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. 2020 Apr 30;10(7):2275–2296. doi: 10.1534/g3.120.401290

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Copyright © 2020 Will et al.

This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

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PFAM and secretion signal domain enrichments in DEG sets with increased transcription during live manipulation. “Upregulated” refers to genes with peak transcription during live manipulation. “Upregulated top 50^th ” refers to the subset of upregulated genes with the strongest subsequent downregulation in dead manipulated samples. “Upregulated from culture only” are genes with increased transcription from culture to live manipulation, but exhibited no change or increasing transcription with host death. PFAMs associated with genes that have possible roles in manipulation include: Heat-labile enterotoxin alpha chain, Ankyrin repeat, and Peptidase inhibitor I9 (indicated by black dots), and Peptidase M43 (File S3).