Global InformationDegradome sequencing information
Degradome sequencing (Degradome-Seq), [1][2] also referred to as parallel analysis of RNA ends (PARE), is a modified version of 5'-Rapid Amplification of cDNA Ends (RACE) using high-throughput, deep sequencing methods such as Illumina's SBS technology. The degradome encompasses the entire set of proteases that are expressed at a specific time in a given biological material, including tissues, cells, organisms, and biofluids.[3] Thus, sequencing this degradome offers a method for studying and researching the process of RNA degradation. This process is used to identify and quantify RNA degradation products, or fragments, present in any given biological sample.[4] This approach allows for the systematic identification of targets of RNA decay and provides insight into the dynamics of transcriptional and post-transcriptional gene regulation.[4]
Degradome sequencing is a complex process which includes multiple steps such as isolating RNA fragments in a given sample as well as ligation and reverse transcription to form complementary DNA (cDNA) strands.[4] This cDNA can be sequenced, and the results are compared with a transcriptome, or reference genome, in order to determine and characterize the abundance of the RNA fragments identified in this process.[4]
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- ^ Trindade, Fábio; Ferreira, Rita; Amado, Francisco; Vitorino, Rui (2015-01-01), Makowski, Gregory S. (ed.), "Chapter Five - Biofluid Proteases Profiling in Diabetes Mellitus", Advances in Clinical Chemistry, 69, Elsevier: 161–207, doi:10.1016/bs.acc.2014.12.004, PMID 25934362, retrieved 2023-04-17
- ^ a b c d Lin, Shih-Shun; Chen, Yihua; Lu, Mei-Yeh Jade (2019). "Degradome Sequencing in Plants". Plant MicroRNAs. Methods in Molecular Biology. Vol. 1932. pp. 197–213. doi:10.1007/978-1-4939-9042-9_15. ISBN 978-1-4939-9041-2. ISSN 1940-6029. PMID 30701502. S2CID 73413403.