# MBE PEPC Census — Data Repository

**Manuscript**: *PEPC Gene Family Evolution Across Arecaceae: Complete Five-Subfamily Evidence for a Two-Lock Model of Irreversible C4 Exclusion*

**Target Journal**: Molecular Biology and Evolution (MBE)

## Contents

| Directory | Description |
|:----------|:------------|
| `sequences/` | 337 deduplicated PEPC protein sequences (FASTA) |
| `alignment/` | Clustal Omega alignment of all 337 sequences |
| `phylogeny/` | Maximum-likelihood tree (FastTree, WAG+CAT) |
| `codeml/` | PAML codeml configuration files and output (M0, M7, branch models) |
| `promoters/` | Coconut PEPC promoter sequences (2 kb upstream) and cis-element scan |
| `ceroxyloideae/` | Ceroxyloideae WGS tBLASTn analysis report |
| `scripts/` | C4 residue scanning script |
| `supplementary/` | Supplementary Tables S1 (Ceroxyloideae tBLASTn) and S2 (accession mapping) |

## Data Summary

- **337** unique PEPC protein sequences from **40 species**
- **55** palm PEPC sequences across **13 species** spanning all **5 subfamilies**
- Alignment: Clustal Omega, 337 sequences
- Phylogeny: FastTree v2.1, WAG+CAT model
- codeml: PAML v4.9, M0 (ω=0.0582), M7, branch-site models

## Citation

You et al. (2026). PEPC Gene Family Evolution Across Arecaceae. *Molecular Biology and Evolution*.

## Contact

Chengxu Sun — suncx@catas.cn