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text: Aare Abroi, Radko Avi, Taavi Päll, Heiki Niglas , Merit Pauskar, Arina Shablinskaja, Eveli Kallas, Andrio Lahesaare, Kai Truusalu, Dagmar Hoidmets, Olga Sadikova, Kaspar Ratnik, Hanna Sepp, Liidia Dotsenko, Jevgenia Epštein, Heleene Suija, Katrin Kaarna, Lili Milani, Mait Metspalu, Ott Eric Oopkaup, Ivar Koppel, Erik Jaaniso, Ivan Kuzmin, Uku Raudvere, Tuuli Reisberg, Hedi Peterson, Ulvi Gerst Talas, Paul Naaber, Mari-Anne Härma, Irja Lutsar, Kristi Huik, Heleri Inno

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characteristic: collecting institution

text: Estonia

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Western Estonia

characteristic: geographic location (region and locality)

text: human

text: healthy

text: Homo sapiens

text: female

characteristic: organism

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: Health Board of Estonia

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ena-upload-cli v0.6.0 @ Galaxy

text: The Health Board of Estonia

characteristic: collection date

characteristic: collector name

characteristic: description

text: Estonia

text: Northern Estonia

characteristic: host age

text: human

characteristic: host common name

text: not provided

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

text: female


characteristic: External Id

text: Health Board of Estonia

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ena-upload-cli v0.6.0 @ Galaxy

characteristic: Submitter Id

text: The Health Board of Estonia

characteristic: collecting institution

text: Estonia

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

text: Southern Estonia

text: human

text: not provided

text: Homo sapiens

text: female

characteristic: host sex

characteristic: host subject id

characteristic: isolate

characteristic: sample capture status


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: Health Board of Estonia

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ena-upload-cli v0.6.0 @ Galaxy

text: The Health Board of Estonia

characteristic: collection date

characteristic: collector name

characteristic: description

text: Estonia

characteristic: geographic location (longitude)

text: Northern Estonia

characteristic: geographic location (region and locality)

text: human

text: not provided

text: Homo sapiens

text: male

characteristic: organism

characteristic: title


characteristic: External Id

text: Health Board of Estonia

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ena-upload-cli v0.6.0 @ Galaxy

characteristic: Submitter Id

text: The Health Board of Estonia

characteristic: collecting institution

text: Estonia

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

text: Northern Estonia

characteristic: host age

text: human

characteristic: host common name

text: diseased

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

text: female


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: INSDC center name

characteristic: INSDC first public

text: public

tag: Namespace:Department of Molecular and Functional Genomics, Interdisciplinary Center for Science Research, Shimane University

unit: day

characteristic: age

text: ArrayExpress

characteristic: broker name

text: thale cress

characteristic: common name

characteristic: cultivar

text: Protocols: Roots were harvested, immediately frozen using liquid N2, and stored at −80°C until use. Root samples harvested from two independent grafting experiments were subjected to RNA-Seq analysis. Roots from four plants in each experiment were pooled as one biological replicate. Seeds were placed in the dark at 4˚C for 3 days to break dormancy. Seedlings were grown vertically under a PPFD of 25 µmol m−2 s−1 (16/8-h light/dark cycle) at 22˚C. Micrografting was performed aseptically using 5-day-old seedlings, which were cut perpendicularly in the hypocotyl with an injection needle tip. The obtained scion was connected with the partner rootstock in a silicon microtube. The grafted plants were incubated for 5 days under a PPDF of 50 µmol m−2 s−1 (constant light) at 27˚C and further cultivated for 1 day under a PPFD of 25 µmol m−2 s−1 (16/8-h light/dark cycle) at 22˚C. The grafted plants were horizontally grown for 7 days under a PPFD of 100–120 µmol m−2 s−1 (16/8-h light/dark cycle) at 22˚C –23˚C in 30 mL of 1/2-Murashige and Skoog (MS) or 1/50-MS salts without vitamins supplemented with 0.05% (w/v) MES-KOH (pH 5.7), 1% (w/v) sucrose, and 0.8% (w/v) purified agar. Frozen samples were ground with a Multi-Beads Shocker (Yasui Kikai, Osaka, Japan) using zirconia beads (diameter: 5 mm). Total RNA was extracted using an RNeasy Plant Mini Kit (Qiagen, Tokyo, Japan) according to the manufacturer's instructions with on-column DNase digestion (Qiagen). RNA quality was evaluated using a Qubit RNA IQ Assay Kit with a Qubit 4 Fluorometer (Thermo Fisher Scientific, Tokyo, Japan). The RNA samples for which RNA IQs were 9.1–10.0 were used for the following preparation. cDNA libraries were constructed using a NEBNext Ultra II RNA Library Prep with Sample Purification Beads (Code E7775; New England Biolabs, Tokyo, Japan), a NEBNext Poly(A) mRNA Magnetic Isolation Module (Code E7490; New England Biolabs), and a NEBNext Multiplex Oligos for Illumina (Index Primers Set 3) (Code E7710; New England Biolabs) according to the manufacturer's instructions.

characteristic: description

text: wild type genotype

characteristic: genotype

text: 1/2 Murashige and Skoog medium

characteristic: growth condition

text: not applicable

characteristic: isolate

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: rootstock

characteristic: organism part

text: Arabidopsis thaliana


characteristic: External Id

text: Department of Molecular and Functional Genomics, Interdisciplinary Center for Science Research, Shimane University

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: thale cress

text: wild type genotype

text: 1/2 Murashige and Skoog medium

text: not applicable

text: Arabidopsis thaliana

characteristic: organism

text: Arabidopsis thaliana

text: rootstock

text: Arabidopsis thaliana

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ArrayExpress

text: thale cress

text: wild type genotype

text: 1/50 Murashige and Skoog medium

text: not applicable

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: rootstock

text: Arabidopsis thaliana


text: public

characteristic: age

text: ArrayExpress

characteristic: broker name

text: thale cress

characteristic: common name

characteristic: cultivar

characteristic: description

text: ost2-2D (Col-0/ost2-2D; Scion/rootstock)

text: 1/2 Murashige and Skoog medium

text: not applicable

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: rootstock

text: Arabidopsis thaliana


characteristic: External Id

text: public

text: ArrayExpress

text: thale cress

characteristic: genotype

text: 1/50 Murashige and Skoog medium

characteristic: growth condition

text: not applicable

characteristic: isolate

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: rootstock

characteristic: organism part

text: Arabidopsis thaliana


text: Tampere University

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ena-SAMPLE-TAB-17-06-2022-15:10:16:909-10099

tag: Namespace:Tampere University

characteristic: Submitter Id

text: biofilm metagenome

characteristic: organism

text: Ex-situ biological hydrogen methanation: Integration into biogas production facilities for CO2 and nutrient recycling

characteristic: project name

text: biofilm metagenome

text: Illumina Novaseq, PE250 at Novogene, UK

characteristic: sequencing method

text: 16S rRNA

characteristic: target gene

characteristic: target subfragments

text: Biofilm_R1_End of Experimental phase_Located in the BOTTOM


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: Tampere University

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ena-SAMPLE-TAB-17-06-2022-15:10:16:909-10100

text: biofilm metagenome

text: biofilm metagenome

text: Illumina Novaseq, PE250 at Novogene, UK

text: 16S rRNA

text: Biofilm_R1_End of Experimental phase_Located in the MIDDLE

characteristic: title


characteristic: External Id

text: Tampere University

text: public

text: ena-SAMPLE-TAB-17-06-2022-15:10:16:909-10101

text: biofilm metagenome

text: biofilm metagenome

text: Illumina Novaseq, PE250 at Novogene, UK

text: 16S rRNA

text: Biofilm_R1_End of Experimental phase_Located in the TOP


text: Tampere University

text: public

text: ena-SAMPLE-TAB-17-06-2022-15:10:16:909-10102

text: biofilm metagenome

text: biofilm metagenome

text: Illumina Novaseq, PE250 at Novogene, UK

text: 16S rRNA

text: Biofilm_R1_End of Strat-up phase_Located in the MIDDLE


text: Tampere University

text: public

text: ena-SAMPLE-TAB-17-06-2022-15:10:16:909-10103

text: biofilm metagenome

text: biofilm metagenome

text: Illumina Novaseq, PE250 at Novogene, UK

text: 16S rRNA

text: Biofilm_R2_End of Experimental phase_Located in the BOTTOM


text: Tampere University

text: public

text: ena-SAMPLE-TAB-17-06-2022-15:10:16:909-10104

text: biofilm metagenome

text: biofilm metagenome

text: Illumina Novaseq, PE250 at Novogene, UK

text: 16S rRNA

text: Biofilm_R2_End of Experimental phase_Located in the MIDDLE


text: Tampere University

text: public

text: ena-SAMPLE-TAB-17-06-2022-15:10:16:909-10105

text: biofilm metagenome

text: biofilm metagenome

text: Illumina Novaseq, PE250 at Novogene, UK

text: 16S rRNA

text: Biofilm_R2_End of Experimental phase_Located in the TOP


text: Tampere University

text: public

text: ena-SAMPLE-TAB-17-06-2022-15:10:16:909-10106

text: biofilm metagenome

text: biofilm metagenome

text: Illumina Novaseq, PE250 at Novogene, UK

text: 16S rRNA

text: Biofilm_R2_End of Strat-up phase_Located in the MIDDLE


text: Tampere University

text: public

text: ena-SAMPLE-TAB-17-06-2022-15:10:16:909-10107

text: biofilm metagenome

text: biofilm metagenome

text: Illumina Novaseq, PE250 at Novogene, UK

text: 16S rRNA

text: Biofilm_R3_End of Experimental phase_Located in the BOTTOM


text: Tampere University

text: public

text: ena-SAMPLE-TAB-17-06-2022-15:10:16:909-10108

text: biofilm metagenome

text: Ex-situ biological hydrogen methanation: Integration into biogas production facilities for CO2 and nutrient recycling

text: biofilm metagenome

text: Illumina Novaseq, PE250 at Novogene, UK

text: 16S rRNA

text: Biofilm_R3_End of Experimental phase_Located in the MIDDLE


text: Tampere University

text: public

text: ena-SAMPLE-TAB-17-06-2022-15:10:16:909-10109

text: biofilm metagenome

text: biofilm metagenome

text: Illumina Novaseq, PE250 at Novogene, UK

text: 16S rRNA

text: Biofilm_R3_End of Experimental phase_Located in the TOP


text: Tampere University

text: public

text: ena-SAMPLE-TAB-17-06-2022-15:10:16:909-10110

text: biofilm metagenome

text: biofilm metagenome

text: Illumina Novaseq, PE250 at Novogene, UK

text: 16S rRNA

text: Biofilm_R3_End of Strat-up phase_Located in the MIDDLE


text: Tampere University

text: public

text: ena-SAMPLE-TAB-17-06-2022-15:10:16:909-10111

text: plankton metagenome

text: plankton metagenome

text: Illumina Novaseq, PE250 at Novogene, UK

text: 16S rRNA

text: Inoculum


text: Tampere University

text: public

text: ena-SAMPLE-TAB-17-06-2022-15:10:16:909-10112

text: plankton metagenome

text: plankton metagenome

text: Illumina Novaseq, PE250 at Novogene, UK

text: 16S rRNA

text: Planktonic_R1_Adaptation phase


text: Tampere University

text: public

text: ena-SAMPLE-TAB-17-06-2022-15:10:16:909-10113

text: plankton metagenome

text: plankton metagenome

text: Illumina Novaseq, PE250 at Novogene, UK

text: 16S rRNA

text: Planktonic_R1_Experimental phase_GRT 1.8h


text: Tampere University

text: public

text: ena-SAMPLE-TAB-17-06-2022-15:10:16:909-10114

text: plankton metagenome

text: plankton metagenome

text: Illumina Novaseq, PE250 at Novogene, UK

text: 16S rRNA

text: Planktonic_R1_Experimental phase_GRT 2.3h


text: Tampere University

text: public

text: ena-SAMPLE-TAB-17-06-2022-15:10:16:909-10115

text: plankton metagenome

text: plankton metagenome

text: Illumina Novaseq, PE250 at Novogene, UK

text: 16S rRNA

text: Planktonic_R1_Experimental phase_GRT 3.2h


text: Tampere University

text: public

text: ena-SAMPLE-TAB-17-06-2022-15:10:16:910-10116

text: plankton metagenome

text: plankton metagenome

text: Illumina Novaseq, PE250 at Novogene, UK

text: 16S rRNA

text: Planktonic_R1_Experimental phase_GRT 4.7h


text: Tampere University

text: public

text: ena-SAMPLE-TAB-17-06-2022-15:10:16:910-10117

text: plankton metagenome

text: plankton metagenome

text: Illumina Novaseq, PE250 at Novogene, UK

text: 16S rRNA

text: Planktonic_R1_Experimental phase_GRT 7.4h


text: Tampere University

text: public

text: ena-SAMPLE-TAB-17-06-2022-15:10:16:910-10118

text: plankton metagenome

text: Ex-situ biological hydrogen methanation: Integration into biogas production facilities for CO2 and nutrient recycling

text: plankton metagenome

text: Illumina Novaseq, PE250 at Novogene, UK

text: 16S rRNA

text: Planktonic_R1_Start-up phase