Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

RNA-seq time-course of Calu-3 cells infected with SARS-CoV-2 early-lineage and Alpha variant viruses

ABSTRACT: Emergence of SARS-CoV-2 variants of concern (VOCs), including the globally successful Alpha (B.1.1.7) variant, suggests viral adaptation to enhance human-to-human transmission. Although much effort has focused on characterisation of spike changes, Alpha mutations outside spike likely contribute to adaptation. Here we used RNAseq as well as viral replication assays to show that Alpha isolates more effectively suppress innate immune responses (ISGs as assessed by RNA) in airway epithelial cells, compared to first wave isolates. We found that Alpha has dramatically increased subgenomic RNA and protein levels of N, Orf9b and Orf6, all known innate immune antagonists.

INSTRUMENT(S): Illumina NovaSeq 6000

ORGANISM(S): Homo sapiens

SUBMITTER: Mehdi Bouhaddou

PROVIDER: E-MTAB-11275 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Evolution of enhanced innate immune evasion by the SARS-CoV-2 B.1.1.7 UK variant.

Thorne Lucy G LG Bouhaddou Mehdi M Reuschl Ann-Kathrin AK Zuliani-Alvarez Lorena L Polacco Ben B Pelin Adrian A Batra Jyoti J Whelan Matthew V X MVX Ummadi Manisha M Rojc Ajda A Turner Jane J Obernier Kirsten K Braberg Hannes H Soucheray Margaret M Richards Alicia A Chen Kuei-Ho KH Harjai Bhavya B Memon Danish D Hosmillo Myra M Hiatt Joseph J Jahun Aminu A Goodfellow Ian G IG Fabius Jacqueline M JM Shokat Kevan K Jura Natalia N Verba Klim K Noursadeghi Mahdad M Beltrao Pedro P Swaney Danielle L DL Garcia-Sastre Adolfo A Jolly Clare C Towers Greg J GJ Krogan Nevan J NJ

bioRxiv : the preprint server for biology 20210607

Emergence of SARS-CoV-2 variants, including the globally successful B.1.1.7 lineage, suggests viral adaptations to host selective pressures resulting in more efficient transmission. Although much effort has focused on Spike adaptation for viral entry and adaptive immune escape, B.1.1.7 mutations outside Spike likely contribute to enhance transmission. Here we used unbiased abundance proteomics, phosphoproteomics, mRNA sequencing and viral replication assays to show that B.1.1.7 isolates more eff ...[more]

PMID: 34127972

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Dataset Information

RNA-seq time-course of Calu-3 cells infected with SARS-CoV-2 early-lineage and Alpha variant viruses

Publications

Evolution of enhanced innate immune evasion by the SARS-CoV-2 B.1.1.7 UK variant.

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