Genome sequencing of P. tricornutum mother and daughter cultures derived from single cell and separated by 30 days of proliferation - processed datasets

Genome sequencing of P. tricornutum mother and daughter cultures derived from single cell and separated by 30 days of proliferation - processed datasets.

Raw data for this experiment are available at https://www.ncbi.nlm.nih.gov/bioproject/PRJNA658224.

Please note that the naming of files differs from the general description on /www.ncbi.nlm.nih.gov/bioproject website and in related publication:

Instead of MC1-3, the processed datasets are labelled Sc1-3

Instead of DC1.1; DC1.2 and DC1.3, the processed datasets are labelled Sc11, Sc12 and Sc14 respectively

Instead of DC2.1; DC2.2 and DC2.3, the processed datasets are labelled Sc21, Sc22 and Sc24 respectively

Instead of DC3.1; DC3.2 and DC3.3, the processed datasets are labelled Sc31, Sc32 and Sc33 respectively

Available datasets: 

.bam files with ILLUMINA reads aligned to the reference P. tricornutum v2 genome used for SNP calling 

.vcf files for individual samples with SNPs called using GATK3.7.0

joint_genotyping_cohort.vcf file with SNPs called jointly for all samples using GATK4.2.1 

Description of the experiment: 

Whole-genome Illumina sequencing of mother and daughter cultures derived from single cell to reveal genomic changes occurring within 30 day time frame. Three independent single cells were isolated from CCAP 1055/1 culture (sample label: Pt1) to start mother cultures (MC1; MC2; MC3 . On day 30 after mother culture isolation (T1 time point), three daughter cells were isolated from each mother culture forming cultures DC11-DC33. Part of mother cultures and CCAP 1055/1 culture were harvested at T1 (Samples: Pt1T1; MC1T1; MC2T1; MC3T1) . After another 30 days (T2 time point), all cultures were harvested (Samples: Pt1T2; mother culture MC1T2 and respective daughter cultures DC11, DC12 and DC13 ; mother culture MC2T2 and respective daughter cultures DC21, DC22 and DC23; mother culture MC3T1 and respective daughter cultures DC31, DC32, DC33).