Best kit for metatranscriptomics?

Sergio Barberan-Soler @Sergio-Barberan-Soler

01 January 1970 1 6K Report

We are profiling RNA from soil samples and are wondering what others use for library preparation for metatranscriptomics? Any recommendations? What is your favorite kit and why?

Park Sowon

I am not an expert in this field, but I am very interested and have researched to find an answer. Could you please review the response below to see if it is correct?

For metatranscriptomic profiling of RNA from soil samples, the TruSeq Stranded mRNA Library Prep Kit by Illumina is highly recommended. It has been widely used in various studies due to its efficiency in capturing the active transcriptome [1][3][4]. The kit's strand-specific protocol ensures accurate mapping of RNA sequences, which is crucial for understanding functional activities in complex microbial communities. Additionally, its compatibility with high-throughput sequencing platforms like Illumina HiSeq allows for comprehensive and robust data generation [2]. Overall, the TruSeq kit is favored for its reliability and effectiveness in metatranscriptomic applications.

Reference

[1] Comtet-Marre, S., Parisot, N., Lepercq, P., Chaucheyras-Durand, F., Mosoni, P., Peyretaillade, E., Bayat, A., Shingfield, K., Peyret, P., & Forano, E. (2017). Metatranscriptomics Reveals the Active Bacterial and Eukaryotic Fibrolytic Communities in the Rumen of Dairy Cow Fed a Mixed Diet. Frontiers in Microbiology, 8.

[2] Menezes, A. D. d., Clipson, N., & Doyle, E. (2012). Comparative metatranscriptomics reveals widespread community responses during phenanthrene degradation in soil.. Environmental microbiology, 14 9, 2577-88 .

[3] Moitinho-Silva, L., Seridi, L., Ryu, T., Voolstra, C., Ravasi, T., & Hentschel, U. (2014). Revealing microbial functional activities in the Red Sea sponge Stylissa carteri by metatranscriptomics.. Environmental microbiology, 16 12, 3683-98 .

[4] Huang, Y., Yi, Z., Jin, Y., Huang, M., He, K., Liu, D., Luo, H., Zhao, D., He, H., Fang, Y., & Zhao, H. (2017). Metatranscriptomics Reveals the Functions and Enzyme Profiles of the Microbial Community in Chinese Nong-Flavor Liquor Starter. Frontiers in Microbiology, 8.

I received some assistance from tlooto.com for this response.

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