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text: Clemmensen, K.E., Ihrmark, K., Durling, M.B., Lindahl, B.D., 2016. Sample preparation for fungal community analysis by high-throughput sequencing of barcode amplicons. Methods in Molecular Biology 1399, 61�88. https://doi.org/10.1007/978-1-4939-3369-3_4

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text: DNEasy Powersoil Pro Kit https://www.qiagen.com/us/resources/download.aspx?id=3d576814-4f1e-4e26-9c94-57d5dc2bb60a&lang=en

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characteristic: geographic location (longitude)

text: Abisko, Norrbottens lan

characteristic: geographic location (region and locality)

text: Calamagrostis lapponica

characteristic: host common name

text: heath

characteristic: local environmental context

text: soil metagenome

text: gITS7 ITS4 ITS4a

text: root

characteristic: project name

text: soil metagenome

text: ITS

characteristic: target gene

characteristic: target subfragment


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UiT The Arctic University of Norway

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: tundra biome

characteristic: broad-scale environmental context

characteristic: collection date

text: Calamagrostis lapponica_Bleach

characteristic: description

text: soil

characteristic: environmental medium

text: Sweden

text: Abisko, Norrbottens lan

text: Calamagrostis lapponica

text: heath

characteristic: nucleic acid amplification

characteristic: nucleic acid extraction

text: soil metagenome

characteristic: organism

text: gITS7 ITS4 ITS4a

text: root

text: soil metagenome

text: ITS


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UiT The Arctic University of Norway

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: tundra biome

text: Silene acaulis_MilliQ

text: soil

text: Sweden

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Abisko, Norrbottens lan

characteristic: geographic location (region and locality)

text: Silene acaulis

characteristic: host common name

text: heath

characteristic: local environmental context

text: soil metagenome

text: gITS7 ITS4 ITS4a

characteristic: pcr primers

text: root

characteristic: plant body site

text: soil metagenome

text: ITS

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UiT The Arctic University of Norway

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: tundra biome

characteristic: broad-scale environmental context

characteristic: collection date

text: Silene acaulis_Bleach

characteristic: description

text: soil

characteristic: environmental medium

text: Sweden

text: Abisko, Norrbottens lan

text: Silene acaulis

text: heath

text: soil metagenome

text: gITS7 ITS4 ITS4a

text: root

characteristic: project name

text: soil metagenome

text: ITS

characteristic: target gene

characteristic: target subfragment


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UiT The Arctic University of Norway

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: tundra biome

text: Bartsia alpina_MilliQ

text: soil

text: Sweden

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Abisko, Norrbottens lan

characteristic: geographic location (region and locality)

text: Bartsia alpina

characteristic: host common name

text: heath

characteristic: local environmental context

characteristic: nucleic acid amplification

characteristic: nucleic acid extraction

text: soil metagenome

characteristic: organism

text: gITS7 ITS4 ITS4a

text: root

text: soil metagenome

text: ITS


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UiT The Arctic University of Norway

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: tundra biome

characteristic: broad-scale environmental context

characteristic: collection date

text: Bartsia alpina_Bleach

characteristic: description

text: soil

characteristic: environmental medium

text: Sweden

text: Abisko, Norrbottens lan

text: Bartsia alpina

text: heath

text: soil metagenome

text: gITS7 ITS4 ITS4a

characteristic: pcr primers

text: root

characteristic: plant body site

text: soil metagenome

text: ITS

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UiT The Arctic University of Norway

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: tundra biome

text: Salix hastata_MilliQ

text: soil

text: Sweden

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Abisko, Norrbottens lan

characteristic: geographic location (region and locality)

text: Salix hastata

characteristic: host common name

text: heath

characteristic: local environmental context

text: soil metagenome

text: gITS7 ITS4 ITS4a

text: root

characteristic: project name

text: soil metagenome

text: ITS

characteristic: target gene

characteristic: target subfragment


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UiT The Arctic University of Norway

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: tundra biome

characteristic: broad-scale environmental context

characteristic: collection date

text: Salix hastata_Bleach

characteristic: description

text: soil

characteristic: environmental medium

text: Sweden

text: Abisko, Norrbottens lan

text: Salix hastata

text: heath

characteristic: nucleic acid amplification

characteristic: nucleic acid extraction

text: soil metagenome

characteristic: organism

text: gITS7 ITS4 ITS4a

text: root

text: soil metagenome

text: ITS


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UiT The Arctic University of Norway

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: tundra biome

text: Vaccinium vitis ideae_MilliQ

text: soil

text: Sweden

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Abisko, Norrbottens lan

characteristic: geographic location (region and locality)

text: Vaccinium vitis ideae

characteristic: host common name

text: heath

characteristic: local environmental context

text: soil metagenome

text: gITS7 ITS4 ITS4a

characteristic: pcr primers

text: root

characteristic: plant body site

text: soil metagenome

text: ITS

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UiT The Arctic University of Norway

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: tundra biome

characteristic: broad-scale environmental context

characteristic: collection date

text: Vaccinium vitis ideae_Bleach

characteristic: description

text: soil

characteristic: environmental medium

text: Sweden

text: Abisko, Norrbottens lan

text: Vaccinium vitis ideae

text: heath

text: soil metagenome

text: gITS7 ITS4 ITS4a

text: root

characteristic: project name

text: soil metagenome

text: ITS

characteristic: target gene

characteristic: target subfragment


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UiT The Arctic University of Norway

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: tundra biome

text: Salix reticulata_MilliQ

text: soil

text: Sweden

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Abisko, Norrbottens lan

characteristic: geographic location (region and locality)

text: Salix reticulata

characteristic: host common name

text: heath

characteristic: local environmental context

characteristic: nucleic acid amplification

characteristic: nucleic acid extraction

text: soil metagenome

characteristic: organism

text: gITS7 ITS4 ITS4a

text: root

text: soil metagenome

text: ITS


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UiT The Arctic University of Norway

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: tundra biome

characteristic: broad-scale environmental context

characteristic: collection date

text: Salix reticulata_Bleach

characteristic: description

text: soil

characteristic: environmental medium

text: Sweden

text: Abisko, Norrbottens lan

text: Salix reticulata

text: heath

text: soil metagenome

text: gITS7 ITS4 ITS4a

characteristic: pcr primers

text: root

characteristic: plant body site

text: soil metagenome

text: ITS

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UiT The Arctic University of Norway

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: tundra biome

text: Tofieldia pusilla_MilliQ

text: soil

text: Sweden

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Abisko, Norrbottens lan

characteristic: geographic location (region and locality)

text: Tofieldia pusilla

characteristic: host common name

text: heath

characteristic: local environmental context

text: soil metagenome

text: gITS7 ITS4 ITS4a

text: root

characteristic: project name

text: soil metagenome

text: ITS

characteristic: target gene

characteristic: target subfragment


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UiT The Arctic University of Norway

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: tundra biome

characteristic: broad-scale environmental context

characteristic: collection date

text: Tofieldia pusilla_Bleach

characteristic: description

text: soil

characteristic: environmental medium

text: Sweden

text: Abisko, Norrbottens lan

text: Tofieldia pusilla

text: heath

characteristic: nucleic acid amplification

characteristic: nucleic acid extraction

text: soil metagenome

characteristic: organism

text: gITS7 ITS4 ITS4a

text: root

text: soil metagenome

text: ITS


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UiT The Arctic University of Norway

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: tundra biome

text: Empetrum nigrum_MilliQ

text: soil

text: Sweden

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Abisko, Norrbottens lan

characteristic: geographic location (region and locality)

text: Empetrum nigrum

characteristic: host common name

text: heath

characteristic: local environmental context

text: soil metagenome

text: gITS7 ITS4 ITS4a

characteristic: pcr primers

text: root

characteristic: plant body site

text: soil metagenome

text: ITS

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UiT The Arctic University of Norway

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: tundra biome

characteristic: broad-scale environmental context

characteristic: collection date

text: Empetrum nigrum_Bleach

characteristic: description

text: soil

characteristic: environmental medium

text: Sweden

text: Abisko, Norrbottens lan

text: Empetrum nigrum

text: heath

text: soil metagenome

text: gITS7 ITS4 ITS4a

text: root

characteristic: project name

text: soil metagenome

text: ITS

characteristic: target gene

characteristic: target subfragment


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UiT The Arctic University of Norway

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: tundra biome

text: Andromeda polifolia_MilliQ

text: soil

text: Sweden

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Abisko, Norrbottens lan

characteristic: geographic location (region and locality)

text: Andromeda polifolia

characteristic: host common name

text: heath

characteristic: local environmental context

characteristic: nucleic acid amplification

characteristic: nucleic acid extraction

text: soil metagenome

characteristic: organism

text: gITS7 ITS4 ITS4a

text: root

text: soil metagenome

text: ITS


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UiT The Arctic University of Norway

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: tundra biome

characteristic: broad-scale environmental context

characteristic: collection date

text: Andromeda polifolia_Bleach

characteristic: description

text: soil

characteristic: environmental medium

text: Sweden

text: Abisko, Norrbottens lan

text: Andromeda polifolia

text: heath

text: soil metagenome

text: gITS7 ITS4 ITS4a

characteristic: pcr primers

text: root

characteristic: plant body site

text: soil metagenome

text: ITS

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UiT The Arctic University of Norway

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: tundra biome

text: Cassiope tetragona_MilliQ

text: soil

text: Sweden

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Abisko, Norrbottens lan

characteristic: geographic location (region and locality)

text: Cassiope tetragona

characteristic: host common name

text: heath

characteristic: local environmental context

text: soil metagenome

text: gITS7 ITS4 ITS4a

text: root

characteristic: project name

text: soil metagenome

text: ITS

characteristic: target gene

characteristic: target subfragment


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UiT The Arctic University of Norway

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: tundra biome

characteristic: broad-scale environmental context

characteristic: collection date

text: Cassiope tetragona_Bleach

characteristic: description

text: soil

characteristic: environmental medium

text: Sweden

text: Abisko, Norrbottens lan

text: Cassiope tetragona

text: heath

characteristic: nucleic acid amplification

characteristic: nucleic acid extraction

text: soil metagenome

characteristic: organism

text: gITS7 ITS4 ITS4a

text: root

text: soil metagenome

text: ITS


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UiT The Arctic University of Norway

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: tundra biome

text: Salix glauca_MilliQ

text: soil

text: Sweden

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Abisko, Norrbottens lan

characteristic: geographic location (region and locality)

text: Salix glauca

characteristic: host common name

text: heath

characteristic: local environmental context

text: soil metagenome

text: gITS7 ITS4 ITS4a

characteristic: pcr primers

text: root

characteristic: plant body site

text: soil metagenome

text: ITS

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UiT The Arctic University of Norway

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: tundra biome

characteristic: broad-scale environmental context

characteristic: collection date

text: Salix glauca_Bleach

characteristic: description

text: soil

characteristic: environmental medium

text: Sweden

text: Abisko, Norrbottens lan

text: Salix glauca

text: heath

text: soil metagenome

text: gITS7 ITS4 ITS4a

text: root

characteristic: project name

text: soil metagenome

text: ITS

characteristic: target gene

characteristic: target subfragment


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UiT The Arctic University of Norway

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: tundra biome

text: Carex bigelowii_MilliQ

text: soil

text: Sweden

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Abisko, Norrbottens lan

characteristic: geographic location (region and locality)

text: Carex bigelowii

characteristic: host common name

text: heath

characteristic: local environmental context

characteristic: nucleic acid amplification

characteristic: nucleic acid extraction

text: soil metagenome

characteristic: organism

text: gITS7 ITS4 ITS4a

text: root

text: soil metagenome

text: ITS


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UiT The Arctic University of Norway

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: tundra biome

characteristic: broad-scale environmental context

characteristic: collection date

text: Carex bigelowii_Bleach

characteristic: description

text: soil

characteristic: environmental medium

text: Sweden

text: Abisko, Norrbottens lan

text: Carex bigelowii

text: heath

text: soil metagenome

text: gITS7 ITS4 ITS4a

characteristic: pcr primers

text: root

characteristic: plant body site

text: soil metagenome

text: ITS

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UiT The Arctic University of Norway

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: tundra biome

text: Equisetum pratense_MilliQ

text: soil

text: Sweden

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Abisko, Norrbottens lan

characteristic: geographic location (region and locality)

text: Equisetum pratense

characteristic: host common name

text: heath

characteristic: local environmental context

text: soil metagenome

text: gITS7 ITS4 ITS4a

text: root

characteristic: project name

text: soil metagenome

text: ITS

characteristic: target gene

characteristic: target subfragment


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UiT The Arctic University of Norway

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: tundra biome

characteristic: broad-scale environmental context

characteristic: collection date

text: Equisetum pratense_Bleach

characteristic: description

text: soil

characteristic: environmental medium

text: Sweden

text: Abisko, Norrbottens lan

text: Equisetum pratense

text: heath

characteristic: nucleic acid amplification

characteristic: nucleic acid extraction

text: soil metagenome

characteristic: organism

text: gITS7 ITS4 ITS4a

text: root

text: soil metagenome

text: ITS


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UiT The Arctic University of Norway

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: tundra biome

text: Salix phylicipolia_MilliQ

text: soil

text: Sweden

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Abisko, Norrbottens lan

characteristic: geographic location (region and locality)

text: Salix phylicipolia

characteristic: host common name

text: heath

characteristic: local environmental context

text: soil metagenome

text: gITS7 ITS4 ITS4a

characteristic: pcr primers

text: root

characteristic: plant body site

text: soil metagenome

text: ITS

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UiT The Arctic University of Norway

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: tundra biome

characteristic: broad-scale environmental context

characteristic: collection date

text: Salix phylicipolia_Bleach

characteristic: description

text: soil

characteristic: environmental medium

text: Sweden

text: Abisko, Norrbottens lan

text: Salix phylicipolia

text: heath

text: soil metagenome

text: gITS7 ITS4 ITS4a

text: root

characteristic: project name

text: soil metagenome

text: ITS

characteristic: target gene

characteristic: target subfragment


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UiT The Arctic University of Norway

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: tundra biome

text: soil

text: Sweden

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Abisko, Norrbottens lan

characteristic: geographic location (region and locality)

text: Pinguicula

characteristic: host common name

text: heath

characteristic: local environmental context

characteristic: nucleic acid amplification

characteristic: nucleic acid extraction

text: soil metagenome

characteristic: organism

text: gITS7 ITS4 ITS4a

text: root

text: soil metagenome

text: ITS


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UiT The Arctic University of Norway

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: tundra biome

characteristic: broad-scale environmental context

characteristic: collection date

text: Salix myrsinites_MilliQ

characteristic: description

text: soil

characteristic: environmental medium

text: Sweden

text: Abisko, Norrbottens lan

text: Salix myrsinites

text: heath

text: soil metagenome

text: gITS7 ITS4 ITS4a

characteristic: pcr primers

text: root

characteristic: plant body site

text: soil metagenome

text: ITS

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UiT The Arctic University of Norway

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: tundra biome

text: Salix myrsinites_Bleach

text: soil

text: Sweden

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Abisko, Norrbottens lan

characteristic: geographic location (region and locality)

text: Salix myrsinites

characteristic: host common name

text: heath

characteristic: local environmental context

text: soil metagenome

text: gITS7 ITS4 ITS4a

text: root

characteristic: project name

text: soil metagenome

text: ITS

characteristic: target gene

characteristic: target subfragment


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UiT The Arctic University of Norway

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: missing: control sample

characteristic: broad-scale environmental context

characteristic: collection date

text: ExtractionBlank

characteristic: description

text: missing: control sample

characteristic: environmental medium

text: Sweden

text: missing: control sample

text: missing: control sample

text: missing: control sample

text: missing: control sample

text: missing: control sample

characteristic: nucleic acid amplification

characteristic: nucleic acid extraction

text: soil metagenome

characteristic: organism

text: gITS7 ITS4 ITS4a

text: missing: control sample

text: soil metagenome

text: ITS


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UiT The Arctic University of Norway

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: missing: control sample

text: missing: control sample

characteristic: depth

characteristic: elevation

text: missing: control sample

characteristic: experimental factor

text: Sweden

characteristic: geographic location (country and/or sea)

text: missing: control sample

characteristic: geographic location (latitude)

text: missing: control sample

characteristic: geographic location (longitude)

text: missing: control sample

characteristic: geographic location (region and locality)

text: missing: control sample

characteristic: local environmental context

text: soil metagenome

text: soil metagenome

text: 16S V4V5

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UiT The Arctic University of Norway

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: missing: control sample

characteristic: broad-scale environmental context

text: missing: control sample

characteristic: collection date

characteristic: description

text: missing: control sample

characteristic: environmental medium

text: Sweden

text: missing: control sample

text: missing: control sample

text: missing: control sample

text: missing: control sample

text: Nuclease-free H2O

text: soil metagenome

characteristic: project name

text: soil metagenome

characteristic: target gene

text: 16S V4V5

characteristic: target subfragment


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UiT The Arctic University of Norway

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: missing: control sample

text: missing: control sample

characteristic: depth

characteristic: elevation

text: missing: control sample

characteristic: experimental factor

text: Sweden

characteristic: geographic location (country and/or sea)

text: missing: control sample

characteristic: geographic location (latitude)

text: missing: control sample

characteristic: geographic location (longitude)

text: missing: control sample

text: missing: control sample

characteristic: nucleic acid amplification

characteristic: nucleic acid extraction

text: soil metagenome

characteristic: organism

text: soil metagenome

text: 16S; ITS

text: 16S V4V5; ITS2


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Wageningen University & Research

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:Wageningen University & Research

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: not collected

characteristic: collection date

text: Protocols: In this study, the greenhouse propagated Woensdrecht (also known as IRS) isolate of BCN Heterodera schachtii (Beet Cyst Nematode; BCN) was used (kindly provided by Stichting IRS, Dinteloord, the Netherlands). For Globodera rostochiensis (Potato Cyst Nematode; PCN) two populations/lines were used; Ro1-line-19 and Ro5-line-22 that are inbred lines of Ro1-Mierenbos and Ro5-Harmerz, respectively, and were mass-propagated in the greenhouse. Second stage pre-parasitic juveniles (J2’s) of PCN were obtained by artificial hatching through rehydration in tap water for 7 days followed by incubation of cysts in root exudate from Solanum lycopersicum cv. Money Maker. For BCN the same life stage was obtained by incubation of hydrated cysts in 3 mM ZnCl2. H. schachtii J2s as well as PCN J2s were sucrose purified and washed extensively in tap water and transferred to 1.5 mL RNase free tubes. All nematode samples were incubated in RNA-later (Invitrogen) for 30-45 minutes at room temperature (~20°C). Next, most of the RNA-later was removed by pipetting and samples were stored at -80°C. Nematode and root material were homogenized as follows: To each sample 2 steel balls (diameter 3 mm) and 35 µL of homogenisation buffer (Maxwell LEV16 Plant RNA kit) were added and homogenized in a tissue homogenizer (Qiagen GmbH, Swingmühle Tissue Lyser 2) at 30/s for 2x 80 seconds. 100 µL of homogenisation buffer was then added and samples were again homogenized at 30/s for 80 seconds. The steel balls were removed immediately after homogenization. RNA extraction was performed according to the Maxwell LEV16 plant RNA kit. RNA concentration was measured in a Qubit Fluorometer with the Qubit™ RNA High Sensitivity (HS) Assay Kit, according to the manufacturer’s instructions and RNA integrity was analysed on a 1% agarose-TAE gel stained with Midori green. For small RNA-enriched RNAseq libraries total RNA from G. rostochiensis line 19 and line 22 and H. schachtii Woensdrecht were used for size selection, library preparation (NEBNext small RNA library - NEB).

characteristic: description

characteristic: developmental stage

text: not collected

text: not applicable

characteristic: isolate

text: Heterodera schachtii

text: Heterodera schachtii

text: whole organism

characteristic: organism part

text: Heterodera schachtii

text: Woensdrecht

characteristic: strain

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Wageningen University & Research

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: ArrayExpress

text: not collected

text: not collected

characteristic: geographic location (country and/or sea)

text: not applicable

text: Globodera rostochiensis

text: Globodera rostochiensis

text: whole organism

text: Globodera rostochiensis


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

text: public

tag: Namespace:Institut de recherche experimentale et clinique - IREC

text: Clinical isolate CTMA_1876

text: Democratic Republic of the Congo

text: Vibrio cholerae

characteristic: organism

text: Vibrio cholerae

text: Clinical isolate CTMA_1876


text: Institut de recherche experimentale et clinique - IREC

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: Clinical isolate CTMA_1878

text: Democratic Republic of the Congo

text: Vibrio cholerae

text: Vibrio cholerae

text: Clinical isolate CTMA_1878


text: public

characteristic: collection date

text: Clinical isolate CTMA_1879

characteristic: description

text: Democratic Republic of the Congo

text: Vibrio cholerae

text: Vibrio cholerae

text: Clinical isolate CTMA_1879


text: public

text: Clinical isolate CTMA_1882

text: Democratic Republic of the Congo

text: Vibrio cholerae

text: Vibrio cholerae

text: Clinical isolate CTMA_1882


text: public

text: Clinical isolate CTMA_1863

text: Democratic Republic of the Congo

text: Vibrio cholerae

text: Vibrio cholerae

text: Clinical isolate CTMA_1863


text: public

text: Clinical isolate CTMA_1865

text: Democratic Republic of the Congo

text: Vibrio cholerae

text: Vibrio cholerae

text: Clinical isolate CTMA_1865


text: public

text: Clinical isolate CTMA_1870

text: Democratic Republic of the Congo

text: Vibrio cholerae

text: Vibrio cholerae

text: Clinical isolate CTMA_1870


text: public

text: Clinical isolate CTMA_1871

text: Democratic Republic of the Congo

text: Vibrio cholerae

text: Vibrio cholerae

text: Clinical isolate CTMA_1871


text: public

text: Clinical isolate CTMA_1872

text: Democratic Republic of the Congo

text: Vibrio cholerae

text: Vibrio cholerae

text: Clinical isolate CTMA_1872


text: public

text: Clinical isolate CTMA_1873

text: Democratic Republic of the Congo

text: Vibrio cholerae

text: Vibrio cholerae

text: Clinical isolate CTMA_1873


text: public

text: Clinical isolate CTMA_1874

text: Democratic Republic of the Congo

text: Vibrio cholerae

text: Vibrio cholerae

text: Clinical isolate CTMA_1874


text: public

text: Clinical isolate CTMA_1875

text: Democratic Republic of the Congo

text: Vibrio cholerae

text: Vibrio cholerae

text: Clinical isolate CTMA_1875


text: public

text: Clinical isolate CTMA_1877

text: Democratic Republic of the Congo

text: Vibrio cholerae

text: Vibrio cholerae

text: Clinical isolate CTMA_1877


text: public

text: Clinical isolate CTMA_1880

text: Democratic Republic of the Congo

text: Vibrio cholerae

text: Vibrio cholerae

text: Clinical isolate CTMA_1880


text: public

text: Clinical isolate CTMA_1881

text: Democratic Republic of the Congo

text: Vibrio cholerae

text: Vibrio cholerae

text: Clinical isolate CTMA_1881


text: INSTITUTE OF MICROBIOLOGY, ETH ZURICH

text: public

tag: Namespace:INSTITUTE OF MICROBIOLOGY, ETH ZURICH

text: estuarine biome [ENVO:01000020]

characteristic: broad-scale environmental context

text: Rheinheimera pleomorphica

characteristic: common name

text: Rheinheimera pleomorphica strain isolated from biosample SAMEA112960948

text: algal material [ENVO:01001189]

characteristic: environmental medium

text: India

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: brackish lake [ENVO:00000540]

characteristic: local environmental context

text: Rheinheimera pleomorphica

text: Rheinheimera pleomorphica

text: Rheinheimera pleomorphica CP1


E-MTAB-13363:Sample 1

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-13363:Sample 1

tag: Namespace:Dipartimento di Medicina Molecolare e Biotecnologie Mediche (DMMBM), Università Federico II di Napoli; CEINGE Biotecnologie Avanzate Franco Salvatore

text: ArrayExpress

characteristic: broker name

text: epithelial cell derived cell line

text: respiratory epithelial cell

text: not collected

text: human

text: Protocols: Primary human epithelial cells from nasal brushing were plated (3x105 cells) and infected with SARS-CoV-2 viral particles 20A (EPI_ISL_514432-S66; MOI, 0.03). After 24 hours, the infected cells were treated with 18.5 microMolar long chain inorganic polyphosphates (polyP120) or vehicle (saline solution) as the negative control for the treatment. After 36 hours, the cells were lysed with TRIzol RNA Isolation Reagent (#15596018; Ambion, Thermo Fisher Scientific) and frozen at -80°C. Freshly isolated human nasal epithelial cells were collected by nasal brushing of healthy donors (data deposited at: EVA- EMBL-EBI; project ID: PRJEB42411; analyses: ERZ1700617). These cells were cultured in PneumaCult (#05009; StemCell Technologies) with 2 mM L-glutamine (25030-024; Gibco), and 1% penicillin/streptomycin (P0781; Sigma). Primary human epithelial cells from nasal brushing were plated (300000 cells) and infected with SARS-CoV-2 viral particles 20A (EPI_ISL_514432-S66; MOI, 0.03). After 24 hours, the infected cells were treated with 18.5 microMolar long chain inorganic polyphosphates (polyP120) or vehicle (saline solution) as the negative control for the treatment. After 36 hours, the cells were lysed, and their RNA were extracted. Total RNA, isolated from human primary nasal epithelial cells by using TRIzol RNA Isolation Reagent (#15596018; Ambion, Thermo Fisher Scientific) was quantified in a NanoDrop™ One/OneC Microvolume UV-Vis Spectrophotometer (Thermo Scientific™), checked for purity and integrity. Libraries were prepared using the TruSeq Stranded Total RNA LT Sample Prep Kit (Gold) according to the protocols recommended by the manufacturer. Library kit: TruSeq Stranded Total RNA LT Sample Prep Kit (Gold); Library protocol: TruSeq Stranded Total RNA Sample Prep Guide, Part # 15031048 Rev. E; Reagent: NovaSeq 6000 S4 Reagent Kit;

text: wild type genotype

characteristic: genotype

text: not collected

text: SARS-CoV-2 (EPI_ISL_514432-S66)

characteristic: infect

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: nasal cavity epithelium

characteristic: organism part

text: Homo sapiens

text: Sample 1

characteristic: title


E-MTAB-13363:Sample 2

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Dipartimento di Medicina Molecolare e Biotecnologie Mediche (DMMBM), Università Federico II di Napoli; CEINGE Biotecnologie Avanzate Franco Salvatore

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-13363:Sample 2

characteristic: Submitter Id

text: ArrayExpress

text: epithelial cell derived cell line

text: respiratory epithelial cell

text: not collected

characteristic: collection date

text: human

characteristic: description

text: wild type genotype

text: not collected

characteristic: geographic location (country and/or sea)

text: SARS-CoV-2 (EPI_ISL_514432-S66)

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: nasal cavity epithelium

text: Homo sapiens

text: Sample 2


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: MRC Laboratory of Molecular Biology

characteristic: INSDC first public

characteristic: INSDC last update

text: public

tag: Namespace:MRC Laboratory of Molecular Biology

text: ArrayExpress

text: not collected

text: Protocols: Overnight cultures of three independent biological replicates of wild-type (WT) and Rpb7-QHF cells were subcultured to an OD600 of 0.2 and grown to an OD600 of ~1. Cells were crosslinked with 1% formaldehyde for 5 min and quenched with 125 mM glycine. After harvesting, cells were flash frozen in liquid N2 and kept at -80°C. Cells were lysed by bead beating in lysis buffer (50 mM HEPES-KOH, 140 mM NaCl, 1 mM EDTA, 1% Triton X-100, 0.1% Na-Deoxycholate) and sonicated using a Bioruptor (48 cycles, 10 seconds on, 10 seconds off on a high setting). 10% of cleared lysate was saved as input fraction. Cleared lysate was incubated with anti-Rpb3 (1Y26, abcam) overnight and immunoprecipitated with magnetic protein G Dynabeads for 1 hour. Beads were washed with wash buffer (10 mM Tris-HCl, 250 mM LiCl, 0.5% NP40, 1% Na-Deoxycholate, 1mM EDTA), high salt wash buffer (wash buffer supplemented with 500 mM NaCl) and 1x TE (10 mM Tris-HCl, 1 mM EDTA). Immunoprecipitates were eluted in elution buffer (50 mM Tris-HCl, 10 mM EDTA, 0.5% SDS, 5 mM CaCl2) at 65°C. ChIP eluate and inputs (with 50 μl elution buffer) were incubated with proteinase K at 65°C overnight. DNA was purified using the QIAquick PCR purification kit (Qiagen). Input and ChIP DNA libraries were prepared using the NEBNext Ultra II DNA Library Kit for Illumina. We used the kit parameters optimized for 250 bp inserts. Following library amplification (10 cycles), library concentration and size distribution were assessed using the Agilent 2100 Bioanalyzer instrument (High Sensitivity DNA Assay).

text: MATalpha pra1-1 prb1-1 prc1-1 cps1-3 ura3delta5 leu2-3 his- RPB1-3C-CTD RPB3-His6-SII rpb7(Q96A, H97A, F109K)

text: not collected

text: not applicable

text: Saccharomyces cerevisiae S288C

text: Saccharomyces cerevisiae S288C

text: whole organism

characteristic: replicate

text: Saccharomyces cerevisiae S288C

characteristic: strain


text: MRC Laboratory of Molecular Biology

text: public

text: ArrayExpress

characteristic: broker name

text: not collected

text: MATalpha pra1-1 prb1-1 prc1-1 cps1-3 ura3delta5 leu2-3 his- RPB1-3C-CTD RPB3-His6-SII

characteristic: genotype

text: not collected

text: not applicable

characteristic: isolate

text: Saccharomyces cerevisiae S288C

text: Saccharomyces cerevisiae S288C

text: whole organism

characteristic: organism part

text: Saccharomyces cerevisiae S288C

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: MRC Laboratory of Molecular Biology

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ArrayExpress

text: not collected

text: Protocols: Overnight cultures of three independent biological replicates of wild-type (WT) and Rpb7-QHF cells were subcultured to an OD600 of 0.2 and grown to an OD600 of ~1. Nascent RNA was labelled by adding 5 mM 4-thiouracil (Sigma) to the cell culture for 6 minutes. Cells were harvested by centrifugation, flash frozen in liquid N2 and kept at -80°C. S. pombe spike-ins were prepared by subculturing 10 ml of overnight wild-type cells into 500 ml of YES media and grown to an OD600 of ~1. Nascent RNA was labelled by adding 5 mM 4tU for 6 minutes. Cells were harvested and resuspended in PBS to a cell density of 15 OD/ml. 1 ml aliquots were prepared and cell pellets were flash frozen for later use. To have equally distributed spike-in RNA across strains and replicates, six S. pombe spike-in aliquots were resuspended in 6 ml of TRI reagent (ThermoFisher, AM9738) and used to resuspend three biological replicates of WT or Rpb7-QHF cells. RNA was chloroform extracted and isopropanol precipitated following TRI reagent instructions. Extracted RNA was DNaseI treated (NEB, M0303S) for 1 hour at 37°C, and purified by phenol-chloroform extraction and isopropanol precipitation. RNA quality (i.e. intact rRNA) was assessed on an agarose gel. To deplete the ribosomal RNA (rRNA), we used the Ribominus Transcriptome Isolation Kit (Yeast and Bacteria) (Invitrogen K1550-03), and purified the RiboMinus RNA following the ethanol precipitation protocol included in the kit. Complete rRNA depletion was confirmed by analysis of RiboMinus RNA on an agarose gel. To biotinylate the nascent 4tU-labelled RNA, we used 3 μg of RiboMinus rRNA-depleted RNA in the biotinylation reaction (0.2 mg/ml EZ-Link Biotin-HPDP in 10 mM HEPES pH 7.5, 1 mM EDTA). Excess biotin was removed by phenol:chloroform:isoamyl alcohol extraction (25:24:1) and ethanol precipitation. Biotinylated RNA was purified with Dynabeads™ MyOne™ Streptavidin C1 (Thermo), washed with high salt buffer (100 mM Tris-HCl pH 7.5, 10 mM EDTA, 1M NaCl, 0.1% Tween-20) and eluted twice with 5% 2-merchaptoethanol. Nascent RNA was ethanol-precipitated, washed and resuspended in DEPC-treated water. Purified nascent RNA samples were used to prepare strand-specific libraries using the NebNext Ultra II Directional RNA-seq kit. Following library amplification (13 cycles), library concentration and size distribution were assessed using the Agilent 2100 Bioanalyzer instrument (High Sensitivity DNA Assay).

text: not collected

text: not applicable

text: Saccharomyces cerevisiae S288C

text: Saccharomyces cerevisiae S288C

text: whole organism

text: RNA-seq of nascent transcripts

characteristic: protocol

text: Saccharomyces cerevisiae S288C


characteristic: ENA-CHECKLIST

text: MRC Laboratory of Molecular Biology

text: public

characteristic: Submitter Id

text: ArrayExpress

text: not collected

characteristic: collection date

characteristic: description

text: not collected

characteristic: geographic location (country and/or sea)

text: not applicable

text: Saccharomyces cerevisiae S288C

characteristic: organism

text: Saccharomyces cerevisiae S288C

text: whole organism

text: RNA-seq of nascent transcripts

text: Saccharomyces cerevisiae S288C


Hydrangea species

characteristic: ENA-FIRST-PUBLIC

text: Dresden University of Technology

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: Hydrangea species

tag: Namespace:Dresden University of Technology

text: restricted access

text: paired-end Illumina reads

text: Japan

text: Hydrangea macrophylla

text: Hydrangea macrophylla

text: genomic DNA


Strigosa

text: Dresden University of Technology

text: public

text: Strigosa

text: restricted access

text: paired-end Illumina reads

text: Japan

text: Hydrangea strigosa

text: Hydrangea strigosa

text: genomic DNA


text: INIAV

text: public

text: No

characteristic: Is the sequenced pathogen host associated?

text: DGAV/INIAV

text: turkeys' cecum

text: No

text: Portugal

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: healthy

characteristic: host health state

text: Meleagris gallopavo

characteristic: host scientific name

text: Campylobacter

characteristic: isolate

text: cecum

characteristic: isolation source host-associated

characteristic: isolation source non-host-associated

text: Campylobacter coli

text: Campylobacter coli

text: Campylobacter coli

characteristic: strain

text: Campylobacter coli


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: INIAV

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: No

characteristic: SRA accession

characteristic: Submitter Id

text: DGAV/INIAV

text: broilers' cecum

text: No

text: Portugal

text: healthy

text: Gallus gallus domesticus

text: Campylobacter

text: cecum

text: Campylobacter coli

text: Campylobacter coli

text: Campylobacter coli

text: Campylobacter coli

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC first public

characteristic: INSDC last update

text: public

tag: Namespace:University Hospital Frankfurt, Infectious Diseases

characteristic: collection date

text: Sputum

characteristic: description

text: Germany

characteristic: geographic location (country and/or sea)

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: 50.12 N 8.68 E

text: Mycobacterium simiae

characteristic: organism

text: Mycobacterium simiae

text: not applicable

characteristic: serovar


text: University Hospital Frankfurt, Infectious Diseases

text: public

text: Sputum

text: Germany

text: not applicable

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

characteristic: isolate

text: Homo sapiens

text: 50.12 N 8.68 E

text: Mycobacterium simiae

text: Mycobacterium simiae

text: not applicable

characteristic: strain


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

text: public

text: Bronchoalveolar lavage

text: Germany

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: 50.12 N 8.68 E

text: Mycobacterium simiae

text: Mycobacterium simiae

text: not applicable


text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: Bronchial secretion

text: Germany

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: 50.12 N 8.68 E

text: Mycobacterium simiae

text: Mycobacterium simiae

text: not applicable

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: collection date

text: Blood

text: Germany

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: 50.12 N 8.68 E

text: Mycobacterium simiae

text: Mycobacterium simiae

text: not applicable


text: public

text: Bronchoalveolar lavage

characteristic: description

text: Germany

characteristic: geographic location (country and/or sea)

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: 50.12 N 8.68 E

text: Mycobacterium interjectum

characteristic: organism

text: Mycobacterium interjectum

text: not applicable

characteristic: serovar


text: public

text: Sputum

text: Germany

text: not applicable

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

characteristic: isolate

text: Homo sapiens

text: 50.12 N 8.68 E

text: Mycobacterium interjectum

text: Mycobacterium interjectum

text: not applicable

characteristic: strain


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

text: public

text: Lymphnode

text: Germany

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: 50.12 N 8.68 E

text: Mycobacterium palustre

text: Mycobacterium palustre

text: not applicable


text: CEBITEC

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: Draft genome sequence of Frankia sp. Cas1

text: New Zealand

text: Frankia sp. Cas1

text: Frankia sp. Cas1

characteristic: title


characteristic: ENA-FIRST-PUBLIC

text: CEBITEC

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: collection date

text: Draft genome sequence of Frankia sp. Cas2

text: New Zealand

text: Frankia sp. Cas2

text: Frankia sp. Cas2


text: CEBITEC

text: public

text: Draft genome sequence of Frankia sp. Cas3

characteristic: description

text: New Zealand

characteristic: geographic location (country and/or sea)

text: Frankia sp. Cas3

characteristic: organism

text: Frankia sp. Cas3


text: CEBITEC

text: public

text: Draft genome sequence of Frankia sp. Cas4

text: New Zealand

text: Frankia sp. Cas4

text: Frankia sp. Cas4


text: CEBITEC

text: public

text: Draft genome sequence of Frankia sp. Cas5

text: New Zealand

text: Frankia sp. Cas5

text: Frankia sp. Cas5


text: CEBITEC

text: public

text: Draft genome sequence of Frankia sp. Cas7

text: New Zealand

text: Frankia sp. Cas7

text: Frankia sp. Cas7


text: CEBITEC

text: public

text: Draft genome sequence of Frankia sp. Cas8

text: New Zealand

text: Frankia sp. Cas8

text: Frankia sp. Cas8


text: CEBITEC

text: public

text: Draft genome sequence of Frankia sp. Cr1

text: Argentina

text: Frankia sp. Cr1

text: Frankia sp. Cr1


text: CEBITEC

text: public

text: Draft genome sequence of Frankia sp. Cr2

text: Argentina

text: Frankia sp. Cr2

text: Frankia sp. Cr2


text: CEBITEC

text: public

text: Draft genome sequence of Frankia sp. Cr3

text: Argentina

text: Frankia sp. Cr3

text: Frankia sp. Cr3


text: CEBITEC

text: public

text: Draft genome sequence of Frankia sp. Cr4

text: Argentina

text: Frankia sp. Cr4

text: Frankia sp. Cr4


text: CEBITEC

text: public

text: Draft genome sequence of Frankia sp. Cr5

text: Argentina

text: Frankia sp. Cr5

text: Frankia sp. Cr5


text: CENTER FOR GENOMIC REGULATION (CRG)

text: public

tag: Namespace:CENTER FOR GENOMIC REGULATION (CRG)

text: Spain

text: Dengue virus 2 16681-PDK53

text: Dengue virus 2 16681-PDK53


text: STATENS SERUM INSTITUT

text: public

tag: Namespace:STATENS SERUM INSTITUT

text: Spain

text: Staphylococcus aureus

text: Staphylococcus aureus


text: INRAe - Montpellier

text: public

tag: Namespace:INRAe - Montpellier

text: Single-conidia isolate of Pyrenophora teres f. maculata

text: France

text: Tarn et Garonne - Grisolles

characteristic: geographic location (region and locality)

text: symptomatic barley leaf

text: Pyrenophora teres f. maculata

text: Pyrenophora teres f. maculata


text: INRAe - Montpellier

text: public

text: France

text: Tarn et Garonne - Grisolles

text: symptomatic barley leaf

text: Pyrenophora teres f. teres

text: Pyrenophora teres f. teres


text: INRAe - Montpellier

text: public

text: France

text: Seine et Marne - Courpalay

text: symptomatic barley leaf

text: Pyrenophora teres f. teres

text: Pyrenophora teres f. teres


text: INRAe - Montpellier

text: public

text: France

text: Eure et Loir - Louville la Chenard

text: symptomatic barley leaf

text: Pyrenophora teres f. teres

text: Pyrenophora teres f. teres


text: INRAe - Montpellier

text: public

text: France

text: Marne - Cuperly

text: symptomatic barley leaf

text: Pyrenophora teres f. teres

text: Pyrenophora teres f. teres


text: INRAe - Montpellier

text: public

text: France

text: Eure et Loir - Houville la branche

text: symptomatic barley leaf

text: Pyrenophora teres f. teres

text: Pyrenophora teres f. teres


text: INRAe - Montpellier

text: public

text: France

text: Seine Maritime - Heugleville sur Scie

text: symptomatic barley leaf

text: Pyrenophora teres f. teres

text: Pyrenophora teres f. teres


text: INRAe - Montpellier

text: public

text: France

text: Cote d'Or - Gilly les Citeaux

text: symptomatic barley leaf

text: Pyrenophora teres f. teres

text: Pyrenophora teres f. teres


text: INRAe - Montpellier

text: public

text: France

text: Oise - Catillon

text: symptomatic barley leaf

text: Pyrenophora teres f. teres

text: Pyrenophora teres f. teres


text: INRAe - Montpellier

text: public

text: France

text: Eure et Loir - Yevres

text: symptomatic barley leaf

text: Pyrenophora teres f. teres

text: Pyrenophora teres f. teres


text: INRAe - Montpellier

text: public

text: France

text: Cote d'Or - Quetigny

text: symptomatic barley leaf

text: Pyrenophora teres f. teres

text: Pyrenophora teres f. teres


text: INRAe - Montpellier

text: public

text: France

text: Essonne - Boigneville

text: symptomatic barley leaf

text: Pyrenophora teres f. teres

text: Pyrenophora teres f. teres


text: INRAe - Montpellier

text: public

text: France

text: Marne - La Cheppe

text: symptomatic barley leaf

text: Pyrenophora teres f. teres

text: Pyrenophora teres f. teres


text: INRAe - Montpellier

text: public

text: France

text: Nord - Cappelle en Pévèle

text: symptomatic barley leaf

text: Pyrenophora teres f. teres

text: Pyrenophora teres f. teres


text: INRAe - Montpellier

text: public

text: France

text: Loiret - Baccon

text: symptomatic barley leaf

text: Pyrenophora teres f. teres

text: Pyrenophora teres f. teres


text: INRAe - Montpellier

text: public

text: France

text: Ardennes - Menil Lepinois

text: symptomatic barley leaf

text: Pyrenophora teres f. teres

text: Pyrenophora teres f. teres


text: INRAe - Montpellier

text: public

text: France

text: Somme - Chirmont

text: symptomatic barley leaf

text: Pyrenophora teres f. teres

text: Pyrenophora teres f. teres


text: INRAe - Montpellier

text: public

text: not provided

text: isolate of Pyrenophora teres f. maculata

text: USA

text: Ontario

text: barley

text: Pyrenophora teres f. teres

text: Pyrenophora teres f. teres


text: INRAe - Montpellier

text: public

text: not provided

text: USA

text: Fresno, CA

text: barley

text: Pyrenophora teres f. teres

text: Pyrenophora teres f. teres


text: INRAe - Montpellier

text: public

text: not provided

text: USA

text: Solano, CA

text: barley

text: Pyrenophora teres f. teres

text: Pyrenophora teres f. teres


text: INRAe - Montpellier

text: public

text: USA

text: Sidney, MT

text: barley

text: Pyrenophora teres f. teres

text: Pyrenophora teres f. teres


text: INRAe - Montpellier

text: public

text: not provided

text: USA

text: Langdon, ND

text: barley

text: Pyrenophora teres f. teres

text: Pyrenophora teres f. teres


text: INRAe - Montpellier

text: public

text: USA

text: Fargo, ND

text: barley

text: Pyrenophora teres f. teres

text: Pyrenophora teres f. teres


text: INRAe - Montpellier

text: public

text: USA

text: Nesson Valley, ND

text: barley

text: Pyrenophora teres f. teres

text: Pyrenophora teres f. teres


text: INRAe - Montpellier

text: public

text: USA

text: Dickinson, ND

text: barley

text: Pyrenophora teres f. teres

text: Pyrenophora teres f. teres


text: INRAe - Montpellier

text: public

text: not provided

text: Canada

text: Akner, MB

text: symptomatic barley leaf

text: Pyrenophora teres f. teres

text: Pyrenophora teres f. teres


text: INRAe - Montpellier

text: public

text: not provided

text: Canada

text: Lacombe, AB

text: symptomatic barley leaf

text: Pyrenophora teres f. teres

text: Pyrenophora teres f. teres


text: INRAe - Montpellier

text: public

text: not provided

text: Canada

text: Clive, AB

text: symptomatic barley leaf

text: Pyrenophora teres f. teres

text: Pyrenophora teres f. teres


text: INRAe - Montpellier

text: public

text: not provided

text: Canada

text: Unknown, MB

text: symptomatic barley leaf

text: Pyrenophora teres f. teres

text: Pyrenophora teres f. teres


text: public

tag: Namespace:Department of Pathology, University of Cambridge

text: ArrayExpress

characteristic: broker name

text: decidual natural killer cell

text: not collected

text: human

characteristic: common name

text: Protocols: Decidual samples were obtained from healthy women undergoing elective terminations in the first trimester of pregnancy. Written and informed consent was obtained in accordance with the guidelines in The Declaration of Helsinki 2000. Ethical approval for the use of these tissues was obtained from the Cambridge Local Research Ethics Committee (REC 04/Q0108/23). This now forms part of the Centre for Trophoblast Research biobank for the ‘Biology of the Human Uterus in Pregnancy and Disease Tissue Bank’ at the University of Cambridge. Overall biobank ethical approval is from the East of England–Cambridge Central Research Ethics Committee (17/EE/0151). Decidual mononuclear cells were routinely isolated by enzymatic digestion of decidual tissue, followed by density gradient centrifugation through Pancoll (PAN-Biotech). Decidual cell suspensions (10 million per flask) were cultured overnight to recover in 20 ml of RPMI 1640 with 10% heat-inactivated FCS and antibiotics, supplemented with 2.5 ng/ml IL-15 (Peprotech). This dose of IL-15 maintains uNK viability without activating the cells. After 12 hours, non-adherent cells (largely DL) were recovered by vigorous washing in complete medium. Uterine natural killer (uNK) cells were stimulated by incubation with 721.221 cells expressing either HLA-C*05:01 which is a C2 allotype (C2+HLA-C) or HLA-C*08:02 which is a C1 allotype (C1+HLA-C). HLA-C*08:02 differs from HLA-C*05:01 by only the C1 and C2 epitopes (amino acids at p77 and p80). All 221 cells were cultured in RPMI 1640 medium (Gibco) with antibiotics, and 10% fetal calf serum (FCS). A total RNA isolation kit (Norgen, 51800) was used to extract the nucleic acids. cDNA was generated using SMART-Seq v4 (Takara) and then adapter and index ligation was performed using the Nextera XT workflow (Illumina).

characteristic: genotype

text: not collected

text: 9 weeks

characteristic: gestational age

characteristic: individual

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: decidua basalis

characteristic: organism part

text: Homo sapiens

characteristic: stimulus


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Department of Pathology, University of Cambridge

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: decidual natural killer cell

text: not collected

text: human

text: not collected

text: 9 weeks

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: decidua basalis

text: Homo sapiens

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: ArrayExpress

text: decidual natural killer cell

text: not collected

characteristic: collection date

text: human

characteristic: description

text: not collected

characteristic: geographic location (country and/or sea)

text: 9 weeks + 4 days

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: decidua basalis

text: Homo sapiens


text: public

text: ArrayExpress

characteristic: broker name

text: decidual natural killer cell

text: not collected

text: human

characteristic: common name

characteristic: genotype

text: not collected

text: 8 weeks + 1 day

characteristic: gestational age

characteristic: individual

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: decidua basalis

characteristic: organism part

text: Homo sapiens


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Wageningen University & Research

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ArrayExpress

text: not collected

text: Protocols: PCN J2s were sucrose purified and washed extensively in tap water and transferred to 1.5 mL RNase free tubes. The sample was incubated in RNA-later (Invitrogen) for 30-45 minutes at room temperature (~20°C). Next, most of the RNA-later was removed by pipetting and the sample was stored at -80°C. The greenhouse propagated Globodera rostochiensis (Potato Cyst Nematode; PCN) a population/line was used; Ro5-line-22 these is a inbred line of Ro5-Harmerz, and was mass-propagated in the greenhouse. Second stage pre-parasitic juveniles (J2’s) of PCN were obtained by artificial hatching through rehydration in tap water for 7 days followed by incubation of cysts in root exudate from Solanum lycopersicum cv. Money Maker. Nematode and root material were homogenized as follows: To the sample 2 steel balls (diameter 3 mm) and 35 µL of homogenisation buffer (Maxwell LEV16 Plant RNA kit) was added and homogenized in a tissue homogenizer (Qiagen GmbH, Swingmühle Tissue Lyser 2) at 30/s for 2x 80 seconds. 100 µL of homogenisation buffer was then added and samples were again homogenized at 30/s for 80 seconds. The steel balls were removed immediately after homogenization. RNA extraction was performed according to the Maxwell LEV16 plant RNA kit. RNA concentration was measured in a Qubit Fluorometer with the Qubit™ RNA High Sensitivity (HS) Assay Kit, according to the manufacturer’s instructions and RNA integrity was analysed on a 1% agarose-TAE gel stained with Midori green. Library prep was generated by USeq using Truseq RNA stranded RiboZeroPlus (human, mouse, rat,viral, bacterial) kit from Illumina according to the manufacturer's instruction.

characteristic: developmental stage

text: wild type genotype

text: not collected

text: pre-pararsitic juveniles

text: not applicable

text: Globodera rostochiensis

text: Globodera rostochiensis

text: whole organism

text: Globodera rostochiensis

text: Ro5 / line 22

characteristic: strain


characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: ArrayExpress

text: trophoblast cell

text: not collected

characteristic: collection date

text: human

text: Protocols: Placental samples were obtained from healthy women undergoing elective terminations in the first trimester of pregnancy. Written and informed consent was obtained in accordance with the guidelines in The Declaration of Helsinki 2000. Ethical approval for the use of these tissues was obtained from the Cambridge Local Research Ethics Committee (REC 04/Q0108/23). This now forms part of the Centre for Trophoblast Research biobank for the ‘Biology of the Human Uterus in Pregnancy and Disease Tissue Bank’ at the University of Cambridge. Overall biobank ethical approval is from the East of England–Cambridge Central Research Ethics Committee (17/EE/0151). Trophoblast organoids were obtained by sequential digestion of placental villi in 0.2% trypsin-250 (PAN-Biotech P10-025100P), 0.02% EDTA (Sigma E9884) in PBS, followed by collagenase (1.0 mg ml−1 collagenase V, Sigma C9263) in Ham's F12/10% FBS. Pooled digests were washed in Advanced DMEM/F12 medium, then resuspended in Matrigel on ice (Corning, 356231) and plated in 25 μl droplets into 48 well culture plates and overlaid with 250 μl trophoblast organoid medium (TOM). Cultures were maintained in 5% CO2 in a humidified incubator at 37°C and medium was replaced every 2–3 days. After passaging into 35mm dishes, organoids are grown in TOM for 3-4 days then switched into EVT differentiation medium (EVTM) with NRG1. After ~4-7 days, when outgrowths of cells are observed from the organoids, the medium is switched to EVTM without NRG1 (EVTM-NRG1) for a further 4 days. To study the effects of uNK cytokines on EVT differentiation, cytokines are added to the EVTM-NRG1 medium as follows: CSF2 (10 ng/mL), XCL1 (100 ng/mL), CSF1 (20 ng/mL), and CCL5 (50 ng/mL). Cells were collected after (3h, 24h, 48h and 96h) addition of cytokines. Nucleic acid was extracted based on the Chromium Single Cell 3′ Kit v3 from 10x Genomics. Single-cell library preparation was performed based on the Chromium Single Cell 3′ Kit v3 from 10x Genomics to obtain between 2,000 and 10,000 cells per reaction.

characteristic: description

text: not collected

characteristic: geographic location (country and/or sea)

text: 7 to 11

unit: week

text: organoid culture in Extravillous Trophoblast Medium

characteristic: growth condition

text: D1, D2, D3

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: placenta

text: Homo sapiens

text: CSF1, CSF2, XCL1, CCL5 cytokines

characteristic: stimulus

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

text: public

text: ArrayExpress

characteristic: broker name

text: trophoblast cell

text: not collected

text: human

characteristic: common name

text: not collected

text: 7 to 11

characteristic: gestational age

text: D4, D5, D6

characteristic: individual

text: not applicable

characteristic: isolate

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: placenta

characteristic: organism part

text: Homo sapiens

text: CSF1, CSF2, XCL1, CCL5 cytokines


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: CHMI

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: United Kingdom

text: human oral metagenome

text: human oral metagenome


text: public

text: ena-SAMPLE-TAB-04-10-2023-22:45:07:104-4214

tag: Namespace:Insituto Nacional de Enfermedades Infecciosas

characteristic: Submitter Id

characteristic: collection date

text: S. pneumoniae blood sample

characteristic: description

text: Argentina

characteristic: geographic location (country and/or sea)

text: diseased

characteristic: host health state

text: homo sapiens

characteristic: host scientific name

text: no provided

text: human blood

text: Streptococcus pneumoniae

text: Streptococcus pneumoniae

text: non typable

characteristic: serovar

text: S. pneumoniae sample 1

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

text: Sapienza University

text: public

tag: Namespace:Sapienza University

text: terrestrial biome

characteristic: broad-scale environmental context

text: skin epidermis

characteristic: environmental medium

text: Italy

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: urban biome

characteristic: local environmental context

text: human skin metagenome

characteristic: organism

text: Eutoplac

characteristic: project name

text: human skin metagenome


WA1-No drug2

characteristic: ENA first public

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: WA1-No drug2

tag: Namespace:Fundacion Instituto de Investigacion Fundacion Jimenez Diaz

characteristic: Submitter Id

text: Centro de Biología Molecular Severo Ochoa (CBMSO) (CSIC-UAM), Madrid, Spain

characteristic: collecting institution

text: Celia Perales

characteristic: collector name

text: Sequence obtained from USA-WA1/2020 virus in cell culture in the absence of drug

text: Spain

text: Madrid area

characteristic: geographic location (region and locality)

text: Vero-E6 cells

characteristic: host common name

text: not applicable

text: Vero C1008 African green monkey kidney Cell Line, Clone E6

text: not applicable

characteristic: host sex

text: Vero E6_WA1-No drug2

characteristic: host subject id

text: Madrid-WA1-No drug2

characteristic: isolate

text: Severe acute respiratory syndrome coronavirus 2

text: active surveillance in response to outbreak

characteristic: sample capture status

text: drag and drop uploader tool

text: COVID19_WA1-No drug2


characteristic: ENA-CHECKLIST

text: Fundacion Instituto de Investigacion Fundacion Jimenez Diaz

text: public

characteristic: collection date

text: Celia Perales

text: Sequence obtained from USA-WA1/2020 virus in cell culture in the presence of remdesivir 5uM

characteristic: description

text: Spain

characteristic: geographic location (country and/or sea)

text: Madrid area

text: Vero-E6 cells

text: not applicable

characteristic: host health state

characteristic: host scientific name

text: not applicable

text: Vero E6_WA1-Rdv5uM

characteristic: organism

text: drag and drop uploader tool

characteristic: title


characteristic: ENA first public

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: Celia Perales

text: Sequence obtained from USA-WA1/2020 virus in cell culture in the presence of remdesivir 10uM

text: Spain

text: Madrid area

text: Vero-E6 cells

text: not applicable

text: not applicable

text: Vero E6_WA1-Rdv10uM

text: drag and drop uploader tool


WA1-No drug3

text: public

text: WA1-No drug3

characteristic: collecting institution

text: Celia Perales

characteristic: collector name

text: Spain

text: Madrid area

characteristic: geographic location (region and locality)

text: Vero-E6 cells

characteristic: host common name

text: not applicable

text: not applicable

characteristic: host sex

text: Vero E6_No drug3

characteristic: host subject id

text: Madrid-No drug3

characteristic: isolate

text: drag and drop uploader tool

text: COVID19_No drug3


WA1-Rdv2.5uM + Rib80uM

characteristic: ENA-CHECKLIST

text: public

text: WA1-Rdv2.5uM + Rib80uM

characteristic: collection date

text: Celia Perales

text: Sequence obtained from USA-WA1/2020 virus in cell culture in the presence of remdesivir 2.5uM + ribavirin 80uM

characteristic: description

text: Spain

characteristic: geographic location (country and/or sea)

text: Madrid area

text: Vero-E6 cells

text: not applicable

characteristic: host health state

characteristic: host scientific name

text: not applicable

text: Vero E6_Rdv2.5uM+Rib80uM

characteristic: sample capture status

text: drag and drop uploader tool


WA1-Rdv5uM + Rib80uM

characteristic: ENA first public

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: WA1-Rdv5uM + Rib80uM

text: Celia Perales

text: Sequence obtained from USA-WA1/2020 virus in cell culture in the presence of remdesivir 5uM + ribavirin 80uM

text: Spain

text: Madrid area

text: Vero-E6 cells

text: not applicable

text: not applicable

text: Vero E6_WA1-Rdv5uM+Rib80uM

characteristic: organism

text: drag and drop uploader tool

characteristic: title


WA1-Rdv2.5uM + Rib100uM

text: public

characteristic: SRA accession

text: WA1-Rdv2.5uM + Rib100uM

characteristic: Submitter Id

characteristic: collecting institution

text: Celia Perales

characteristic: collector name

text: Sequence obtained from USA-WA1/2020 virus in cell culture in the presence of remdesivir 2.5uM + ribavirin 100uM

text: Spain

text: Madrid area

characteristic: geographic location (region and locality)

text: Vero-E6 cells

characteristic: host common name

text: not applicable

text: not applicable

characteristic: host sex

text: Vero E6_Rdv2.5uM+Rib100uM

text: drag and drop uploader tool