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Arslan S, Garcia FJ, Guo M, Kellinger MW, Kruglyak S, LeVieux JA, Mah AH, Wang H, Zhao J, Zhou C, Altomare A, Bailey J, Byrne MB, Chang C, Chen SX, Cho B, Dennler CN, Dien VT, Fuller D, Kelley R, Khandan O, Klein MG, Kim M, Lajoie BR, Lin B, Liu Y, Lopez T, Mains PT, Price AD, Robertson SR, Taylor-Weiner H, Tippana R, Tomaney AB, Zhang S, Abtahi M, Ambroso MR, Bajari R, Bellizzi AM, Benitez CB, Berard DR, Berti L, Blease KN, Blum AP, Boddicker AM, Bondar L, Brown C, Bui CA, Calleja-Aguirre J, Cappa K, Chan J, Chang VW, Charov K, Chen X, Constandse RM, Damron W, Dawood M, DeBuono N, Dimalanta JD, Edoli L, Elango K, Faustino N, Feng C, Ferrari M, Frankie K, Fries A, Galloway A, Gavrila V, Gemmen GJ, Ghadiali J, Ghorbani A, Goddard LA, Guetter AR, Hendricks GL, Hentschel J, Honigfort DJ, Hsieh YT, Hwang Fu YH, Im SK, Jin C, Kabu S, Kincade DE, Levy S, Li Y, Liang VK, Light WH, Lipsher JB, Liu TL, Long G, Ma R, Mailloux JM, Mandla KA, Martinez AR, Mass M, McKean DT, Meron M, Miller EA, Moh CS, Moore RK, Moreno J, Neysmith JM, Niman CS, Nunez JM, Ojeda MT, Ortiz SE, Owens J, Piland G, Proctor DJ, Purba JB, Ray M, Rong D, Saade VM, Saha S, Tomas GS, Scheidler N, Sirajudeen LH, Snow S, Stengel G, Stinson R, Stone MJ, Sundseth KJ, Thai E, Thompson CJ, Tjioe M, Trejo CL, Trieger G, Truong DN, Tse B, Voiles B, Vuong H, Wong JC, Wu CT, Yu H, Yu Y, Yu M, Zhang X, Zhao D, Zheng G, He M, Previte M. Sequencing by avidity enables high accuracy with low reagent consumption. Nat Biotechnol 2024; 42:132-138. [PMID: 37231263 DOI: 10.1038/s41587-023-01750-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/15/2022] [Accepted: 03/15/2023] [Indexed: 05/27/2023]
Abstract
We present avidity sequencing, a sequencing chemistry that separately optimizes the processes of stepping along a DNA template and that of identifying each nucleotide within the template. Nucleotide identification uses multivalent nucleotide ligands on dye-labeled cores to form polymerase-polymer-nucleotide complexes bound to clonal copies of DNA targets. These polymer-nucleotide substrates, termed avidites, decrease the required concentration of reporting nucleotides from micromolar to nanomolar and yield negligible dissociation rates. Avidity sequencing achieves high accuracy, with 96.2% and 85.4% of base calls having an average of one error per 1,000 and 10,000 base pairs, respectively. We show that the average error rate of avidity sequencing remained stable following a long homopolymer.
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Affiliation(s)
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | - Bill Lin
- Element Biosciences, San Diego, CA, USA
| | - Yu Liu
- Element Biosciences, San Diego, CA, USA
| | | | | | | | | | | | | | | | - Su Zhang
- Element Biosciences, San Diego, CA, USA
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | - Xiyi Chen
- Element Biosciences, San Diego, CA, USA
| | | | | | | | | | | | | | | | | | - Chao Feng
- Element Biosciences, San Diego, CA, USA
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | - Yu Li
- Element Biosciences, San Diego, CA, USA
| | | | | | | | | | | | - Rui Ma
- Element Biosciences, San Diego, CA, USA
| | | | | | | | - Max Mass
- Element Biosciences, San Diego, CA, USA
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | - Ben Tse
- Element Biosciences, San Diego, CA, USA
| | | | | | | | | | - Hua Yu
- Element Biosciences, San Diego, CA, USA
| | | | - Ming Yu
- Element Biosciences, San Diego, CA, USA
| | - Xi Zhang
- Element Biosciences, San Diego, CA, USA
| | - Da Zhao
- Element Biosciences, San Diego, CA, USA
| | | | - Molly He
- Element Biosciences, San Diego, CA, USA
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