characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: 5 to 8 week

text: ArrayExpress

characteristic: broker name

text: house mouse

text: adult

characteristic: developmental stage

text: normal

characteristic: disease

text: CD44 positive; CD71 positive

text: Mus musculus

characteristic: organism

text: Mus musculus

text: bone marrow

text: Mus musculus

text: female

characteristic: sex

text: HsdOla:TO


status: PUBLIC

tag: attribute

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

tag: Namespace:Integrative Parasitology Center for Infectious Diseases, Heidelberg University Medical School

characteristic: Submitter Id

text: 5 to 8 week

characteristic: age

text: ArrayExpress

text: house mouse

characteristic: common name

text: Protocols: Blood, spleen and bone marrow was harvested from a naïve mouse or from an infected mouse 3 dpi with 1 x 106 PbmCherry parasites. Blood was collected from mice under terminal anaesthesia by cardiac puncture using a heparinized syringe. For organ collection, mice were subsequently culled by cervical dislocation, spleen, femur and tibia harvested, and the organs placed into 1 ml FACS buffer (0.2 - 0.5 % BSA/PBS, sterile filtered) on ice. Bone marrow was released by removing the ends of the bones with sharp scissors and perfusing the bones with 1 ml cold FACS buffer. Spleen and bone marrow were dissociated by gently straining the tissues through a 40 µm cell strainer using the plunger of 5 ml syringe into 50 ml tubes. 50-100 µl blood were filtered through a 40 µm cell strainer into 50 ml tubes. Cell strainers were flushed with 25 ml FACS buffer and cells were pelleted by centrifugation for 10 min at 4 °C. Blood was resuspended in 20 ml, spleen in 10 ml and bone marrow in 1 ml cold FACS buffer. Cells were counted in a Neubaur counting chamber. Dissociated spleen, bone marrow and blood cells were strained a second time through a 40 µM filter and sorted based on mCherry fluorescence using a BD FACSAria IIu or BD FACSAria III, collecting both mCherry-positive and mCherry-negative cells. Per organ, 0.5 x 106 cells from each mCherry-positive and mCherry-negative fraction were pooled, pelleted for 10 min at 500 x g, 4 °C and resuspended in 100 µl 0.2 % BSA/PBS. Unspecific antibody binding was blocked by adding 10 µl TruStain fcX™ (anti-mouse CD16/32) (Biolegend, Cat#101320) to each sample and incubating for 10 min on ice. 20 µl cells were removed for flow analysis and remaining cells were incubated for 30 min on ice with 1 µg each of TotalSeq™-A0441 anti-mouse CD71 Antibody (Biolegend, Cat# 113824) and TotalSeq™-A0073 anti-mouse/human CD44 Antibody (Biolegend, Cat# 103045). Cells were washed by adding 1 ml 0.2 % BSA/PBS and pelleted for 5 min at 2800 x g, 4 °C. Pellets were resuspended in 1 ml 0.2 % BSA/PBS and washed twice more. Cells were filtered through a 40 µM strainer (Flowmi) and counted on an automatic cell counter (Countess 3, Invitrogen) immediately before loading onto the 10X Chromium machine. Two Mice were infected with 10^6 mixed blood stages of PbANKA-mCherry, a line that expresses constitutively a mCherry reporter (driven by hsp70 promoter). A third mice remained naive as control. Cells were loaded on a 10X Chromium controller and single cells prepared by droplet generation using standard protocols and V3 chemistry. RNA was released by lysis and cDNA was prepared all following standard procedures by 10X Genomics. 10x libraries were constructed following the standard 10X protocol. Three or four i7 sample indexes were used per sample.

characteristic: description

text: adult

text: malaria

text: CD44 positive; CD71 positive

characteristic: immunophenotype

characteristic: individual

text: Plasmodium berghei PbANKA-mCherry

characteristic: infect

text: Mus musculus

text: Mus musculus

text: spleen

characteristic: organism part

characteristic: replicate

text: Mus musculus

text: female

text: HsdOla:TO

characteristic: strain

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Integrative Parasitology Center for Infectious Diseases, Heidelberg University Medical School

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: 5 to 8 week

text: ArrayExpress

characteristic: broker name

text: house mouse

text: adult

characteristic: developmental stage

text: malaria

characteristic: disease

text: CD44 positive; CD71 positive

text: Plasmodium berghei PbANKA-mCherry

text: Mus musculus

characteristic: organism

text: Mus musculus

text: spleen

text: Mus musculus

text: female

characteristic: sex

text: HsdOla:TO


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: 5 to 8 week

characteristic: age

text: ArrayExpress

text: house mouse

characteristic: common name

characteristic: description

text: adult

text: normal

text: CD44 positive; CD71 positive

text: Mus musculus

text: Mus musculus

text: spleen

text: Mus musculus

text: female

text: HsdOla:TO


text: Klebsiella pneumoniae

characteristic: ArrayExpress-SPECIES

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: SC

text: public

text: Klebsiella pneumoniae

text: Klebsiella pneumoniae

text: Klebsiella pneumoniae

characteristic: subject id

characteristic: title


text: Escherichia coli

text: SC

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli


text: Staphylococcus haemolyticus

text: SC

text: public

text: Staphylococcus haemolyticus

text: Staphylococcus haemolyticus

characteristic: organism

text: Staphylococcus haemolyticus


text: Acinetobacter baumannii

characteristic: ENA-LAST-UPDATE

text: SC

text: public

text: Acinetobacter baumannii

text: Acinetobacter baumannii

text: Acinetobacter baumannii


text: Pseudomonas aeruginosa

characteristic: External Id

text: SC

text: public

text: Pseudomonas aeruginosa

text: Pseudomonas aeruginosa

text: Pseudomonas aeruginosa


text: Salmonella enterica

text: SC

characteristic: INSDC center name

text: public

text: Salmonella enterica

text: Salmonella enterica subsp. enterica serovar Typhi


text: Citrobacter freundii

text: SC

characteristic: INSDC first public

text: public

text: Citrobacter freundii

text: Citrobacter freundii

text: Citrobacter freundii


text: public

characteristic: SRA accession

tag: Namespace:Department of Plant Biotechnology and Bioinformatics, Ghent University, Gent, Belgium; VIB Center for Plant Systems Biology, VIB, Gent, Belgium

text: ArrayExpress

characteristic: broker name

characteristic: cultivar

text: Protocols: For RNA sequencing, we pooled the basal-most 1cm cm sections of 25 silk strands from the mid-base region of four individual ears to obtain four biological replicates. With quadruple replicas, a total of 12 Samples: 4 for LOF; 4 samples for GOF lines; and 4 wt lines were collected at 11DASE from acropetal positions 6-10 detached from the ovaries. greenhouse Total RNA from silk material was extracted and purified with Spectrum™ Plant Total RNA Kit (Sigma-Aldrich, Belgium). RNA concentration and purity were quantified by Nanodrop spectrophotometry (Nanodrop Technologies, Wilmington, DE, USA), and RNA integrity (RIN) was confirmed by an Agilent 2100 Bioanalyzer (Agilent Technologies, Palo Alto, CA, USA). Library preparation was done using the TruSeq RNA Sample Preparation Kit v2 (Illumina). In brief, poly(A)-containing mRNA molecules were reverse transcribed, double-stranded cDNA was generated, and adapters were ligated. After quality control using the 2100 Bioanalyzer, clusters were generated through amplification using the TruSeq PE Cluster Kit v3-cBot-HS kit (Illumina) followed by sequencing on Illumina NextSeq 500 with the TruSeq SBS Kit v3-HS (Illumina). Sequencing was performed in single-end mode with a read length of 100 bp.

text: 11 days after silk emergence

characteristic: developmental stage

text: KIL1 gain of function

characteristic: genotype

text: green house study

characteristic: growth condition

text: Zea mays

text: Zea mays

text: silk

characteristic: organism part

text: Zea mays


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Department of Plant Biotechnology and Bioinformatics, Ghent University, Gent, Belgium; VIB Center for Plant Systems Biology, VIB, Gent, Belgium

text: public

characteristic: Submitter Id

text: ArrayExpress

characteristic: description

text: 11 days after silk emergence

text: KIL1 gain of function

text: green house study

text: Zea mays

text: Zea mays

text: silk

text: Zea mays


characteristic: INSDC last update

text: public

characteristic: INSDC status

text: ArrayExpress

text: 11 days after silk emergence

text: KIL1 loss of function

text: green house study

text: Zea mays

text: Zea mays

text: silk

text: Zea mays

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: ArrayExpress

text: 11 days after silk emergence

text: wild type genotype

text: green house study

text: Zea mays

characteristic: organism

text: Zea mays

text: silk

text: Zea mays


characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

tag: Namespace:Department of Plant Biotechnology and Bioinformatics, Ghent University, Gent, Belgium  VIB Center for Plant Systems Biology, VIB, Gent, Belgium

text: ArrayExpress

text: Protocols: For RNA sequencing, we pooled the basal-most 2 cm sections of 25 silk strands from the mid-base region of four individual ears to obtain four biological replicates. Silk bases were collected 3-, 7-, 11- and 15 days after silk emergence (DASE). greenhouse Total RNA from silk material was extracted and purified with Spectrum™ Plant Total RNA Kit (Sigma-Aldrich, Belgium). RNA concentration and purity were quantified by Nanodrop spectrophotometry (Nanodrop Technologies, Wilmington, DE, USA), and RNA integrity (RIN) was confirmed by an Agilent 2100 Bioanalyzer (Agilent Technologies, Palo Alto, CA, USA).. Library preparation was done using the TruSeq RNA Sample Preparation Kit v2 (Illumina). In brief, poly(A)-containing mRNA molecules were reverse transcribed, double-stranded cDNA was generated, and adapters were ligated. After quality control using the 2100 Bioanalyzer, clusters were generated through amplification using the TruSeq PE Cluster Kit v3-cBot-HS kit (Illumina) followed by sequencing on Illumina NextSeq 500 with the TruSeq SBS Kit v3-HS (Illumina).

text: 11 days after silk emergence

text: wild type genotype

text: green house study

text: Zea mays

text: Zea mays

text: silk

text: Zea mays


text: Department of Plant Biotechnology and Bioinformatics, Ghent University, Gent, Belgium VIB Center for Plant Systems Biology, VIB, Gent, Belgium

text: public

text: ArrayExpress

characteristic: broker name

characteristic: cultivar

text: 11 days after silk emergence

characteristic: developmental stage

text: wild type genotype

text: green house study

text: Zea mays

text: Zea mays

text: silk

text: Zea mays


text: public

text: ArrayExpress

text: 15 days after silk emergence

text: wild type genotype

characteristic: genotype

text: green house study

characteristic: growth condition

text: Zea mays

text: Zea mays

text: silk

characteristic: organism part

text: Zea mays


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: Submitter Id

text: ArrayExpress

text: 3 days after silk emergence

text: wild type genotype

text: green house study

text: Zea mays

text: Zea mays

text: silk

text: Zea mays


characteristic: INSDC last update

text: public

characteristic: INSDC status

text: ArrayExpress

characteristic: description

text: 7 days after silk emergence

text: wild type genotype

text: green house study

text: Zea mays

text: Zea mays

text: silk

text: Zea mays


E-MTAB-10843:eps-8 V1

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF CALIFORNIA BERKELEY

text: public

text: E-MTAB-10843:eps-8 V1

tag: Namespace:UNIVERSITY OF CALIFORNIA BERKELEY

unit: day

characteristic: age

text: ArrayExpress

text: Protocols: Animals were synchronized using a standard bleaching protocol and all RNA collection was performed at day 1 of adulthood. ~1000 animals were harvested using M9, and animals were pelleted by gravity by allowing worms to settle to the bottom of the tube over 2 minutes. M9 was subsequently aspirated and replaced with Trizol solution, and worms were freeze/thawed 3x with liquid nitrogen, and a ~30 sec vortexing performed before each re-freeze. M9 was subsequently aspirated and replaced with Trizol solution, and worms were freeze/thawed 3x with liquid nitrogen, and a ~30 sec vortexing performed before each re-freeze. After the final thaw, chloroform was added at a 1:5 ratio (chloroform:trizol) and aqueous separation of RNA was performed via centrifugation in a heavy gel phase-lock tube (VWR, 10847--802). The aqueous phase was collected, mixed with isopropanol at a 1:1 ratio, then RNA purification was performed using a Qiagen RNeasy Mini Kit (74106) as per manufacturer’s directions. For RNAseq analysis, library preparation was performed using Kapa Biosystems mRNA Hyper Prep Kit. Sequencing was performed at the Vincent J. Coates Genomic Sequencing Core at the University of California, Berkeley using an Illumina HS4000, mode SR100. RNA concentration from 3 biological replicates was measured using an Agilent Bioanalyzer at UC Berkeley Functional Genomics Core Lab (FGL). Total RNA (500 ng) was used for library construction using the mRNA HyperPrep Kit (KAPA Biosystems KR1352).

text: adult

text: Escherichia coli HT115

characteristic: diet

text: wild type genotype

text: Caenorhabditis elegans

text: Caenorhabditis elegans

text: whole organism

text: Caenorhabditis elegans

text: hermaphrodite

characteristic: sex

characteristic: strain

text: eps-8 V1

characteristic: title


E-MTAB-10843:eps-8 V2

text: UNIVERSITY OF CALIFORNIA BERKELEY

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

text: E-MTAB-10843:eps-8 V2

text: ArrayExpress

characteristic: broker name

text: adult

characteristic: developmental stage

text: Escherichia coli HT115

text: wild type genotype

text: Caenorhabditis elegans

characteristic: organism

text: Caenorhabditis elegans

text: whole organism

text: Caenorhabditis elegans

text: hermaphrodite

text: eps-8 V2


E-MTAB-10843:eps-8 V3

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITY OF CALIFORNIA BERKELEY

text: public

text: E-MTAB-10843:eps-8 V3

characteristic: Submitter Id

text: ArrayExpress

text: adult

text: Escherichia coli HT115

text: wild type genotype

characteristic: genotype

text: Caenorhabditis elegans

text: Caenorhabditis elegans

text: whole organism

characteristic: organism part

text: Caenorhabditis elegans

text: hermaphrodite

text: eps-8 V3


E-MTAB-10843:eps-8 V4

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF CALIFORNIA BERKELEY

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-10843:eps-8 V4

text: ArrayExpress

characteristic: description

text: adult

text: Escherichia coli HT115

text: wild type genotype

text: Caenorhabditis elegans

text: Caenorhabditis elegans

text: whole organism

text: Caenorhabditis elegans

text: hermaphrodite

text: eps-8 V4


E-MTAB-10843:EV V1

text: UNIVERSITY OF CALIFORNIA BERKELEY

text: public

text: E-MTAB-10843:EV V1

characteristic: age

text: ArrayExpress

text: adult

text: Escherichia coli HT115

characteristic: diet

text: wild type genotype

text: Caenorhabditis elegans

text: Caenorhabditis elegans

text: whole organism

text: Caenorhabditis elegans

text: hermaphrodite

characteristic: sex

characteristic: strain

text: EV V1

characteristic: title


E-MTAB-10843:EV V2

text: UNIVERSITY OF CALIFORNIA BERKELEY

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

text: E-MTAB-10843:EV V2

text: ArrayExpress

characteristic: broker name

text: adult

characteristic: developmental stage

text: Escherichia coli HT115

text: wild type genotype

text: Caenorhabditis elegans

text: Caenorhabditis elegans

text: whole organism

text: Caenorhabditis elegans

text: hermaphrodite

text: EV V2


E-MTAB-10843:EV V3

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITY OF CALIFORNIA BERKELEY

text: public

text: E-MTAB-10843:EV V3

characteristic: Submitter Id

text: ArrayExpress

text: adult

text: Escherichia coli HT115

text: wild type genotype

characteristic: genotype

text: Caenorhabditis elegans

characteristic: organism

text: Caenorhabditis elegans

text: whole organism

text: Caenorhabditis elegans

text: hermaphrodite

text: EV V3


E-MTAB-10843:EV V4

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF CALIFORNIA BERKELEY

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-10843:EV V4

text: ArrayExpress

text: adult

text: Escherichia coli HT115

text: wild type genotype

text: Caenorhabditis elegans

text: Caenorhabditis elegans

text: whole organism

characteristic: organism part

text: Caenorhabditis elegans

text: hermaphrodite

text: EV V4


E-MTAB-10843:Antimycin V2

text: UNIVERSITY OF CALIFORNIA BERKELEY

text: public

text: E-MTAB-10843:Antimycin V2

text: ArrayExpress

characteristic: cell line

text: embryonic stem cell derived neuronal stem cell

characteristic: cell type

text: human

characteristic: common name

text: Protocols: Cell line H9 NPCs were plated in a medium containing rock inhibitor. The following day, the medium was replaced with medium lacking rock inhibitor. Following an additional day of growth, cells were treated with 10 µM antimycin or equal volume ethanol as vehicle control. Medium was aspirated and cells were collected in trizol (Thermo Scientific, 15596018) after 8 hours, mixed with equal volume of isopropanol, and RNA was extracted using RNeasy Mini Kit (Qiagen 74106). RNA concentration from 3 biological replicates was measured using an Agilent Bioanalyzer at UC Berkeley Functional Genomics Core Lab (FGL). Total RNA (500 ng) was used for library construction using the mRNA HyperPrep Kit (KAPA Biosystems KR1352). Compatible dual‐indexed “barcode” adaptors (KAPA KR1318) were chosen so that all 10 libraries could be multiplexed on one lane on the Illumina HS4000 sequencer. RNA concentration from 3 biological replicates was measured using an Agilent Bioanalyzer at UC Berkeley Functional Genomics Core Lab (FGL). Total RNA (500 ng) was used for library construction using the mRNA HyperPrep Kit (KAPA Biosystems KR1352).

characteristic: description

text: embryo stage

text: wild type genotype

text: DMEM/F-12 supplemented with N2, B-27, bFGF, Pen/Strep

characteristic: growth condition

text: 46, XX

characteristic: karyotype

text: Homo sapiens

text: Homo sapiens

text: blastocyst

text: Homo sapiens

text: female

characteristic: sex

text: Antimycin V2


E-MTAB-10843:Antimycin V3

characteristic: ENA-CHECKLIST

text: UNIVERSITY OF CALIFORNIA BERKELEY

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

text: E-MTAB-10843:Antimycin V3

text: ArrayExpress

characteristic: broker name

text: human

text: embryo stage

characteristic: developmental stage

text: wild type genotype

text: 46, XX

text: Homo sapiens

text: Homo sapiens

text: blastocyst

text: Homo sapiens

text: female

text: Antimycin V3

characteristic: title


E-MTAB-10843:CRISPR EtOH Early

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF CALIFORNIA BERKELEY

characteristic: INSDC last update

text: public

text: E-MTAB-10843:CRISPR EtOH Early

characteristic: Submitter Id

text: ArrayExpress

text: human

text: Protocols: NPCs were transduced with lentivirus encoding Cas9 (pHK027-Blast) and selected with Blasticidin. The surviving culture was expanded to 130E6 cells and transduced with lentivirus containing the Avana sgRNA library pools 1-4(62). This library contains 4 sgRNAs for each of 18472 human genes, as well as 663 sgRNAs of random sequence that are not expected to target human genes. The cells were selected using Puromycin for 2 days and were experimentally shown to have a 56% survival rate. The cells were passaged for 2 weeks to allow editing to occur to completion and to allow the protein products time to deplete. RNA concentration from 3 biological replicates was measured using an Agilent Bioanalyzer at UC Berkeley Functional Genomics Core Lab (FGL). Total RNA (500 ng) was used for library construction using the mRNA HyperPrep Kit (KAPA Biosystems KR1352).

text: embryo stage

text: wild type genotype

characteristic: genotype

text: 46, XX

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: blastocyst

text: Homo sapiens

text: female

text: CRISPR EtOH Early


E-MTAB-10843:CRISPR EtOH late

text: UNIVERSITY OF CALIFORNIA BERKELEY

text: public

characteristic: INSDC status

text: E-MTAB-10843:CRISPR EtOH late

text: ArrayExpress

characteristic: cell line

characteristic: cell type

text: human

characteristic: common name

characteristic: description

text: embryo stage

text: wild type genotype

characteristic: growth condition

text: 46, XX

text: Homo sapiens

text: Homo sapiens

text: blastocyst

characteristic: organism part

text: Homo sapiens

text: female

text: CRISPR EtOH late


E-MTAB-10843:CRISPR Pretreatment

characteristic: ENA-CHECKLIST

text: UNIVERSITY OF CALIFORNIA BERKELEY

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

text: E-MTAB-10843:CRISPR Pretreatment

text: ArrayExpress

characteristic: broker name

text: human

text: embryo stage

text: wild type genotype

text: 46, XX

characteristic: karyotype

text: Homo sapiens

text: Homo sapiens

text: blastocyst

text: Homo sapiens

text: female

characteristic: sex

text: CRISPR Pretreatment


E-MTAB-10843:CRISPR rotenone early

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF CALIFORNIA BERKELEY

characteristic: INSDC last update

text: public

text: E-MTAB-10843:CRISPR rotenone early

characteristic: Submitter Id

text: ArrayExpress

text: human

text: embryo stage

characteristic: developmental stage

text: wild type genotype

text: 46, XX

text: Homo sapiens

text: Homo sapiens

text: blastocyst

text: Homo sapiens

text: female

text: CRISPR rotenone early

characteristic: title


E-MTAB-10843:CRISPR rotenone late

text: UNIVERSITY OF CALIFORNIA BERKELEY

text: public

characteristic: INSDC status

text: E-MTAB-10843:CRISPR rotenone late

text: ArrayExpress

characteristic: cell line

characteristic: cell type

text: human

characteristic: common name

characteristic: description

text: embryo stage

text: wild type genotype

characteristic: genotype

text: 46, XX

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: blastocyst

text: Homo sapiens

text: female

text: CRISPR rotenone late


E-MTAB-10843:EtOH V1

characteristic: ENA-CHECKLIST

text: UNIVERSITY OF CALIFORNIA BERKELEY

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

text: E-MTAB-10843:EtOH V1

text: ArrayExpress

characteristic: broker name

text: human

text: embryo stage

text: wild type genotype

characteristic: growth condition

text: 46, XX

text: Homo sapiens

text: Homo sapiens

text: blastocyst

characteristic: organism part

text: Homo sapiens

text: female

text: EtOH V1


E-MTAB-10843:EtOH V2

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF CALIFORNIA BERKELEY

characteristic: INSDC last update

text: public

text: E-MTAB-10843:EtOH V2

characteristic: Submitter Id

text: ArrayExpress

text: human

text: embryo stage

text: wild type genotype

text: 46, XX

characteristic: karyotype

text: Homo sapiens

text: Homo sapiens

text: blastocyst

text: Homo sapiens

text: female

characteristic: sex

text: EtOH V2


E-MTAB-10843:EtOH V3

text: UNIVERSITY OF CALIFORNIA BERKELEY

text: public

characteristic: INSDC status

text: E-MTAB-10843:EtOH V3

text: ArrayExpress

characteristic: cell line

characteristic: cell type

text: human

characteristic: common name

characteristic: description

text: embryo stage

characteristic: developmental stage

text: wild type genotype

text: 46, XX

text: Homo sapiens

text: Homo sapiens

text: blastocyst

text: Homo sapiens

text: female

text: EtOH V3

characteristic: title


characteristic: ENA-CHECKLIST

text: UOE

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

characteristic: age

text: ArrayExpress

characteristic: broker name

text: zebrafish

text: Protocols: Following laser injury at 72 hpf Tg(myl7:gal4::GFP;UAS:mRFP) larvae were incubated at 28.5°C in conditioned media/water + 0.1% methylene blue (w/v) + 0.003% phenylthiourea. At 48 hpi uninjured and injured larvae were given an overdose of tricaine at 400 μg/ml, following which hearts were extracted. We adapted the protocol of Burns and MacRae75 to increase the yield of heart retrieval from ~50% to ~70%. Briefly, ~30 larvae were placed in 2mL eppendorf tubes, the conditioned water drained and replaced with ice cold Leibovitz's L-15 Medium supplemented with 10% FCS. A 19-gauge needle coupled to a 5mL syringe was used to shear the larvae by aspiration and therefore dissociate hearts from the rest of the larva. The lysate was then inspected by epifluorescence microscopy and mRFP+ hearts and collected to be kept on ice. Hearts were then digested for 10 minutes at 4°C in protease solution (5 mM CaCl2,10 mg/ml B. Licheniformis protease, 125 U/mL DNase I in 1x PBS) with occasional aspiration to aid digestion. Following laser injury at 72 hpf Tg(myl7:gal4::GFP;UAS:mRFP) larvae were incubated at 28.5°C in conditioned media/water + 0.1% methylene blue (w/v) + 0.003% phenylthiourea. At 48 hpi uninjured and injured larvae were given an overdose of tricaine at 400 μg/ml, following which hearts were extracted. RNA was then extracted using a RNeasy Plus Micro Kit (Qiagen) following direct lysis with RLT lysis buffer according to manufacturer’s instructions. RNA concentration was measured by Qubit and integrity by Bioanalyser. RIN score for all samples ranged between 9.6-10. cDNA libraries were prepared following the standardised protocols of Illumina Novaseq 6000, the protocol is lengthy and available at https://support.illumina.com/content/dam/illumina-support/documents/documentation/system_documentation/novaseq/novaseq-6000-denature-dilute-libraries-guide-1000000106351-03.pdf

text: larval stage

text: wild type genotype

characteristic: genotype

text: pool 1 of 200 larvae

characteristic: individual

text: Danio rerio

characteristic: organism

text: Danio rerio

text: heart

text: Danio rerio

text: not available

text: AB

characteristic: strain


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UOE

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: Submitter Id

text: ArrayExpress

text: zebrafish

text: larval stage

text: wild type genotype

text: pool 2 of 200 larvae

text: Danio rerio

text: Danio rerio

text: heart

characteristic: organism part

text: Danio rerio

text: not available

characteristic: sex

text: AB


characteristic: ENA-CHECKLIST

text: UOE

characteristic: INSDC center name

text: public

text: ArrayExpress

text: zebrafish

characteristic: common name

characteristic: description

text: larval stage

characteristic: developmental stage

text: wild type genotype

text: pool 3 of 200 larvae

text: Danio rerio

text: Danio rerio

text: heart

text: Danio rerio

text: not available

text: AB

characteristic: title


text: UOE

characteristic: INSDC first public

text: public

characteristic: SRA accession

characteristic: age

text: ArrayExpress

characteristic: broker name

text: zebrafish

text: larval stage

text: wild type genotype

characteristic: genotype

text: pool 4 of 200 larvae

characteristic: individual

text: Danio rerio

text: Danio rerio

text: heart

text: Danio rerio

text: not available

text: AB


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UOE

characteristic: INSDC last update

text: public

text: ArrayExpress

text: zebrafish

text: larval stage

text: wild type genotype

text: pool 5 of 200 larvae

text: Danio rerio

characteristic: organism

text: Danio rerio

text: heart

text: Danio rerio

text: not available

text: AB

characteristic: strain


characteristic: ENA-CHECKLIST

text: UOE

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: Submitter Id

text: ArrayExpress

text: zebrafish

text: larval stage

text: wild type genotype

text: pool 6 of 200 larvae

text: Danio rerio

text: Danio rerio

text: heart

characteristic: organism part

text: Danio rerio

text: not available

characteristic: sex

text: AB


characteristic: INSDC first public

text: public

characteristic: SRA accession

tag: Namespace:University Ghent Laboratory experimental cancer research

text: ArrayExpress

characteristic: cell line

text: lung cancer cell

characteristic: cell type

text: human

characteristic: common name

text: Protocols: 2 spheroids per condition were collected in 1.5ml Eppendorf tube and placed on ice. The spheroids were left to sink out and the medium was taken off. Spheroids were cultured in the 384 well ULA plates in the different cell culture media for 5 (HCT116) or 7 days (A549, SKOV3 and U87MG). RNA extraction was performed using the miRNeasy micro kit (217084, Qiagen, Hilden, Germany), according to manufacturer’s protocol. RNA concentration was measured and the sample were frozen in -80°C until library prep. RNA-sequencing libraries were prepared from purified RNA using the QuantSeq 3' mRNA-Seq Library Prep Kit FWD for Illumina (Lexogen, Vienna, Austria) according to the manufacturer's instructions, using 27.5ng of RNA that was DNase treated using HL-dsDNA (Arcticzymes, TromsØ, Norway). The individual libraries were quantified by qPCR using the KAPA Library Quantification Kit (Roche, Pleasanton, CA, US) and equimolarly pooled.

characteristic: description

text: lung adenocarcinoma

characteristic: disease

text: spheroid culture

characteristic: growth condition

characteristic: medium

text: Homo sapiens

text: Homo sapiens

text: lung

characteristic: replicate

text: Homo sapiens

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: University Ghent Laboratory experimental cancer research

characteristic: INSDC last update

text: public

text: ArrayExpress

characteristic: broker name

text: lung cancer cell

text: human

text: lung adenocarcinoma

text: spheroid culture

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: lung

text: Homo sapiens


characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: lung cancer cell

text: human

text: lung adenocarcinoma

text: spheroid culture

text: MEM

text: Homo sapiens

text: Homo sapiens

text: lung

characteristic: organism part

text: Homo sapiens


text: public

text: ArrayExpress

characteristic: cell line

text: lung cancer cell

characteristic: cell type

text: human

characteristic: common name

characteristic: description

text: lung adenocarcinoma

characteristic: disease

text: spheroid culture

characteristic: growth condition

text: EMEM

text: Homo sapiens

text: Homo sapiens

text: lung

text: Homo sapiens


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

text: ArrayExpress

text: colorectal cancer cell

text: human

text: colon carcinoma

text: spheroid culture

characteristic: medium

text: Homo sapiens

text: Homo sapiens

text: colon

characteristic: replicate

text: Homo sapiens

characteristic: title


characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: ArrayExpress

characteristic: broker name

text: colorectal cancer cell

text: human

text: colon carcinoma

text: spheroid culture

text: MEM

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: colon

text: Homo sapiens


text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

characteristic: cell line

text: colorectal cancer cell

characteristic: cell type

text: human

text: colon carcinoma

text: spheroid culture

text: EMEM

text: Homo sapiens

text: Homo sapiens

text: colon

characteristic: organism part

text: Homo sapiens


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: ArrayExpress

text: MCF7 eGFP

text: breast cancer cell

text: human

characteristic: common name

characteristic: description

text: invasive breast ductal carcinoma

characteristic: disease

text: spheroid culture

characteristic: growth condition

text: Homo sapiens

text: Homo sapiens

text: mammary gland

text: Homo sapiens


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

text: public

text: ArrayExpress

text: MCF7 eGFP

text: breast cancer cell

text: human

text: invasive breast ductal carcinoma

text: spheroid culture

text: MEM

characteristic: medium

text: Homo sapiens

text: Homo sapiens

text: mammary gland

characteristic: replicate

text: Homo sapiens

characteristic: title


characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ArrayExpress

characteristic: broker name

text: MCF7 eGFP

text: breast cancer cell

text: human

text: invasive breast ductal carcinoma

text: spheroid culture

text: EMEM

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: mammary gland

text: Homo sapiens


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: Submitter Id

text: ArrayExpress

characteristic: cell line

text: ovarian cancer cell

characteristic: cell type

text: human

text: ovarian adenocarcinoma

text: spheroid culture

text: Homo sapiens

text: Homo sapiens

text: ovary

characteristic: organism part

text: Homo sapiens


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: ArrayExpress

text: ovarian cancer cell

text: human

characteristic: common name

characteristic: description

text: ovarian adenocarcinoma

characteristic: disease

text: spheroid culture

characteristic: growth condition

text: MEM

text: Homo sapiens

text: Homo sapiens

text: ovary

text: Homo sapiens


characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: ArrayExpress

text: ovarian cancer cell

text: human

text: ovarian adenocarcinoma

text: spheroid culture

text: EMEM

characteristic: medium

text: Homo sapiens

text: Homo sapiens

text: ovary

characteristic: replicate

text: Homo sapiens

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FINNISH ENVIRONMENT INSTITUTE

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:FINNISH ENVIRONMENT INSTITUTE

text: Jacqueline Jerney

characteristic: collected by

characteristic: collection date

unit: m

characteristic: depth

text: Clonal culture established from single planktonic cell

text: Baltic Sea

characteristic: geographic location (country and/or sea)

unit: DD

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: isolation and growth condition

text: Alexandrium ostenfeldii

characteristic: organism

unit: practical salinity unit

characteristic: salinity

text: 20 micrometer plankton net

characteristic: sample collection device or method

text: Alexandrium ostenfeldii

characteristic: strain

unit: ºC

characteristic: temperature

text: RAD-Seq of Alexandrium ostenfeldii: strain B103


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: FINNISH ENVIRONMENT INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: Jacqueline Jerney

characteristic: description

text: Baltic Sea

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B106

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FINNISH ENVIRONMENT INSTITUTE

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Jacqueline Jerney

characteristic: collected by

characteristic: collection date

characteristic: depth

text: Baltic Sea

characteristic: geographic location (country and/or sea)

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B107


text: FINNISH ENVIRONMENT INSTITUTE

text: public

text: Jacqueline Jerney

text: Baltic Sea

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: isolation and growth condition

text: Alexandrium ostenfeldii

characteristic: organism

characteristic: salinity

text: 20 micrometer plankton net

characteristic: sample collection device or method

text: Alexandrium ostenfeldii

characteristic: strain

characteristic: temperature

text: RAD-Seq of Alexandrium ostenfeldii: strain B108


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: FINNISH ENVIRONMENT INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: Jacqueline Jerney

characteristic: description

text: Baltic Sea

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B110

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FINNISH ENVIRONMENT INSTITUTE

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Jacqueline Jerney

characteristic: collected by

characteristic: collection date

characteristic: depth

text: Baltic Sea

characteristic: geographic location (country and/or sea)

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B111


text: FINNISH ENVIRONMENT INSTITUTE

text: public

text: Jacqueline Jerney

text: Baltic Sea

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: isolation and growth condition

text: Alexandrium ostenfeldii

characteristic: organism

characteristic: salinity

text: 20 micrometer plankton net

characteristic: sample collection device or method

text: Alexandrium ostenfeldii

characteristic: strain

characteristic: temperature

text: RAD-Seq of Alexandrium ostenfeldii: strain B112


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: FINNISH ENVIRONMENT INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: Jacqueline Jerney

characteristic: description

text: Baltic Sea

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B114

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FINNISH ENVIRONMENT INSTITUTE

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Jacqueline Jerney

characteristic: collected by

characteristic: collection date

characteristic: depth

text: Baltic Sea

characteristic: geographic location (country and/or sea)

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B115


text: FINNISH ENVIRONMENT INSTITUTE

text: public

text: Jacqueline Jerney

text: Baltic Sea

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: isolation and growth condition

text: Alexandrium ostenfeldii

characteristic: organism

characteristic: salinity

text: 20 micrometer plankton net

characteristic: sample collection device or method

text: Alexandrium ostenfeldii

characteristic: strain

characteristic: temperature

text: RAD-Seq of Alexandrium ostenfeldii: strain B119


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: FINNISH ENVIRONMENT INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: Jacqueline Jerney

characteristic: description

text: Baltic Sea

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B120

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FINNISH ENVIRONMENT INSTITUTE

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Jacqueline Jerney

characteristic: collected by

characteristic: collection date

characteristic: depth

text: Baltic Sea

characteristic: geographic location (country and/or sea)

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B127


text: FINNISH ENVIRONMENT INSTITUTE

text: public

text: Jacqueline Jerney

text: Baltic Sea

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: isolation and growth condition

text: Alexandrium ostenfeldii

characteristic: organism

characteristic: salinity

text: 20 micrometer plankton net

characteristic: sample collection device or method

text: Alexandrium ostenfeldii

characteristic: strain

characteristic: temperature

text: RAD-Seq of Alexandrium ostenfeldii: strain B129


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: FINNISH ENVIRONMENT INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: Jacqueline Jerney

characteristic: description

text: Baltic Sea

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B131

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FINNISH ENVIRONMENT INSTITUTE

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Jacqueline Jerney

characteristic: collected by

characteristic: collection date

characteristic: depth

text: Baltic Sea

characteristic: geographic location (country and/or sea)

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B135


text: FINNISH ENVIRONMENT INSTITUTE

text: public

text: Jacqueline Jerney

text: Baltic Sea

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: isolation and growth condition

text: Alexandrium ostenfeldii

characteristic: organism

characteristic: salinity

text: 20 micrometer plankton net

characteristic: sample collection device or method

text: Alexandrium ostenfeldii

characteristic: strain

characteristic: temperature

text: RAD-Seq of Alexandrium ostenfeldii: strain B139


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: FINNISH ENVIRONMENT INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: Jacqueline Jerney

text: Clonal culture established from single planktonic cell

characteristic: description

text: Baltic Sea

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B144

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FINNISH ENVIRONMENT INSTITUTE

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Jacqueline Jerney

characteristic: collected by

characteristic: collection date

characteristic: depth

text: Baltic Sea

characteristic: geographic location (country and/or sea)

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B146


text: FINNISH ENVIRONMENT INSTITUTE

text: public

text: Jacqueline Jerney

text: Baltic Sea

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: isolation and growth condition

text: Alexandrium ostenfeldii

characteristic: organism

characteristic: salinity

text: 20 micrometer plankton net

characteristic: sample collection device or method

text: Alexandrium ostenfeldii

characteristic: strain

characteristic: temperature

text: RAD-Seq of Alexandrium ostenfeldii: strain B147


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: FINNISH ENVIRONMENT INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: Jacqueline Jerney

characteristic: description

text: Baltic Sea

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B161

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FINNISH ENVIRONMENT INSTITUTE

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Jacqueline Jerney

characteristic: collected by

characteristic: collection date

characteristic: depth

text: Baltic Sea

characteristic: geographic location (country and/or sea)

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B312


text: FINNISH ENVIRONMENT INSTITUTE

text: public

text: Jacqueline Jerney

text: Baltic Sea

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: isolation and growth condition

text: Alexandrium ostenfeldii

characteristic: organism

characteristic: salinity

text: 20 micrometer plankton net

characteristic: sample collection device or method

text: Alexandrium ostenfeldii

characteristic: strain

characteristic: temperature

text: RAD-Seq of Alexandrium ostenfeldii: strain B328


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: FINNISH ENVIRONMENT INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: Jacqueline Jerney

characteristic: description

text: Baltic Sea

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B329

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FINNISH ENVIRONMENT INSTITUTE

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Jacqueline Jerney

characteristic: collected by

characteristic: collection date

characteristic: depth

text: Baltic Sea

characteristic: geographic location (country and/or sea)

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B338


text: FINNISH ENVIRONMENT INSTITUTE

text: public

text: Jacqueline Jerney

text: Baltic Sea

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: isolation and growth condition

text: Alexandrium ostenfeldii

characteristic: organism

characteristic: salinity

text: 20 micrometer plankton net

characteristic: sample collection device or method

text: Alexandrium ostenfeldii

characteristic: strain

characteristic: temperature

text: RAD-Seq of Alexandrium ostenfeldii: strain B340


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: FINNISH ENVIRONMENT INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: Jacqueline Jerney

characteristic: description

text: Baltic Sea

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B346

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FINNISH ENVIRONMENT INSTITUTE

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Jacqueline Jerney

characteristic: collected by

characteristic: collection date

characteristic: depth

text: Baltic Sea

characteristic: geographic location (country and/or sea)

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B347


text: FINNISH ENVIRONMENT INSTITUTE

text: public

text: Jacqueline Jerney

text: Baltic Sea

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: isolation and growth condition

text: Alexandrium ostenfeldii

characteristic: organism

characteristic: salinity

text: 20 micrometer plankton net

characteristic: sample collection device or method

text: Alexandrium ostenfeldii

characteristic: strain

characteristic: temperature

text: RAD-Seq of Alexandrium ostenfeldii: strain B348


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: FINNISH ENVIRONMENT INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: Jacqueline Jerney

characteristic: description

text: Baltic Sea

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B362

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FINNISH ENVIRONMENT INSTITUTE

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Jacqueline Jerney

characteristic: collected by

characteristic: collection date

characteristic: depth

text: Baltic Sea

characteristic: geographic location (country and/or sea)

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B365


text: FINNISH ENVIRONMENT INSTITUTE

text: public

text: Jacqueline Jerney

text: Baltic Sea

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: isolation and growth condition

text: Alexandrium ostenfeldii

characteristic: organism

characteristic: salinity

text: 20 micrometer plankton net

characteristic: sample collection device or method

text: Alexandrium ostenfeldii

characteristic: strain

characteristic: temperature

text: RAD-Seq of Alexandrium ostenfeldii: strain B366


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: FINNISH ENVIRONMENT INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: Jacqueline Jerney

characteristic: description

text: Baltic Sea

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B367

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FINNISH ENVIRONMENT INSTITUTE

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Jacqueline Jerney

characteristic: collected by

characteristic: collection date

characteristic: depth

text: Clonal culture established from single planktonic cell

text: Baltic Sea

characteristic: geographic location (country and/or sea)

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B370


text: FINNISH ENVIRONMENT INSTITUTE

text: public

text: Jacqueline Jerney

text: Baltic Sea

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: isolation and growth condition

text: Alexandrium ostenfeldii

characteristic: organism

characteristic: salinity

text: 20 micrometer plankton net

characteristic: sample collection device or method

text: Alexandrium ostenfeldii

characteristic: strain

characteristic: temperature

text: RAD-Seq of Alexandrium ostenfeldii: strain B377


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: FINNISH ENVIRONMENT INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: Jacqueline Jerney

characteristic: description

text: Baltic Sea

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B379

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FINNISH ENVIRONMENT INSTITUTE

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Jacqueline Jerney

characteristic: collected by

characteristic: collection date

characteristic: depth

text: Baltic Sea

characteristic: geographic location (country and/or sea)

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B385


text: FINNISH ENVIRONMENT INSTITUTE

text: public

text: Jacqueline Jerney

text: Baltic Sea

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: isolation and growth condition

text: Alexandrium ostenfeldii

characteristic: organism

characteristic: salinity

text: 20 micrometer plankton net

characteristic: sample collection device or method

text: Alexandrium ostenfeldii

characteristic: strain

characteristic: temperature

text: RAD-Seq of Alexandrium ostenfeldii: strain B386


characteristic: ENA-LAST-UPDATE

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text: FINNISH ENVIRONMENT INSTITUTE

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text: Jacqueline Jerney

characteristic: description

text: Baltic Sea

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B387

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FINNISH ENVIRONMENT INSTITUTE

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Jacqueline Jerney

characteristic: collected by

characteristic: collection date

characteristic: depth

text: Baltic Sea

characteristic: geographic location (country and/or sea)

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B391


text: FINNISH ENVIRONMENT INSTITUTE

text: public

text: Jacqueline Jerney

text: Baltic Sea

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: isolation and growth condition

text: Alexandrium ostenfeldii

characteristic: organism

characteristic: salinity

text: 20 micrometer plankton net

characteristic: sample collection device or method

text: Alexandrium ostenfeldii

characteristic: strain

characteristic: temperature

text: RAD-Seq of Alexandrium ostenfeldii: strain B502


characteristic: ENA-LAST-UPDATE

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text: FINNISH ENVIRONMENT INSTITUTE

characteristic: INSDC center name

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text: public

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characteristic: description

text: Baltic Sea

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B506

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FINNISH ENVIRONMENT INSTITUTE

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Jacqueline Jerney

characteristic: collected by

characteristic: collection date

characteristic: depth

text: Baltic Sea

characteristic: geographic location (country and/or sea)

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B507


text: FINNISH ENVIRONMENT INSTITUTE

text: public

text: Jacqueline Jerney

text: Baltic Sea

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: isolation and growth condition

text: Alexandrium ostenfeldii

characteristic: organism

characteristic: salinity

text: 20 micrometer plankton net

characteristic: sample collection device or method

text: Alexandrium ostenfeldii

characteristic: strain

characteristic: temperature

text: RAD-Seq of Alexandrium ostenfeldii: strain B509


characteristic: ENA-LAST-UPDATE

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text: FINNISH ENVIRONMENT INSTITUTE

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text: public

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text: Jacqueline Jerney

characteristic: description

text: Baltic Sea

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B510

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FINNISH ENVIRONMENT INSTITUTE

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characteristic: INSDC status

characteristic: SRA accession

text: Jacqueline Jerney

characteristic: collected by

characteristic: collection date

characteristic: depth

text: Baltic Sea

characteristic: geographic location (country and/or sea)

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B512


text: FINNISH ENVIRONMENT INSTITUTE

text: public

text: Jacqueline Jerney

text: Baltic Sea

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: isolation and growth condition

text: Alexandrium ostenfeldii

characteristic: organism

characteristic: salinity

text: 20 micrometer plankton net

characteristic: sample collection device or method

text: Alexandrium ostenfeldii

characteristic: strain

characteristic: temperature

text: RAD-Seq of Alexandrium ostenfeldii: strain B513


characteristic: ENA-LAST-UPDATE

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text: FINNISH ENVIRONMENT INSTITUTE

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text: Jacqueline Jerney

characteristic: description

text: Baltic Sea

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B514

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FINNISH ENVIRONMENT INSTITUTE

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Jacqueline Jerney

characteristic: collected by

characteristic: collection date

characteristic: depth

text: Baltic Sea

characteristic: geographic location (country and/or sea)

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B515


text: FINNISH ENVIRONMENT INSTITUTE

text: public

text: Jacqueline Jerney

text: Clonal culture established from single planktonic cell

text: Baltic Sea

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: isolation and growth condition

text: Alexandrium ostenfeldii

characteristic: organism

characteristic: salinity

text: 20 micrometer plankton net

characteristic: sample collection device or method

text: Alexandrium ostenfeldii

characteristic: strain

characteristic: temperature

text: RAD-Seq of Alexandrium ostenfeldii: strain B516


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text: FINNISH ENVIRONMENT INSTITUTE

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characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: Jacqueline Jerney

characteristic: description

text: Baltic Sea

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B517

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FINNISH ENVIRONMENT INSTITUTE

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characteristic: INSDC status

characteristic: SRA accession

text: Jacqueline Jerney

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characteristic: collection date

characteristic: depth

text: Baltic Sea

characteristic: geographic location (country and/or sea)

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B519


text: FINNISH ENVIRONMENT INSTITUTE

text: public

text: Jacqueline Jerney

text: Baltic Sea

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: isolation and growth condition

text: Alexandrium ostenfeldii

characteristic: organism

characteristic: salinity

text: 20 micrometer plankton net

characteristic: sample collection device or method

text: Alexandrium ostenfeldii

characteristic: strain

characteristic: temperature

text: RAD-Seq of Alexandrium ostenfeldii: strain B520


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: FINNISH ENVIRONMENT INSTITUTE

characteristic: INSDC center name

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characteristic: INSDC last update

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text: Alexandrium ostenfeldii

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text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B521

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

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characteristic: INSDC status

characteristic: SRA accession

text: Jacqueline Jerney

characteristic: collected by

characteristic: collection date

characteristic: depth

text: Baltic Sea

characteristic: geographic location (country and/or sea)

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B522


text: FINNISH ENVIRONMENT INSTITUTE

text: public

text: Jacqueline Jerney

text: Baltic Sea

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: isolation and growth condition

text: Alexandrium ostenfeldii

characteristic: organism

characteristic: salinity

text: 20 micrometer plankton net

characteristic: sample collection device or method

text: Alexandrium ostenfeldii

characteristic: strain

characteristic: temperature

text: RAD-Seq of Alexandrium ostenfeldii: strain B523


characteristic: ENA-LAST-UPDATE

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text: FINNISH ENVIRONMENT INSTITUTE

characteristic: INSDC center name

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text: Alexandrium ostenfeldii

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text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B524

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FINNISH ENVIRONMENT INSTITUTE

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characteristic: INSDC status

characteristic: SRA accession

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characteristic: collection date

characteristic: depth

text: Baltic Sea

characteristic: geographic location (country and/or sea)

text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B525


text: FINNISH ENVIRONMENT INSTITUTE

text: public

text: Jacqueline Jerney

text: Baltic Sea

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: isolation and growth condition

text: Alexandrium ostenfeldii

characteristic: organism

characteristic: salinity

text: 20 micrometer plankton net

characteristic: sample collection device or method

text: Alexandrium ostenfeldii

characteristic: strain

characteristic: temperature

text: RAD-Seq of Alexandrium ostenfeldii: strain B538


characteristic: ENA-LAST-UPDATE

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text: FINNISH ENVIRONMENT INSTITUTE

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characteristic: Submitter Id

text: Jacqueline Jerney

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text: Alexandrium ostenfeldii

text: 20 micrometer plankton net

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain B560

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FINNISH ENVIRONMENT INSTITUTE

text: public

characteristic: INSDC status

characteristic: SRA accession

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characteristic: collected by

characteristic: collection date

text: 1 - 2

characteristic: depth

text: Clonal culture established from resting stage

text: Baltic Sea

characteristic: geographic location (country and/or sea)

text: Alexandrium ostenfeldii

text: Gravity corer (Limnos)

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain C101


text: FINNISH ENVIRONMENT INSTITUTE

text: public

text: Jacqueline Jerney

text: 1 - 2

text: Baltic Sea

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: isolation and growth condition

text: Alexandrium ostenfeldii

characteristic: organism

characteristic: salinity

text: Gravity corer (Limnos)

characteristic: sample collection device or method

text: Alexandrium ostenfeldii

characteristic: strain

characteristic: temperature

text: RAD-Seq of Alexandrium ostenfeldii: strain C102


characteristic: ENA-LAST-UPDATE

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text: FINNISH ENVIRONMENT INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: Jacqueline Jerney

text: 1 - 2

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text: Baltic Sea

text: Alexandrium ostenfeldii

text: Gravity corer (Limnos)

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain C104

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FINNISH ENVIRONMENT INSTITUTE

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Jacqueline Jerney

characteristic: collected by

characteristic: collection date

text: 1 - 2

characteristic: depth

text: Baltic Sea

characteristic: geographic location (country and/or sea)

text: Alexandrium ostenfeldii

text: Gravity corer (Limnos)

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain C107


text: FINNISH ENVIRONMENT INSTITUTE

text: public

text: Jacqueline Jerney

text: 1 - 2

text: Baltic Sea

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: isolation and growth condition

text: Alexandrium ostenfeldii

characteristic: organism

characteristic: salinity

text: Gravity corer (Limnos)

characteristic: sample collection device or method

text: Alexandrium ostenfeldii

characteristic: strain

characteristic: temperature

text: RAD-Seq of Alexandrium ostenfeldii: strain C108


characteristic: ENA-LAST-UPDATE

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text: FINNISH ENVIRONMENT INSTITUTE

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text: public

characteristic: Submitter Id

text: Jacqueline Jerney

text: 1 - 2

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text: Alexandrium ostenfeldii

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text: RAD-Seq of Alexandrium ostenfeldii: strain C111

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FINNISH ENVIRONMENT INSTITUTE

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characteristic: collection date

text: 1 - 2

characteristic: depth

text: Baltic Sea

characteristic: geographic location (country and/or sea)

text: Alexandrium ostenfeldii

text: Gravity corer (Limnos)

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain C112


text: FINNISH ENVIRONMENT INSTITUTE

text: public

text: Jacqueline Jerney

text: 1 - 2

text: Baltic Sea

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: isolation and growth condition

text: Alexandrium ostenfeldii

characteristic: organism

characteristic: salinity

text: Gravity corer (Limnos)

characteristic: sample collection device or method

text: Alexandrium ostenfeldii

characteristic: strain

characteristic: temperature

text: RAD-Seq of Alexandrium ostenfeldii: strain C113


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: FINNISH ENVIRONMENT INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: Jacqueline Jerney

text: 1 - 2

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text: Baltic Sea

text: Alexandrium ostenfeldii

text: Gravity corer (Limnos)

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain C114

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FINNISH ENVIRONMENT INSTITUTE

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Jacqueline Jerney

characteristic: collected by

characteristic: collection date

text: 1 - 2

characteristic: depth

text: Baltic Sea

characteristic: geographic location (country and/or sea)

text: Alexandrium ostenfeldii

text: Gravity corer (Limnos)

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain C118


text: FINNISH ENVIRONMENT INSTITUTE

text: public

text: Jacqueline Jerney

text: 1 - 2

text: Baltic Sea

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: isolation and growth condition

text: Alexandrium ostenfeldii

characteristic: organism

characteristic: salinity

text: Gravity corer (Limnos)

characteristic: sample collection device or method

text: Alexandrium ostenfeldii

characteristic: strain

characteristic: temperature

text: RAD-Seq of Alexandrium ostenfeldii: strain C119


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: FINNISH ENVIRONMENT INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: Jacqueline Jerney

text: 1 - 2

characteristic: description

text: Baltic Sea

text: Alexandrium ostenfeldii

text: Gravity corer (Limnos)

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain C120

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FINNISH ENVIRONMENT INSTITUTE

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Jacqueline Jerney

characteristic: collected by

characteristic: collection date

text: 1 - 2

characteristic: depth

text: Baltic Sea

characteristic: geographic location (country and/or sea)

text: Alexandrium ostenfeldii

text: Gravity corer (Limnos)

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain C123


text: FINNISH ENVIRONMENT INSTITUTE

text: public

text: Jacqueline Jerney

text: 1 - 2

text: Baltic Sea

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: isolation and growth condition

text: Alexandrium ostenfeldii

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characteristic: salinity

text: Gravity corer (Limnos)

characteristic: sample collection device or method

text: Alexandrium ostenfeldii

characteristic: strain

characteristic: temperature

text: RAD-Seq of Alexandrium ostenfeldii: strain C125


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characteristic: External Id

text: FINNISH ENVIRONMENT INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: Jacqueline Jerney

text: 1 - 2

characteristic: description

text: Baltic Sea

text: Alexandrium ostenfeldii

text: Gravity corer (Limnos)

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain C126

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FINNISH ENVIRONMENT INSTITUTE

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Jacqueline Jerney

characteristic: collected by

characteristic: collection date

text: 1 - 2

characteristic: depth

text: Baltic Sea

characteristic: geographic location (country and/or sea)

text: Alexandrium ostenfeldii

text: Gravity corer (Limnos)

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain C128


text: FINNISH ENVIRONMENT INSTITUTE

text: public

text: Jacqueline Jerney

text: 1 - 2

text: Clonal culture established from resting stage

text: Baltic Sea

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: isolation and growth condition

text: Alexandrium ostenfeldii

characteristic: organism

characteristic: salinity

text: Gravity corer (Limnos)

characteristic: sample collection device or method

text: Alexandrium ostenfeldii

characteristic: strain

characteristic: temperature

text: RAD-Seq of Alexandrium ostenfeldii: strain C131


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text: FINNISH ENVIRONMENT INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: Jacqueline Jerney

text: 1 - 2

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text: Baltic Sea

text: Alexandrium ostenfeldii

text: Gravity corer (Limnos)

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain C133

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FINNISH ENVIRONMENT INSTITUTE

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Jacqueline Jerney

characteristic: collected by

characteristic: collection date

text: 1 - 2

characteristic: depth

text: Baltic Sea

characteristic: geographic location (country and/or sea)

text: Alexandrium ostenfeldii

text: Gravity corer (Limnos)

text: Alexandrium ostenfeldii

text: RAD-Seq of Alexandrium ostenfeldii: strain C148


text: public

tag: Namespace:Leibniz-Institute for Farm Animal Biology (FBN) Institute of Genome Biology/ Genomics Unit

unit: year

characteristic: age

text: pitbull terrier

characteristic: breed

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: prostate gland cancer cell

characteristic: cell type

text: dog

characteristic: common name

text: Protocols: Canine tumor cell lines TihoDProCarc0840 (0840) and TihoDProAdCarc0846 (0846) were derived from canine prostate carcinomas previously described by Reimann-Berg et. al (2011) and Packeiser et al. (2020). Both cell lines express CLDN3, -4 and -7 (Hammer et. al. 2016).Transfected cell lines 0840-FusionRed and 0846-FusionRed (transfected with pFusionRed-C (Cat.#FP411, Evrogen)) were generated and characterized. C-CPE was prepared as described previously by Becker et. al. 2019. Native and transfected cell lines were seeded in triplicate with a density of 5*105 cells in 6-well plates 48 hours to reach monolayer. C-CPE with a concentration of 20 µg/ml was added and the cells incubated for 3 hours to allow binding of C-CPE to CLDNs. In the next step, culture medium was removed, and cells were washed with 5ml phosphate buffered saline (PBS). TrypLETM Express (Gibco by Life technologiesTM, Darmstadt, Germany) was used for detaching cells, centrifugation at 1000 rpm for 10 min followed for pelleting. Pellets were stored at -80 °C and followed by RNA-isolation for transcriptome analysis. The cells were cultivated separately in 25 cm2 cell culture flasks in medium 199 (Gibco by Life Technologies, Darmstadt, Germany) supplemented with 10 % fetal calf serum (FCS Superior, Biochrom GmbH, Berlin, Germany) and 2 % penicillin/streptomycin (Biochrom GmbH, Berlin, Germany), and incubated in a humidified incubator maintained at 37 ˚C with 5 % CO2. Cultivation medium was replaced twice per week. Total RNA was isolated from transfected and native prostate tumor cell lines with C-CPE treatment and without C-CPE treatment using the RNeasy®Mini Kit RNA Purification (Qiagen, Hilden, Germany) according to the manufacturer´s instruction. RNA isolation was performed three times per cell line. On-column DNase digestion was carried out with RNase-Free DNase Set (Qiagen Hilden, Germany) to avoid genomic DNA contamination.The RNA quality was assessed using an Agilent RNA 6000 Nano kit and 2100 Bioanalyzer (Agilent). Samples with RNA integrity number (RIN) > 8 were used for the DNA library preparation using a TruSeq Stranded mRNA Sample Preparation kit according to the manufacture’s protocol (Illumina). Briefly, 1 µg of total RNA was used as input for an mRNA enrichment using poly-T oligo coated magnetic beads and chemically fragmented under elevated temperature. The fragmented RNA was then reverse-transcribed into the first- and second-strand cDNA using random hexamers and Superscript II reverse transcriptase. Double stranded cDNA fragments were ligated with TruSeq RNA adapters with a unique DNA sequencing index and PCR-amplified. The DNA libraries were quality-controlled using an Agilent Technologies 2100 Bioanalyzer and Agilent DNA-1000 Chip kit.

text: adult

characteristic: developmental stage

text: prostate carcinoma

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text: transfected with pFusionRed-C

characteristic: genetic modification

text: wild type genotype

characteristic: genotype

text: Canis lupus familiaris

characteristic: organism

text: Canis lupus familiaris

text: prostate gland

characteristic: organism part

text: Canis lupus familiaris

text: castrated male

characteristic: sex

text: treated with 20 microgram per milliliter C-CPE

characteristic: stimulus

unit: hour

characteristic: time


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characteristic: ENA-FIRST-PUBLIC

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text: Leibniz-Institute for Farm Animal Biology (FBN) Institute of Genome Biology/ Genomics Unit

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text: public

characteristic: INSDC status

characteristic: SRA accession

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text: pitbull terrier

text: ArrayExpress

text: prostate gland cancer cell

text: dog

characteristic: description

text: adult

text: prostate carcinoma

text: transfected with pFusionRed-C

text: wild type genotype

text: Canis lupus familiaris

text: Canis lupus familiaris

text: prostate gland

text: Canis lupus familiaris

text: castrated male

characteristic: title


text: public

characteristic: age

text: pitbull terrier

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text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: prostate gland cancer cell

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text: adult

characteristic: developmental stage

text: prostate carcinoma

characteristic: disease

text: transfected with pFusionRed-C

characteristic: genetic modification

text: wild type genotype

characteristic: genotype

text: Canis lupus familiaris

characteristic: organism

text: Canis lupus familiaris

text: prostate gland

text: Canis lupus familiaris

text: castrated male


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

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text: prostate gland cancer cell

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text: adult

text: prostate carcinoma

text: wild type genotype

text: Canis lupus familiaris

text: Canis lupus familiaris

text: prostate gland

characteristic: organism part

text: Canis lupus familiaris

text: castrated male

characteristic: sex

characteristic: stimulus

characteristic: time


text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: age

text: pitbull terrier

characteristic: breed

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: prostate gland cancer cell

characteristic: cell type

text: dog

characteristic: common name

characteristic: description

text: adult

text: prostate carcinoma

text: wild type genotype

text: Canis lupus familiaris

text: Canis lupus familiaris

text: prostate gland

text: Canis lupus familiaris

text: castrated male

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: german rough-haired pointer

text: ArrayExpress

text: prostate gland cancer cell

text: dog

text: adult

characteristic: developmental stage

text: prostate carcinoma

characteristic: disease

text: transfected with pFusionRed-C

characteristic: genetic modification

text: wild type genotype

characteristic: genotype

text: Canis lupus familiaris

characteristic: organism

text: Canis lupus familiaris

text: prostate gland

text: Canis lupus familiaris

text: male


characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: age

text: german rough-haired pointer

characteristic: breed

text: ArrayExpress

characteristic: broker name

text: prostate gland cancer cell

text: dog

text: adult

text: prostate carcinoma

text: transfected with pFusionRed-C

text: wild type genotype

text: Canis lupus familiaris

text: Canis lupus familiaris

text: prostate gland

characteristic: organism part

text: Canis lupus familiaris

text: male

characteristic: sex


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: german rough-haired pointer

text: ArrayExpress

characteristic: cell line

text: prostate gland cancer cell

characteristic: cell type

text: dog

characteristic: common name

characteristic: description

text: adult

text: prostate carcinoma

text: wild type genotype

text: Canis lupus familiaris

text: Canis lupus familiaris

text: prostate gland

text: Canis lupus familiaris

text: male

characteristic: stimulus

characteristic: time

characteristic: title


characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: german rough-haired pointer

text: ArrayExpress

text: prostate gland cancer cell

text: dog

text: adult

characteristic: developmental stage

text: prostate carcinoma

characteristic: disease

text: wild type genotype

characteristic: genotype

text: Canis lupus familiaris

characteristic: organism

text: Canis lupus familiaris

text: prostate gland

text: Canis lupus familiaris

text: male


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF VIRGINIA

text: public

tag: Namespace:UNIVERSITY OF VIRGINIA

unit: month

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

text: Protocols: Stroke model: Old or young C57BL/6J male mice were subjected to the left cerebral artery occlusion (MCAO), this surgery will cause ischemic stroke in mice. Mouse feces were harvested and stored at -80°C until further use. DNA was extracted per the manual of Power Lyzer Power soil DNA isolation kit (QIAGEN). per the protocol of \16S Ribosomal RNA Gene Amplicons for the Illumina MiSeq System\.

text: adult

text: stroke

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: feces

characteristic: organism part

text: young

characteristic: phenotype

text: Mus musculus

text: male

characteristic: sex

characteristic: strain


text: UNIVERSITY OF VIRGINIA

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: 18 to 20

text: ArrayExpress

text: house mouse

characteristic: common name

characteristic: description

text: adult

text: stroke

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: feces

text: old

text: Mus musculus

text: male

characteristic: title


E-MTAB-10869:mouse 46

characteristic: ENA-CHECKLIST

text: WIS

text: public

characteristic: SRA accession

text: E-MTAB-10869:mouse 46

characteristic: Submitter Id

unit: week

text: ArrayExpress

text: immune cell

characteristic: cell type

text: house mouse

text: Protocols: Mouse treatment: 1) ACG in diet 7500 mg/kg of diet, 2) DMG through osmotic pumps - Alzet osmotic minipumps model 2004 were used (infusing the compound at a rate of 0.25 µl per h for 28 days). The pumps were filled with 200 µl of: DMG to achieve 100mg/kg/day Epididymal adipose tissues from controls and treated (with DMG and ACG) mice (n=4 per group) were dissected and placed in 5 ml of DMEM (w/o phenol red, 4500 mg/l glucose) at room temperature and disintegrated by chopping with sterile scissors. Subsequently 0.2g of collagenase II (Sigma-Aldrich C6885) was added and samples were incubated for 20 minutes at 37C while shaking. 5 ml of cold DMEM was added to each sample and they were filtered through 250 ul mesh. Samples were centrifugated at room temperature for 5 minutes at 300g without breaks and with slowest acceleration. The pellets containing immune cells were recovered and resuspended in ACK buffer (Gibco, A1049201) and incubated for one minute. Then 14 ml of PBS was added and cells were harvested by centrifugation at 500g for 10 minutes. Pellets were resuspended in PBS with 0.04% BSA, filtered through 40um mesh Chromium 3’ RNA v3.1 chip (10x Genomics) aiming for 6000 cells per sample. Libraries were prepared according to manufacturer’s instructions

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

characteristic: individual

text: Mus musculus

characteristic: organism

text: Mus musculus

text: adipose tissue

text: Mus musculus

text: male

text: mouse 46


E-MTAB-10869:mouse 49

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: WIS

text: public

text: E-MTAB-10869:mouse 49

characteristic: age

text: ArrayExpress

characteristic: broker name

text: immune cell

text: house mouse

text: adult

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: adipose tissue

characteristic: organism part

text: Mus musculus

text: male

characteristic: sex

text: mouse 49


E-MTAB-10869:mouse 54

text: WIS

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-10869:mouse 54

text: ArrayExpress

text: immune cell

text: house mouse

characteristic: common name

characteristic: description

text: adult

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: adipose tissue

text: Mus musculus

text: male

characteristic: strain

text: mouse 54


E-MTAB-10869:mouse 55

characteristic: ENA-CHECKLIST

text: WIS

text: public

characteristic: SRA accession

text: E-MTAB-10869:mouse 55

characteristic: Submitter Id

text: ArrayExpress

text: immune cell

characteristic: cell type

text: house mouse

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: adipose tissue

text: Mus musculus

text: male

text: mouse 55

characteristic: title


E-MTAB-10869:mouse 16

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: WIS

text: public

text: E-MTAB-10869:mouse 16

characteristic: age

text: ArrayExpress

characteristic: broker name

text: immune cell

text: house mouse

text: adult

text: wild type genotype

characteristic: individual

text: Mus musculus

characteristic: organism

text: Mus musculus

text: adipose tissue

text: Mus musculus

text: male

text: mouse 16


E-MTAB-10869:mouse 17

text: WIS

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-10869:mouse 17

text: ArrayExpress

text: immune cell

text: house mouse

characteristic: common name

text: adult

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: adipose tissue

characteristic: organism part

text: Mus musculus

text: male

characteristic: sex

text: mouse 17


E-MTAB-10869:mouse 7

characteristic: ENA-CHECKLIST

text: WIS

text: public

characteristic: SRA accession

text: E-MTAB-10869:mouse 7

characteristic: Submitter Id

text: ArrayExpress

text: immune cell

characteristic: cell type

text: house mouse

characteristic: description

text: adult

characteristic: developmental stage

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: adipose tissue

text: Mus musculus

text: male

characteristic: strain

text: mouse 7


E-MTAB-10869:mouse 8

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: WIS

text: public

text: E-MTAB-10869:mouse 8

characteristic: age

text: ArrayExpress

characteristic: broker name

text: immune cell

text: house mouse

text: adult

text: wild type genotype

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: adipose tissue

text: Mus musculus

text: male

text: mouse 8

characteristic: title


E-MTAB-10869:mouse 11

text: WIS

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-10869:mouse 11

text: ArrayExpress

text: immune cell

text: house mouse

characteristic: common name

text: adult

text: wild type genotype

characteristic: individual

text: Mus musculus

characteristic: organism

text: Mus musculus

text: adipose tissue

text: Mus musculus

text: male

text: mouse 11


E-MTAB-10869:mouse 12

characteristic: ENA-CHECKLIST

text: WIS

text: public

characteristic: SRA accession

text: E-MTAB-10869:mouse 12

characteristic: Submitter Id

text: ArrayExpress

text: immune cell

characteristic: cell type

text: house mouse

characteristic: description

text: adult

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: adipose tissue

characteristic: organism part

text: Mus musculus

text: male

characteristic: sex

text: mouse 12


E-MTAB-10869:mouse 4

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: WIS

text: public

text: E-MTAB-10869:mouse 4

characteristic: age

text: ArrayExpress

characteristic: broker name

text: immune cell

text: house mouse

text: adult

characteristic: developmental stage

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: adipose tissue

text: Mus musculus

text: male

characteristic: strain

text: mouse 4


E-MTAB-10869:mouse 42

text: WIS

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-10869:mouse 42

text: ArrayExpress

text: immune cell

text: house mouse

characteristic: common name

text: adult

text: wild type genotype

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: adipose tissue

text: Mus musculus

text: male

text: mouse 42

characteristic: title


E-MTAB-10869:mouse 44

characteristic: ENA-CHECKLIST

text: WIS

text: public

characteristic: SRA accession

text: E-MTAB-10869:mouse 44

characteristic: Submitter Id

text: ArrayExpress

text: immune cell

characteristic: cell type

text: house mouse

characteristic: description

text: adult

text: wild type genotype

characteristic: individual

text: Mus musculus

characteristic: organism

text: Mus musculus

text: adipose tissue

text: Mus musculus

text: male

text: mouse 44


E-MTAB-10869:mouse 5

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: WIS

text: public

text: E-MTAB-10869:mouse 5

characteristic: age

text: ArrayExpress

characteristic: broker name

text: immune cell

text: house mouse

text: adult

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: adipose tissue

characteristic: organism part

text: Mus musculus

text: male

characteristic: sex

text: mouse 5


E-MTAB-10869:mouse 56

text: WIS

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-10869:mouse 56

text: ArrayExpress

text: immune cell

text: house mouse

characteristic: common name

text: adult

characteristic: developmental stage

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: adipose tissue

text: Mus musculus

text: male

characteristic: strain

text: mouse 56


E-MTAB-10869:mouse 59

characteristic: ENA-CHECKLIST

text: WIS

text: public

characteristic: SRA accession

text: E-MTAB-10869:mouse 59

characteristic: Submitter Id

text: ArrayExpress

text: immune cell

characteristic: cell type

text: house mouse

characteristic: description

text: adult

text: wild type genotype

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: adipose tissue

text: Mus musculus

text: male

text: mouse 59

characteristic: title