Countdown to 2010: Can we assess Ireland’s insect species diversity and loss?

peer-reviewedThe insects are the most diverse organisms on this planet and play an essential role in ecosystem functioning, yet we know very little about them. In light of the Convention on Biological Diversity, this paper summarises the known insect species numbers for Ireland and questions whether this is a true refl ection of our insect diversity. The total number of known species for Ireland is 11,422. Using species accumulation curves and a comparison with the British fauna, this study shows that the Irish list is incomplete and that the actual species number is much higher. However, even with a reasonable knowledge of the species in Ireland, insects are such speciose, small, and inconspicuous animals that it is diffi cult to assess species loss. It is impossible to know at one point in time the number of insect species in Ireland and, although it is useful to summarise the known number of species, it is essential that biodiversity indicators, such as the Red List Index, are developed

The stoichiometry of P2X2/6 receptor heteromers depends on relative subunit expression levels

Fast synaptic transmission involves the operation of ionotropic receptors, which are often composed of at least two types of subunit. We have developed a method, based on atomic force microscopy imaging to determine the stoichiometry and subunit arrangement within ionotropic receptors. We showed recently that the P2X(2) receptor for ATP is expressed as a trimer but that the P2X(6) subunit is unable to oligomerize. In this study we addressed the subunit stoichiometry of heteromers containing both P2X(2) and P2X(6) subunits. We transfected tsA 201 cells with both P2X(2) and P2X(6) subunits, bearing different epitope tags. We manipulated the transfection conditions so that either P2X(2) or P2X(6) was the predominant subunit expressed. By atomic force microscopy imaging of isolated receptors decorated with antiepitope antibodies, we demonstrate that when expression of the P2X(2) subunit predominates, the receptors contain primarily 2 x P2X(2) subunits and 1 x P2X(6) subunit. In contrast, when the P2X(6) subunit predominates, the subunit stoichiometry of the receptors is reversed. Our results show that the composition of P2X receptor heteromers is plastic and dependent on the relative subunit expression levels. We suggest that this property of receptor assembly might introduce an additional layer of subtlety into P2X receptor signaling

The \u3cem\u3elet-7\u3c/em\u3e MicroRNA Family Members \u3cem\u3emir\u3c/em\u3e-48, \u3cem\u3emir\u3c/em\u3e-84, and mir-241 Function Together to Regulate Developmental Timing in \u3cem\u3eCaenorhabditis elegans\u3c/em\u3e

The microRNA let-7 is a critical regulator of developmental timing events at the larval-to-adult transition in C. elegans. Recently, microRNAs with sequence similarity to let-7 have been identified. We find that doubly mutant animals lacking the let-7 family microRNA genes mir-48 and mir-84 exhibit retarded molting behavior and retarded adult gene expression in the hypodermis. Triply mutant animals lacking mir-48, mir-84, and mir-241 exhibit repetition of L2-stage events in addition to retarded adult-stage events. mir-48, mir-84, and mir-241 function together to control the L2-to-L3 transition, likely by base pairing to complementary sites in the hbl-1 3′ UTR and downregulating hbl-1 activity. Genetic analysis indicates that mir-48, mir-84, and mir-241 specify the timing of the L2-to-L3 transition in parallel to the heterochronic genes lin-28 and lin-46. These results indicate that let-7 family microRNAs function in combination to affect both early and late developmental timing decisions

Insights into the Acadian orogeny, New England Appalachians: a provenance study of the Carrabassett and Kittery formations, Maine

The Central Maine Basin and Merrimack Trough are Silurian basins that formed adjacent to or were accreted to the Laurentian margin during the Acadian orogeny. The Early Devonian Carrabassett Formation of the Central Maine Basin and the Kittery Formation of the Merrimack Trough have major and trace element compositions indicative of a passive continental margin provenance, not unlike the older formations of the Central Maine Basin that are thought to have been derived from Laurentian sources. However, both the Carrabassett and Kittery formations have paleocurrent indicators of outboard sources. The Carrabassett Formation is one of the youngest formations of the Central Maine Basin and was deposited just prior to the Acadian orogeny. The Carrabassett and Kittery formations have major and trace element concentrations suggestive of passive margin turbidites derived from intermediate to felsic sources, inconsistent with a juvenile Avalonian provenance. The Carrabassett Formation contains detrital zircon grains that match the ages of peri-Gondwanan Ganderia. Unlike the dominance of positive bulk-rock εNd values that are characteristic of Avalonia, Ganderia has negative εNd values that are a better match for the negative εNd values of the Carrabassett and Kittery formations. However, Ganderia accreted to Laurentia during the Salinic orogeny, prior to the deposition of the Carrabassett Formation, and was basement to the sediments of the Central Maine Basin upon which the Carrabassett and other formations were deposited. Wedging of Ganderia by Avalonia during the initial stages of the Acadian orogeny may have uplifted Ganderia, forming highlands outboard of the Central Maine Basin that served as the source of the Carrabassett Formation sediments. RÉSUMÉ Le bassin central du Maine et la cuvette de Merrimack constituent des bassins siluriens s’étant formés le long de la marge laurentienne ou s’y étant accrétés au cours de l’orogenèse acadienne. La Formation du Dévonien précoce de Carrabassett, dans le bassin central du Maine, et la Formation de Kittery, de la cuvette de Merrimack, présentent des compositions en éléments majeurs et traces signalant une provenance d’une marge continentale passive, à l’instar des formations plus âgées du bassin central du Maine qu’on pense originaires de sources laurentiennes. Les formations de Carrabassett et de Kittery comportent toutefois des indicateurs de paléocourants de sources extérieures. La Formation de Carrabassett constitue l’une des formations les plus récentes du bassin central du Maine; elle s’est mise en place juste avant l’orogenèse acadienne. Les caractéristiques géochimiques et géochronologique des formations de Carrabassett et de Kittery pourraient par conséquent permettre l’identification du terrane de collision. Les formations de Carrabassett et de Kittery possèdent des concentrations d’éléments majeurs et traces évoquant les turbidites de marge passive en provenance de sources intermédiaires à felsiques, ce qui est contradictoire avec une origine avalonienne juvénile. La Formation de Carrabassett comporte des grains détritiques de zircon correspondant aux âges du Ganderia périgondwanien. Contrairement à la prédominance de concentrations εNd positives de roche en vrac caractéristiques d’Avalonia, Ganderia présentent des concentrations εNd négatives qui cadrent mieux avec les concentrations εNd négatives des formations de Carrabassett et de Kittery. Ganderia s’est toutefois accrété à Laurentia au cours de l’orogenèse salinique, avant le dépôt de la Formation de Carrabassett, et il a constitué le socle des sédiments du bassin central du Maine sur lesquels Carrabassett et d’autres formations se sont déposées. L’enfoncement d’Avalonia sous Ganderia au cours des stades initiaux de l’orogenèse acadienne pourrait avoir soulevé Ganderia, formant un massif à l’extérieur du bassin central du Maine qui a servi de source aux sédiments de la Formation de Carrabassett. [Traduit par la redaction

Quasars: What turns them off?

(Abridged) We explore the idea that the anti-hierarchical turn-off observed in the quasar population arises from self-regulating feedback, via an outflow mechanism. Using a detailed hydrodynamic simulation we calculate the luminosity function of quasars down to a redshift of z=1 in a large, cosmologically representative volume. Outflows are included explicitly by tracking halo mergers and driving shocks into the surrounding intergalactic medium. Our results are in excellent agreement with measurements of the spatial distribution of quasars, and we detect an intriguing excess of galaxy-quasar pairs at very short separations. We also reproduce the anti-hierarchical turnoff in the quasar luminosity function, however, the magnitude of the turn-off falls short of that observed as well as that predicted by analogous semi-analytic models. The difference can be traced to the treatment of gas heating within galaxies. The simulated galaxy cluster L_X-T relationship is close to that observed for z~1 clusters, but the simulated galaxy groups at z=1 are significantly perturbed by quasar outflows, suggesting that measurements of X-ray emission in high-redshift groups could well be a "smoking gun" for the AGN heating hypothesis.Comment: 16 pages, 11 figures, submitted to ApJ, comments welcome

Most \u3cem\u3eCaenorhabditis elegans\u3c/em\u3e MicroRNAs are Individually Not Essential for Development or Viability

MicroRNAs (miRNAs), a large class of short noncoding RNAs found in many plants and animals, often act to post-transcriptionally inhibit gene expression. We report the generation of deletion mutations in 87 miRNA genes in Caenorhabditis elegans, expanding the number of mutated miRNA genes to 95, or 83% of known C. elegans miRNAs. We find that the majority of miRNAs are not essential for the viability or development of C. elegans, and mutations in most miRNA genes do not result in grossly abnormal phenotypes. These observations are consistent with the hypothesis that there is significant functional redundancy among miRNAs or among gene pathways regulated by miRNAs. This study represents the first comprehensive genetic analysis of miRNA function in any organism and provides a unique, permanent resource for the systematic study of miRNAs

Deep Variational Lesion-Deficit Mapping

Causal mapping of the functional organisation of the human brain requires evidence of \textit{necessity} available at adequate scale only from pathological lesions of natural origin. This demands inferential models with sufficient flexibility to capture both the observable distribution of pathological damage and the unobserved distribution of the neural substrate. Current model frameworks -- both mass-univariate and multivariate -- either ignore distributed lesion-deficit relations or do not model them explicitly, relying on featurization incidental to a predictive task. Here we initiate the application of deep generative neural network architectures to the task of lesion-deficit inference, formulating it as the estimation of an expressive hierarchical model of the joint lesion and deficit distributions conditioned on a latent neural substrate. We implement such deep lesion deficit inference with variational convolutional volumetric auto-encoders. We introduce a comprehensive framework for lesion-deficit model comparison, incorporating diverse candidate substrates, forms of substrate interactions, sample sizes, noise corruption, and population heterogeneity. Drawing on 5500 volume images of ischaemic stroke, we show that our model outperforms established methods by a substantial margin across all simulation scenarios, including comparatively small-scale and noisy data regimes. Our analysis justifies the widespread adoption of this approach, for which we provide an open source implementation: https://github.com/guilherme-pombo/vae_lesion_defici