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characteristic: INSDC first public

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: SIB

characteristic: broker name

text: Switzerland

text: VS

text: Human

text: restricted access

text: Homo sapiens

text: restricted access

text: restricted access

text: hCoV-19/Switzerland/VS-ICH-2230131616/2023

characteristic: organism

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: GISAID Accession ID

characteristic: INSDC last update

text: public

text: SIB

characteristic: collecting institution

characteristic: collection date

characteristic: collector name

text: Switzerland

characteristic: geographic location (country and/or sea)

text: VS

characteristic: geographic location (region and locality)

text: Human

characteristic: host common name

text: restricted access

text: Homo sapiens

text: restricted access

text: restricted access

text: hCoV-19/Switzerland/VS-ICH-2230152620/2023

text: active surveillance not initiated by an outbreak


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Laboratory of genomics and metagenomics, Institute of Microbiology, University Hospital Centre and University of Lausanne, Switzerland

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: SIB

text: CHUV, CH-1011 Lausanne, Switzerland

text: Trestan Pillonel, Damien Jacot, Sébastien Aeby, Gilbert Greub, Claire Bertelli

text: Switzerland

text: VD

text: Human

text: restricted access

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

text: restricted access

characteristic: host sex

text: restricted access

characteristic: host subject id

text: hCoV-19/Switzerland/VD-CHUV-GEN16114/2023

characteristic: isolate

characteristic: sample capture status


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: GISAID Accession ID

text: Hopital du Valais, Institut Central des Hopitaux, Sion, Switzerland

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text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: SIB

characteristic: broker name

text: Valais Hospital, Central Institute; Sion, Switzerland

text: Alexis Dumoulin, Lorenzo Cerutti, Cedric Howald, Henri Pegeot, Melyssa Elies, Deborah Penet, Keith Harshman, Ioannis Xenarios

text: Switzerland

text: VS

text: Human

text: restricted access

text: Homo sapiens

text: restricted access

text: restricted access

text: hCoV-19/Switzerland/VS-ICH-2230209516/2023

characteristic: organism

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: SIB

text: CHUV, CH-1011 Lausanne, Switzerland

characteristic: collecting institution

characteristic: collection date

characteristic: collector name

text: Switzerland

characteristic: geographic location (country and/or sea)

text: VD

characteristic: geographic location (region and locality)

text: Human

characteristic: host common name

text: restricted access

text: Homo sapiens

text: restricted access

text: restricted access

text: hCoV-19/Switzerland/VD-CHUV-GEN16117/2023

text: Severe acute respiratory syndrome coronavirus 2


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC last update

text: public

tag: Namespace:Department of Ecology & Evolution University of Luasanne

text: 2 to 10

unit: day

characteristic: age

text: ArrayExpress

text: Protocols: All adult samples were collected from flies aged between 2-10 days. Antenna were collected by flash freezing flies in liquid nitrogen and agitating them over a sieve connected to a collection dish. Antenna were selected from the collection dish using a pipette under a dissecting scope. Forelegs and proboscis with maxillary palps were collected from individual files using forceps and microscalpels under a dissecting scope. Third instar larva were collected from vials by floating them in 75% sucrose water and washed. Larva heads were removed under a dissecting scope using a microscalpel. For each replicate, ~10 third instar larval heads, ~25 proboscis, ~50 legs, ~5 ovipositors and ~100 antennae were collected. After sorting sexes on C02, all flies were left in food vials for at least 24h before the dissections. All adult samples were collected from flies aged between 2-10 days. Antenna were collected by flash freezing flies in liquid nitrogen and agitating them over a sieve connected to a collection dish. Antenna were selected from the collection dish using a pipette under a dissecting scope. Forelegs and proboscis with maxillary palps were collected from individual files using forceps and microscalpels under a dissecting scope. Third instar larva were collected from vials by floating them in 75% sucrose water and washed. Larva heads were removed under a dissecting scope using a microscalpel. For each replicate, ~10 third instar larval heads, ~25 proboscis, ~50 legs, ~5 ovipositors and ~100 antennae were collected. After sorting sexes on C02, all flies were left in food vials for at least 24h before the dissections. Fly strains were reared on a standard yeast/cornmeal/agar medium supplemented with Carolina 4-24 Formula and maintained in a 12:12 hr light:dark cycle at 25 degrees. Adults between 2 to 10 days old were sex-sorted on CO2 at least 24h before the dissections. Dissected tissues were homogenized in 200ul of Trizol (Invitrogen) using a Precellys24 (6800rpm, 2x30s with 10s breaks ; Bertin Technology) followed by a standard Trizol RNA extraction. The final mRNA concentration was measured using a DeNovix Ds-11 FX spectrophotometer. mRNA libraries were prepared using KAPA Stranded mRNA-seq Kit (Roche) following manufacturer’s instructions (Version 5.17). Briefly, 500ng of total RNA diluted in 50ul of RNAse-free water was first placed on supplied mRNA capture magnetic beads to allow the isolation of mature, polyadenylated, mRNA which was subsequently fragmented to a size of 100-200bp. Double-strand cDNA was then synthesized, marked by A-tailing and barcoded with 2.5ul of TruSeq RNA UD Indexes (Illumina). SPRI select beads (Beckman Coulter) were used for cleanup.

characteristic: description

text: adult

characteristic: developmental stage

text: normal

characteristic: disease

text: wild type genotype

characteristic: genotype

text: Drosophila erecta

text: Drosophila erecta

text: antenna

characteristic: organism part

text: Drosophila erecta

text: female

characteristic: sex

characteristic: strain


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Department of Ecology & Evolution University of Luasanne

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: 2 to 10

text: ArrayExpress

characteristic: broker name

text: adult

text: normal

text: wild type genotype

text: Drosophila erecta

characteristic: organism

text: Drosophila erecta

text: antenna

text: Drosophila erecta

text: female

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC last update

text: public

text: 2 to 10

characteristic: age

text: ArrayExpress

characteristic: description

text: adult

text: normal

text: wild type genotype

text: Drosophila erecta

text: Drosophila erecta

text: antenna

text: Drosophila erecta

text: male


text: public

text: 2 to 10

text: ArrayExpress

text: fruit fly

characteristic: common name

text: adult

characteristic: developmental stage

text: normal

characteristic: disease

text: wild type genotype

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: antenna

characteristic: organism part

text: Drosophila melanogaster

text: female

characteristic: sex


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

text: 2 to 10

text: ArrayExpress

text: fruit fly

text: adult

text: normal

text: wild type genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: antenna

text: Drosophila melanogaster

text: male

characteristic: strain


characteristic: ENA-LAST-UPDATE

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: 2 to 10

text: ArrayExpress

characteristic: broker name

text: adult

text: normal

text: wild type genotype

text: Drosophila santomea

characteristic: organism

text: Drosophila santomea

text: antenna

text: Drosophila santomea

text: female

characteristic: title


characteristic: External Id

characteristic: INSDC last update

text: public

text: 2 to 10

characteristic: age

text: ArrayExpress

characteristic: description

text: adult

characteristic: developmental stage

text: normal

text: wild type genotype

text: Drosophila santomea

text: Drosophila santomea

text: antenna

text: Drosophila santomea

text: male


characteristic: ENA-CHECKLIST

text: public

text: 2 to 10

text: ArrayExpress

text: adult

text: normal

characteristic: disease

text: wild type genotype

characteristic: genotype

text: Drosophila sechellia

text: Drosophila sechellia

text: antenna

characteristic: organism part

text: Drosophila sechellia

text: female

characteristic: sex


characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC center name

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text: public

characteristic: INSDC status

text: 2 to 10

text: ArrayExpress

text: adult

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text: Drosophila sechellia

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text: antenna

text: Drosophila sechellia

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text: 2 to 10

text: ArrayExpress

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text: adult

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text: Drosophila simulans

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text: Drosophila simulans

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text: Drosophila simulans

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text: ArrayExpress

characteristic: description

text: adult

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text: Drosophila simulans

text: Drosophila simulans

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text: Drosophila simulans

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characteristic: title


characteristic: ENA-CHECKLIST

text: public

text: 2 to 10

text: ArrayExpress

text: adult

characteristic: developmental stage

text: normal

characteristic: disease

text: wild type genotype

characteristic: genotype

text: Drosophila suzukii

text: Drosophila suzukii

text: antenna

characteristic: organism part

text: Drosophila suzukii

text: female


characteristic: ENA-FIRST-PUBLIC

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text: public

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text: 2 to 10

text: ArrayExpress

text: adult

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text: Drosophila suzukii

text: Drosophila suzukii

text: antenna

text: Drosophila suzukii

text: male

characteristic: sex


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text: public

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text: 2 to 10

text: ArrayExpress

characteristic: broker name

text: adult

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text: Drosophila erecta

text: Drosophila erecta

text: foreleg

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characteristic: strain


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text: public

text: 2 to 10

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text: ArrayExpress

characteristic: description

text: adult

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text: Drosophila erecta

characteristic: organism

text: Drosophila erecta

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characteristic: ENA-CHECKLIST

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text: 2 to 10

text: ArrayExpress

text: fruit fly

characteristic: common name

text: adult

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text: wild type genotype

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text: Drosophila melanogaster

text: Drosophila melanogaster

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characteristic: title


characteristic: ENA-FIRST-PUBLIC

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text: public

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text: 2 to 10

text: ArrayExpress

text: fruit fly

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text: wild type genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

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text: Drosophila melanogaster

text: male

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characteristic: ENA-LAST-UPDATE

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text: public

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text: 2 to 10

text: ArrayExpress

characteristic: broker name

text: adult

text: normal

text: wild type genotype

text: Drosophila santomea

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text: Drosophila santomea

text: female

characteristic: strain


characteristic: ENA-CHECKLIST

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text: public

text: 2 to 10

characteristic: age

text: ArrayExpress

characteristic: description

text: adult

text: normal

text: wild type genotype

text: Drosophila santomea

characteristic: organism

text: Drosophila santomea

text: foreleg

text: Drosophila santomea

text: male


characteristic: ENA-FIRST-PUBLIC

text: public

text: 2 to 10

text: ArrayExpress

text: adult

characteristic: developmental stage

text: normal

characteristic: disease

text: wild type genotype

characteristic: genotype

text: Drosophila sechellia

text: Drosophila sechellia

text: foreleg

text: Drosophila sechellia

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characteristic: title


characteristic: INSDC center name

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text: public

characteristic: INSDC status

text: 2 to 10

text: ArrayExpress

text: adult

text: normal

text: wild type genotype

text: Drosophila sechellia

text: Drosophila sechellia

text: foreleg

characteristic: organism part

text: Drosophila sechellia

text: male

characteristic: sex


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: 2 to 10

text: ArrayExpress

characteristic: broker name

text: adult

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text: wild type genotype

text: Drosophila simulans

text: Drosophila simulans

text: foreleg

text: Drosophila simulans

text: female


characteristic: ENA-CHECKLIST

characteristic: INSDC last update

text: public

text: 2 to 10

characteristic: age

text: ArrayExpress

characteristic: description

text: adult

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text: wild type genotype

text: Drosophila simulans

text: Drosophila simulans

text: foreleg

text: Drosophila simulans

text: male

characteristic: strain


characteristic: ENA-FIRST-PUBLIC

text: public

text: 2 to 10

text: ArrayExpress

text: adult

characteristic: developmental stage

text: normal

characteristic: disease

text: wild type genotype

characteristic: genotype

text: Drosophila suzukii

characteristic: organism

text: Drosophila suzukii

text: foreleg

text: Drosophila suzukii

text: female


characteristic: INSDC center name

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text: public

characteristic: INSDC status

text: 2 to 10

text: ArrayExpress

text: adult

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text: Drosophila suzukii

text: Drosophila suzukii

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characteristic: organism part

text: Drosophila suzukii

text: male

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: third instar larva

text: normal

text: wild type genotype

text: Drosophila erecta

text: Drosophila erecta

text: head

text: Drosophila erecta

text: mixed

characteristic: sex


characteristic: ENA-CHECKLIST

characteristic: INSDC last update

text: public

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

characteristic: description

text: third instar larva

text: normal

text: wild type genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: head

text: Drosophila melanogaster

text: mixed


characteristic: ENA-FIRST-PUBLIC

text: public

text: ArrayExpress

text: third instar larva

characteristic: developmental stage

text: normal

characteristic: disease

text: wild type genotype

characteristic: genotype

text: Drosophila santomea

characteristic: organism

text: Drosophila santomea

text: head

text: Drosophila santomea

text: mixed

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

text: ArrayExpress

text: third instar larva

text: normal

text: wild type genotype

text: Drosophila sechellia

text: Drosophila sechellia

text: head

characteristic: organism part

text: Drosophila sechellia

text: mixed

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: External Id

characteristic: INSDC last update

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: third instar larva

text: normal

text: wild type genotype

text: Drosophila simulans

text: Drosophila simulans

text: head

text: Drosophila simulans

text: mixed

characteristic: sex