Taxon Richness of “Megaviridae” Exceeds those of Bacteria and Archaea in the Ocean

International audienceSince the discovery of the giant mimivirus, evolutionarily related viruses have been isolated or identified from various environments. Phylogenetic analyses of this group of viruses, tentatively referred to as the family "Megaviridae", suggest that it has an ancient origin that may predate the emergence of major eukaryotic lineages. Environmental genomics has since revealed that Megaviridae represents one of the most abundant and diverse groups of viruses in the ocean. In the present study, we compared the taxon richness and phylogenetic diversity of Megaviridae, Bacteria, and Archaea using DNA-dependent RNA polymerase as a common marker gene. By leveraging existing microbial metagenomic data, we found higher richness and phylogenetic diversity in this single viral family than in the two prokaryotic domains. We also obtained results showing that the evolutionary rate alone cannot account for the observed high diversity of Megaviridae lineages. These results suggest that the Megaviridae family has a deep co-evolutionary history with diverse marine protists since the early "Big-Bang" radiation of the eukaryotic tree of life

Autophagy-mediated regulation of phytohormone metabolism during rice anther development

<p>Autophagy has recently been shown to be required for postmeiotic anther development including anther dehiscence, programmed cell death-mediated degradation of the tapetum and pollen maturation in rice. Several phytohormones are known to play essential roles during male reproductive development including pollen maturation. However, the relationship between phytohormone metabolism and autophagy in plant reproductive development is unknown. We here comprehensively analyzed the effect of autophagy disruption on phytohormone contents in rice anthers at the flowering stage, and found that endogenous levels of active-forms of gibberellins (GAs) and cytokinin, trans-zeatin, were significantly lower in the autophagy-defective mutant, Os<i>atg7–1</i>, than in the wild type. Treatment with GA₄ partially recovered maturation of the mutant pollens, but did not recover the limited anther dehiscence as well as sterility phenotype. These results suggest that autophagy affects metabolism and endogenous levels of GAs and cytokinin in rice anthers. Reduction in bioactive GAs in the autophagy-deficient mutant may partially explain the defects in pollen maturation of the autophagy-deficient mutant, but tapetal autophagy also plays other specific roles in fertilization.</p

In situ vital staining for chasing the galatheid crab <i>Shinkaia crosnieri</i> on deep-sea floor

Shinkaia crosnieri, a galatheid crab, has ectosymbiotic bacteria on its ventral setae, and forms very dense crowds in hydrothermally active regions and seep areas. They feed on the symbiotic bacteria and do not chase other animals for predation. To study how they move and behave in jostling crowds, we developed a vital staining to mark their individuals and trace them by using a camera on a remotely operated vehicle (ROV). Among the various dyes examined, Coomasie Brilliant Blue R250 (CBB) stained the galatheid crab the darkest, and its color lasted for more than 5 months in the laboratory at 4–5°C. The ventral setae were strongly stained, while the dorsal shell was weakly stained. The stained galatheid crab survived for more than 8 months. For the in situ staining of S. crosnieri at the Iheya North hydrothermal field in the Okinawa Trough, Japan, we applied a dye solution mixture (20 L) containing CBB and Acid Blue 161 to the galatheid crab population through a funnel equipped on the ROV Hyper-Dolphin. After staining for approximately 5 minutes, more than 18 individuals of S. crosnieri were dyed blue. They were disturbed by the staining process but seemed to be unharmed. The dyed galatheid crabs were identified by the ROV one and two days post staining. They seemed to remain at the place where they were stained.The present vital-staining marking method may present a new way to analyze the behavior and changing habitable range of deep-sea animals like S. crosnieri, and may give us a deeper insight into how these animals behave in a very dense population and explore newer habitats

OsATG7 is required for autophagy-dependent lipid metabolism in rice postmeiotic anther development

<div><p>In flowering plants, the tapetum, the innermost layer of the anther, provides both nutrient and lipid components to developing microspores, pollen grains, and the pollen coat. Though the programmed cell death of the tapetum is one of the most critical and sensitive steps for fertility and is affected by various environmental stresses, its regulatory mechanisms remain mostly unknown. Here we show that autophagy is required for the metabolic regulation and nutrient supply in anthers and that autophagic degradation within tapetum cells is essential for postmeiotic anther development in rice. Autophagosome-like structures and several vacuole-enclosed lipid bodies were observed in postmeiotic tapetum cells specifically at the uninucleate stage during pollen development, which were completely abolished in a retrotransposon-insertional <i>OsATG7</i> (autophagy-related 7)-knockout mutant defective in autophagy, suggesting that autophagy is induced in tapetum cells. Surprisingly, the mutant showed complete sporophytic male sterility, failed to accumulate lipidic and starch components in pollen grains at the flowering stage, showed reduced pollen germination activity, and had limited anther dehiscence. Lipidomic analyses suggested impairment of editing of phosphatidylcholines and lipid desaturation in the mutant during pollen maturation. These results indicate a critical involvement of autophagy in a reproductive developmental process of rice, and shed light on the novel autophagy-mediated regulation of lipid metabolism in eukaryotic cells.</p></div