# _embedded.samples[].characteristics.INSDC center name[].text
Department of Microbiology - University of Innsbruck

# _embedded.samples[].characteristics.Submitter Id[].tag
Namespace:Department of Microbiology - University of Innsbruck

# _embedded.samples[].characteristics.description[].text
Samples were obtained from guts of black soldier fly larvae reared on chicken feed, food waste, and oil separator waste

# _embedded.samples[].characteristics.INSDC center name[].text
Institut d'Investigacio Sanitaria de Palma

# _embedded.samples[].characteristics.title[].text
Study of bacterial communities along a permafrost core in a rock glacier of the Ortler-Ortles Alps

# _embedded.samples[].characteristics.INSDC center name[].text
Edward Grey Institute of Field Ornithology

# _embedded.samples[].characteristics.Submitter Id[].tag
Namespace:Edward Grey Institute of Field Ornithology

# _embedded.samples[].characteristics.description[].text
Samples prepared at Lighthouse Lab in Alderley Park by Jacquelyn Wynn, Mairead Hyland, The Lighthouse Lab in Alderley Park and Alex Alderton, Roberto Amato, Sonia Goncalves, Ewan Harrison, David K. Jackson, Ian Johnston, Dominic Kwiatkowski, Cordelia Langford, John Sillitoe on behalf of the Wellcome Sanger Institute COVID-19 Surveillance Team (http://www.sanger.ac.uk/covid-team)

# _embedded.samples[].characteristics.organism[].text
Severe acute respiratory syndrome coronavirus 2

# _embedded.samples[].characteristics.sample capture status[].text
active surveillance in response to outbreak

# _embedded.samples[].characteristics.scientific_name[].text
Severe acute respiratory syndrome coronavirus 2

# _embedded.samples[].characteristics.description[].text
Protocols: Embryos were obtained from pregnant C57BL/6 mice (crossed to C57BL/6 males) at E5.5 and E6.25 using a standard post-implantation dissection protocol as outlined in Srinivas, 2010 (PMID:21123426). To enrich for VE cells in the single-cell isolation, fluorescent membrane labelling of the VE was achieved by incubating the embryos in 0.1% CellVue Claret Far Red dye (Sigma) in Diluent-C for 5 minutes at room temperature. Up to 4 stained embryos were placed in 100µl of TrypLE (Invitrogen) dissociation reagent for 3.5 minutes and 4.5 minutes for E5.5 and E6.25 embryos respectively, at 37°C. The embryos were then mouth-pipetted up and down, for gentle mechanical dissociation using a glass capillary 10-15% larger than the size of the embryos. The dissociated cells were pooled and transferred to a 1.5mL microcentrifuge tube and the TrypLE was neutralised with an equal volume of heat inactivated FBS followed by centrifugation at 1000x g for 3 minutes at 4°C. The cells pellet were resuspended in 100µl of ice-cold HBSS with 1% FBS. DAPI was added as a live-dead indicator. Claret-labelled, live, VE cells were collected using SH800 Cell Sorter (Sony) into lysis buffer at 4°C. mRNA from E5.5 and E6.25 embryo single cell collections enriched for visceral endoderm (VE) cells, were extracted and amplified using the SMARTSeq2 protocol, with the additional inclusion of ERCC spike-in control. Multiplexed sequencing libraries were generated from cDNA using the Illumina Nextera XT protocol.