UMBC Phage Hunters Spring 2015
My Annotations
| Status | Page | Date/Time | GO Term (Aspect) | Reference | Evidence | Notes | Links |
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| unacceptable | LAMBD:TMP | 2015-04-06 10:49:15 CDT | GO:0098003 viral tail assembly (P) | PMID:1531648 | ECO:0000247 sequence alignment evidence used in manual assertion | The tape measure protein is commonly found within dsDNA phage that contributes to the length of the viral tails. The researchers in the source did specific sequencing analysis to identify the various genes involved in phage tail genes, specifically in bacteriophage P2. (fig 1. pg. 1463) Researchers identified the gene (Gene H) through by utilizing common ORFs found within the sequences and comparing cleaved sites from mutated sequences.(fig. 3 pg. 1464-1465)Function of the gene was also found through experimental recombination to knock down the genes and determining the outcome of the viral structures by comparing sequences to other well known phage.(PMID:1531648)
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| unacceptable | 9CAUD:S5Y0M4 | 2015-04-07 21:02:19 CDT | GO:0098003 viral tail assembly (P) | other:GO_REF:0000100 | ECO:0000317 genomic context evidence used in manual assertion | Using BLASTP, there was a match that met the required threshold to the phage known as moonbeam (AIW03471). The BlastP hit has a query coverage of 54%, E-value of 5e-179 and 40% identity. The match was closely related to the well known Tape Measure Protein that has been found to contribute to the length of phage tails. This gene was also found to be highly conserved in double stranded DNA based phages and would always be preceding two other genes involved in tail formation which are commonly referred to as "gene G" and "gene T", homologs from phage Lambda. (PMID:8065255) These genes are found in Troll as genes "Troll_92" and "Troll_93" and are found upstream of the tape measure protein "Troll_94". It was also found that there was a conserved frame shift within these gene sets that consistently occurs while still maintaining the integrity of the gene functions. Finally, by comparing the sequences of other dsDNA phage has shown that the tape measure protein gene that been conserved through a common ancestor.(PMID:15469818)
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Annotations challenged by Csean
| Status | Author,Group | Page | GO Term (Aspect) | Reference | Evidence | Links | Page history |
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