Fig. 1

Haplotype-resolved chromosome tracing in C. elegans. A Schematic of crossing experiments. B Schematic of probe design strategy. C Location of whole-chromosome V (ChrV) tracing library with 21 regions and N2 and HI libraries interspersed along ChrV. D Schematic representation of the imaging workflow using an automated imaging system (see “Methods”), and probe design used for the indicated steps. E DNA Fish on embryos from N2 and HI, respectively, using the whole ChrV library, N2 ChrV, and HI ChrV-marking libraries. Note that the N2 ChrV libraries cause a small punctual background staining in HI. Scale bar, 5µm. F DNA FISH on embryos derived from crosses between N2 hermaphrodites and HI males, using the whole ChrV library, N2 ChrV, and HI ChrV-marking libraries. The haplotypes are well distinguishable. Scale bar, 5µm. G Overlay of ChrV territory signal with HI marker (left) and N2 marker (right) in the embryo used in F. Scale bar, 5µm