Concatenated GTDB bacterial core gene multiple sequence alignments: Data from: Treeline provides a unified strategy for optimizing phylogenetic trees under alternative criteria
Data files
Jun 10, 2026 version files 5.62 GB
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bac120_msa_reps_r220.faa.gz
2.24 GB
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bac120_msa_reps_r220.fna.gz
3.38 GB
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README.md
1.03 KB
Abstract
Concatenated multiple sequence alignments are commonly used to generate species trees. The Genome Taxonomy Database (GTDB) offers a set of multiple sequence alignments encompassing a large set of diverse bacterial genomes. Here, the GTDB alignments were concatenated to construct inputs for phylogenetic tree building software.
https://doi.org/10.5061/dryad.pc866t20v
Description of the data and file structure
The 120 GTDB (release 09-RS220) marker gene alignments were concatenated into a single amino acid alignment with 107,235 sequences and 41,084 amino acid sites. A nucleotide alignment was generated by replacing amino acids by their corresponding codon in each gene sequence, resulting in an alignment with 123,252 nucleotide sites.
Files and variables
File: bac120_msa_reps_r220.faa.gz
Description: Alignment of amino acid sequences in (gzip compressed) FASTA format.
File: bac120_msa_reps_r220.fna.gz
Description: Alignment of nucleotide sequences in (gzip compressed) FASTA format.
Code/software
Standard text software.
Access information
Data was derived from the following sources:
- The Genome Taxonomy Database (GTDB).
The 120 GTDB (release 09-RS220) marker gene alignments were concatenated into a single amino acid alignment with 107,235 sequences and 41,084 amino acid sites. A nucleotide alignment was generated by replacing amino acids by their corresponding codon in each gene sequence, resulting in an alignment with 123,252 nucleotide sites.