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afreise posted in Cluster BE - terminase, small subunit
Debbie Jacobs-Sera posted in Cluster BE - terminase, small subunit
afreise posted in Cluster BE - terminase, small subunit
Debbie Jacobs-Sera posted in DNA-binding ferritin-like protein
Kathleen Cornely posted in RecB-like exonuclease/helicase or Cas4 family exonuclease?
Tail assembly chaperones?
| Link to this post | posted 01 Mar, 2018 17:03 | |
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Lucky annotators of Cluster B phages are off the hook for adding frameshifts to their annotations, as we have not yet been able to identify which genes are the tail assembly chaperones in Cluster B. |
| Link to this post | posted 01 Mar, 2018 22:31 | |
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We have looked very closely on all our Strep. phages (BG, BH, BI, etc.), and couldn't find them. I'm glad it's not just us. But we'll keep looking! |
| Link to this post | posted 02 Mar, 2018 15:17 | |
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Steven Caruso Steve - Be careful not to confuse "B" cluster with the double letter "BB,BG" etc. clusters. Welkin is talking about just the Cluster B phages in this topic. Several of the Streptomyces-associated clusters have the Tail assembly chaperone frameshift (including Clusters BC, BD, and BL). Lee |
| Link to this post | posted 02 Mar, 2018 16:08 | |
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Yep– this thread is just about Cluster B, which currently only has Mycobacterium phage members. |
| Link to this post | posted 02 Mar, 2018 16:50 | |
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Well, I inadvertently expanded it to other clusters that are missing them, I apologize. But it is an interesting problem we have run into. We didn't see them in our BG phage, and haven't found them in any of our BI(2 or 4) phages. Steve |
| Link to this post | posted 16 Apr, 2018 17:13 | |
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Welkin, So, you are implying that we should not call any gene as a Tail Assembly Chaperone at this point in the B1 Cluster? If we can call genes that match tail assembly chaperones in other B cluster phages, how many can we call, I see some with one, some with two, and some with none? |
| Link to this post | posted 18 Apr, 2018 15:58 | |
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I think we should be conservative here and not call anything. I have seen some BLAST results between Bs and other clusters, but the gene organization is not conserved: that is, the genes in Bs with BLAST hits don't have a downstream ORF with a substantial overlap in a different frame. There is something else going on in these phages. |