======================================================================== README This file folder include extra detailed data (station information, experimental data and bioinformatic data) for Arctic study (Xia et al., 2021, BioRvix ID: 10.1101/2021.09.02.458798), exclude the data already shown in the research paper. (2021/9/2 updated) ======================================================================== CONTACT If you have problems, questions or suggestions, please contact us by E-mail: jun@kuicr.kyoto-u.ac.jp endo@scl.kyoto-u.ac.jp Address: Uji Research Building No.1 CB305, Kyoto University, Gokasho, Uji, Kyoto 611-0011, Japan ======================================================================== DIRECTORY/FILES .. |--01_Station_information | |--01_1_Geographic_distance_table.txt | |--01_2_Bathymetry_topography.txt | |--01_3_Station_map.odv | |--01_4_Araon_2018_env_factors_biosamples_info.txt | |--01_5_SEA_ICE_content_sic_ARA09B.xlsx | |--01_6_Current_vector.txt | |--01_7_Name_station_biosample.txt |--02_Experimental_data | |--02_1_Biosample_available.txt | |--02_2_DNA_concentration.txt |--03_Bioinformatic_data | |--03_01_ASV_table_3_144_um_eukaryotes.tsv | |--03_02_Percentage_subsampled_ASV_3_144_um_eukaryotes.txt | |--03_03_ASV_table_0.2_3_um_eukaryotes.tsv | |--03_04_Percentage_subsampled_ASV_0.2_3_um_eukaryotes.txt | |--03_05_ASV_table_0.2_3_um_Imitervirales.tsv | |--03_06_Percentage_subsampled_ASV_0.2_3_um_Imitervirales.txt | |--03_07_Phylogenetic_tree_Imitervirales_ASV_dada2_pplacer.jplace | |--03_08_3_144_euk_protist_taxa_percentage_silva.txt | |--03_09_0.2_3_euk_protist_taxa_percentage_silva.txt | |--03_10_0.2_3_Imitervirales_clade_percentage.txt ======================================================================== DESCRIPTION ------------------------------------------------------------------------ ../01_Station_information/ #Geographic information, environmental factors, maps, biosamples in each station ../01_Station_information/01_1_Geographic_distance_table.txt #Geographic distance (m) between each station, calculated by R "geosphere" package based on latitude and longitude. ../01_Station_information/01_2_Bathymetry_topography.txt #Bathymetry and topography of each station, based on google earth data. ../01_Station_information/01_3_Station_map.odv #Station map in the Arctic Ocean in .odv format (can be opened by Ocean Data View software). ../01_Station_information/01_4_Araon_2018_env_factors_biosamples_info.txt #Original station information which include sampling date, time, latitude (Lat), longitude (Long), sampling depth, salinity, temperature, and concentration of phosphate (PO4), nitrite+nitrate (NO2+NO3), ammonium (NH4), silicate (Si(OH)4), chlorophy-a (Chl-a), collected water volume, membrane filter pore-size and label for each biosample (Vol). ../01_Station_information/01_5_SEA_ICE_content_sic_ARA09B.xlsx #Sea ice content (sea ice coverage rate) information during the whole sampling days (green cells refer to the data during sampling). (.xlsx file can be opened by Microsoft Excel software) ../01_Station_information/01_6_Current_vector.txt #Density velocity of each station calculated based on salinity and temperature. "Raw_U" refers to velocity component toward east, "Raw_V" refers to velocity component toward north. ../01_Station_information/01_7_Name_station_biosample.txt #Station number corresponding biosample number and experiment number. ------------------------------------------------------------------------ ../02_Experimental_data/ #Biosample processed in the study, DNA concentration before and after amplification. ../02_Experimental_data/02_1_Biosample_available.txt #Availability of collected biosample related to experimental number. (NA refers to not available) ../02_Experimental_data/02_2_DNA_concentration.txt #DNA concentration (ng/ul) of biosamples of each station. (include original extracted DNA concentration from 3-144 um and 0.2-3 um membrane filters, 18S V4 region amplicon DNA concentration for 3-144 um and 0.2-3 um eukaryotes, and PolB amplicon DNA concentration for 0.2-3 um Imitervirales) ------------------------------------------------------------------------ ../03_Bioinformatic_data/ #Bioinformatic data include ASV tables (reads number) before subsampling, ASV tables (percentage) after subsampling, phylogenetic tree based on the Imitervirales PolB ASVs in this study and Tara Ocean Mimiviridae PolB genes, taxa of eukaryotes annotated by silva 18S database and clade of Imitervirales. ../03_Bioinformatic_data/03_01_ASV_table_3_144_um_eukaryotes.tsv #ASV tables (reads number) before subsampling of 3_144_um_eukaryotes. ../03_Bioinformatic_data/03_02_Percentage_subsampled_ASV_3_144_um_eukaryotes.txt #ASV tables (percentage) after subsampling of 3-144 um eukaryotes. ../03_Bioinformatic_data/03_03_ASV_table_0.2_3_um_eukaryotes.tsv #ASV tables (reads number) before subsampling of 0.2-3 um eukaryotes. ../03_Bioinformatic_data/03_04_Percentage_subsampled_ASV_0.2_3_um_eukaryotes.txt #ASV tables (percentage) after subsampling of 0.2-3 um eukaryotes. ../03_Bioinformatic_data/03_05_ASV_table_0.2_3_um_Imitervirales.tsv #ASV tables (reads number) before subsampling of Imitervirales. ../03_Bioinformatic_data/03_06_Percentage_subsampled_ASV_0.2_3_um_Imitervirales.txt #ASV tables (percentage) after subsampling of Imitervirales. ../03_Bioinformatic_data/03_07_Phylogenetic_tree_Imitervirales_ASV_dada2_pplacer.jplace #Phylogenetic tree based on the Imitervirales PolB ASVs in this study and Tara Ocean Mimiviridae PolB genes. ../03_Bioinformatic_data/03_08_3_144_euk_protist_taxa_percentage_silva.txt #18S taxa relative abundance (reads percentage) of 3-144 um eukaryotes annotated by silva 18S database. ../03_Bioinformatic_data/03_09_0.2_3_euk_protist_taxa_percentage_silva.txt #18S taxa relative abundance (reads percentage) of 0.2-3 um eukaryotes annotated by silva 18S database. ../03_Bioinformatic_data/03_10_0.2_3_Imitervirales_clade_percentage.txt #clade relative abundance (reads percentage) of Imitervirales. ========================================================================