Saccharophagus degradans 2-40

Gram-negativeRodMotileAerobe

Kingdom

Pseudomonadati

Phylum

Pseudomonadota

Class

Gammaproteobacteria

Order

Cellvibrionales

Family

Cellvibrionaceae

Genus

Saccharophagus

Description

Saccharophagus degradans (strain 2-40), formerly known as Microbulbifer degradans, is a Gram-negative, pleomorphic, aerobic, rod shaped, and motile bacterium. It belongs to a recently discovered group of marine bacteria that degrade and recycle complex carbohydrates. It was originally isolated from the salt marsh cord grass, Spartina alterniflora, in the Chesapeake Bay watershed. Saccharophagus degradans contains degradative surface protuberances, containing what is collectively termed hydrolosomes. The chitinase, agarase and alginase produced by S.degradans are not exported into the extracellular medium but are localized in these surface protuberances. Thanks to these protuberances, it is able to recycle a multitude of ICP (insoluble complex polysaccharides) including agar, chitin, alginic acid, carrageenan, cellulose, B-glucan, laminarin, pectin, pullulan, starch, and xylan. Agricultural, aquacultural, and algalcultural wastes threaten to become an increasingly serious problem. The wastes are mostly recalcitrant complex carbohydrates, namely cellulose, chitin and agar. The degradative protuberances of S.degradans may become important bioremediation tools, using them as concentrated, organized, protective enzyme packets. (EBI Integr8)

Taxonomy

KingdomPseudomonadati
PhylumPseudomonadota
ClassGammaproteobacteria
OrderCellvibrionales
FamilyCellvibrionaceae
GenusSaccharophagus
SpeciesSaccharophagus degradans
Strain2-40

Profile

Physiology
Gram staining propertiesNegative
ShapeRod
MobilityYes
Flagellar presenceYes
Number of membranes2
Image of Saccharophagus degradans 2-40
AI-generated image based on bacteria physiology
Ecology, Host, and Life Cycle
Oxygen requirementsAerobe
Optimal temperature4
Temperature rangeMesophilic
HabitatAquatic
Biotic relationshipFree living
Host(s)Not Available
Cell arrangementNot Available
SporulationNot Available
Energy sourceheterotroph
PathogenicityNo

Genome Summary

Saccharophagus degradans 2-40


Gene Summary

Adenine Count

1369925 bp

Thymine Count

1369938 bp

Guanine Count

1157231 bp

Cytosine Count

1160437 bp

Genome Length

5057531 bp

Protein-coding Genes

4086 genes

Non-Coding Genes

57 genes

# of Chromosomes/Plasmids

1

Genes

NameLocus TagUniProtStrandCoordinatesMolecular Weight
Putative tail sheath proteinSDE_RS05450Not Available+1326736 - 132814851675.2
Putative tail tube protein 2SDE_RS05455Not Available+1328196 - 132863016183.4
Putative tail tube protein 2SDE_RS05460Not Available+1328698 - 132914417081.3
duf5908 family proteinSDE_RS22940Not Available+1329148 - 13293095851.99
cis tube proteinSDE_RS05465Not Available+1329314 - 132997924595.0
Putative baseplate hub and tail lysozymeSDE_RS05470Not Available+1330039 - 133175160416.7
Paar repeat-containing proteinSDE_RS05475Not Available+1331783 - 13320618575.38
Baseplate wedge subunitSDE_RS05480Not Available+1332066 - 133250316191.3
chromosomal replication initiator protein dnaaSDE_RS00015Not Available+389 - 195758463.6
dna polymerase iii subunit betaSDE_RS00020Not Available+2145 - 324840737.9

Displaying genes 1 – 10 of 4143 in total

Pathways

0 pathways

No pathways found

No metabolic pathways have been associated with this bacterium yet.

Metabolites

1741 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
BASm0000274aldehydo-D-galacturonateC6H9O7Chemical structure of aldehydo-D-galacturonateNot available
Average193.132Da
Monoisotopic193.0353762Da
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
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

Displaying 1–10 of 1741 metabolites