Genome assembly of the polyclad flatworm Prostheceraeus crozieri

Polyclad flatworms are widely thought to be one of the least derived of the flatworm classes and, as such, are well placed to investigate evolutionary and developmental features such as spiral cleavage and larval diversification lost in other platyhelminths. Prostheceraeus crozieri, formerly Maritigrella crozieri, is an emerging model polyclad flatworm that already has some useful transcriptome data but, to date, no sequenced genome. We have used high molecular weight DNA extraction and long read PacBio sequencing to assemble the highly repetitive (67.9%) P. crozieri genome (2.07 Gb). We have annotated 43,325 genes, with 89.7% BUSCO 26 completeness. Perhaps reflecting its large genome, introns were considerably larger than other free-living flatworms, but evidence of abundant transposable elements suggests genome expansion has been principally via transposable elements activity. This genome resource will be of great use for future developmental and phylogenomic research

The palate and choanae structure of the Susisuchus anatoceps (Crocodyliformes, Eusuchia): phylogenetic implications

Crocodyliformes is a group with a broad fossil record, in which several morphological changes have been documented. Among known transformations the most iconic is perhaps the series of changes seen in the structural evolution of the choanae. The change in the position of the choanae was important during the evolutionary history of the Crocodyliformes. This structure is relevant in the phylogenetic position of many crocodyliforms. The new skull of Susisuchus anatoceps from the Crato Formation of the Santana Group (Lower Cretaceous) is described and the preservation in the ventral view allows character encoding not yet observed for the species. The new specimen shows a typical eusuchian palate for Susisuchus anatoceps, in which the choana is fully enclosed by the pterygoid. The Susisuchidae clade has been placed in different phylogenetic positions: as a sister group of Eusuchia, advanced Neosuchia and in Eusuchia. In Isisfordia there are reports that the choana of this taxon is or is not fully enclosed by the pterygoid. The encoding of the ventral characters of S. anatoceps places Susisuchidae in Eusuchia. However, this position must be further studied, since the matrices showed fragility in the reconstitution of the Neosuchia–Eusuchia transition

Evolution of the Spider Homeobox Gene Repertoire by Tandem and Whole Genome Duplication

Gene duplication generates new genetic material that can contribute to the evolution of gene regulatory networks and phenotypes. Duplicated genes can undergo subfunctionalization to partition ancestral functions and/or neofunctionalization to assume a new function. We previously found there had been a whole genome duplication (WGD) in an ancestor of arachnopulmonates, the lineage including spiders and scorpions but excluding other arachnids like mites, ticks, and harvestmen. This WGD was evidenced by many duplicated homeobox genes, including two Hox clusters, in spiders. However, it was unclear which homeobox paralogues originated by WGD versus smaller-scale events such as tandem duplications. Understanding this is a key to determining the contribution of the WGD to arachnopulmonate genome evolution. Here we characterized the distribution of duplicated homeobox genes across eight chromosome-level spider genomes. We found that most duplicated homeobox genes in spiders are consistent with an origin by WGD. We also found two copies of conserved homeobox gene clusters, including the Hox, NK, HRO, Irx, and SINE clusters, in all eight species. Consistently, we observed one copy of each cluster was degenerated in terms of gene content and organization while the other remained more intact. Focussing on the NK cluster, we found evidence for regulatory subfunctionalization between the duplicated NK genes in the spider Parasteatoda tepidariorum compared to their single-copy orthologues in the harvestman Phalangium opilio. Our study provides new insights into the relative contributions of multiple modes of duplication to the homeobox gene repertoire during the evolution of spiders and the function of NK genes

Valorização de resíduos da indústria de fundição em argamassas de revestimento para edifícios

Atualmente, a gestão de resíduos é um enorme desafio para as indústrias produtoras, mas também uma enorme oportunidade para a indústria da construção, que pode reutilizar e valorizar esses resíduos produzindo materiais de construção, com baixo custo e impacto ambiental. Mais do que nunca, a sustentabilidade da construção e a proteção do meio ambiente são uma questão prioritária, que tem estado sob escrutínio do governo e das autoridades. Anualmente, são necessários mais de 48 bilhões de toneladas de agregados na indústria da construção, principalmente associados à produção de betões e argamassas [1]. A atividade de explorar um grande número de recursos minerais não é sustentável. Por outro lado, a alocação em aterros sanitários ou a incineração de resíduos têm causado sérios problemas de poluição [2]. Estima-se que mundialmente existam aproximadamente 35000 indústrias de fundição em funcionamento, com uma produção anual de 90 milhões de toneladas de resíduos de fundição. Sendo que, mais de 10 milhões de toneladas de resíduos de fundição sejam descartados, causando graves problemas ambientais, sociais e econômicos. É essencial a exploração, até ao esgotamento de todas as possibilidades, da utilização de subprodutos industriais como matériaprima para a produção de materiais de construção. Prevê-se que a utilização de agregado reciclado reduza o custo dos agregados e ofereça vários benefícios ambientais comparativamente ao agregado natural, tais como a redução em 30% de energia incorporada e em 60% das emissões de dióxido de carbono para a atmosfera [1]. As cascas de moldes de cerâmicos (CMC) resultam do processo de fundição por cera perdida, nos quais estes são utilizados apenas uma vez. Até ao momento, pouco se sabe sobre os resíduos de fundição gerados nos processos de fundição por cera perdida. Contudo, um estudo preliminar desenvolvido recentemente por esta equipa de investigação verificou que a presença de CMC originou o desenvolvimento de microfissuras devido à expansibilidade das argamassas [3]. Assim, o objetivo deste trabalho consistiu em avaliar a eficácia um método de tratamento (lavagem das CMC) no comportamento físico e mecânico de argamassas com incorporação de diferentes teores de resíduo industrial

Anomalous oriented attachment growth behavior on SnO2 nanocrystals

This work reports a detailed characterization of an anomalous oriented attachment behaviour for SnO2 nanocrystals. Our results evidenced an anisotropic growth for two identical 〈110〉 directions, which are equivalent according to the SnO2 crystallographic structure symmetry. A hypothesis is proposed to describe this behaviour

A Family of Nonlinear Fourth Order Equations of Gradient Flow Type

Global existence and long-time behavior of solutions to a family of nonlinear fourth order evolution equations on $R^d$ are studied. These equations constitute gradient flows for the perturbed information functionals $F[u] = 1/(2\alpha) \int | D (u^\alpha) |^2 dx + \lambda/2 \int |x|^2 u dx$ with respect to the $L^2$-Wasserstein metric. The value of $\alpha$ ranges from $\alpha=1/2$, corresponding to a simplified quantum drift diffusion model, to $\alpha=1$, corresponding to a thin film type equation.Comment: 33 pages, no figure

An atlas of spider development at single-cell resolution provides new insights into arthropod embryogenesis

Spiders are a diverse order of chelicerates that diverged from other arthropods over 500 million years ago. Research on spider embryogenesis, particularly studies using the common house spider Parasteatoda tepidariorum, has made important contributions to understanding the evolution of animal development, including axis formation, segmentation, and patterning. However, we lack knowledge about the cells that build spider embryos, their gene expression profiles and fate. Single-cell transcriptomic analyses have been revolutionary in describing these complex landscapes of cellular genetics in a range of animals. Therefore, we carried out single-cell RNA sequencing of P. tepidariorum embryos at stages 7, 8 and 9, which encompass the establishment and patterning of the body plan, and initial differentiation of many tissues and organs. We identified 20 cell clusters, from 18.5 k cells, which were marked by many developmental toolkit genes, as well as a plethora of genes not previously investigated. We found differences in the cell cycle transcriptional signatures, suggestive of different proliferation dynamics, which related to distinctions between endodermal and some mesodermal clusters, compared with ectodermal clusters. We identified many Hox genes as markers of cell clusters, and Hox gene ohnologs were often present in different clusters. This provided additional evidence of sub- and/or neo-functionalisation of these important developmental genes after the whole genome duplication in an arachnopulmonate ancestor (spiders, scorpions, and related orders). We also examined the spatial expression of marker genes for each cluster to generate a comprehensive cell atlas of these embryonic stages. This revealed new insights into the cellular basis and genetic regulation of head patterning, hematopoiesis, limb development, gut development, and posterior segmentation. This atlas will serve as a platform for future analysis of spider cell specification and fate, and studying the evolution of these processes among animals at cellular resolution

Wild dogs at stake: deforestation threatens the only Amazon endemic canid, the short-eared dog (Atelocynus microtis)

The persistent high deforestation rate and fragmentation of the Amazon forests are the main threats to their biodiversity. To anticipate and mitigate these threats, it is important to understand and predict how species respond to the rapidly changing landscape. The short-eared dog Atelocynus microtis is the only Amazon-endemic canid and one of the most understudied wild dogs worldwide. We investigated short-eared dog habitat associations on two spatial scales. First, we used the largest record database ever compiled for short-eared dogs in combination with species distribution models to map species habitat suitability, estimate its distribution range and predict shifts in species distribution in response to predicted deforestation across the entire Amazon (regional scale). Second, we used systematic camera trap surveys and occupancy models to investigate how forest cover and forest fragmentation affect the space use of this species in the Southern Brazilian Amazon (local scale). Species distribution models suggested that the short-eared dog potentially occurs over an extensive and continuous area, through most of the Amazon region south of the Amazon River. However, approximately 30% of the short-eared dog's current distribution is expected to be lost or suffer sharp declines in habitat suitability by 2027 (within three generations) due to forest loss. This proportion might reach 40% of the species distribution in unprotected areas and exceed 60% in some interfluves (i.e. portions of land separated by large rivers) of the Amazon basin. Our local-scale analysis indicated that the presence of forest positively affected short-eared dog space use, while the density of forest edges had a negative effect. Beyond shedding light on the ecology of the short-eared dog and refining its distribution range, our results stress that forest loss poses a serious threat to the conservation of the species in a short time frame. Hence, we propose a re-assessment of the short-eared dog's current IUCN Red List status (Near Threatened) based on findings presented here. Our study exemplifies how data can be integrated across sources and modelling procedures to improve our knowledge of relatively understudied species