User:S4338571: Difference between revisions
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==Genome structure== | ==Genome structure== | ||
Select a strain for which genome information (e.g. size, plasmids, distinct genes, etc.) is available. | Select a strain for which genome information (e.g. size, plasmids, distinct genes, etc.) is available. | ||
<u>'''strain: ATCC33277'''</u> | |||
'''GenBank (complete genome):''' AP009380.1 '''Size:''' 2,354,886 bp '''Topology:''' Circular | |||
'''GenBank (16S rRNA gene, complete sequence):''' L16492.1 | |||
'''Size:''' 1,474 bp | |||
'''Topology:''' Linear | |||
'''GenBank (dpp11 gene):''' BR000944.1 | |||
'''Size:''' 2,163 bp | |||
'''Topology:''' Linear | |||
'''GenBank (mfa2 gene):''' AB360435.1 | |||
'''Size:''' 975 bp | |||
'''Topology:''' Linear | |||
'''GenBank (fimA(I) gene):''' AB261608.1 | |||
'''Size:''' 8,048 bp | |||
'''Topology:''' Linear | |||
'''GenBank (ustA gene):''' AB188568.1 | |||
'''Size:''' 487bp | |||
'''Topology:''' Linear | |||
'''GenBank (fimX gene):''' AY656999.1 | |||
'''Size:''' 943 bp | |||
'''Topology:''' Linear | |||
'''GenBank (pgmA gene):''' AY633704.1 | |||
'''Size:''' 1,473bp | |||
'''Topology:''' Linear | |||
'''GenBank (htpG gene):''' AF176245.1 | |||
'''Size:''' 2,076 bp | |||
'''Topology:''' Linear | |||
'''GenBank (dnaK operon genes):''' AB015879.1 | |||
'''Size:''' 9,878 bp | |||
'''Topology:''' Linear | |||
'''GenBank (mfa 1 gene):''' AB016284.1 | |||
'''Size:''' 1,769 bp | |||
'''Topology:''' Linear | |||
'''GenBank (pga67 gene):''' AB006481.1 | |||
'''Size:''' 2,100 bp | |||
'''Topology:''' Linear | |||
<u>'''Strain: JCM 12257'''</u> | |||
'''GenBank (16S rRNA gene):''' AB547660.1 | |||
'''Size:''' 1,493 bp | |||
'''Topology:''' Linear | |||
'''GenBank (hsp60 gene):''' AB547581.1 | |||
'''Size:''' 558 bp | |||
'''Topology:''' Linear | |||
==Cell structure and metabolism== | ==Cell structure and metabolism== |
Revision as of 22:47, 1 September 2016
Muhammad Irfan Zulkifle Bench E 1/9/2016 [1]
Classification
Higher order taxa
Bacteria (Kingdom) – FCB Group (Domain) – Bacteroidetes (Phylum) – Bacteroidia (Class) – Bacteroidales (Order) – Porphyromonadaceae (Family) – Porphyromonas (Genus)
Species
- Porphyromonas gingivalis
- Type strain: strain 2561 = ATCC 33277= CCUG 25893 = CCUG 25928 = CIP 103683 = DSM 20709 = JCM 12257 = NCTC 11834 [1]
Species name and type strain (consult LPSN http://www.bacterio.net/index.html for this information)
Description and significance
Give a general description of the species (e.g. where/when was it first discovered, where is it commonly found, has it been cultured, functional role, type of bacterium [Gram+/-], morphology, etc.) and explain why it is important to study this microorganism. Examples of citations [2], [3]
Genome structure
Select a strain for which genome information (e.g. size, plasmids, distinct genes, etc.) is available.
strain: ATCC33277
GenBank (complete genome): AP009380.1 Size: 2,354,886 bp Topology: Circular
GenBank (16S rRNA gene, complete sequence): L16492.1 Size: 1,474 bp Topology: Linear
GenBank (dpp11 gene): BR000944.1 Size: 2,163 bp Topology: Linear
GenBank (mfa2 gene): AB360435.1 Size: 975 bp Topology: Linear
GenBank (fimA(I) gene): AB261608.1 Size: 8,048 bp Topology: Linear
GenBank (ustA gene): AB188568.1 Size: 487bp Topology: Linear
GenBank (fimX gene): AY656999.1 Size: 943 bp Topology: Linear
GenBank (pgmA gene): AY633704.1 Size: 1,473bp Topology: Linear
GenBank (htpG gene): AF176245.1 Size: 2,076 bp Topology: Linear
GenBank (dnaK operon genes): AB015879.1 Size: 9,878 bp Topology: Linear
GenBank (mfa 1 gene): AB016284.1 Size: 1,769 bp Topology: Linear
GenBank (pga67 gene): AB006481.1 Size: 2,100 bp Topology: Linear
Strain: JCM 12257
GenBank (16S rRNA gene): AB547660.1 Size: 1,493 bp Topology: Linear
GenBank (hsp60 gene): AB547581.1 Size: 558 bp Topology: Linear
Cell structure and metabolism
Cell wall, biofilm formation, motility, metabolic functions.
Ecology
Aerobe/anaerobe, habitat (location in the oral cavity, potential other environments) and microbe/host interactions.
Pathology
Do these microorganisms cause disease in the oral cavity or elsewhere?
Application to biotechnology
Bioengineering, biotechnologically relevant enzyme/compound production, drug targets,…
Current research
Summarise some of the most recent discoveries regarding this species.
References
References examples
1. List of prokaryotic names with standing in nomenculture
- ↑ MICR3004
This page is written by Muhammad Irfan Zulkifle for the MICR3004 course, Semester 2, 2016