Welcome to the forums at seaphages.org. Please feel free to ask any questions related to the SEA-PHAGES program. Any logged-in user may post new topics and reply to existing topics. If you'd like to see a new forum created, please contact us using our form or email us at info@seaphages.org.
Recent Activity
dane.bowder posted in capsid maturation protease or hypothetical protein (MuF-like minor capsid protein)
Marie Fogarty posted in capsid maturation protease or hypothetical protein (MuF-like minor capsid protein)
Debbie Jacobs-Sera posted in capsid maturation protease or hypothetical protein (MuF-like minor capsid protein)
dane.bowder posted in capsid maturation protease or hypothetical protein (MuF-like minor capsid protein)
All posts created by welkin
Link to this post | posted 13 Apr, 2018 22:23 | |
---|---|
|
We do not know where the frameshift is in the DG tail assembly chaperones. |
Link to this post | posted 13 Apr, 2018 22:22 | |
---|---|
|
Lysin B is not adjacent to lysin A in cluster DG, instead it is at the end of the right arm of the genome. |
Link to this post | posted 13 Apr, 2018 22:19 | |
---|---|
|
Cluster DF phages contain a recombinase in the right arm that is related to the integrase genes of temperate phages. However, these phages do not appear to contain any of the rest of the necessary machinery for lysogeny (attP, immunity repressor, etc); and so we believe these are not integrases, but rather recombinases, and should be labeled as such. |
Link to this post | posted 13 Apr, 2018 22:17 | |
---|---|
|
Lysin A, which is a single multi-domain protein in many Actinobacteriophages, is split at the domain boundaries encoded by two adjacent genes in members of cluster DF. The functions should be reported as "lysin A, whatever the domain is" to indicate that each gene does not encode the full lysin A. |
Link to this post | posted 13 Apr, 2018 22:15 | |
---|---|
|
Cluster DF contains some phages that were not isolated and sequenced by the SEA-PHAGES program. Their finders chose a different bp1 than we did, and annotated their genomes differently. We do not curate, update, or QC these genomes. These phages are: Gmala1, GordDuk1, GordTnk2, and GMA3 |
Link to this post | posted 13 Apr, 2018 22:11 | |
---|---|
|
Cluster DE contains a phage that was not isolated and sequenced by the SEA-PHAGES program. Its finders annotated their genomes differently. We do not curate, update, or QC this genome. This phage is: GTE6 |
Link to this post | posted 13 Apr, 2018 22:08 | |
---|---|
|
Some Cluster DC phages, like Twister6, contain two integrase genes in the central portion of the genome. |
Link to this post | posted 13 Apr, 2018 22:02 | |
---|---|
|
Cluster DB phages are very plastic in the middle of the genome, near the integration cassette. Some, like Bowser, contain two integrase genes in this region. |
Link to this post | posted 13 Apr, 2018 21:58 | |
---|---|
|
Lysin A, which is a single multi-domain protein in many Actinobacteriophages, is split at the domain boundaries encoded by two adjacent genes in SOME members of cluster CZ. The functions should be reported as "lysin A, whatever the domain is" to indicate that each gene does not encode the full lysin A. |
Link to this post | posted 13 Apr, 2018 21:55 | |
---|---|
|
There is a final HNH endonuclease gene at the end of CY genomes that is not predicted by the gene prediction programs. |