XFF: Possible recombinant of MZ.4 (JN.1.67.1* +S:K478T rev) and LB.1.3* (8 seqs in China, Sichuan)

[HynnSpylor]

Recombinant of: LB.1.3* (JN.1.9.2.1.3*) and MZ.4(JN.1.67.1* + 478T)
Possbile Breakpoint: S:346-S:478 (nuc:22599-22995, Before = LB.1.3*, After = JN.1.67.1*)
Earliest sequence: 2024-10-22 (Wuhan, Hubei, China-EPI_ISL_19529649)
Most recent sequence: 2024-12-31 (Neijiang, Sichuan, China-EPI_ISL_19673795)
Countries circulating: China (6, including Sichuan 5, Hubei 1)
GISAID Nucleotide Query: C18131T, G26660T, A29408G

Usher Tree:

https://nextstrain.org/fetch/genome.ucsc.edu/trash/hgPhyloPlace/subtreeAuspice1_genome_330ab3_c58920.json

Sichuan branch further gets S:A435S.
The precise breakpoint is uncertain. As usher tree shows, the JN.1.67.1* has a branch of S:K478T rev and widely spread in China (once proposed in #2079 ), thus I suppose the donor of S:K478T rev is from JN.1.67.1*.

the S:435S subbranch recently emerges in Sichuan, China. despite without some effective mutations as S:T22N/S:Q493E, the recombinant may still worth tracking.

[FedeGueli]

great catch thx

[Over-There-Is]

Hubei/HCDC-WH7475/2024|EPI_ISL_19529649|2024-10-22 was placed on LB.1.3> C29362T> A7432C, C13207A, A22995C, G25352T, T26171C, G26660T, A29408G at first.
Mutations base on JN.1:
C18131T, del21653-21655, G22111T, G22599C / T22928C, A22995C, G25352T, T26171C, G26660T, C29362T, A29408G

The donor should be JN.1.67.1> G1126A> A22995C, A29408G> C29362T> T26171C> G25352T. (G4162A, G25352T, C29362T 7)

[Over-There-Is]

It got S:31del from LB.1.3 too.

[Over-There-Is]

+2, still in Neijiang

[Over-There-Is]

XFF

[FedeGueli]

Designated XFF via cov-lineages/pango-designation@577670c

[FedeGueli]

+2 Liaoning