Abstract:Spring viremia of carp virus (SVCV) is a highly pathogenic pathogen, causing great harm to cyprinid fishes, and has been listed as a notifiable disease by the World Organization for Animal Health. Spring viremia of common carp (Cyprinus carpio) is a viral infectious disease of fish, which is highly concern in the world. The disease has been prevalent in Europe, Asia, and North America. In 2002, Spring Viremia of Carp (SCV) was detected for the first time in China, and spread rapidly throughout the country, posing a huge threat to the carp farming industry in China. It was listed as a second-class animal disease. So far, early, rapid, and accurate diagnosis is still an important means to control its spread and prevalence. At present, most of the commonly used detection of SVCV requires specific amplification equipment and temperature cycles to complete the detection, which is prone to false negatives. It has high requirements for, equipment, and personnel, and a long detection cycle. It is difficult to complete fast and effective daily testing. The recombinase-aided amplification (RAA) is a rapid amplification technique of nucleic acid at constant temperature, which can achieve nucleic acid amplification at constant temperature and is easy to operate. In recent years, it has been reported that regular clustered interspaced short palindromic repeats (CRISPR) and their associated proteins (Cas) systems, such as CRISPR-Cas12 and CRISPR-Cas13, are combined with isothermal amplification technology to detect RNA viruses., to improve the specificity and sensitivity of detection further. The notable characteristics of this technology are constant temperature, fast reaction speed, and miniaturization, and it is suitable for rapid diagnosis and regular monitoring in the field. As an SVC international reference laboratory recognized by WOAH, this research team has been cooperating with the SVC reference laboratory in the UK to carry out the screening, comparison, and optimization of nucleic acid rapid detection. Based on CRISPR/Cas13a system and recombinase-mediated isothermal nucleic acid amplification technology, a group of RAA amplification primers and corresponding crRNA primers were designed for the highly conserved region of SVCV polymerase L gene by aligning the whole gene sequence of SVCV registered on GenBank, and a preliminary RAA-CRISPR/Cas13a detection was established for the rapid detection of SVCV in the field. It can cover 4 different genotypes of SVCV (Ia-Id). According to the detection and verification procedures recommended by the World Organization for Animal Health, it has been confirmed that some of the detection is reproducible, the minimum detection concentration is 115 copies/μL, and it does not cross-react with other pathogens; Through the detection of 60 samples isolated and stored in the laboratory from the monitoring of inbound and outbound aquatic animal diseases, the monitoring of major aquatic animal diseases in my country, and the challenge experiment, the RAA-CRISPR/Cas13a detection results are consistent with real-time fluorescent RT-PCR, nested The results of RT-PCR and virus isolation and culture are consistent, and the diagnostic sensitivity and diagnostic specificity are both 100%; In the same condition, twenty samples were tested in three different laboratories, and the results of the three laboratories were consistent. The results show that the reproducibility of the study is good. This is the first study of SVCV detection using the CRISPR-Cas13a system, which has important practical significance for the rapid diagnosis and prevention of SVCV.