Outlining and Lysin Analyzing (4/15/19)
Rationale:
Outline an abstract about the individual research project and use bioinformatic tools to analyze different lysins that infect Arthrobacter.
Procedure:
- Outlined an abstract about individual research project.
- Used tools such as PhagesDB, NCBIp BLAST, and TMHMM to analyze AL, AM, and AN cluster phages’s lysins and holins.
Results:
The following image shows the outline created.
The following images show the chart created to organize data collected from search.
(Clusters AL (Shrooms) –– AN (Muttlie)-21ktwwj)
Conclusion:
After looking through phages from Cluster AL (Shrooms) to Cluster AN (Muttlie) it was found that generally AL cluster phages had a lysin A with a PGRP superfamily CDD with a holin. AM clusters generally had an endolysin around gene 5 with a Peptidase_M23 superfamily CDD with holin. AN cluster phages generally either had two lysin A with one lysin A with a Peptidase_M23 superfamily CDD at gene 16 and the other lysin A with a PGRP superfamily CDD and a holin around gene 18. The other commonly found pattern followed in AN cluster phages was an endolysin and a holin around gene 18. Despite having two different trends all AN cluster lysin genes had the same Pham numbers. Only AM cluster phages had the “HLH” catalytic region.
Future Work:
Continue analyzing different phages lysins and holins.
