diff --git a/lineage_notes.txt b/lineage_notes.txt index 50ee9e41..1137c922 100644 --- a/lineage_notes.txt +++ b/lineage_notes.txt @@ -2725,6 +2725,7 @@ XBB.1.32 Defined by ORF1a:E148D, Philippines XBB.1.33 Defined by S:A376T, found mainly in Italy, from pango-designation issue #1879 XBB.1.34 Defined by S:681R, found mainly in USA and UK, from pango-designation issue #1621 XBB.1.35 ORF1a:V89A, Indonesia +XBB.1.36 Defined by S:S490P, found mainly in Malaysia, Indonesia and Singapore, from pango-designation issue #1781 XBB.2 Defined by S:D253G, from issue #1173 XBB.2.1 Defined by S:N764R (C23853G), two step mutation on top of C23854A (S:N764K defining of all Omicrons) XBB.2.2 Defined by S:Q613H diff --git a/lineages.csv b/lineages.csv index 385344cc..943b09c6 100644 --- a/lineages.csv +++ b/lineages.csv @@ -2319353,7 +2319353,7 @@ USA/TX-CDC-STM-CJ79HFWBN/2022,XBB.1 USA/TX-HHD-2301123636/2023,XBB.1 Australia/VIC80744/2023,XBB.1 USA/CA-LACPHL-AF18750/2022,XBB.1 -Indonesia/JK-GS-GSILab-1147488/2023,XBB.1 +Indonesia/JK-GS-GSILab-1147488/2023,XBB.1.36 Singapore/13601/2022,XBB.1 England/PHEC-YY8TFAY/2022,XBB.1 France/IDF-LBZCentre-J2211170125/2022,XBB.1 @@ -2320870,7 +2320870,7 @@ Brazil/CE-NVBS26149GENOV852189695917/2022,XBB.1 Belgium/ZNA_25945368/2022,XBB.1 USA/CA-CDC-LC0948117/2022,XBB.1 Pakistan/IDRL-AKU-KHII0195-S3/2023,XBB.1 -Denmark/DCGC-635911/2023,XBB.1 +Denmark/DCGC-635911/2023,XBB.1.36 USA/CA-CCPHL-4509/2023,XBB.1 England/QEUH-326223A6/2022,XBB.1 Bangladesh/IEDCR-1551038/2022,XBB.1 @@ -2321416,7 +2321416,7 @@ Netherlands/NH-AUMC-034482/2022,XBB.1 Finland/THL-20909/2022,XBB.1 Russia/MOW-RII-MH127938S/2023,XBB.1 France/PAC-LBZCentre-I2211210009/2022,XBB.1 -Austria/AGES-1108771/2023,XBB.1 +Austria/AGES-1108771/2023,XBB.1.36 France/ARA-CFD700000325231/2022,XBB.1 Australia/NSW-ICPMR-35867/2022,XBB.1 USA/NJ-CDC-LC0967011/2022,XBB.1 @@ -2321483,7 +2321483,7 @@ USA/NY-PRL-221019_00K08/2022,XBB.1 Japan/RB23-001-28/2022,XBB.1 Sweden/01_SE100_22CS510785/2022,XBB.1 Sweden/14_SE300_DC23-001282/2023,XBB.1 -Malaysia/IMR_LF02560/2023,XBB.1 +Malaysia/IMR_LF02560/2023,XBB.1.36 Austria/AGES-1156374/2022,XBB.1 Australia/NSW-ICPMR-36399/2022,XBB.1 Indonesia/JK-Labkes-WGS-22-174MN/2022,XBB.1 @@ -2322564,7 +2322564,7 @@ Shanghai/SJTU-235986/2022,XBB.1 England/BRBR-326F2758/2023,XBB.1 Denmark/DCGC-633558/2022,XBB.1 Australia/VIC74165/2022,XBB.1 -Singapore/R18MR73/2023,XBB.1 +Singapore/R18MR73/2023,XBB.1.36 Indonesia/JK-NIHRD-UNAND-WGS-22-30096/2022,XBB.1 Russia/SPE-RII-MH123802S/2022,XBB.1 Malaysia/MKAK_CL_22_60607/2022,XBB.1 @@ -2322834,7 +2322834,7 @@ USA/NC-MCPH-CLT-013777/2023,XBB.1 Japan/TKYkbm85143/2023,XBB.1 USA/GA-CDC-STM-WRYV4STWW/2023,XBB.1 USA/NC-CORVASEQ-UNC-8840/2022,XBB.1 -Singapore/R4MR10/2023,XBB.1 +Singapore/R4MR10/2023,XBB.1.36 Indonesia/JK-WJHL-ITB-NIHRD-W04713/2022,XBB.1 Mexico/CMX-LANGEBIO_IMSS_14277/2023,XBB.1 Pakistan/IDRL-0847-S9/2023,XBB.1 @@ -2322940,7 +2322940,7 @@ England/LSPA-32624F37/2022,XBB.1 Malaysia/MKAK_CL_22_69666/2022,XBB.1 Brunei/7722019057/2022,XBB.1 Germany/BB-RKI-I-1080714/2022,XBB.1 -Singapore/R10MR146/2023,XBB.1 +Singapore/R10MR146/2023,XBB.1.36 Indonesia/KB-FKUNTAN-0338/2022,XBB.1 Germany/BE-ChVir-LB-221216-51230/2022,XBB.1 USA/NY-CDC-LC0977981/2022,XBB.1 @@ -2323521,7 +2323521,7 @@ USA/RI-RISHL-E06285/2023,XBB.1 USA/NJ-CDC-LC0979248/2023,XBB.1 USA/VA-CDC-QDX45863083/2023,XBB.1 Israel/SMC-7111413/2023,XBB.1 -Indonesia/JK-NIHRD-UNAND-22-33709/2022,XBB.1 +Indonesia/JK-NIHRD-UNAND-22-33709/2022,XBB.1.36 USA/PA-CDC-STM-2T7G6WQCM/2022,XBB.1 Cambodia/278733/2022,XBB.1 Scotland/SCOT-23611/2022,XBB.1 @@ -2323533,7 +2323533,7 @@ Japan/TKYkbm67608/2022,XBB.1 Bangladesh/IEDCR-1551007/2022,XBB.1 USA/MD-CDC-LC0952966/2022,XBB.1 Guatemala/469-LNS/2023,XBB.1 -Malaysia/IMR_LF02472/2023,XBB.1 +Malaysia/IMR_LF02472/2023,XBB.1.36 India/TN-CDFD-O-108/2022,XBB.1 USA/CA-CDC-LC1000190/2023,XBB.1 Brazil/SC-FIOCRUZ-27689/2022,XBB.1 @@ -2323566,7 +2323566,7 @@ Malaysia/IMR_CV05243/2022,XBB.1 USA/CA-CDC-STM-6SU88T6C3/2022,XBB.1 England/QEUH-3267EF4D/2022,XBB.1 USA/AZ-CDC-LC0950134/2022,XBB.1 -Indonesia/JK-CW62-3889/2023,XBB.1 +Indonesia/JK-CW62-3889/2023,XBB.1.36 Indonesia/JK-NIHRD-W00642/2023,XBB.1 Spain/MD-HGUGM-7446108/2023,XBB.1 Germany/NW-RKI-I-1073903/2022,XBB.1 @@ -2323586,7 +2323586,7 @@ Sweden/YZD193/2022,XBB.1 USA/NC-ECU-CORVASEQ-116225158/2022,XBB.1 Japan/PG-409233/2022,XBB.1 Australia/QLD0x0120C8/2022,XBB.1 -Indonesia/JK-CW62-3680/2022,XBB.1 +Indonesia/JK-CW62-3680/2022,XBB.1.36 Japan/IC-15006/2022,XBB.1 Sweden/14445780X5/2022,XBB.1 Indonesia/JT-Undip-WGS-00234/2022,XBB.1 @@ -2323662,7 +2323662,7 @@ USA/NY-PRL-221213_01J04/2022,XBB.1 Malaysia/IMR_LF01088/2022,XBB.1 Indonesia/JK-NIHRD-W00600/2023,XBB.1 Germany/NW-RKI-I-1035642/2022,XBB.1 -Indonesia/JK-GS-GSILab-1147487/2023,XBB.1 +Indonesia/JK-GS-GSILab-1147487/2023,XBB.1.36 Malaysia/IIUM22283/2022,XBB.1 Ireland/D-NVRL-ecS22IRL00455241/2022,XBB.1 England/LSPA-32621547/2022,XBB.1 @@ -2323693,7 +2323693,7 @@ USA/NJ-CDC-LC0967424/2022,XBB.1 Denmark/DCGC-609627/2022,XBB.1 USA/NY-PRL-221114_01D07/2022,XBB.1 USA/NY-PRL-221216_01D21/2022,XBB.1 -Malaysia/C19UMB3284/2022,XBB.1 +Malaysia/C19UMB3284/2022,XBB.1.36 Mayotte/HCL722004301801/2022,XBB.1 India/KA-ICMR-VRDL-MYS-18999/2022,XBB.1 Denmark/DCGC-624891/2022,XBB.1 @@ -2324279,7 +2324279,7 @@ France/PAC-HCL723000224501/2023,XBB.1 USA/CA-Stanford-129_S12/2023,XBB.1 Bonaire/BQ-RIVM-121118/2022,XBB.1 Belgium/UGent-7670/2022,XBB.1 -Malaysia/IMR_LF02031/2022,XBB.1 +Malaysia/IMR_LF02031/2022,XBB.1.36 Belgium/Briant-12300022001/2023,XBB.1 Mexico/TAM_IBT_IMSS_10308/2022,XBB.1 France/ARA-HCL723000251901/2023,XBB.1 @@ -2324310,7 +2324310,7 @@ Indonesia/JK-NIHRD-UNAND-WGS.22.30134/2022,XBB.1 Guatemala/470-LNS/2023,XBB.1 Denmark/DCGC-625147/2022,XBB.1 England/LSPA-325EB647/2022,XBB.1 -Malaysia/C19UMB3650/2022,XBB.1 +Malaysia/C19UMB3650/2022,XBB.1.36 Malaysia/MGVI_GU0598/2022,XBB.1 Indonesia/JB-NIHRD-ITB-N1924/2022,XBB.1 Indonesia/JT-Undip-00418/2022,XBB.1 @@ -2324322,7 +2324322,7 @@ USA/PA-CDC-QDX46945148/2023,XBB.1 Ecuador/NIC-INSPI-433933/2022,XBB.1 Sweden/49039568X5/2023,XBB.1 USA/PA-CDC-STM-6HVQCVH26/2022,XBB.1 -Malaysia/IMR_LF02474/2023,XBB.1 +Malaysia/IMR_LF02474/2023,XBB.1.36 England/BRBR-326E8342/2023,XBB.1 Bangladesh/IEDCR-1153136/2022,XBB.1 Lithuania/MB221123-0034/2022,XBB.1 @@ -2324331,7 +2324331,7 @@ Guatemala/LNS-10924/2022,XBB.1 USA/NY-UB-CHS-02620/2022,XBB.1 England/PHEC-YY8MFPR/2022,XBB.1 Singapore/17003/2022,XBB.1 -Malaysia/TIDREC-NSC2365/2022,XBB.1 +Malaysia/TIDREC-NSC2365/2022,XBB.1.36 USA/MD-IGS-142304700546A/2023,XBB.1 USA/NY-PRL-221028_01H10/2022,XBB.1 USA/NY-PRL-221209_00F05/2022,XBB.1 @@ -2324584,7 +2324584,7 @@ Russia/SPE-RII-MH125006S/2022,XBB.1 USA/GA-CDC-STM-RPR8UT54R/2022,XBB.1 Russia/SPE-RII-MH123799S/2022,XBB.1 Indonesia/SS-NIHRD-WGS-22-33853/2022,XBB.1 -Singapore/R15MR1/2023,XBB.1 +Singapore/R15MR1/2023,XBB.1.36 Singapore/16991/2022,XBB.1 Australia/VIC73903/2022,XBB.1 Indonesia/JK-NIHRD-WGS-22-37232/2022,XBB.1 @@ -2373500,3 +2373500,29 @@ Australia/SA530017/2023,XBC.1.6.1 Australia/SA530361/2023,XBC.1.6.1 Australia/SA530580/2023,XBC.1.6.1 Australia/SA530290/2023,XBC.1.6.1 +Malaysia/C19UMB3863/2023,XBB.1.36 +Germany/BW-RKI-I-1099371/2023,XBB.1.36 +Malaysia/IMR_LF01858/2022,XBB.1.36 +Singapore/R13MR106/2023,XBB.1.36 +Singapore/R8MR19/2023,XBB.1.36 +Singapore/R11MR132/2023,XBB.1.36 +Indonesia/JK-GS-GSILab-1147175/2023,XBB.1.36 +Malaysia/IMR_LF02527/2023,XBB.1.36 +Indonesia/JK-CW62-3909/2023,XBB.1.36 +Singapore/R6MR33/2023,XBB.1.36 +Malaysia/TIDREC-NSC2510/2022,XBB.1.36 +Singapore/R13MR20/2023,XBB.1.36 +Singapore/R11MR66/2023,XBB.1.36 +Indonesia/JK-CW62-3846/2023,XBB.1.36 +Indonesia/JK-CW62-3787/2022,XBB.1.36 +India/TN-CDFD-N-242/2022,XBB.1.36 +Malaysia/C19UMB3692/2022,XBB.1.36 +Malaysia/C19UMB3391/2022,XBB.1.36 +Malaysia/IMR_LF01922/2022,XBB.1.36 +Indonesia/JK-CW62-3848/2023,XBB.1.36 +Indonesia/JK-NIHRD-W00999/2023,XBB.1.36 +Singapore/R21MR82/2023,XBB.1.36 +Singapore/R19MR8/2023,XBB.1.36 +Singapore/R12MR43/2023,XBB.1.36 +USA/CA-CDPH-500104918/2023,XBB.1.36 +Indonesia/JK-GS-GSILab-1147486/2023,XBB.1.36