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Incomplete dosage balance and dosage compensation in the ZZ/ZW Gila monster ( Heloderma suspectum ) revealed by de novo genome assembly.

Timothy H WebsterAnnika VannanBrendan J PintoGrant DenbrockMatheo MoralesGreer A DolbyIan T FiddesDale F DeNardoMelissa A Wilson
Published in: bioRxiv : the preprint server for biology (2023)
Reptiles exhibit a variety of modes of sex determination, including both temperature-dependent and genetic mechanisms. Among those species with genetic sex determination, sex chromosomes of varying heterogamety (XX/XY and ZZ/ZW) have been observed with different degrees of differentiation. Karyotype studies have demonstrated that Gila monsters ( Heloderma suspectum ) have ZZ/ZW sex determination and this system is likely homologous to the ZZ/ZW system in the Komodo dragon ( Varanus komodoensis ), but little else is known about their sex chromosomes. Here, we report the assembly and analysis of the Gila monster genome. We generated a de novo draft genome assembly for a male using 10X Genomics technology. We further generated and analyzed short-read whole genome sequencing and whole transcriptome sequencing data for three males and three females. By comparing female and male genomic data, we identified four putative Z-chromosome scaffolds. These putative Z-chromosome scaffolds are homologous to Z-linked scaffolds identified in the Komodo dragon. Further, by analyzing RNAseq data, we observed evidence of incomplete dosage compensation between the Gila monster Z chromosome and autosomes and a lack of balance in Z-linked expression between the sexes. In particular, we observe lower expression of the Z in females (ZW) than males (ZZ) on a global basis, though we find evidence suggesting local gene-by-gene compensation. This pattern has been observed in most other ZZ/ZW systems studied to date and may represent a general pattern for female heterogamety in vertebrates.
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