<b>Light-harvesting by antenna-containing rhodopsins in pelagic Asgard archaea. Bioinformatic Data</b>

See the preprint here. The files are as follows:<br><code>ACA references.faa</code> - reference Archaea clade A proteorhodopsins used for phylogeny and searching for homologs<code>ACB references.faa</code> - reference Archaea clade B rhodopsins<code>HeimdallR references.faa</code> - reference HeimdallR rhodopsins<code>Rhodopsins metadata.xlsx</code> - rhodopsin metadata<code>HeimdallRs MAFFT alignment.fasta</code> - (near-)complete HeimdallR sequences used for NJ phylogeny<code>HeimdallRs MEGA NJ tree.newick</code> - the HeimdallR NZ phylogeny<code>Kariarchaeaceae metadata.xlsx</code> - metadata for Kariarchaeaceae genomes<code>Kari_Gs0128817 scaffold (HeimdallR3).gbk</code> - annotated scaffold containing HeimdallR3<code>K_pelagium pangenome.gbk</code> - annotated pangenome of Ca. Kariarchaeum pelagium (scaffolds which include intervals assigned to the core pangenome)<code>Rhodopsins SplitsTree.nex</code> - phylogenetic network of representative rhodopsins from the proteorhodopsin-xanthorhodopsin clade<code>Metagenomic profiles.xlsx</code> - metagenomic profiles of archaeal rhodopsin outward proton pumps<code>Kariarchaeaceae phylogeny - phylophlan alignments.zip -</code> alignments of individual phylophlan markers<code>Kariarchaeaceae</code><code> phylogeny - concatenated alignment.fasta</code> - concatenated and trimmed alignment used for the reconstruction of the Kariarchaeaceae phylogeny<code>Kariarchaeaceae phylogeny - pplacer alignment for Kari_Gs0128817.fasta</code> - alignment used for phylogenetic placement of the HeimdallR3 scaffold<code>Kariarchaeaceae phylogeny - genes per genome.txt</code> - distribution of marker genes (<code>phylophlan_marker</code>) and genes appearing on the HeimdallR3 scaffold (<code>Gs0128817_gene</code>) among the Kariarchaeaceae<code>Kariarchaeaceae phylogeny - RAxML.newick</code> - RAxML phylogenetic tree of the family <code>Kariarchaeaceae phylogeny - pplacer.newick</code> - phylogenetic tree of the family with the best placement of the HeimdallR3 scaffold (support values are rapid bootstraps from the RAxML tree and the branch length are based on the extended alignment).