Update with clade definitions with WHO VOCs/VOIs

This adds 5 new clade definitions drawing from WHO labelled VOCs and VOIs (https://www.who.int/en/activities/tracking-SARS-CoV-2-variants/). Additionally, previous VOCs labeled as "501Y.V1", "501Y.V2" and "501Y.V3" have been updated to use WHO shorthand, eg "20H (Beta, V2)".
nextstrain · Jun 3, 2021 · 67ae3c2 · 67ae3c2
1 parent bbaf167
commit 67ae3c2
Showing 1 changed file with 59 additions and 28 deletions.
diff --git a/defaults/clades.tsv b/defaults/clades.tsv
@@ -49,31 +49,62 @@ clade	gene	site	alt
 20G	nuc	28472	T
 20G	nuc	28869	T
 
-20H/501Y.V2	nuc	1059	T
-20H/501Y.V2	nuc	8782	C
-20H/501Y.V2	nuc	14408	T
-20H/501Y.V2	nuc	23403	G
-20H/501Y.V2	nuc	25563	T
-20H/501Y.V2	nuc	23063	T
-20H/501Y.V2	nuc	23012	A
-
-20I/501Y.V1	nuc	8782	C
-20I/501Y.V1	nuc	14408	T
-20I/501Y.V1	nuc	23403	G
-20I/501Y.V1	nuc	28881	A
-20I/501Y.V1	nuc	28882	A
-20I/501Y.V1	nuc	23063	T
-20I/501Y.V1	nuc	14676	T
-20I/501Y.V1	nuc	15279	T
-
-20J/501Y.V3	nuc	733	C
-20J/501Y.V3	nuc	2749	T
-20J/501Y.V3	nuc	3828	T
-20J/501Y.V3	nuc	5648	C
-20J/501Y.V3	nuc	12778	T
-20J/501Y.V3	nuc	13860	T
-
-21A	nuc	22917	G
-21A	nuc	27638	C
-21A	nuc	28881	T
-21A	nuc	29402	T
+20H (Beta, V2)	nuc	1059	T
+20H (Beta, V2)	nuc	8782	C
+20H (Beta, V2)	nuc	14408	T
+20H (Beta, V2)	nuc	23403	G
+20H (Beta, V2)	nuc	25563	T
+20H (Beta, V2)	nuc	23063	T
+20H (Beta, V2)	nuc	23012	A
+
+20I (Alpha, V1)	nuc	8782	C
+20I (Alpha, V1)	nuc	14408	T
+20I (Alpha, V1)	nuc	23403	G
+20I (Alpha, V1)	nuc	28881	A
+20I (Alpha, V1)	nuc	28882	A
+20I (Alpha, V1)	nuc	23063	T
+20I (Alpha, V1)	nuc	14676	T
+20I (Alpha, V1)	nuc	15279	T
+
+20J (Gamma, V3)	nuc	733	C
+20J (Gamma, V3)	nuc	2749	T
+20J (Gamma, V3)	nuc	3828	T
+20J (Gamma, V3)	nuc	5648	C
+20J (Gamma, V3)	nuc	12778	T
+20J (Gamma, V3)	nuc	13860	T
+
+21A (Delta)	nuc	22917	G
+21A (Delta)	nuc	22995	A
+21A (Delta)	nuc	24410	A
+21A (Delta)	nuc	27638	C
+21A (Delta)	nuc	28881	T
+21A (Delta)	nuc	29402	T
+
+21B (Kappa)	nuc	17523	T
+21B (Kappa)	nuc	22917	G
+21B (Kappa)	nuc	23012	C
+21B (Kappa)	nuc	27638	C
+21B (Kappa)	nuc	28881	T
+21B (Kappa)	nuc	29402	T
+
+21C (Epsilon)	nuc	17014	T
+21C (Epsilon)	nuc	21600	T
+21C (Epsilon)	nuc	22018	T
+21C (Epsilon)	nuc	22917	G
+
+21D (Eta)	nuc	14407	T
+21D (Eta)	nuc	21717	G
+21D (Eta)	nuc	24224	C
+21D (Eta)	nuc	24748	T
+
+21E (Theta)	nuc	12049	T
+21E (Theta)	nuc	22356	G
+21E (Theta)	nuc	23341	C
+21E (Theta)	nuc	23604	A
+21E (Theta)	nuc	24187	A
+21E (Theta)	nuc	24836	A
+
+21F (Iota)	nuc	16500	C
+21F (Iota)	nuc	20262	G
+21F (Iota)	nuc	21575	T
+21F (Iota)	nuc	22320	G