Skip to main content
Figure 3 | Journal of Biological Engineering

Figure 3

From: DeviceEditor visual biological CAD canvas

Figure 3

Example biological designs rendered on the DeviceEditor canvas. (A) pNJH00010 [12] consists of seven components: the pBbS8c-rfp backbone spanning from Xho I to EcoR I (blue highlight, bottom left), the RBS sequence from pBbS8c-rfp (purple highlight, bottom left), gfp uv from its 5' end to its Xho I site (blue highlight, bottom right), a silent mutation in gfp uv 's Xho I site (star), gfp uv between its Xho I and BamH I sites (purple highlight, bottom right), a silent mutation in gfp uv 's BamH I site (star), and gfp uv _sig.pep from its BamH I site to its 3' end (blue highlight, bottom right). These components are arranged from left to right in their 5' to 3' order in pNJH00010 (top). The corresponding SBOLv icon is presented immediately above each component. (B) To reconstitute the design in (A), each of the component sequences is mapped to a part icon (as in Figure 2), and arranged from left to right in 5' to 3' order as in (A) in a 7-bin collection object (white oval with vertical blue lines demarking bins), with each part icon in its own bin. This DeviceEditor design has been saved in Additional file 1. (C) The combinatorial design for plasmids pRDR000001-pRDR000008 [12] consists of nine components, including the pNJH00010 backbone, two N-terminal signal peptides (sig1 and sig2), two Gly/Ser linkers (long and short), the gfp uv mutant from pNJH00010, two 5' ssrA tags (standard and enhanced), and a 3' ssrA tag. These components are arranged from left to right from 5' to 3', with interchangeable components arranged from top to bottom. (D) Each of the component sequences in (C) is mapped to a part icon, and these part icons are then arranged from left to right as in (C) in a 6-bin collection object, with interchangeable part icons in the same bin. Each bin, now demarcated with purple lines indicating a combinatorial design, is then named according to the category of parts it contains (bottom) This DeviceEditor design has been saved in Additional file 2.

Back to article page