Supplementary materials for "Time-course transcriptome analysis identifies increased receptor-mediated signaling prior to synchronous spawning in Acropora digitifera"

RNA-seq reads were first mapped to the A. digitifera genome sequences using STAR v2.7.11b (Dobin et al. 2013), then reads that were not mapped to the genome, possibly from symbiotic algae, were gathered. Then temporal de novo transcriptome assemblies were constructed using TRINITY v2.15.1 (Grabherr et al. 2011) in each sample. Sequences identified as alveolates by FCS-GX v0.5.4 (Astashyn et al. 2024) were retained as candidate Symbiodiniace sequences. RNA-seq reads were mapped back to the candidate Symbiodiniace sequences using BOWTIE2 v2.5.4 (Langmead and Salzberg 2012), and reads that were mapped to the candidate algal contigs were collected as putative algal reads. These extracted algal reads from all samples were subsequently combined and assembled de novo using TRINITY to generate a global reference algal metatranscriptome assembly used for downstream analyses. The algal metatranscriptome assembly was annotated using FCS-GX. This project contains a metatranscriptome assembly generated in this study and its annotation as listed below: Metatranscriptome assembly (Alveolates.fa.gz) Species identification result (Annotation.lst.gz) The raw reads are available in BioProject accession PRJDB40450 (SRA: DRP018904).