Special issue on applied next-generation sequencing in veterinary diagnostic laboratories

Goodman, Laura B.; Lahmers, Kevin K.

doi:10.1177/1040638721995676

Cited by 1 publication

(1 citation statement)

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“…Past reviews describe recent progress and future perspectives on the use of next-generation sequencing (NGS) in veterinary medicine [ 1 , 2 , 3 , 4 , 5 , 6 , 7 , 8 , 9 , 10 ]. Key advances in mammalian NGS-based diagnostics include the adoption of different types of sequencing platforms and the development of specific applications of NGS for the different mammalian hosts common for human and veterinary medicine.…”

Section: Introductionmentioning

confidence: 99%

Next-Generation Sequencing for the Detection of Microbial Agents in Avian Clinical Samples

Afonso,

Afonso

2023

Veterinary Sciences

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Direct-targeted next-generation sequencing (tNGS), with its undoubtedly superior diagnostic capacity over real-time PCR (RT-PCR), and direct-non-targeted NGS (ntNGS), with its higher capacity to identify and characterize multiple agents, are both likely to become diagnostic methods of choice in the future. tNGS is a rapid and sensitive method for precise characterization of suspected agents. ntNGS, also known as agnostic diagnosis, does not require a hypothesis and has been used to identify unsuspected infections in clinical samples. Implemented in the form of multiplexed total DNA metagenomics or as total RNA sequencing, the approach produces comprehensive and actionable reports that allow semi-quantitative identification of most of the agents present in respiratory, cloacal, and tissue samples. The diagnostic benefits of the use of direct tNGS and ntNGS are high specificity, compatibility with different types of clinical samples (fresh, frozen, FTA cards, and paraffin-embedded), production of nearly complete infection profiles (viruses, bacteria, fungus, and parasites), production of “semi-quantitative” information, direct agent genotyping, and infectious agent mutational information. The achievements of NGS in terms of diagnosing poultry problems are described here, along with future applications. Multiplexing, development of standard operating procedures, robotics, sequencing kits, automated bioinformatics, cloud computing, and artificial intelligence (AI) are disciplines converging toward the use of this technology for active surveillance in poultry farms. Other advances in human and veterinary NGS sequencing are likely to be adaptable to avian species in the future.

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