PC.3 (Orf1a:R287G) got N:R204Q (76, >10 Places including Honduras, el Salvador, Mexico, Guatemala ) likely emerged in Central America, with a branch defined by a rare mutation PLPro_Q30L = Orf1a:Q1593L (24, 4 Places)

[FedeGueli]

Transferred from sars-cov-2-variants/lineage-proposals#2422

We were tracking this LF.7.2.1 branch with samples from three different Central American Countries and a good spread in US
It has a mutation at N:R204 but differently from XEC it has mutated it to Q

PC.3 [LF.7.2.1+Orf1a:R287G (A1124G)] > N:R204Q (G28884A)
Query:A1124G,G28884A,T20799C
Samples: 74
Places: Honduras, El Salvador, Mexico, Puerto Rico, US(8 States), Canada(3 States), Italy, Spain

With a sub-branch with a rare PLPRO mutation PLPro_Q30L (Orf1a:Q1593L)
Query:A5043T,T3565C
Samples: 22
Place: El Salvador (GBW), US (4 States), Italy

Tree:
https://nextstrain.org/fetch/genome.ucsc.edu/trash/hgPhyloPlace/subtreeAuspice1_genome_258cf0_36b360.json?label=id:node_7158849

IDs:

EPI_ISL_19611243, EPI_ISL_19611262, EPI_ISL_19632474,
EPI_ISL_19632584, EPI_ISL_19638623, EPI_ISL_19650930,
EPI_ISL_19660310, EPI_ISL_19660358, EPI_ISL_19677884,
EPI_ISL_19678333, EPI_ISL_19679139, EPI_ISL_19699395,
EPI_ISL_19699440, EPI_ISL_19703687, EPI_ISL_19704117,
EPI_ISL_19715474, EPI_ISL_19716572-19716573, EPI_ISL_19716939,
EPI_ISL_19716952, EPI_ISL_19716966, EPI_ISL_19717007,
EPI_ISL_19717015, EPI_ISL_19717058, EPI_ISL_19717108,
EPI_ISL_19719227, EPI_ISL_19722073, EPI_ISL_19722082,
EPI_ISL_19722148, EPI_ISL_19724632, EPI_ISL_19724709,
EPI_ISL_19735239, EPI_ISL_19735272, EPI_ISL_19735304,
EPI_ISL_19746869, EPI_ISL_19746895, EPI_ISL_19746934,
EPI_ISL_19747090, EPI_ISL_19749719, EPI_ISL_19749860,
EPI_ISL_19753241, EPI_ISL_19758585-19758586, EPI_ISL_19759370,
EPI_ISL_19759373, EPI_ISL_19760562, EPI_ISL_19765160,
EPI_ISL_19772127, EPI_ISL_19772168, EPI_ISL_19772678,
EPI_ISL_19778686, EPI_ISL_19782161, EPI_ISL_19782182,
EPI_ISL_19784046, EPI_ISL_19792918, EPI_ISL_19799545,
EPI_ISL_19799702, EPI_ISL_19799877, EPI_ISL_19802191-19802192,
EPI_ISL_19802320, EPI_ISL_19802543, EPI_ISL_19802582,
EPI_ISL_19803251, EPI_ISL_19804509, EPI_ISL_19807308,
EPI_ISL_19808077, EPI_ISL_19808171, EPI_ISL_19811873,
EPI_ISL_19822302, EPI_ISL_19827996, EPI_ISL_19843138,
EPI_ISL_19852745-19852746

[FedeGueli]

+1 GBW from El Salvador in the Orf1a:Q1593L (= PLPRO_Q30L) branch, but it is not caught by the query

[FedeGueli]

+2 Guatemala

[xz-keg]

designated PC.3.1