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      De novo Transcriptome of the Non-saxitoxin Producing Alexandrium tamutum Reveals New Insights on Harmful Dinoflagellates

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          Abstract

          Many dinoflagellates species, especially of the Alexandrium genus, produce a series of toxins with tremendous impacts on human and environmental health, and tourism economies. Alexandrium tamutum was discovered for the first time in the Gulf of Naples, and it is not known to produce saxitoxins. However, a clone of A. tamutum from the same Gulf showed copepod reproduction impairment and antiproliferative activity. In this study, the full transcriptome of the dinoflagellate A. tamutum is presented in both control and phosphate starvation conditions. RNA-seq approach was used for in silico identification of transcripts that can be involved in the synthesis of toxic compounds. Phosphate starvation was selected because it is known to induce toxin production for other Alexandrium spp. Results showed the presence of three transcripts related to saxitoxin synthesis (sxtA, sxtG and sxtU), and others potentially related to the synthesis of additional toxic compounds (e.g., 44 transcripts annotated as “polyketide synthase”). These data suggest that even if this A. tamutum clone does not produce saxitoxins, it has the potential to produce toxic metabolites, in line with the previously observed activity. These data give new insights into toxic microalgae, toxin production and their potential applications for the treatment of human pathologies.

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          Streaming fragment assignment for real-time analysis of sequencing experiments

          We present eXpress, a software package for highly efficient probabilistic assignment of ambiguously mapping sequenced fragments. eXpress uses a streaming algorithm with linear run time and constant memory use. It can determine abundances of sequenced molecules in real time, and can be applied to ChIP-seq, metagenomics and other large-scale sequencing data. We demonstrate its use on RNA-seq data, showing greater efficiency than other quantification methods.
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            Mitochondrial peroxiredoxin involvement in antioxidant defence and redox signalling.

            Prxs (peroxiredoxins) are a family of proteins that are extremely effective at scavenging peroxides. The Prxs exhibit a number of intriguing properties that distinguish them from conventional antioxidants, including a susceptibility to inactivation by hyperoxidation in the presence of excess peroxide and the ability to form complex oligomeric structures. These properties, combined with a high cellular abundance and reactivity with hydrogen peroxide, have led to speculation that the Prxs function as redox sensors that transmit signals as part of the cellular response to oxidative stress. Multicellular organisms express several different Prxs that can be categorized by their subcellular distribution. In mammals, Prx 3 and Prx 5 are targeted to the mitochondrial matrix. Mitochondria are a major source of hydrogen peroxide, and this oxidant is implicated in the damage associated with aging and a number of pathologies. Hydrogen peroxide can also act as a second messenger, and is linked with signalling events in mitochondria, including the induction of apoptosis. A simple kinetic competition analysis estimates that Prx 3 will be the target for up to 90% of hydrogen peroxide generated in the matrix. Therefore, mitochondrial Prxs have the potential to play a major role in mitochondrial redox signalling, but the extent of this role and the mechanisms involved are currently unclear.
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              The impact of transposable elements on eukaryotic genomes: from genome size increase to genetic adaptation to stressful environments.

              Transposable elements (TEs) are present in roughly all genomes. These mobile DNA sequences are able to invade genomes and their impact on genome evolution is substantial. The mobility of TEs can induce the appearance of deleterious mutations, gene disruption and chromosome rearrangements, but transposition activity also has positive aspects and the mutational activities of TEs contribute to the genetic diversity of organisms. This short review aims to give a brief overview of the impact TEs may have on animal and plant genome structure and expression, and the relationship between TEs and the stress response of organisms, including insecticide resistance. Copyright © 2012 Elsevier B.V. All rights reserved.
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                Author and article information

                Journal
                Mar Drugs
                Mar Drugs
                marinedrugs
                Marine Drugs
                MDPI
                1660-3397
                24 July 2020
                August 2020
                : 18
                : 8
                : 386
                Affiliations
                [1 ]Marine Biotechnology Department, Stazione Zoologica Anton Dohrn, Villa Comunale, CAP80121 Napoli, Italy; giorgio.vingiani@ 123456szn.it (G.M.V.); adrianna.ianora@ 123456szn.it (A.I.)
                [2 ]Faculty of Medicine and Health Sciences, Linköping University, 58183 Linköping, Sweden; stalberga.darta@ 123456gmail.com
                [3 ]Research Infrastructure for Marine Biological Resources Department, Stazione Zoologica Anton Dohrn, Villa Comunale, CAP80121 Napoli, Italy; pasquale.deluca@ 123456szn.it
                [4 ]Department of Humanities, Università degli Studi Suor Orsola Benincasa, CAP80135 Naples, Italy; daniele.deluca088@ 123456gmail.com
                Author notes
                [* ]Correspondence: chiara.lauritano@ 123456szn.it ; Tel.: +081-583-3221
                Author information
                https://orcid.org/0000-0002-0140-8695
                https://orcid.org/0000-0001-6712-652X
                https://orcid.org/0000-0003-4289-6784
                https://orcid.org/0000-0002-1639-9138
                https://orcid.org/0000-0003-4580-9594
                Article
                marinedrugs-18-00386
                10.3390/md18080386
                7460133
                32722301
                2496fa0e-066e-4fe1-babb-a9e1576ca9da
                © 2020 by the authors.

                Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license ( http://creativecommons.org/licenses/by/4.0/).

                History
                : 26 May 2020
                : 20 July 2020
                Categories
                Article

                Pharmacology & Pharmaceutical medicine
                dinoflagellates,alexandrium tamutum,transcriptomics,toxin producing enzymes,harmful algal blooms

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