Targeted RNA-sequencing aims to focus coverage on areas of interest that are inadequately sampled in standard RNA-sequencing experiments. In a recent study, researchers from Cornell University present a novel approach for targeted RNA-sequencing that uses OligoMix pools of reverse transcription primers to enable sequencing enrichment at user-selected locations across the genome. They demonstrate this approach by targeting pre-mRNA splice junctions in S. cerevisiae, revealing high-precision detection of splice isoforms, including rare pre-mRNA splicing intermediates...
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LC Sciences
Next-generation sequencing (NGS) studies have identified large numbers of genetic variants that are predicted to alter miRNA–mRNA interactions. Researchers from Indiana University School of Medicine recently developed a novel high-throughput bioassay using OligoMix, PASSPORT-seq, that can functionally test in parallel 100s of these variants in miRNA binding sites (mirSNPs)...
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LC Sciences
MicroRNAs (miRNAs), a group of endogenous small non-coding RNAs, have been shown to play essential roles in the regulation of gene expression at the post-transcriptional level. Although Paulownia tomentosa is an ecologically and economically important timber species due to its rapid growth, few efforts have focused on small RNAs (sRNAs) in the cambial tissues during winter and summer transition...
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A recent study identified differentially expressed miRNAs in cleft palate in order to determine the molecular mechanisms involved in its development and progression...
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LC Sciencess
Splay leg is frequently observed in newborn piglets and leads to economic loss as well as welfare concerns. However, the etiology and pathogenesis of splay leg syndrome in piglets are still poorly understood. Researchers at Anhui Agricultural University set out to characterize changes in the transcriptome of splay leg piglets and identify candidate genes responsible for this disease...
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Circular RNAs (circRNAs), a new class of regulators of gene expression, are involved in diverse physiological and pathogenic processes. However, their role in cellular responses to virus infection is yet unclear. In a recent study, a human lung fibroblast cell line was infected or mock infected by herpes simplex virus 1 (HSV-1). Deep RNA sequencing was used to profile the global changes in circRNAs, genes, and miRNAs following HSV-1 infection...
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The epidemic of dengue virus infections has spread markedly in Yunnan province of China in recent years due to an increase in the number of imported dengue cases. A recentstudy is the first to report a whole genome sequence and molecular characterization of an imported DENV-4 isolate from Thailand...
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Orofacial development is a multifaceted process involving tightly regulated genetic signaling networks, that when perturbed, lead to orofacial abnormalities including cleft lip and/or cleft palate. We and others have shown an association between the cysteine-rich secretory protein LCCL domain containing 2 (CRISPLD2) gene and nonsyndromic cleft lip with or without cleft palate (NSCLP). Further, we demonstrated that knockdown of Crispld2 in zebrafish alters neural crest cell migration patterns resulting in abnormal jaw and palate development. ...
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LC Sciences
Widespread mRNA 3′ UTR shortening through alternative polyadenylation promotes tumor growth in vivo. A prevailing hypothesis is that it induces proto-oncogene expression in cis through escaping microRNA-mediated repression. Here, a team of researchers from Baylor College of Medicine, UTMB, UTHSCH, and UT Medical...
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Phoebe bournei (Hemsl.) Yang is an indigenous, endangered, precious timber and ornamental tree in China. Cold stress greatly affects the survival of Phoebe species. To elucidate the molecular mechanisms of cold response and identify candidate genes for improving cold resistance, researchers used RNA-Seq and qRT-PCR to compare the transcriptomic profiles of two ecotypes of P. bournei, cold-resistant Wuyuan (WY) and cold-sensitive Wuping (WP), under cold stress...
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