Synergistic effect of short- and long-read sequencing on functional meta-omics [* Cross-Reference *]

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Valentina Galata; Susheel Bhanu Busi; Benoît J. Kunath; Laura de Nies; Magdalena Całusińska; Rashi Halder; Patrick May; Paul Wilmes; Cédric C. Laczny, 2021, "Synergistic effect of short- and long-read sequencing on functional meta-omics [* Cross-Reference *]", https://lore.list.lu/citation?persistentId=perma:LIST.GISSNR, LIST Open Repository, V1
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Description
Abstract Real-world evaluations of metagenomic reconstructions are challenged by distinguishing reconstruction artefacts from genes and proteins present in situ . Here, we evaluate short-read-only, long-read-only, and hybrid assembly approaches on four different metagenomic samples of varying complexity and demonstrate how they affect gene and protein inference which is particularly relevant for downstream functional analyses. For a human gut microbiome sample, we use complementary metatranscriptomic, and metaproteomic data to evaluate the metagenomic data-based protein predictions. Our findings pave the way for critical assessments of metagenomic reconstructions and we propose a reference-independent solution based on the synergistic effects of multi-omic data integration for the in situ study of microbiomes using long-read sequencing data. (2021-04-23)
***This entry has been automatically imported via OpenAlex by LIST harvest scripts. Please refer to https://doi.org/10.1101/2021.04.22.440869 for the original and latest version of the publication*** (2026-07-01)
Subject Chemistry; Medicine, Health and Life Sciences
Keyword Metagenomics, Computational biology, Microbiome, Biology, Inference, Computer science, Gene, Bioinformatics, Artificial intelligence, Genetics
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