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| Status |
Public on May 16, 2022 |
| Title |
A live attenuated vaccine confers superior mucosal and systemic immunity to SARS-CoV-2 variants |
| Organism |
Mesocricetus auratus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
We describe the cellular response to SARS-CoV-2 infections in Syrian hamsters previously immunized with mRNA, Adenovirus, and life-attenuated virus vaccines.
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| Overall design |
Two experiments were conducted. In the first, single vaccination were done with either an mRNA vaccine, and adenovirus vector vaccine, or the life-attenuated sCPD9 (prime only). The second experiment follows prime-boost strategies with the combination adenovirus + adenovirus, mRNA + mRNA, sCPD9 + sCPD9, and mRNA + sCPD). In both experiments, there were also mock-vaccinated animals.
Histopathology was performed from lungs and nasal mucosa, antibody levels were determined in blood and nasal washes, bulk RNA sequencing was performed from lungs, and scRNA-seq was performed from lung, blood and nasal mucosa. Note that the data quality of the blood samples from experiment 1 is very poor.
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| Contributor(s) |
Nouailles G, Adler JM, Pennitz P, Teixeira G, Peidli S, Baumgart M, Bushe J, Voss A, Langenhagen A, Pott F, Kazmierski J, Gökeri C, Praktiknjo S, Simmons S, Xing N, Langner C, Vidal RM, Abdelgawad A, Cichon G, Corman VM, Niemeyer D, Blütghen N, Wu H, Gruber AD, Goffinet C, Osterrieder N, Landthaler M, Witzenrath M, Wyler E, Kunec D, Trimpert J |
| Citation(s) |
37012419, 38844462 |
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| Submission date |
Apr 11, 2022 |
| Last update date |
Jun 26, 2024 |
| Contact name |
Emanuel Wyler |
| E-mail(s) |
emanuel.wyler@mdc-berlin.de
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| Phone |
+49 30 9406 3009
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| Organization name |
Max Delbrück Center for Molecular Medicine
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| Department |
Berlin Institute for Medical Systems Biology
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| Lab |
RNA Biology and Posttranscriptional Regulation
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| Street address |
Robert Roessle Str 10
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| City |
Berlin |
| ZIP/Postal code |
13125 |
| Country |
Germany |
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| Platforms (2) |
| GPL24490 |
Illumina NextSeq 500 (Mesocricetus auratus) |
| GPL28997 |
Illumina NovaSeq 6000 (Mesocricetus auratus) |
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| Samples (114)
|
| GSM6038345 |
Experiment 1, GEX_Pool1_part2 |
| GSM6038346 |
Experiment 1, CellPlex_Pool1_part3 |
| GSM6038347 |
Experiment 1, GEX_Pool1_part3 |
| GSM6038348 |
Experiment 1, CellPlex_Pool1_part4 |
| GSM6038349 |
Experiment 1, GEX_Pool1_part4 |
| GSM6038350 |
Experiment 1, CellPlex_Pool2_part1 |
| GSM6038351 |
Experiment 1, GEX_Pool2_part1 |
| GSM6038352 |
Experiment 1, CellPlex_Pool2_part2 |
| GSM6038353 |
Experiment 1, GEX_Pool2_part2 |
| GSM6038354 |
Experiment 1, CellPlex_Pool2_part3 |
| GSM6038355 |
Experiment 1, GEX_Pool2_part3 |
| GSM6038356 |
Experiment 1, CellPlex_Pool2_part4 |
| GSM6038357 |
Experiment 1, GEX_Pool2_part4 |
| GSM6038358 |
Experiment 1, CellPlex_Pool3_part1 |
| GSM6038359 |
Experiment 1, GEX_Pool3_part1 |
| GSM6038360 |
Experiment 1, CellPlex_Pool3_part2 |
| GSM6038361 |
Experiment 1, GEX_Pool3_part2 |
| GSM6038362 |
Experiment 1, CellPlex_Pool3_part3 |
| GSM6038363 |
Experiment 1, GEX_Pool3_part3 |
| GSM6038364 |
Experiment 1, CellPlex_Pool3_part4 |
| GSM6038365 |
Experiment 1, GEX_Pool3_part4 |
| GSM6038366 |
Experiment 1, CellPlex_Pool4_part1 |
| GSM6038367 |
Experiment 1, GEX_Pool4_part1 |
| GSM6038368 |
Experiment 1, CellPlex_Pool4_part2 |
| GSM6038369 |
Experiment 1, GEX_Pool4_part2 |
| GSM6038370 |
Experiment 1, CellPlex_Pool4_part3 |
| GSM6038371 |
Experiment 1, GEX_Pool4_part3 |
| GSM6038372 |
Experiment 1, CellPlex_Pool4_part4 |
| GSM6038373 |
Experiment 1, GEX_Pool4_part4 |
| GSM6038374 |
Experiment 2, Non-vaccinated animal 1, 2dpi, lung sample for bulk RNA-seq |
| GSM6038375 |
Experiment 2, Non-vaccinated animal 2, 2dpi, lung sample for bulk RNA-seq |
| GSM6038376 |
Experiment 2, Non-vaccinated animal 3, 2dpi, lung sample for bulk RNA-seq |
| GSM6038377 |
Experiment 2, Non-vaccinated animal 4, 2dpi, lung sample for bulk RNA-seq |
| GSM6038378 |
Experiment 2, Non-vaccinated animal 5, 2dpi, lung sample for bulk RNA-seq |
| GSM6038379 |
Experiment 2, 2xattenuated vaccinated animal 1, 2dpi, lung sample for bulk RNA-seq |
| GSM6038380 |
Experiment 2, 2xattenuated vaccinated animal 2, 2dpi, lung sample for bulk RNA-seq |
| GSM6038381 |
Experiment 2, 2xattenuated vaccinated animal 3, 2dpi, lung sample for bulk RNA-seq |
| GSM6038382 |
Experiment 2, 2xattenuated vaccinated animal 4, 2dpi, lung sample for bulk RNA-seq |
| GSM6038383 |
Experiment 2, 2xattenuated vaccinated animal 5, 2dpi, lung sample for bulk RNA-seq |
| GSM6038384 |
Experiment 2, 2xAdenovirus vaccinated animal 1, 2dpi, lung sample for bulk RNA-seq |
| GSM6038385 |
Experiment 2, 2xAdenovirus vaccinated animal 2, 2dpi, lung sample for bulk RNA-seq |
| GSM6038386 |
Experiment 2, 2xAdenovirus vaccinated animal 3, 2dpi, lung sample for bulk RNA-seq |
| GSM6038387 |
Experiment 2, 2xAdenovirus vaccinated animal 4, 2dpi, lung sample for bulk RNA-seq |
| GSM6038388 |
Experiment 2, 2xAdenovirus vaccinated animal 5, 2dpi, lung sample for bulk RNA-seq |
| GSM6038389 |
Experiment 2, 2xmRNA vaccinated animal 1, 2dpi, lung sample for bulk RNA-seq |
| GSM6038390 |
Experiment 2, 2xmRNA vaccinated animal 2, 2dpi, lung sample for bulk RNA-seq |
| GSM6038391 |
Experiment 2, 2xmRNA vaccinated animal 3, 2dpi, lung sample for bulk RNA-seq |
| GSM6038392 |
Experiment 2, 2xmRNA vaccinated animal 4, 2dpi, lung sample for bulk RNA-seq |
| GSM6038393 |
Experiment 2, 2xmRNA vaccinated animal 5, 2dpi, lung sample for bulk RNA-seq |
| GSM6038394 |
Experiment 2, mRNA/attenuated vaccinated animal 1, 2dpi, lung sample for bulk RNA-seq |
| GSM6038395 |
Experiment 2, mRNA/attenuated vaccinated animal 2, 2dpi, lung sample for bulk RNA-seq |
| GSM6038396 |
Experiment 2, mRNA/attenuated vaccinated animal 3, 2dpi, lung sample for bulk RNA-seq |
| GSM6038397 |
Experiment 2, mRNA/attenuated vaccinated animal 4, 2dpi, lung sample for bulk RNA-seq |
| GSM6038398 |
Experiment 2, mRNA/attenuated vaccinated animal 5, 2dpi, lung sample for bulk RNA-seq |
| GSM6038399 |
Experiment 2, Non-vaccinated animal 1, 5dpi, lung sample for bulk RNA-seq |
| GSM6038400 |
Experiment 2, Non-vaccinated animal 2, 5dpi, lung sample for bulk RNA-seq |
| GSM6038401 |
Experiment 2, Non-vaccinated animal 3, 5dpi, lung sample for bulk RNA-seq |
| GSM6038402 |
Experiment 2, Non-vaccinated animal 4, 5dpi, lung sample for bulk RNA-seq |
| GSM6038403 |
Experiment 2, Non-vaccinated animal 5, 5dpi, lung sample for bulk RNA-seq |
| GSM6038404 |
Experiment 2, 2xattenuated vaccinated animal 1, 5dpi, lung sample for bulk RNA-seq |
| GSM6038405 |
Experiment 2, 2xattenuated vaccinated animal 2, 5dpi, lung sample for bulk RNA-seq |
| GSM6038406 |
Experiment 2, 2xattenuated vaccinated animal 3, 5dpi, lung sample for bulk RNA-seq |
| GSM6038407 |
Experiment 2, 2xattenuated vaccinated animal 4, 5dpi, lung sample for bulk RNA-seq |
| GSM6038408 |
Experiment 2, 2xattenuated vaccinated animal 5, 5dpi, lung sample for bulk RNA-seq |
| GSM6038409 |
Experiment 2, 2xAdenovirus vaccinated animal 1, 5dpi, lung sample for bulk RNA-seq |
| GSM6038410 |
Experiment 2, 2xAdenovirus vaccinated animal 2, 5dpi, lung sample for bulk RNA-seq |
| GSM6038411 |
Experiment 2, 2xAdenovirus vaccinated animal 3, 5dpi, lung sample for bulk RNA-seq |
| GSM6038412 |
Experiment 2, 2xAdenovirus vaccinated animal 4, 5dpi, lung sample for bulk RNA-seq |
| GSM6038413 |
Experiment 2, 2xAdenovirus vaccinated animal 5, 5dpi, lung sample for bulk RNA-seq |
| GSM6038414 |
Experiment 2, 2xmRNA vaccinated animal 1, 5dpi, lung sample for bulk RNA-seq |
| GSM6038415 |
Experiment 2, 2xmRNA vaccinated animal 2, 5dpi, lung sample for bulk RNA-seq |
| GSM6038416 |
Experiment 2, 2xmRNA vaccinated animal 3, 5dpi, lung sample for bulk RNA-seq |
| GSM6038417 |
Experiment 2, 2xmRNA vaccinated animal 4, 5dpi, lung sample for bulk RNA-seq |
| GSM6038418 |
Experiment 2, 2xmRNA vaccinated animal 5, 5dpi, lung sample for bulk RNA-seq |
| GSM6038419 |
Experiment 2, mRNA/attenuated vaccinated animal 1, 5dpi, lung sample for bulk RNA-seq |
| GSM6038420 |
Experiment 2, mRNA/attenuated vaccinated animal 2, 5dpi, lung sample for bulk RNA-seq |
| GSM6038421 |
Experiment 2, mRNA/attenuated vaccinated animal 3, 5dpi, lung sample for bulk RNA-seq |
| GSM6038422 |
Experiment 2, mRNA/attenuated vaccinated animal 4, 5dpi, lung sample for bulk RNA-seq |
| GSM6038423 |
Experiment 2, mRNA/attenuated vaccinated animal 5, 5dpi, lung sample for bulk RNA-seq |
| GSM6038424 |
Experiment 2, CellPlex_Pool1_part1 |
| GSM6038425 |
Experiment 2, GEX_Pool1_part1 |
| GSM6038426 |
Experiment 2, CellPlex_Pool1_part2 |
| GSM6038427 |
Experiment 2, GEX_Pool1_part2 |
| GSM6038428 |
Experiment 2, CellPlex_Pool2_part1 |
| GSM6038429 |
Experiment 2, GEX_Pool2_part1 |
| GSM6038430 |
Experiment 2, CellPlex_Pool2_part2 |
| GSM6038431 |
Experiment 2, GEX_Pool2_part2 |
| GSM6038432 |
Experiment 2, CellPlex_Pool2_part3 |
| GSM6038433 |
Experiment 2, GEX_Pool2_part3 |
| GSM6038434 |
Experiment 2, CellPlex_Pool3_part1 |
| GSM6038435 |
Experiment 2, GEX_Pool3_part1 |
| GSM6038436 |
Experiment 2, CellPlex_Pool3_part2 |
| GSM6038437 |
Experiment 2, GEX_Pool3_part2 |
| GSM6038438 |
Experiment 2, CellPlex_Pool3_part3 |
| GSM6038439 |
Experiment 2, GEX_Pool3_part3 |
| GSM6038440 |
Experiment 2, CellPlex_Pool4_part1 |
| GSM6038441 |
Experiment 2, GEX_Pool4_part1 |
| GSM6038442 |
Experiment 2, CellPlex_Pool4_part2 |
| GSM6038443 |
Experiment 2, GEX_Pool4_part2 |
| GSM6038444 |
Experiment 2, CellPlex_Pool5_part1 |
| GSM6038445 |
Experiment 2, GEX_Pool5_part1 |
| GSM6038446 |
Experiment 2, CellPlex_Pool5_part2 |
| GSM6038447 |
Experiment 2, GEX_Pool5_part2 |
| GSM6038448 |
Experiment 2, CellPlex_Pool5_part3 |
| GSM6038449 |
Experiment 2, GEX_Pool5_part3 |
| GSM6038450 |
Experiment 2, CellPlex_Pool6_part1 |
| GSM6038451 |
Experiment 2, GEX_Pool6_part1 |
| GSM6038452 |
Experiment 2, CellPlex_Pool6_part2 |
| GSM6038453 |
Experiment 2, GEX_Pool6_part2 |
| GSM6038454 |
Experiment 2, CellPlex_Pool6_part3 |
| GSM6038455 |
Experiment 2, GEX_Pool6_part3 |
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| Relations |
| BioProject |
PRJNA825496 |
| SRA |
SRP369463 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE200596_MesAurJ_rev3_ext_S2.gtf.gz |
13.3 Mb |
(ftp)(http) |
GTF |
| GSE200596_RAW.tar |
437.1 Mb |
(http)(custom) |
TAR (of H5) |
| GSE200596_ewyler_hamstervacc_single-cell_metadata_v2.xlsx |
19.3 Kb |
(ftp)(http) |
XLSX |
| GSE200596_exp1_lung_combined_integrated_annotated.rds.gz |
1.6 Gb |
(ftp)(http) |
RDS |
| GSE200596_exp1_nasal_combined_integrated_annotated.rds.gz |
754.1 Mb |
(ftp)(http) |
RDS |
| GSE200596_exp2_blood_Bcells.rds.gz |
264.8 Mb |
(ftp)(http) |
RDS |
| GSE200596_exp2_blood_Tcells.rds.gz |
138.4 Mb |
(ftp)(http) |
RDS |
| GSE200596_exp2_blood_combined_integrated_annotated.rds.gz |
1.0 Gb |
(ftp)(http) |
RDS |
| GSE200596_exp2_lung_Bcells.rds.gz |
170.9 Mb |
(ftp)(http) |
RDS |
| GSE200596_exp2_lung_Tcells.rds.gz |
187.4 Mb |
(ftp)(http) |
RDS |
| GSE200596_exp2_lung_combined_integrated_annotated.rds.gz |
1.6 Gb |
(ftp)(http) |
RDS |
| GSE200596_exp2_nasal_combined_integrated_annotated.rds.gz |
472.2 Mb |
(ftp)(http) |
RDS |
| GSE200596_h5_exp1.tar.gz |
186.7 Mb |
(ftp)(http) |
TAR |
| GSE200596_h5_exp2.tar.gz |
235.1 Mb |
(ftp)(http) |
TAR |
| GSE200596_reads2d_counts.txt.gz |
1.1 Mb |
(ftp)(http) |
TXT |
| GSE200596_reads5d_counts.txt.gz |
1000.4 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
| Processed data are available on Series record |
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