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Non-Coding RNA, Volume 5, Issue 1

2019 March - 30 articles

Cover Story: Gastrotrichs—’hairy bellies’—are microscopic free-living animals that were historically placed close to nematodes, but recent phylogenomic analyses have suggested a close relationship to flatworms. To resolve this long-standing question, in a ‘multi-omics’ approach, we used small-RNA sequencing and available transcriptome and genomic data to unravel the miRNA- and piRNA complements along with the RNAi protein machinery of Lepidodermella squamata. We identified 52 miRNA genes with overall high similarities to flatworm miRNA complements. In addition, we found four large piRNA clusters that also resemble flatworm piRNAs but not those earlier described for nematodes. Congruently, transcriptomic annotation revealed that the Lepidodermella protein machinery is highly similar to flatworms, too. View this paper.
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Articles (30)

  • Feature Paper
  • Review
  • Open Access
10 Citations
5,893 Views
22 Pages

Crosstalk Between Mammalian Antiviral Pathways

  • Samir F. Watson,
  • Lisanne I. Knol,
  • Jeroen Witteveldt and
  • Sara Macias

As part of their innate immune response against viral infections, mammals activate the expression of type I interferons to prevent viral replication and dissemination. An antiviral RNAi-based response can be also activated in mammals, suggesting that...

  • Feature Paper
  • Review
  • Open Access
27 Citations
6,096 Views
25 Pages

Management of chronic diabetic complications remains a major medical challenge worldwide. One of the characteristic features of all chronic diabetic complications is augmented production of extracellular matrix (ECM) proteins. Such ECM proteins are d...

  • Review
  • Open Access
94 Citations
7,498 Views
22 Pages

The identification of exosomes, their link to multivesicular bodies and their potential role as a messenger vehicle between cancer and healthy cells opens up a new approach to the study of intercellular signaling. Furthermore, the fact that their mai...

  • Feature Paper
  • Review
  • Open Access
18 Citations
6,216 Views
12 Pages

Breast Cancer and miR-SNPs: The Importance of miR Germ-Line Genetics

  • Poonam Malhotra,
  • Graham H. Read and
  • Joanne B. Weidhaas

Recent studies in cancer diagnostics have identified microRNAs (miRNAs) as promising cancer biomarkers. Single nucleotide polymorphisms (SNPs) in miRNA binding sites, seed regions, and coding sequences can help predict breast cancer risk, aggressiven...

  • Review
  • Open Access
34 Citations
5,513 Views
14 Pages

Long Non-Coding RNA in Vascular Disease and Aging

  • Diewertje I. Bink,
  • Noelia Lozano-Vidal and
  • Reinier A. Boon

Cardiovascular diseases are the most prominent cause of death in Western society, especially in the elderly. With the increasing life expectancy, the number of patients with cardiovascular diseases will rise in the near future, leading to an increase...

  • Brief Report
  • Open Access
26 Citations
5,166 Views
16 Pages

MicroRNA-451 Inhibits Migration of Glioblastoma while Making It More Susceptible to Conventional Therapy

  • Daisuke Ogawa,
  • Khairul Ansari,
  • Michal O. Nowicki,
  • Elżbieta Salińska,
  • Agnieszka Bronisz and
  • Jakub Godlewski

Malignant glioblastoma (GBM, glioma) is the most common and aggressive primary adult brain tumor. The prognosis of GBM patients remains poor, despite surgery, radiation and chemotherapy. The major obstacles for successful remedy are invasiveness and...

  • Feature Paper
  • Review
  • Open Access
25 Citations
6,541 Views
13 Pages

MicroRNAs (miRNAs) are small noncoding RNAs that fine-tune the responses of the cell by modulating the cell transcriptome and gene expression. MicroRNA 155 (miR-155) is a conserved multifunctional miRNA involved in multiple roles including the modula...

  • Review
  • Open Access
68 Citations
5,370 Views
12 Pages

The MicroRNA miR-155 Is Essential in Fibrosis

  • Mousa G. Eissa and
  • Carol M. Artlett

The function of microRNAs (miRNAs) during fibrosis and the downstream regulation of gene expression by these miRNAs have become of great biological interest. miR-155 is consistently upregulated in fibrotic disorders, and its ablation downregulates co...

  • Article
  • Open Access
14 Citations
5,349 Views
9 Pages

Integrative System Biology Analyses Identify Seven MicroRNAs to Predict Heart Failure

  • Henri Charrier,
  • Marie Cuvelliez,
  • Emilie Dubois-Deruy,
  • Paul Mulder,
  • Vincent Richard,
  • Christophe Bauters and
  • Florence Pinet

Heart failure (HF) has several etiologies including myocardial infarction (MI) and left ventricular remodeling (LVR), but its progression remains difficult to predict in clinical practice. Systems biology analyses of LVR after MI provide molecular in...

  • Article
  • Open Access
14 Citations
3,886 Views
16 Pages

Adolescence is hallmarked by two parallel processes of sexual maturation and adult patterning of the brain. Therefore, adolescence represents a vulnerable postnatal period for neurodevelopment where exogenous factors can negatively impact adult brain...

  • Review
  • Open Access
64 Citations
6,502 Views
21 Pages

23 February 2019

The mammalian brain is made up of billions of neurons and supporting cells (glial cells), intricately connected. Molecular perturbations often lead to neurodegeneration by progressive loss of structure and malfunction of neurons, including their deat...

  • Feature Paper
  • Article
  • Open Access
9 Citations
5,805 Views
17 Pages

Evolutionary Implications of the microRNA- and piRNA Complement of Lepidodermella squamata (Gastrotricha)

  • Bastian Fromm,
  • Juan Pablo Tosar,
  • Felipe Aguilera,
  • Marc R. Friedländer,
  • Lutz Bachmann and
  • Andreas Hejnol

22 February 2019

Gastrotrichs—’hairy bellies’—are microscopic free-living animals inhabiting marine and freshwater habitats. Based on morphological and early molecular analyses, gastrotrichs were placed close to nematodes, but recent phylogeno...

  • Review
  • Open Access
34 Citations
6,406 Views
12 Pages

18 February 2019

Transfer RNA-derived small RNAs (tsRNAs) are an emerging class of regulatory non-coding RNAs that play important roles in post-transcriptional regulation across a variety of biological processes. Here, we review the recent advances in tsRNA biogenesi...

  • Review
  • Open Access
587 Citations
33,803 Views
25 Pages

Long Non-Coding RNAs in the Regulation of Gene Expression: Physiology and Disease

  • Juliane C. R. Fernandes,
  • Stephanie M. Acuña,
  • Juliana I. Aoki,
  • Lucile M. Floeter-Winter and
  • Sandra M. Muxel

17 February 2019

The identification of RNAs that are not translated into proteins was an important breakthrough, defining the diversity of molecules involved in eukaryotic regulation of gene expression. These non-coding RNAs can be divided into two main classes accor...

  • Review
  • Open Access
99 Citations
12,793 Views
19 Pages

Small Non-Coding RNAs Derived from Eukaryotic Ribosomal RNA

  • Marine Lambert,
  • Abderrahim Benmoussa and
  • Patrick Provost

The advent of RNA-sequencing (RNA-Seq) technologies has markedly improved our knowledge and expanded the compendium of small non-coding RNAs, most of which derive from the processing of longer RNA precursors. In this review article, we will present a...

  • Feature Paper
  • Review
  • Open Access
16 Citations
7,892 Views
21 Pages

Cardiovascular diseases (CVDs) affect the heart and the vascular system with a high prevalence and place a huge burden on society as well as the healthcare system. These complex diseases are often the result of multiple genetic and environmental risk...

  • Feature Paper
  • Communication
  • Open Access
7 Citations
3,589 Views
5 Pages

Suppressors of Meiotic Silencing by Unpaired DNA

  • Hua Xiao,
  • Thomas M. Hammond and
  • Patrick K. T. Shiu

Meiotic silencing by unpaired DNA (MSUD) is a gene silencing process that occurs within meiotic cells of Neurospora crassa and other fungi. We have previously developed a high-throughput screen to identify suppressors of this silencing pathway. Here,...

  • Review
  • Open Access
47 Citations
7,138 Views
15 Pages

Long Non-Coding RNAs in Multiple Myeloma

  • Romana Butova,
  • Petra Vychytilova-Faltejskova,
  • Adela Souckova,
  • Sabina Sevcikova and
  • Roman Hajek

Multiple myeloma (MM) is the second most common hematooncological disease of malignant plasma cells in the bone marrow. While new treatment brought unprecedented increase of survival of patients, MM pathogenesis is yet to be clarified. Increasing evi...

  • Article
  • Open Access
11 Citations
8,710 Views
12 Pages

Rapid Generation of Long Noncoding RNA Knockout Mice Using CRISPR/Cas9 Technology

  • Nils R. Hansmeier,
  • Pia J. M. Widdershooven,
  • Sajjad Khani and
  • Jan-Wilhelm Kornfeld

In recent years, long noncoding RNAs (lncRNAs) have emerged as multifaceted regulators of gene expression, controlling key developmental and disease pathogenesis processes. However, due to the paucity of lncRNA loss-of-function mouse models, key ques...

  • Article
  • Open Access
15 Citations
5,278 Views
14 Pages

Prostate cancer (PCa) is the second leading cause of cancer death in the United States. The five-year survival rate for men diagnosed with localized PCa is nearly 100%, yet for those diagnosed with aggressive PCa, it is less than 30%. The pleiotropic...

  • Review
  • Open Access
29 Citations
8,615 Views
22 Pages

Non-coding antisense transcripts arise from the strand opposite the sense strand. Over 70% of the human genome generates non-coding antisense transcripts while less than 2% of the genome codes for proteins. Antisense transcripts and/or the act of ant...

  • Review
  • Open Access
43 Citations
6,923 Views
20 Pages

Factors Regulating microRNA Expression and Function in Multiple Myeloma

  • Irena Misiewicz-Krzeminska,
  • Patryk Krzeminski,
  • Luis A. Corchete,
  • Dalia Quwaider,
  • Elizabeta A. Rojas,
  • Ana Belén Herrero and
  • Norma C. Gutiérrez

Intensive research has been undertaken during the last decade to identify the implication of microRNAs (miRNAs) in the pathogenesis of multiple myeloma (MM). The expression profiling of miRNAs in MM has provided relevant information, demonstrating di...

  • Review
  • Open Access
55 Citations
10,193 Views
24 Pages

Function and Evolution of Nematode RNAi Pathways

  • Miguel Vasconcelos Almeida,
  • Miguel A. Andrade-Navarro and
  • René F. Ketting

Selfish genetic elements, like transposable elements or viruses, are a threat to genomic stability. A variety of processes, including small RNA-based RNA interference (RNAi)-like pathways, has evolved to counteract these elements. Amongst these, endo...

  • Review
  • Open Access
40 Citations
7,815 Views
25 Pages

Functional Interplay between RNA Viruses and Non-Coding RNA in Mammals

  • Nkerorema Djodji Damas,
  • Nicolas Fossat and
  • Troels K. H. Scheel

Exploring virus–host interactions is key to understand mechanisms regulating the viral replicative cycle and any pathological outcomes associated with infection. Whereas interactions at the protein level are well explored, RNA interactions are...

  • Article
  • Open Access
11 Citations
5,954 Views
14 Pages

Gammaherpesvirus Readthrough Transcription Generates a Long Non-Coding RNA That Is Regulated by Antisense miRNAs and Correlates with Enhanced Lytic Replication In Vivo

  • Mehmet Kara,
  • Tina O’Grady,
  • Emily R. Feldman,
  • April Feswick,
  • Yiping Wang,
  • Erik K. Flemington and
  • Scott A. Tibbetts

Gammaherpesviruses, including the human pathogens Epstein–Barr virus (EBV) and Kaposi’s sarcoma-associated herpesvirus (KSHV) are oncogenic viruses that establish lifelong infections in hosts and are associated with the development of lym...

  • Article
  • Open Access
6 Citations
4,370 Views
9 Pages

Conservation of Intronic Sequences in Vertebrate Mitochondrial Solute Carrier Genes (Zebrafish, Chicken, Mouse and Human)

  • Rosa Calvello,
  • Antonia Cianciulli,
  • Vincenzo Mitolo,
  • Annalisa Porro and
  • Maria Antonietta Panaro

The conservation of intronic sequences was studied in the mitochondrial solute carrier (SLC25A*) genes of Zebrafish, Chicken, Mouse and Human. These genes are homologous and the coding sequences have been well conserved throughout Vertebrates, but th...

  • Article
  • Open Access
8 Citations
4,481 Views
13 Pages

Androgen and Oestrogen Affect the Expression of Long Non-Coding RNAs During Phallus Development in a Marsupial

  • Yu Chen,
  • Yoko Kuroki,
  • Geoff Shaw,
  • Andrew J. Pask,
  • Hongshi Yu,
  • Atsushi Toyoda,
  • Asao Fujiyama and
  • Marilyn B. Renfree

There is increasing evidence that long non-coding RNAs (lncRNAs) are important for normal reproductive development, yet very few lncRNAs have been identified in phalluses so far. Unlike eutherians, phallus development in the marsupial tammar wallaby...

  • Feature Paper
  • Article
  • Open Access
21 Citations
5,646 Views
12 Pages

LINC00261 and the Adjacent Gene FOXA2 Are Epithelial Markers and Are Suppressed during Lung Cancer Tumorigenesis and Progression

  • Sonam Dhamija,
  • Andrea C. Becker,
  • Yogita Sharma,
  • Ksenia Myacheva,
  • Jeanette Seiler and
  • Sven Diederichs

Lung cancer continues to be the leading cause of cancer-related deaths worldwide, with little improvement in patient survival rates in the past decade. Long non-coding RNAs (lncRNAs) are gaining importance as possible biomarkers with prognostic poten...

  • Review
  • Open Access
52 Citations
7,387 Views
26 Pages

Non-coding RNA (ncRNA) species have emerged in as molecular fingerprints and regulators of brain tumor pathogenesis and progression. While changes in ncRNA levels have been traditionally regarded as cell intrinsic there is mounting evidence for their...

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Non-Coding RNA - ISSN 2311-553X