Table 1 Tabulation of main results and extent of sequencing data

From: The mutational landscape of SARS-CoV-2 provides new insight into viral evolution and fitness

Variant

Lineage

Cell line

Passages tracked

Replicates tracked

Bases analyzed (×109)

Unique mutations detected

Total # of mutations observed

Mean coverage

Ancestral

USA/WA-CDC-WA1/2020

Vero E6

7

2

24.6

33,072

395,373

274,737

Alpha

B1.1.7/ALPHA/2021

Vero E6

7

2

21.6

27,787

314,886

240,661

Beta

B.1.351/Beta/2021

Vero E6

1

1

1.9

6877

24,508

21,236

Gamma

P.1/Gamma/2021

Vero E6

1

1

0.3

1807

3714

3674

Delta

B1.617.2/Delta/2021

Vero E6

7

2

155.4

64,967

2,747,008

1,733,478

Omicron

B1.1.529/Omicron/2021

Vero E6

1

1

1.2

4442

10,818

13,217

Delta

B1.617.2/Delta/2021

Calu-3

1

1

1.2

6508

20,930

12,933

Delta

B1.617.2/Delta/2021

Primary ALI*

1

1

0.2

1380

5150

2474

  1. In total, we sequenced 6 variants of the COVID-19 virus, with the Delta variant cultured in three cell lines, Vero-E6 cells, Calu-3 cells, and primary HNEC. These strains were tracked over either 7 generations or 1 generation, with either 1 or 2 replicates. In total, we sequenced over 200 billion bases, and detected 3 million mutations.
  2. *Primary HNECs were cultured in an ALI.
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