SRX20233823 U12-0007 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568100 U12-0007 U12-0007 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233824 U12-0022 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568099 U12-0022 U12-0022 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233825 U12-0048 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568101 U12-0048 U12-0048 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233826 U12-0049 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568102 U12-0049 U12-0049 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233827 U12-0050 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568103 U12-0050 U12-0050 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233828 U12-0051 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568104 U12-0051 U12-0051 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233829 U12-0053 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568105 U12-0053 U12-0053 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233830 U12-0056 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568106 U12-0056 U12-0056 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233831 U12-0058 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568107 U12-0058 U12-0058 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233832 U12-0059 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568108 U12-0059 U12-0059 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233833 U12-0061 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568109 U12-0061 U12-0061 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233834 U12-0063 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568111 U12-0063 U12-0063 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233835 U12-0023 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568112 U12-0023 U12-0023 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233836 U12-0065 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568110 U12-0065 U12-0065 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233837 U12-0073 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568113 U12-0073 U12-0073 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233838 U12-0080 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568114 U12-0080 U12-0080 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233839 U12-0082 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568115 U12-0082 U12-0082 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233840 U12-0084 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568117 U12-0084 U12-0084 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233841 U12-0086 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568116 U12-0086 U12-0086 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233842 U12-0087 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568119 U12-0087 U12-0087 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233843 U12-0088 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568118 U12-0088 U12-0088 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233844 U12-0089 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568120 U12-0089 U12-0089 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233845 U12-0094 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568121 U12-0094 U12-0094 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233846 U12-0024 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568122 U12-0024 U12-0024 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233847 U12-0095 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568123 U12-0095 U12-0095 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233848 U12-0096 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568124 U12-0096 U12-0096 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233849 U12-0098 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568125 U12-0098 U12-0098 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233850 U12-0100 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568126 U12-0100 U12-0100 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233851 U12-0101 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568127 U12-0101 U12-0101 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233852 U12-0103 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568128 U12-0103 U12-0103 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233853 U12-0105 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568129 U12-0105 U12-0105 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233854 U12-0111 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568132 U12-0111 U12-0111 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233855 U12-0113 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568131 U12-0113 U12-0113 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233856 U12-0114 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568130 U12-0114 U12-0114 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233857 U12-0027 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568133 U12-0027 U12-0027 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233858 U12-0115 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568134 U12-0115 U12-0115 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233859 U12-0128 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568135 U12-0128 U12-0128 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233860 U12-0135 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568136 U12-0135 U12-0135 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233861 U12-0138 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568139 U12-0138 U12-0138 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233862 U12-0142 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568137 U12-0142 U12-0142 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233863 U12-0144 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568138 U12-0144 U12-0144 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233864 U12-0157 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568140 U12-0157 U12-0157 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233865 U12-0160 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568142 U12-0160 U12-0160 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233866 U12-0179 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568141 U12-0179 U12-0179 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233867 U12-0183 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568143 U12-0183 U12-0183 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233868 U12-0029 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568144 U12-0029 U12-0029 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233869 U12-0035 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568146 U12-0035 U12-0035 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233870 U12-0038 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568145 U12-0038 U12-0038 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233871 U12-0044 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568147 U12-0044 U12-0044 WGS VIRAL RNA PCR Illumina HiSeq 4000 SRX20233872 U12-0046 SRP436144 bp0 Library preparation was performed employing the CleanPlex SARS-CoV-2 Research and Surveillance Panel (Paragon Genomics, Inc., Hayward, California, USA) according to the manufacturers instructions. Briefly, total RNA was used for cDNA synthesis and purification. Then, a multiplex PCR with target-specific primers to amplify targets of interest was carried out, covering the entire SARS-CoV-2 genome with a 2-pool design, followed by a digestion reaction that achieves background cleaning by removing nonspecific PCR products. Finally, a PCR reaction with CleanPlex Indexed PCR Primers to amplify and add indexes to the generated. Libraries was conducted. The samples were sequenced for 2X150 cycles ina HiSeq 4000 (Illumina, San Diego, California, USA) at Novogene (Sacramento, California, USA) SRS17568148 U12-0046 U12-0046 WGS VIRAL RNA PCR Illumina HiSeq 4000