Abstract：
:In most organisms, ribosomal RNA (rRNA) contributes to >85% of total RNA. Thus, to obtain useful information from RNA-sequencing (RNA-seq) analyses at reasonable sequencing depth, typically, mature polyadenylated transcripts are enriched or rRNA molecules are depleted. Targeted depletion of rRNA is particularly useful when studying transcripts lacking a poly(A) tail, such as some non-coding RNAs (ncRNAs), most bacterial RNAs and partially degraded or immature transcripts. While several commercially available kits allow effective rRNA depletion, their efficiency relies on a high degree of sequence homology between oligonucleotide probes and the target RNA. This restricts the use of such kits to a limited number of organisms with conserved rRNA sequences. In this study we describe the use of biotinylated oligos and streptavidin-coated paramagnetic beads for the efficient and specific depletion of trypanosomal rRNA. Our approach reduces the levels of the most abundant rRNA transcripts to less than 5% with minimal off-target effects. By adjusting the sequence of the oligonucleotide probes, our approach can be used to deplete rRNAs or other abundant transcripts independent of species. Thus, our protocol provides a useful alternative for rRNA removal where enrichment of polyadenylated transcripts is not an option and commercial kits for rRNA are not available.
journal_name
Sci Repjournal_title
Scientific reportsauthors
Kraus AJ,Brink BG,Siegel TNdoi
10.1038/s41598-019-48692-2subject
Has Abstractpub_date
2019-08-22 00:00:00pages
12281issue
1issn
2045-2322pii
10.1038/s41598-019-48692-2journal_volume
9pub_type
杂志文章abstract：:For nearly a century, researchers have tried to understand the swimming of aquatic animals in terms of a balance between the forward thrust from swimming movements and drag on the body. Prior approaches have failed to provide a separation of these two forces for undulatory swimmers such as lamprey and eels, where most...
journal_title：Scientific reports
pub_type： 杂志文章
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pub_type： 杂志文章
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更新日期：2016-05-05 00:00:00
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pub_type： 杂志文章
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更新日期：2016-11-28 00:00:00
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更新日期：2016-06-13 00:00:00
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更新日期：2017-01-18 00:00:00
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更新日期：2018-11-08 00:00:00
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pub_type： 杂志文章
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pub_type： 杂志文章
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更新日期：2012-01-01 00:00:00
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pub_type： 杂志文章
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