A monospecific Millepora reef in Marquesas Islands, French Polynesia

The procedures that relate to the 'relative frequency' and 'subjective probability' senses are clearly empirical: their outcomes depend on how the world is, not merely on how we talk about it. Accordingly, these concepts are called empirical probability concepts. Those procedures relating to the 'degree of confirmation' sense, however, are non-empirical: their outcomes do not depend on how the world is, but simply on the language we use to describe it and the principle of inductive reasoning ..

Some considerations for analyzing biodiversity using integrative metagenomics and gene networks

<p>Abstract</p> <p>Background</p> <p>Improving knowledge of biodiversity will benefit conservation biology, enhance bioremediation studies, and could lead to new medical treatments. However there is no standard approach to estimate and to compare the diversity of different environments, or to study its past, and possibly, future evolution.</p> <p>Presentation of the hypothesis</p> <p>We argue that there are two conditions for significant progress in the identification and quantification of biodiversity. First, integrative metagenomic studies - aiming at the simultaneous examination (or even better at the integration) of observations about the elements, functions and evolutionary processes captured by the massive sequencing of multiple markers - should be preferred over DNA barcoding projects and over metagenomic projects based on a single marker. Second, such metagenomic data should be studied with novel inclusive network-based approaches, designed to draw inferences both on the many units and on the many processes present in the environments.</p> <p>Testing the hypothesis</p> <p>We reached these conclusions through a comparison of the theoretical foundations of two molecular approaches seeking to assess biodiversity: metagenomics (mostly used on prokaryotes and protists) and DNA barcoding (mostly used on multicellular eukaryotes), and by pragmatic considerations of the issues caused by the 'species problem' in biodiversity studies.</p> <p>Implications of the hypothesis</p> <p>Evolutionary gene networks reduce the risk of producing biodiversity estimates with limited explanatory power, biased either by unequal rates of LGT, or difficult to interpret due to (practical) problems caused by type I and type II grey zones. Moreover, these networks would easily accommodate additional (meta)transcriptomic and (meta)proteomic data.</p> <p>Reviewers</p> <p>This article was reviewed by Pr. William Martin, Dr. David Williams (nominated by Pr. J Peter Gogarten) & Dr. James McInerney (nominated by Pr. John Logsdon).</p

Evolutionary history of the Corallinales (Corallinophycidae, Rhodophyta) inferred from nuclear, plastidial and mitochondrial genomes

Systematics of the red algal order Corallinales has a long and convoluted history. In the present study, molecular approaches were used to assess the phylogenetic relationships based on the analyses of two datasets: a large dataset of SSU sequences including mainly sequences from GenBank; and a combined dataset including four molecular markers (two nuclear: SSU, LSU; one plastidial: psbA; and one mito- chondrial: COI). Phylogenetic analyses of both datasets re-affirmed the monophyly of the Corallinales as well as the two families (Corallinaceae and Hapalidiaceae) currently recognized within the order. Three of the four subfamilies of the Corallinaceae (Corallinoideae, Lithophylloideae, Metagoniolithoideae) were also resolved as a monophyletic lineage whereas members of the Mastophoroideae were resolved as four distinct lineages. We therefore propose to restrict the Mastophoroideae to the genera Mastophora, Metamastophora, and possibly Lithoporella in the aim of rendering this subfamily monophyletic. In addition, our phylogenies resolved the genus Hydrolithon in two unrelated lineages, one containing the gener- itype Hydrolithon reinboldii and the second containing Hydrolithon onkodes, which used to be the generitype of the now defunct genus Porolithon. We therefore propose to resurrect the genus Porolithon for the second lineage encompassing those species with primarily monomerous thalli, and trichocyte arrangements in large pustulate horizontal rows. Moreover, our phylogenetic analyses revealed the presence of cryptic diversity in several taxa, shedding light on the need for further studies to better circumscribe species frontiers within the diverse order Corallinales, especially in the genera Mesophyllum and Neogoniolithon.Web of Scienc

Allelopathic interactions between the brown algal genus Lobophora (Dictyotales, Phaeophyceae) and scleractinian corals

Allelopathy has been recently suggested as a mechanism by which macroalgae may outcompete corals in damaged reefs. Members of the brown algal genus Lobophora are commonly observed in close contact with scleractinian corals and have been considered responsible for negative effects of macroalgae to scleractinian corals. Recent field assays have suggested the potential role of chemical mediators in this interaction. We performed in situ bioassays testing the allelopathy of crude extracts and isolated compounds of several Lobophora species, naturally associated or not with corals, against four corals in New Caledonia. Our results showed that, regardless of their natural association with corals, organic extracts from species of the genus Lobophora are intrinsically capable of bleaching some coral species upon direct contact. Additionally, three new C-21 polyunsaturated alcohols named lobophorenols A-C (1-3) were isolated and identified. Significant all elopathic effects against Acropora muricata were identified for these compounds. In situ observations in New Caledonia, however, indicated that while allelopathic interactions are likely to occur at the macroalgal-coral interface, Lobophora spp. rarely bleached their coral hosts. These findings are important toward our understanding of the importance of allelopathy versus other processes such as herbivory in the interaction between macroalgae and corals in reef ecosystems

Шероховатость поверхностей при финишной алмазно-абразивной обработке

Показано, что шероховатость полированной поверхности зависит от отношения частот собственных колебаний молекулярных фрагментов на поверхностях инструмента и обрабатываемой детали. На шероховатость обработанной поверхности наибольшее влияние оказывают число молекулярных фрагментов, из которых состоят частицы шлама, их наиболее вероятный размер, частоты собственных колебаний фрагментов обрабатываемого материала и инструмента, теплопроводность обрабатываемого материала и режимы обработки