Coccolithoviruses: A review of cross‐kingdom genomic thievery and metabolic thuggery

This is the final version. Available on open access from MDPI via the DOI in this recordCoccolithoviruses (Phycodnaviridae) infect and lyse the most ubiquitous and successful coccolithophorid in modern oceans, Emiliania huxleyi. So far, the genomes of 13 of these giant lytic viruses (i.e., Emiliania huxleyi viruses—EhVs) have been sequenced, assembled, and annotated. Here, we performed an in‐depth comparison of their genomes to try and contextualize the ecological and evolutionary traits of these viruses. The genomes of these EhVs have from 444 to 548 coding sequences (CDSs). Presence/absence analysis of CDSs identified putative genes with particular ecological significance, namely sialidase, phosphate permease, and sphingolipid biosynthesis. The viruses clustered into distinct clades, based on their DNA polymerase gene as well as full genome comparisons. We discuss the use of such clustering and suggest that a gene‐by‐gene investigation approach may be more useful when the goal is to reveal differences related to functionally important genes. A multi domain “Best BLAST hit” analysis revealed that 84% of the EhV genes have closer similarities to the domain Eukarya. However, 16% of the EhV CDSs were very similar to bacterial genes, contributing to the idea that a significant portion of the gene flow in the planktonic world inter‐crosses the domains of life.This work was funded by the NERC Oceans 2025 program, Plymouth Marine Laboratory’s Research Program, and a NERC PhD grant awarded to J.I.N. supervised by M.J.A. and S.A.K. at Plymouth Marine Laboratory

Tuning the Bioactive Properties of Dunaliella salina Water Extracts by Ultrasound-Assisted Extraction

(1) Background: Microalgae are promising feedstock for obtaining valuable bioactive compounds. To facilitate the release of these important biomolecules from microalgae, effective cell disruption is usually necessary, where the use of ultrasound has achieved considerable popularity as an alternative to conventional methods. (2) Methods: This paper aims to evaluate the use of ultra- sound technology in water medium as a green technology to recover high added-value compounds from Dunaliella salina and improve its sensory profile towards a high level of incorporation into novel food products. (3) Results: Among the variables, the solid concentration and extraction time have the most significant impact on the process. For the extraction of protein, or fat, the most influential factor is the extraction time. Total polyphenols are only significantly affected by the extraction time. The antioxidant capacity is strongly affected by the solid to liquid ratio and, to a small extent, by the extraction time. Ultrasound-assisted extraction improves the overall odor/aroma of D. salina with good acceptability by the panelists. (4) Conclusions: The application of ultrasonic-assisted extraction demonstrates a positive overall effect on enhancing the sensory profile, particularly the odor of microalgal biomass, while the bioactive properties are preserved. Notably, the intense sea/fish odors are reduced, while earthy and citrus notes become more prominent, resulting in an improved overall sensory profile score. This is the first time, to our knowledge, that this innovative, green, and efficient technology has been used to upgrade the aroma profile of microalgae.info:eu-repo/semantics/publishedVersio

Antiviral Potential of Algal Metabolites—A Comprehensive Review

Historically, algae have stimulated significant economic interest particularly as a source of fertilizers, feeds, foods and pharmaceutical precursors. However, there is increasing interest in exploiting algal diversity for their antiviral potential. Here, we present an overview of 50-years of scientific and technological developments in the field of algae antivirals. After bibliometric analysis of 999 scientific references, a survey of 16 clinical trials and analysis of 84 patents, it was possible to identify the dominant algae, molecules and viruses that have been shaping and driving this promising field of research. A description of the most promising discoveries is presented according to molecule class. We observed a diverse range of algae and respective molecules displaying significant antiviral effects against an equally diverse range of viruses. Some natural algae molecules, like carrageenan, cyanovirin or griffithsin, are now considered prime reference molecules for their outstanding antiviral capacity. Crucially, while many algae antiviral applications have already reached successful commercialization, the large spectrum of algae antiviral capacities already identified suggests a strong potential for future expansion of this field

Dip in the gene pool: metagenomic survey of natural coccolithovirus communities

Despite the global oceanic distribution and recognised biogeochemical impact of coccolithoviruses (EhV), their diversity remains poorly understood. Here we employed a metagenomic approach to study the occurrence and progression of natural EhV community genomic variability. Analysis of EhV metagenomes from the early and late stages of an induced bloom led to three main discoveries. First, we observed resilient and specific genomic signatures in the EhV community associated with the Norwegian coast, which reinforce the existence of limitations to the capacity of dispersal and genomic exchange among EhV populations. Second, we identified a hyper-variable region (approximately 21kbp long) in the coccolithovirus genome. Third, we observed a clear trend for EhV relative amino-acid diversity to reduce from early to late stages of the bloom. This study validated two new methodological combinations, and proved very useful in the discovery of new genomic features associated with coccolithovirus natural communities

Reduction in photosystem II efficiency during a virus-controlled Emiliania huxleyi bloom

During viral infection of Emiliania huxleyi, laboratory studies have shown that photo-system (PS) II efficiency declines during the days post-infection and is thought to be associated with viral-induced interruption of electron transport rates between photosystems. However,measuring the impact of viral infection on PSII function in E. huxleyi populations from natural,taxonomically diverse phytoplankton communities is difficult, and whether this phenomenon occurs in nature is presently unknown. Here, chlorophyll fluorescence analysis was used to assess changes in PSII efficiency throughout an E. huxleyi bloom during a mesocosm experiment off the coast of Norway. Specifically, we aimed to determine whether a measurable suppression of the efficiency of PSII photochemistry could be observed due to viral infection of the natural E. huxleyi populations. During the major infection period prior to bloom collapse, there was a significant reduction in PSII efficiency with an average decrease in maximum PSII photochemical efficiency (Fv/Fm) of 17% and a corresponding 75% increase in maximum PSII effective absorption cross section(σPSII); this was concurrent with a significant decrease in E. huxleyi growth rates and an increase in E. huxleyi virus (EhV) production. As E. huxleyi populations dominated the phytoplankton community and potentially contributed up to 100% of the chlorophyll a pool, we believe that the variable chlorophyll fluorescence signal measured during this period was derived predominantly from E. huxleyi and, thus, reflects changes occurring within E. huxleyi cells. This is the first demonstration of suppression of PSII photochemistry occurring during viral infection of natural coccolithophore populations

Present-day deformation in São Jorge Island, Azores, from episodic GPS measurements (2001-2011)

12 pages, 9 figures, 1 tableA network of geodetic markers for high-precision Global Positioning System (GPS) surveying was established in 2001 in the island of São Jorge, at the Azores triple junction, where the North America-Eurasia-Nubia plates meet. The aim was to monitor tectonic, volcanic, and landslide-induced surface deformation in an active tectono-volcanic region. The network consisted of 17 stations, and was occupied in 2001, 2004, and 2010. GPS observations from the three episodic campaigns were analyzed using the latest geophysical models and geodetic procedures to generate a velocity field for São Jorge Island. Surface velocities estimated at 15 inland locations reveal that São Jorge is moving neither with Eurasia nor with Nubia and presents two sectors with different behavior. The NW sector of the island is moving at a rate of 2.2 ± 0.3 mm/yr to N82° ± 6° while the SE sector is moving at a rate of 1.4 ± 0.3 mm/yr to N109° ± 11°, when compared to the velocity of Nubia predicted by ITRF2008-PMM. This velocity field cannot be explained by slip along the active faults that cross the island, nor is compatible with volcanic deformation on the active volcanic rift zones. It is suggested that the velocity differences that are measured represent deformation related to local sub-surficial magmatic/volcanic processes occurring near the island. This intra-island deformation may also be related to the stress field and seafloor spreading occurring in an area situated on the western sector of the Azores Plateau, reflecting the presence of WNW-ESE volcanic structures, along which magma intrusion produces NE-SW dilatation, bounded to the East by a NE-SW trending structure, probably of tectonic nature, working as a dextral transfer zoneThis work was supported by Fundac ão para a Ciência e a Tecnologia (FCT) projects SHA-AZORES (PTDC/CTEGIX/108637/2008), DISPLAZOR (POCTI/1999/CTA/32444), and PEST-OE/CTE/LA0019-2011/2012.We thank the institutions that provided the receivers (IGeoE, IGP, IH, FCTUC, FCUP, and Estereofoto) and all survey participants, in particular Rita Rodrigues, Paulo Amaral, Paulo Sousa, and Gonc alo Prates. We thank Fernando Carrilho, from Instituto de Meteorologia, for providing the seismic catalogue for the 2001-2011 period. We thank Zuheir Altamimi for providing information for the ITRF2008-PMM and Donald Argus for the ITRFVEL- M model. We very much appreciate a thorough review by Donald Argus, which helped much to improve the manuscript. Carefully reviews by Rui Fernandes, an anonymous reviewer, and the Editor are also much appreciatedPeer reviewe

Genomic Sequence and Analysis of EhV-99B1, a New Coccolithovirus from the Norwegian Fjords

Coccolithoviruses are giant dsDNA viruses that infect Emiliania huxleyi, the most ubiquitous marine microalga. Here, we present the genome of the latest coccolithovirus strain to be sequenced, EhV-99B1, and compare it with two other coccolithovirus genomes (EhV-86 and EhV-163). EhV-99B1 shares a pairwise nucleotide identity of 98% with EhV-163 (the two strains were isolated from the same Norwegian fjord but in different years), and just 96.5% with EhV-86 (isolated in the same spring as EhV-99B1 but in the English Channel). We confirmed and extended the list of relevant genomic differences between these EhVs from the Norwegian fjord and EhVs from the English Channel, namely the removal/insertions of: a phosphate permease, an endonuclease, a transposase, and two specific tRNAs. As a whole, this study provided new clues and insights into the diversity and mechanisms driving the evolution of these large oceanic viruses, in particular those processes involving selfish genetic elements

Summary

doi:10.1111/j.1462-2920.2009.02006.x Host–virus shift of the sphingolipid pathway along an Emiliania huxleyi bloom: survival of the fattestemi_2006 1..