2Chemical structure of biphenyl-2,3-diolNot available
Average186.2066Da
Monoisotopic186.0680796Da

Displaying 1–10 of 1848 metabolites

Health Effects

No health effects information available for this bacterium.