Project description:Green hydra (Hydra viridissima) harbors endosymbiotic Chlorella and have established a mutual relation. To identify the host hydra genes involved in the specific symbiotic relationship, transcriptomes of intact H. viridissima colonized with symbiotic Chlorella strain A99, aposymbiotic H.viridissima and H. viridissima artificially infected with other symbiotic Chlorella were compared by microarray analysis. The results indicated that genes involved in nutrition supply to Chlorella were upregulated in the symbiotic hydra. In addition, it was induced by supply of photosynthates from the symbiont to the host, suggesting cooperative metabolic interaction between the host and the symbiotic algae.
Project description:ATAC-seq in aposymbiotic and green/symbiotic Hydra viridissima clone 2 to map open chromatin regions. Four samples (two conditions x two biological replicates) were sequenced on Illumina NextSeq, aligned with Bowtie2, and peaks called with MACS3.
Project description:Cap Analysis of Gene Expression (CAGE) in aposymbiotic and green/symbiotic Hydra viridissima clone 2 to map transcription start sites at single-nucleotide resolution. 19,892 TSS clusters were shared between conditions.
Project description:Total RNA sequencing of aposymbiotic (algae-free) and green/symbiotic Hydra viridissima clone 2 to characterize gene expression differences between symbiotic states. Paired-end reads were trimmed with fastp, aligned to Carnegie v1 (JBWVZK000000000) with STAR, and quantified with featureCounts using BRAKER3 gene annotations.
Project description:Genome-wide 5-methylcytosine (5mC) profiling at CpG dinucleotides in Hydra viridissima using Oxford Nanopore long-read sequencing with Dorado base modification detection. Five ONT runs (one symbiotic, four aposymbiotic clone 2) were basecalled with Dorado sup,5mCG_5hmCG, aligned to Carnegie v1 genome assembly (JBWVZK000000000), and methylation quantified with modkit. Global CpG methylation is ~9-10%, bimodal (88% unmethylated, 7% fully methylated). Unique genomic regions show higher methylation (12%) than repetitive regions (7.5%).
