Bifidobacterium dentium Bd1

Gram-positiveRodNon-motileAnaerobic

Kingdom

Bacillati

Phylum

Actinomycetota

Class

Actinomycetes

Order

Bifidobacteriales

Family

Bifidobacteriaceae

Genus

Bifidobacterium

Description

Among the members of the large, diverse, and dynamic microbial community residing in the human gastrointestinal tract (GIT), Bifidobacterium is a dominant genus considered beneficial to humans. The GIT of healthy newborns is typically colonized by bifidobacteria, especially in breast-fed infants, during the first few days of life. However among Bifidobacterium is also found Bifdobacterium dentium, an opportunistic cariogenic pathogen. The genetic basis for the ability of B. dentium to survive in the oral cavity and contribute to caries development is not understood. Annotation of the genome sequence revealed multiple ways in which B. dentium has adapted to the oral environment through specialized nutrient acquisition, defense against antimicrobial agents, and gene products that increase fitness and competitiveness within the oral niche. B. dentium Bd1 was shown to metabolize a wide variety of carbohydrates, while colonization and persistence factors implicated in tissue adhesion, acid tolerance, and the metabolism of human saliva-derived compounds were also identified. It has evolved through a very limited number of horizontal gene acquisition events (adapted from PMID 20041198). (EBI Integr8)

Taxonomy

KingdomBacillati
PhylumActinomycetota
ClassActinomycetes
OrderBifidobacteriales
FamilyBifidobacteriaceae
GenusBifidobacterium
SpeciesBifidobacterium dentium
StrainBd1

Profile

Physiology
Gram staining propertiesPositive
ShapeRod
MobilityNo
Flagellar presenceYes
Number of membranes1
Image of Bifidobacterium dentium Bd1
Ecology, Host, and Life Cycle
Oxygen requirementsAnaerobic
Optimal temperatureNot Available
Temperature rangeMesophilic
HabitatHostAssociated
Biotic relationshipFree living
Host(s)Homo sapiens
Cell arrangementNot Available
SporulationNonsporulating
Energy sourceNot Available
PathogenicityYes

Genome Summary

Bifidobacterium dentium Bd1

Accession NumberNC_013714.1

Gene Summary

Adenine Count

551274 bp

Thymine Count

541849 bp

Guanine Count

766085 bp

Cytosine Count

777157 bp

Genome Length

2636367 bp

Protein-coding Genes

2089 genes

Non-Coding Genes

111 genes

# of Chromosomes/Plasmids

1

Genes

NameLocus TagUniProtStrandCoordinatesMolecular Weight
AttlNot AvailableNot Available+673535 - 673547Not Available
AttlNot AvailableNot Available+680201 - 680218Not Available
Abc transporter atp-binding proteinBDP_RS02845Not Available+683404 - 68411726499.8
hypothetical proteinBDP_RS02850Not Available+684229 - 68456112323.8
Terminase large subunitBDP_RS02855Not Available+684558 - 68600652774.4
Portal proteinBDP_RS02860Not Available+686098 - 68722541359.2
Phage prohead proteaseBDP_RS02865Not Available+687212 - 68877456612.6
hypothetical proteinBDP_RS02870Not Available+688771 - 68910011744.3
hypothetical proteinBDP_RS02875Not Available+689106 - 68948613491.0
Putative tail proteinBDP_RS02880Not Available+689501 - 68991414597.7

Displaying genes 1 – 10 of 2200 in total

Pathways

220 pathways

Metabolites

238 records
Metabolite IDMetabolite nameStructureCAS number
BASm0000237(R)-4'-phosphopantothenateC9H18NO8PChemical structure of (R)-4'-phosphopantothenateNot available
Average299.2149Da
Monoisotopic299.0770031Da
BASm00002512-dehydropantoateC6H9O4Chemical structure of 2-dehydropantoateNot available
Average145.1333Da
Monoisotopic145.050083776Da
BASm0000377(S)-malateC4H4O5Chemical structure of (S)-malateNot available
Average132.0716Da
Monoisotopic132.005873238Da
BASm0000989GlycerolC3H8O3Chemical structure of Glycerol56-81-5
Average92.0938Da
Monoisotopic92.04734412Da
BASm0001035indole-3-pyruvateC11H8NO3Chemical structure of indole-3-pyruvate35656-49-6
Average202.1861Da
Monoisotopic202.0504181Da
BASm0001167triphosphateO10P3Chemical structure of triphosphate14127-68-5
Average252.9153Da
Monoisotopic252.8704308Da
BASm0001418D-alluloseC6H12O6Chemical structure of D-allulose551-68-8
Average180.1559Da
Monoisotopic180.0633881Da
BASm0001639CobinamideC48H72CoN11O8Chemical structure of Cobinamide13497-85-3
Average990.0874Da
Monoisotopic989.4897335Da
BASm0001661Cu(2+)CuChemical structure of Cu(2+)7440-50-8
Average63.546Da
Monoisotopic62.929601079Da
BASm0002051D-fructoseC6H12O6Chemical structure of D-fructose57-48-7
Average180.1559Da
Monoisotopic180.0633881Da

Displaying 1–10 of 238 metabolites