A Generic and Cell-Type-Specific Wound Response Precedes Regeneration in Planarians

Regeneration starts with injury. Yet how injuries affect gene expression in different cell types and how distinct injuries differ in gene expression remain unclear. We defined the transcriptomes of major cell types of planarians—flatworms that regenerate from nearly any injury—and identified 1,214 tissue-specific markers across 13 cell types. RNA sequencing on 619 single cells revealed that wound-induced genes were expressed either in nearly all cell types or specifically in one of three cell types (stem cells, muscle, or epidermis). Time course experiments following different injuries indicated that a generic wound response is activated with any injury regardless of the regenerative outcome. Only one gene, notum, was differentially expressed early between anterior- and posterior-facing wounds. Injury-specific transcriptional responses emerged 30 hr after injury, involving context-dependent patterning and stem-cell-specialization genes. The regenerative requirement of every injury is different; however, our work demonstrates that all injuries start with a common transcriptional response. [Display omitted] •Injury activates a common wound-response transcriptional program•Muscle, epidermis, and stem cells express most wound-induced genes•A single gene, notum, is differentially induced at head- versus tail-facing injuries•Injury-specific transcriptional changes emerge 24 hr after response initiation A resource characterizing major planarian cell-type transcriptomes identifies 1,214 tissue-specific markers across 13 cell types. Single-cell RNA sequencing showed that wound-induced genes were expressed in nearly all cell types or specifically in one of three cell types. A generic wound response is activated with any injury regardless of regenerative outcome.