About

Platform accompanying manuscript:

Non-coding RNA Repertoire in Reef-Building Corals Jill Ashey, Javier A. Rodriguez-Casariego, Kathleen M. Durkin, Zachary Bengtsson, Samuel J. White, Ariana S. Huffmyer, Danielle M. Becker, Jose M. Eirin-Lopez, Hollie M. Putnam, Steven B. Roberts bioRxiv 2025.03.15.643469; doi: https://doi.org/10.1101/2025.03.15.643469

🧬 Species and Reference Genomes

This genome browser supports exploration of coral species included in our genomic analyses. For several species, direct reference genomes are not yet available. In these cases, we selected closely related species with high-quality assemblies as references, based on evolutionary proximity, morphological similarity, and assembly quality.

Reference Genome: Acropora millepora
Source: NCBI PRJNA633778
Genome Size: ~475 Mbp
N50: 19.8 Mbp
Protein-Coding Genes: 28,188

Although A. pulchra does not have a published genome, A. millepora is used as a reference due to their close evolutionary relationship and documented ability to interbreed (Van Oppen et al., 2001, 2002).

Reference Genome: Pocillopora meandrina
Source: Stephens et al., 2022
Genome Size: ~377 Mbp
N50: 10 Mbp
Protein-Coding Genes: 31,840

P. tuahiniensis does not yet have a published genome. P. meandrina was selected as a reference because of its morphological similarity and close evolutionary relationship. Although P. verrucosa is more closely related phylogenetically, P. meandrina provides a higher-quality assembly (N50 = 10 Mbp vs. 0.334 Mbp) and more comprehensive annotation.

Reference Genome: Porites evermanni
Source: Genoscope Coral Genomes
Genome Size: ~497 Mbp
N50: 0.17 Mbp
Protein-Coding Genes: 40,389

This genome was assembled from a sample collected in Mo’orea and is used directly in analyses without substitution.