New lineage proposal for B.1.1.74 with multiple spike mutations

[erikalmecdc]

New lineage proposal for B.1.1.74 with multiple spike mutations
by Erik Alm

Description
Sub-lineage of: B.1.1.74
Earliest sequence: 2021-01-07
Most recent sequence: 2021-02-07
Countries circulating: Nigeria, UK, USA

Multiple spike mutations and NSP6 deletion commonly seen in VOCs compared to ancestral lineage, already spread to multiple countries.
Spike D614G, Spike D796H, Spike E484K, Spike P681H, Spike T95I, Spike Y144del
NSP6 106-108del

Evidence, see
new lineage.txt
attachments

Proposed lineage name: Q.1

[rambaut]

Looks good, thanks Erik. Will wait for Áine to confirm.

[rambaut]

Can confirm the lineage but I don't think B.1.1.74 is the correct parent.

I think this should just be a sublineage of B.1.1

[rambaut]

An expanded list of taxa (as of 2021-02-21):
B.1.1.X_Nigeria_UK_E484K_P681H_Y144del_nsp6del.taxa.txt

[rambaut]

Defining mutations:

ORF1ab:	K2511N
	T2936I
	A9891V
	T3284I
	11288-11296 SGFdel
	V6772M
		
spike:	T95I
	21991-21993	Y144del
	E484K
T23287C	
	P681H
	D796H
C24382T
C25276A

M:	I82T

ORF8:	27886-27900del deletes MK at start of ORF8 and frameshift
G28209T

N:	28896-28900del AR->G

[aineniamh]

Now designated as B.1.1.318, tagged in release 1.0.7. Thanks @erikalmecdc for flagging the lineage!