Noncoding deletions reveal a gene that is critical for intestinal function

Danit Oz-Levi, Tsviya Olender, Ifat Bar-Joseph, Yiwen Zhu, Dina Marek-Yagel, Iros Barozzi, Marco Osterwalder, Anna Alkelai, Elizabeth K Ruzzo, Yujun Han, Erica S M Vos, Haike Reznik-Wolf, Corina Hartman, Raanan Shamir, Batia Weiss, Rivka Shapiro, Ben Pode-Shakked, Pavlo Tatarskyy, Roni Milgrom, Michael SchvimerIris Barshack, Denise M Imai, Devin Coleman-Derr, Diane E Dickel, Alex S Nord, Veena Afzal, Kelly Lammerts van Bueren, Ralston M Barnes, Brian L Black, Christopher N Mayhew, Matthew F Kuhar, Amy Pitstick, Mehmet Tekman, Horia C Stanescu, James M Wells, Robert Kleta, Wouter de Laat, David B Goldstein, Elon Pras, Axel Visel, Doron Lancet, Yair Anikster, Len A Pennacchio

Research output: Contribution to journalArticleAcademicpeer-review


Large-scale genome sequencing is poised to provide a substantial increase in the rate of discovery of disease-associated mutations, but the functional interpretation of such mutations remains challenging. Here we show that deletions of a sequence on human chromosome 16 that we term the intestine-critical region (ICR) cause intractable congenital diarrhoea in infants1,2. Reporter assays in transgenic mice show that the ICR contains a regulatory sequence that activates transcription during the development of the gastrointestinal system. Targeted deletion of the ICR in mice caused symptoms that recapitulated the human condition. Transcriptome analysis revealed that an unannotated open reading frame (Percc1) flanks the regulatory sequence, and the expression of this gene was lost in the developing gut of mice that lacked the ICR. Percc1-knockout mice displayed phenotypes similar to those observed upon ICR deletion in mice and patients, whereas an ICR-driven Percc1 transgene was sufficient to rescue the phenotypes found in mice that lacked the ICR. Together, our results identify a gene that is critical for intestinal function and underscore the need for targeted in vivo studies to interpret the growing number of clinical genetic findings that do not affect known protein-coding genes.

Original languageEnglish
Pages (from-to)107-111
Number of pages5
Issue number7763
Publication statusPublished - Jul 2019


  • Animals
  • Chromosomes, Human, Pair 16/genetics
  • Diarrhea/congenital
  • Disease Models, Animal
  • Enhancer Elements, Genetic/genetics
  • Female
  • Gene Expression Regulation, Developmental
  • Genes
  • Genes, Reporter
  • Genetic Loci/genetics
  • Humans
  • Intestines/physiology
  • Male
  • Mice
  • Mice, Knockout
  • Mice, Transgenic
  • Pedigree
  • Phenotype
  • Sequence Deletion/genetics
  • Transcriptional Activation
  • Transcriptome/genetics
  • Transgenes/genetics


Dive into the research topics of 'Noncoding deletions reveal a gene that is critical for intestinal function'. Together they form a unique fingerprint.

Cite this