Science Advances

Supplementary Materials

This PDF file includes:

  • fig. S1. Vertebrate RAxML CHIA gene tree based on CHIA gene models.
  • fig. S2. Placental mammal RAxML CHIA gene tree based on genomic contig–derived and mRNA sequences.
  • fig. S3. Placental mammal RAxML CHIA gene tree based on genomic contig–derived and mRNA sequences, after removing chiropteran CHIA4 and CHIA5 sequences.
  • fig. S4. Diagram demonstrating synteny of CHIA paralogs and nearby genes on their respective genomic scaffolds/contigs.
  • fig. S5. T. syrichta CHIA1, CHIA2, CHIA3, CHIA4, and CHIA5 gene models showing conserved chitinolytic domain (DXXDXDXE).
  • fig. S6. T. syrichta CHIA1, CHIA2, CHIA3, CHIA4, and CHIA5 gene models showing chitin-binding domain with six conserved cysteine residues.
  • fig. S7. Cladogram showing relationships of species in WGS data set and mapped gene losses.
  • Legends for data sets S1 and S2
  • References (51–79)

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Other Supplementary Material for this manuscript includes the following:

  • table S1 (Microsoft Excel format). CHIA summary.
  • table S2 (Microsoft Excel format). Synteny of CHIA paralogs.
  • table S3 (Microsoft Excel format). CHIA gene expression analyses.
  • table S4 (Microsoft Excel format). Distribution of genetic lesions and missing data across CHIA exons.
  • table S5 (Microsoft Excel format). Discussion of CHIA number, timing of loss, diets of extant taxa and the fossil record.
  • table S6 (Microsoft Excel format). dN/dS ratio models used for gene inactivation estimates.
  • table S7 (Microsoft Excel format). CHIA inactivation date estimates calculated from dN/dS ratio models in table S6 and assuming divergence dates from the study of Emerling et al. (24).
  • table S8 (Microsoft Excel format). Scaffold/contig coordinates of OVGP1, PIFO and DENND2D for species in fig. S4.
  • table S9 (Microsoft Excel format). Evidence of gene conversion between CHIA4 and CHIA5.
  • data set S1 (.Chitinase datasets format). Alignments used for analyses.
  • data set S2 (.txt format). Alignments used for constructing CHIA genes from scaffolds/contigs.

Download Tables S1 to S9

Download Data sets S1 and S2

 

Files in this Data Supplement: