Pelodictyon phaeoclathratiforme BU-1

Gram-negativeBacilliNon-motileAnaerobic

Kingdom

Pseudomonadati

Phylum

Chlorobiota

Class

Chlorobiia

Order

Chlorobiales

Family

Chlorobiaceae

Genus

Pelodictyon

Description

Pelodictyon phaeoclathhratiforme is a green sulfur bacterium frequently observed in stratified freshwater lakes where light reaches sulfide-containing water layers; it frequently represents the dominant green sulfur bacterium in this habitat. BU 1, the type strain, was isolated from water samples of Buchensee, Germany in 1989. This lake is meromictic, that is the surface and deep waters do not mix; BU 1 was isolated from 9 m deep water. Like all green sulfur bacteria, this species is strictly anaerobic and obligately phototrophic. Photosynthetic pigments comprise mainly bacteriochlorophyll e and isorenieratene/b -isorenieratene plus small amounts of bacteriochlorophyll a. It is actually a brown color. P.phaeoclathratiforme forms net-like microcolonies and has intracellular gas vesicles. Ternary fission, which leads to the formation of ring-shaped and branched colonies, is observed at growth-limiting light intensities. Gas vesicles are proteinaceous hollow rigid structures which occur only in prokaryotic cells which are impermeable to liquid but permeable to gases. Because of their gas content, gas vesicles decrease the density of the cell and may provide neutral or even positive buoyancy if present in sufficient amounts. Like ternary fission, gas vesicles are exclusively observed in cells grown at light intensities below 5 umol photons m-2 s-1. Unlike some cyanobacteria, cells of P.phaeoclathratiforme do not attain positive buoyancy and thus are unlikely to rise to the lake surface and to leave their habitat. The capability of buoyant density regulation offers one explanation for the dominance of P.phaeoclathratiforme in many stratified lakes (modified from http://genome.jgi-psf.org/finished_microbes/pelph/pelph.home.html). (HAMAP: PELPB)

Taxonomy

KingdomPseudomonadati
PhylumChlorobiota
ClassChlorobiia
OrderChlorobiales
FamilyChlorobiaceae
GenusPelodictyon
SpeciesPelodictyon phaeoclathratiforme
StrainBU-1

Profile

Physiology
Gram staining propertiesNegative
ShapeBacilli
MobilityNo
Flagellar presenceYes
Number of membranes2
Image of Pelodictyon phaeoclathratiforme BU-1
Ecology, Host, and Life Cycle
Oxygen requirementsAnaerobic
Optimal temperature15
Temperature rangeMesophilic
HabitatMultiple
Biotic relationshipFree living
Host(s)Not Available
Cell arrangementSingles
SporulationNonsporulating
Energy sourcePhototroph- Photosynthetic
PathogenicityNot Available

Genome Summary

Pelodictyon phaeoclathratiforme BU-1

Accession NumberNC_011060.1

Gene Summary

Adenine Count

Not Available

Thymine Count

Not Available

Guanine Count

Not Available

Cytosine Count

Not Available

Genome Length

Not Available

Protein-coding Genes

2861 genes

Non-Coding Genes

61 genes

# of Chromosomes/Plasmids

1

Genes

NameLocus TagUniProtStrandCoordinatesMolecular Weight
chromosomal replication initiator protein dnaaPPHA_RS00005Not Available+1 - 146455084.1
dna polymerase iii subunit betaPPHA_RS00010Not Available+1746 - 287041979.6
dna replication/repair protein recfPPHA_RS00015Not Available+2931 - 399240413.7
duf721 domain-containing proteinPPHA_RS00020Not Available+3995 - 428811163.6
fpra family a-type flavoproteinPPHA_RS00025Not Available-4331 - 555445862.0
dna polymerase domain-containing proteinPPHA_RS00030Not Available-5681 - 807191527.9
trna uridine-5-carboxymethylaminomethyl(34) synthesis enzyme mnmgPPHA_RS00035Not Available-8136 - 1000168326.5
thiosulfate oxidation carrier protein soxyPPHA_RS00040Not Available+10466 - 1090316087.5
thiosulfate oxidation carrier complex protein soxzPPHA_RS00045Not Available+10928 - 1123611280.4
c-type cytochromePPHA_RS00050Not Available+11297 - 1167113045.7

Displaying genes 1 – 10 of 2922 in total

Pathways

0 pathways

No pathways found

No metabolic pathways have been associated with this bacterium yet.

Metabolites

57 records
Metabolite IDMetabolite nameStructureCAS number
BASm0002307(2R,3R)-2,3-dihydroxy-3-methylpentanoateC6H11O4Chemical structure of (2R,3R)-2,3-dihydroxy-3-methylpentanoateNot available
Average147.1491Da
Monoisotopic147.06573384Da
BASm0002751(S)-4-amino-5-oxopentanoateC5H9NO3Chemical structure of (S)-4-amino-5-oxopentanoateNot available
Average131.1299Da
Monoisotopic131.0582432Da
BASm0002826(2R)-3-phospho-glyceroyl phosphateC3H4O10P2Chemical structure of (2R)-3-phospho-glyceroyl phosphateNot available
Average262.005Da
Monoisotopic261.9301646Da
BASm0002858all-trans-undecaprenyl phosphateC55H89O4PChemical structure of all-trans-undecaprenyl phosphateNot available
Average845.288Da
Monoisotopic844.6509455Da
BASm00029834-CDP-2-C-methyl-D-erythritolC14H23N3O14P2Chemical structure of 4-CDP-2-C-methyl-D-erythritolNot available
Average519.294Da
Monoisotopic519.0666236Da
BASm00030584-CDP-2-C-methyl-D-erythritol 2-phosphateC14H22N3O17P3Chemical structure of 4-CDP-2-C-methyl-D-erythritol 2-phosphateNot available
Average597.257Da
Monoisotopic597.0184016Da
BASm0003116all-trans-undecaprenyl diphosphateC55H89O7P2Chemical structure of all-trans-undecaprenyl diphosphateNot available
Average924.259Da
Monoisotopic923.6099999Da
BASm0003333(2R)-3-phosphoglycerateC3H4O7PChemical structure of (2R)-3-phosphoglycerateNot available
Average183.033Da
Monoisotopic182.9711102Da
BASm0003335L-glutamyl 5-phosphateC5H8NO7PChemical structure of L-glutamyl 5-phosphateNot available
Average225.094Da
Monoisotopic225.0049358Da
BASm0003346(2R)-2-phosphoglycerateC3H4O7PChemical structure of (2R)-2-phosphoglycerateNot available
Average183.033Da
Monoisotopic182.9711102Da

Displaying 11–20 of 57 metabolites