At the point when an episode happened in a medical care setting, recognizable proof of the causative microorganism and epidemiological examinations should be quick and compelling to permit a focused on contamination control reaction. During viral flare-ups, atomic conclusion techniques as ongoing RT/PCR permit distinguishing the microbe and ultimately the record instance of the episode. In any case, the episode examination should likewise decide groups of patients and the pathway of the scattering of the causative specialist to stop the viral spread. As of recently, Sanger sequencing strategy is utilized to get halfway grouping of viral genome important to distinguish bunches of cases. In any case, numerous specialized restrictions, particularly the limited quantity of viral genome in the natural examples, make this methodology not compelling for the administration of the flare-up. High-throughput sequencing (HTS) innovations give the likelihood to quickly acquire the full succession of microorganism genomes. Prominently entire genome sequencing (WGS) of infections is a useful asset for the improvement of novel medicines and immunizations, for considering infection advancement and hereditary relationship to sicknesses or for following episodes. As of late, HTS has been utilized to research viral episodes in medical care settings (Garvey et al., 2017; Houlihan et al., 2018; Vaughan et al., 2014)⁠. The profundity of the sequencing information and the nature of the acquired groupings make this instrument especially productive in this unique situation. In any case, regardless of the general little size of infection genomes, their sequencing regularly stays troublesome. The limited quantity of infection hereditary material contrast with the host nucleic corrosive reductions viral sequencing yield. Also, one need to manage the trouble that few viral variations coincide in a solitary example, introducing pretty much factor groupings relying upon the characteristic transformation pace of the infection. Every one of these focuses trouble the sequencing and the get together of viral genome. Today, various emergency clinic labs have prompt admittance to HTS strategies however the bioinformatics examination stays troublesome without bioinformatics aptitudes. Thus creating viable and simple to-utilize conventions is another test for the spreading of HTS strategies as instruments to research viral episodes in clinic. Three primary strategies dependent on HTS are as of now utilized for viral entire genome sequencing: metagenomic sequencing, target improvement sequencing and PCR amplicon sequencing, each demonstrating advantages and downsides (Houldcroft et al., 2017)⁠. In metagenomic sequencing, absolute DNA (or potentially RNA) from an example including host yet additionally microorganisms, infections and parasites is separated and sequenced. It is a basic and savvy approach, and it is the lone methodology not needing reference successions. All things being equal, the other two HTS approaches, target advancement and amplicon sequencing, both rely upon reference data to configuration draws or groundworks. The impediment of metagenomic sequencing is that it requires a high sequencing profundity to acquire enough popular genome material. The objective advancement sequencing utilizes infection explicit catch oligonucleotides to advance the viral genome arrangement prior to sequencing. This strategy is more explicit than metagenomics sequencing however suggests greater expenses and a further developed specialized skill for test arrangement. At long last, the PCR amplicon sequencing is a grounded technique comprising in explicit viral genome intensification by PCR prior to sequencing. It is effectively relevant on enormous number of tests in a normal utilize thus sufficient for clinical examples. The PCR enhancement technique, contrasted with the others, is especially applicable for tests containing extremely low popular hereditary material, it presents a few hindrances, however. The succession of the infection of interest must be known and not very factor to be effectively intensified by the arrangement of planned groundworks. A subsequent entanglement is because of the way that the PCR cycles can present some enhancement blunders along the succession which make the gathering step more inclined to botches. At long last, this strategy must be utilized for little genomes in view of the quantity of PCR responses which must be restricted. Another convention dependent on multiplex PCR strategy was as of late presented for infection sequencing (Quick et al., 2017) to get agreement genome arrangements straightforwardly from tests. They demonstrated that the quantities of peruses with metagenomic approaches is regularly low for Zika infection and applied the multiplex PCR technique effectively. This imaginative methodology permits to quickly (1–2 days) acquire an agreement arrangement straightforwardly from clinical examples stacked with as not many as 50 genome duplicates for each response. This technique is of extraordinary interest during flare-up and can likewise be utilized as a reasonable and advantageous strategy in the lab. Notwithstanding, it was not tried for viral genomes bigger than 12 kb. Additionally, the writers likewise presented in this examination a scientific pipeline to acquire the agreement grouping from the arrangement of peruses against a reference succession notwithstanding the total and improved sequencing convention. Submit manuscript at www.longdom.org/submissions/virology-mycology.html or send as an e-mail attachment to the Editorial Office at manuscripts@longdom.org regards Alex john