References
- 1..Pinto M,Dobson S. BK and JC virus: a review. J Infect. 2014;68(Suppl 1):S2-8.
- 2..Mazzoni E,Pellegrinelli E,Mazziotta C,Lanzillotti C,Rotondo JC,Bononi I, et al. Mother-to-child transmission of oncogenic polyomaviruses BKPyV, JCPyV and SV40. J Infect. 2020;80(5):563-70.
- 3..Bauman Y,Nachmani D,Vitenshtein A,Tsukerman P,Drayman N,Stern-Ginossar N, et al. An identical miRNA of the human JC and BK polyoma viruses targets the stress-induced ligand ULBP3 to escape immune elimination. Cell Host Microbe. 2011;9(2):93-102.
- 4..Hirsch HH,Steiger J. Polyomavirus BK. Lancet Infect Dis.2003;3(10):611-23.
- 5..Olson A,Lin R,Marin D,Rafei H,Bdaiwi MH,Thall PF, et al. Third-party BK virus-specific cytotoxic t lymphocyte therapy for hemorrhagic cystitis following allotransplantation. J Clin Oncol. 2021;39(24):2710-9.
- 6..Cortese I,Reich DS,Nath A. Progressive multifocal leukoencepha-lopathy and the spectrum of JC virus-related disease. Nat Rev Neurol.2021;17(1):37-51.
- 7..Cortese I,Muranski P,Enose-Akahata Y,Ha SK,Smith B,Monaco M, et al. Pembrolizumab treatment for progressive multifocal leukoencephalopa-thy. N Engl J Med. 2019;380(17):1597-605.
- 8..Major EO,Yousry TA,Clifford DB. Pathogenesis of progressive multifocal leukoencephalopathy and risks associated with treatments for multiple sclerosis: a decade of lessons learned. Lancet Neurol. 2018;17(5):467-80.
- 9..Seppälä HM,Helanterä IT,Laine PKS,Lautenschlager IT,Paulín LG,Jah-nukainen TJ, et al. Archetype JC polyomavirus (JCPyV) prevails in a rare case of JCPyV nephropathy and in stable renal transplant recipients with JCPyV viruria. J Infect Dis. 2017;216(8):981-9.
- 10..Peretti A,Geoghegan EM,Pastrana DV,Smola S,Feld P,Sauter M, et al.Characterization of BK polyomaviruses from kidney transplant recipients suggests a role for APOBEC3 in driving in-host virus evolution. Cell Host Microbe. 2018;23(5):628-35.e7.
- 11..Hariharan S. BK virus nephritis after renal transplantation. Kidney Int.2006;69(4):655-62.
- 12..Brennan DC,Agha I,Bohl DL,Schnitzler MA,Hardinger KL,Lockwood M, et al. Incidence of BK with tacrolimus versus cyclosporine and impact of preemptive immunosuppression reduction. Am J Transplant.2005;5(3):582-94.
- 13..Tan CS,Koralnik IJ. Progressive multifocal leukoencephalopathy and other disorders caused by JC virus: clinical features and pathogenesis. Lancet Neurol. 2010;9(4):425-37.
- 14..Hirsch HH,Knowles W,Dickenmann M,Passweg J,Klimkait T,Mihatsch MJ, et al. Prospective study of polyomavirus type BK replication and nephropathy in renal-transplant recipients. N Engl J Med.2002;347(7):488-96.
- 15..Nankivell BJ,Renthawa J,Shingde M,Khan A. The importance of kidney medullary tissue for the accurate diagnosis of BK virus allograft nephrop-athy. Clin J Am Soc Nephrol. 2020;15(7):1015-23.
- 16..Li C,Hughes C,Ding R,Snopkowski C,Salinas T,Schwartz J, et al. Develop-ment of a Bak gene based standard curve for absolute quantification of BK virus in real time quantitative PCR assay and noninvasive diagnosis of BK virus nephropathy in kidney allograft recipients. J Immunol Methods.2022;509:113341.
- 17..Bateman AC,Greninger AL,Atienza EE,Limaye AP,Jerome KR,Cook L.Quantification of BK virus standards by quantitative real-time PCR and droplet digital PCR is confounded by multiple virus populations in the WHO BKV international standard. Clin Chem. 2017;63(3):761-9.
- 18..Kevadiya BD,Machhi J,Herskovitz J,Oleynikov MD,Blomberg WR,Bajwa N, et al. Diagnostics for SARS-CoV-2 infections. Nat Mater.2021;20(5):593-605.
- 19..Lobato IM,O’sullivan CK. Recombinase polymerase amplification: basics, applications and recent advances. Trends Analyt Chem. 2018;98:19-35.
- 20..Hun X,Meng Y. Electron acceptors co-regulated self-powered photo-electrochemical strategy and its application for circulating tumor nucleic acid detection coupled with recombinase polymerase amplification. Anal Chem. 2020;92(17):11771-8.
- 21..Yin W,Zhuang J,Li J,Xia L,Hu K,Yin J, et al. Digital recombinase polymer-ase amplification, digital loop-mediated isothermal amplification, and digital CRISPR-Cas assisted assay: current status, challenges, and perspec-tives. Small. 2023;19(49):e2303398.
- 22..Tomar S,Lavickova B,Guiducci C. Recombinase polymerase amplification in minimally buffered conditions. Biosens Bioelectron. 2022;198:113802.
- 23..Patchsung M,Jantarug K,Pattama A,Aphicho K,Suraritdechachai S,Mee-sawat P, et al. Clinical validation of a Cas13-based assay for the detection of SARS-CoV-2 RNA. Nat Biomed Eng. 2020;4(12):1140-9.
- 24..Gootenberg JS,Abudayyeh OO,Lee JW,Essletzbichler P,Dy AJ,Joung J, et al. Nucleic acid detection with CRISPR-Cas13a/C2c2. Science.2017;356(6336):438-42.
- 25..Chen JS,Ma E,Harrington LB,Da Costa M,Tian X,Palefsky JM, et al.CRISPR-Cas12a target binding unleashes indiscriminate single-stranded DNase activity. Science. 2018;360(6387):436-9.
- 26..Gootenberg JS,Abudayyeh OO,Kellner MJ,Joung J,Collins JJ,Zhang F.Multiplexed and portable nucleic acid detection platform with Cas13, Cas12a, and Csm6. Science. 2018;360(6387):439-44.
- 27..Fan XW,Gao ZF,Ling DD,Wang DH,Cui Y,Du HQ, et al. CRISPR/Cas9 nickase mediated signal amplification integrating with the trans-cleavage activity of Cas12a for highly selective and sensitive detection of single base mutations. Mil Med Res. 2024;11(1):25.
- 28..Li ZH,Wang J,Xu JP,Wang J,Yang X. Recent advances in CRISPR-based genome editing technology and its applications in cardiovascular research. Mil Med Res. 2023;10(1):12.
- 29..Zhou S,Dong J,Deng L,Wang G,Yang M,Wang Y, et al. Endonuclease-assisted PAM-free recombinase polymerase amplification coupling with CRISPR/Cas12a (E-PfRPA/Cas) for sensitive detection of DNA methylation.ACS Sens. 2022;7(10):3032-40.
- 30..Kaminski MM,Alcantar MA,Lape IT,Greensmith R,Huske AC,Valeri JA, et al. A CRISPR-based assay for the detection of opportunistic infections post-transplantation and for the monitoring of transplant rejection. Nat Biomed Eng. 2020;4(6):601-9.
- 31..Liu Y,Xu J,Chen X,Yang S,Li J,Zhou H, et al. Digital CRISPR/Cas13a-RPA based assay for rapid and sensitive detection of JC virus in renal trans-plant patients. Microchem J. 2024;196:109655.
- 32..Decaprio JA,Garcea RL. A cornucopia of human polyomaviruses. Nat Rev Microbiol. 2013;11(4):264-76.
- 33..Tzannou I,Papadopoulou A,Naik S,Leung K,Martinez CA,Ramos CA, et al. Off-the-shelf virus-specific T cells to treat BK virus, human herpes-virus 6, cytomegalovirus, Epstein-Barr virus, and adenovirus infections after allogeneic hematopoietic stem-cell transplantation. J Clin Oncol.2017;35(31):3547-57.
- 34..Wekerle T,Segev D,Lechler R,Oberbauer R. Strategies for long-term preservation of kidney graft function. Lancet. 2017;389(10084):2152-62.
- 35..Sumida K,Nadkarni GN,Grams ME,Sang Y,Ballew SH,Coresh J, et al.Conversion of urine protein-creatinine ratio or urine dipstick protein to urine albumin-creatinine ratio for use in chronic kidney disease screening and prognosis: an individual participant-based meta-analysis. Ann Intern Med. 2020;173(6):426-35.
- 36..Abdou Mohamed MA,Kozlowski HN,Kim J,Zagorovsky K,Kantor M,Feld JJ, et al. Diagnosing antibiotic resistance using nucleic acid enzymes and gold nanoparticles. ACS Nano. 2021;15(6):9379-90.
- 37..Daunay A,Duval A,Baudrin LG,Buhard O,Renault V,Deleuze JF, et al.Low temperature isothermal amplification of microsatellites drastically reduces stutter artifact formation and improves microsatellite instability detection in cancer. Nucleic Acids Res. 2019;47(21):e141.
- 38..Mohsen MG,Kool ET. The discovery of rolling circle amplification and rolling circle transcription. Acc Chem Res. 2016;49(11):2540-50.
- 39..Soares RRG,Madaboosi N,Nilsson M. Rolling circle amplification in inte-grated microsystems: an uncut gem toward massively multiplexed path-ogen diagnostics and genotyping. Acc Chem Res. 2021;54(21):3979-90.
- 40..Ludwig KU,Schmithausen RM,Li D,Jacobs ML,Hollstein R,Blumenstock K, et al. LAMP-seq enables sensitive, multiplexed COVID-19 diagnostics using molecular barcoding. Nat Biotechnol. 2021;39(12):1556-62.
- 41..Song M,Hong S,Lee LP. Multiplexed ultrasensitive sample-to-answer RT-LAMP chip for the identification of SARS-CoV-2 and influenza viruses. Adv Mater. 2023;35(10):e2207138.
- 42..Bi S,Yue S,Zhang S. Hybridization chain reaction: a versatile molecu-lar tool for biosensing, bioimaging, and biomedicine. Chem Soc Rev.2017;46(14):4281-98.
- 43..Arshad F,Abdillah AN,Shivanand P,Ahmed MU. CeO2 nanozyme medi-ated RPA/CRISPR-Cas12a dual-mode biosensor for detection of invA gene in Salmonella. Biosens Bioelectron. 2024;247:115940.
- 44..Lin C,Chen F,Huang D,Li W,He C,Tang Y, et al. A universal all-in-one RPA-Cas12a strategy with de novo autodesigner and its application in on-site ultrasensitive detection of DNA and RNA viruses. Biosens Bioelectron.2023;239:115609.
- 45..Ahamed MA,Khalid MaU,Dong M,Politza AJ,Zhang Z,Kshirsagar A, et al. Sensitive and specific CRISPR-Cas12a assisted nanopore with RPA for Monkeypox detection. Biosens Bioelectron. 2024;246:115866.
- 46..Deng R,Zhang K,Li J. Isothermal amplification for microRNA detection:from the test tube to the cell. Acc Chem Res. 2017;50(4):1059-68.
- 47..Nyaruaba R,Mwaliko C,Dobnik D,Neužil P,Amoth P,Mwau M, et al.Digital PCR applications in the SARS-CoV-2/COVID-19 era: a roadmap for future outbreaks. Clin Microbiol Rev. 2022;35(3):e0016821.
- 48..Albayrak C,Jordi CA,Zechner C,Lin J,Bichsel CA,Khammash M, et al.Digital quantification of proteins and mRNA in single mammalian cells.Mol Cell. 2016;61(6):914-24.
- 49..Tian T,Shu B,Jiang Y,Ye M,Liu L,Guo Z, et al. An ultralocalized Cas13a assay enables universal and nucleic acid amplification-free single-mole-cule RNA diagnostics. ACS Nano. 2021;15(1):1167-78.
- 50..Zhao Y,Chen D,Xu Z,Li T,Zhu J,Hu R, et al. Integrating CRISPR-Cas12a into a microfluidic dual-droplet device enables simultaneous detection of HPV16 and HPV18. Anal Chem. 2023;95(6):3476-85.
- 51..Jin Z,Dong Z,Zhao X,Hang X,Lu Y,Zhang Q, et al. Sensitive, rapid detection of NCOA4-m6A towards precisely quantifying radiation dosage on a Cas13a-microdroplet platform. Biosens Bioelectron. 2023;242:115753.
- 52..Su G,Zhu M,Li D,Xu M,Zhu Y,Zhang Y, et al. Multiplexed lateral flow assay integrated with orthogonal CRISPR-Cas system for SARS-CoV-2 detection. Sens Actuators B Chem. 2022;371:132537.

