Sphingobium baderi strain DE-13

Kingdom

Pseudomonadati

Phylum

Pseudomonadota

Class

Alphaproteobacteria

Order

Sphingomonadales

Family

Sphingobiaceae

Genus

Sphingobium

Description

Sphingobium baderi strain DE-13 is characterized by the presence of flagella, which suggests motility and the ability to navigate its environment. The strain has two replicons, indicating a complex genomic architecture that may contribute to its adaptability and metabolic diversity. The genomic data for Sphingobium baderi strain DE-13 can be accessed through the following accession numbers: NZ_CP013265.1 and NZ_CP013269.1. These sequences provide the foundational genetic information necessary for understanding the organism's biological functions and potential applications in various fields. The presence of flagella in Sphingobium baderi strain DE-13 is particularly noteworthy, as it may enhance the strain's ability to colonize diverse environments, including contaminated sites, where it could play a significant role in bioremediation processes. The dual replicon structure may also facilitate the strain's resilience and adaptability to fluctuating environmental conditions, which is essential for survival in ecological niches where resources may be limited or variable. In summary, Sphingobium baderi strain DE-13 exhibits traits such as flagellar motility and a complex genomic structure with two replicons, positioning it as a potentially significant organism in ecological and bioremediation contexts.

Taxonomy

KingdomPseudomonadati
PhylumPseudomonadota
ClassAlphaproteobacteria
OrderSphingomonadales
FamilySphingobiaceae
GenusSphingobium
SpeciesSphingobium wenxiniae
StrainNo strain

Profile

Physiology
Gram staining propertiesNot Available
ShapeNot Available
MobilityNot Available
Flagellar presenceYes
Number of membranesNot Available
Ecology, Host, and Life Cycle
Oxygen requirementsNot Available
Optimal temperatureNot Available
Temperature rangeNot Available
HabitatNot Available
Biotic relationshipNot Available
Host(s)Not Available
Cell arrangementNot Available
SporulationNot Available
Energy sourceNot Available
PathogenicityNot Available

Genome Summary

Sphingobium baderi strain DE-13


Gene Summary

Adenine Count

3938 bp

Thymine Count

4063 bp

Guanine Count

6718 bp

Cytosine Count

6686 bp

Genome Length

21405 bp

Protein-coding Genes

18 genes

Non-Coding Genes

0 genes

# of Chromosomes/Plasmids

2

Genes

NameLocus TagUniProt IDStrand OrientationGene Start/EndProtein Molecular Weight
tn3 family transposaseATN00_RS22390P51565Positive207 - 3164110028.0
replication initiator protein aATN00_RS22395Not AvailableNegative4188 - 514736630.9
hypothetical proteinATN00_RS22400Not AvailableNegative5144 - 553013627.2
para family proteinATN00_RS22405Not AvailableNegative5530 - 618323001.3
transcription elongation protein sprtATN00_RS22410Not AvailableNegative6290 - 693422720.1
abrb/maze/spovt family dna-binding domain-containing proteinATN00_RS22415Not AvailablePositive7387 - 76629605.66
type ii toxin-antitoxin system vapc family toxinATN00_RS22420Not AvailablePositive7659 - 805713923.8
histidine phosphatase family proteinATN00_RS22425Not AvailablePositive8060 - 866822342.4
hypothetical proteinATN00_RS24140Not AvailablePositive9058 - 92858071.32
is6-like element is6100 family transposaseATN00_RS22435P0C1L0Negative9358 - 1012229684.0

Displaying genes 1 – 10 of 258 in total

Pathways

0 pathways

No pathways found

No metabolic pathways have been associated with this bacterium yet.

Metabolites

24 records
Metabolite IDMetabolite nameStructureCAS number
BASm00002512-dehydropantoateC6H9O4Chemical structure of 2-dehydropantoateNot available
Average145.1333Da
Monoisotopic145.050083776Da
BASm00002634-(hydroxymethyl)benzenesulfonateC7H7O4SChemical structure of 4-(hydroxymethyl)benzenesulfonateNot available
Average187.19Da
Monoisotopic187.007053459Da
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
BASm0000491D-erythruloseC4H8O4Chemical structure of D-erythruloseNot available
Average120.104Da
Monoisotopic120.0422587Da
BASm0000553biphenyl-2,3-diolC12H10O2Chemical structure of biphenyl-2,3-diolNot available
Average186.2066Da
Monoisotopic186.0680796Da
BASm00008001,8-diazacyclotetradecane-2,9-dioneC12H22N2O2Chemical structure of 1,8-diazacyclotetradecane-2,9-dioneNot available
Average226.32Da
Monoisotopic226.168127956Da
BASm00010412,6-dihydroxypyridineC5H5NO2Chemical structure of 2,6-dihydroxypyridineNot available
Average111.1Da
Monoisotopic111.032028405Da
BASm0001375toluene-4-sulfonateC7H7O3SChemical structure of toluene-4-sulfonateNot available
Average171.19Da
Monoisotopic171.012138839Da
BASm0001717fumarateC4H2O4Chemical structure of fumarateNot available
Average114.0563Da
Monoisotopic113.9953086Da
BASm0001786(S,S)-tartrateC4H4O6Chemical structure of (S,S)-tartrateNot available
Average148.071Da
Monoisotopic148.001885Da

Displaying 1–10 of 24 metabolites

Health Effects

No health effects information available for this bacterium.