Streptococcus pyogenes Causing Skin and Soft Tissue Infections Are Enriched in the Recently Emerged emm89 Clade 3 and Are Not Associated With Abrogation of CovRS

Although skin and soft tissue infections (SSTI) are the most common focal infections associated with invasive disease caused by Streptococcus pyogenes (Lancefield Group A streptococci - GAS), there is scarce information on the characteristics of isolates recovered from SSTI in temperate-climate regions. In this study, 320 GAS isolated from SSTI in Portugal were characterized by multiple typing methods and tested for antimicrobial susceptibility and SpeB activity. The covRS and ropB genes of isolates with no detectable SpeB activity were sequenced. The antimicrobial susceptibility profile was similar to that of previously characterized isolates from invasive infections (iGAS), presenting a decreasing trend in macrolide resistance. However, the clonal composition of SSTI between 2005 and 2009 was significantly different from that of contemporary iGAS. Overall, iGAS were associated with emm1 and emm3, while SSTI were associated with emm89, the dominant emm type among SSTI (19%). Within emm89, SSTI were only significantly associated with isolates lacking the hasABC locus, suggesting that the recently emerged emm89 clade 3 may have an increased potential to cause SSTI. Reflecting these associations between emm type and disease presentation, there were also differences in the distribution of emm clusters, sequence types, and superantigen gene profiles between SSTI and iGAS. According to the predicted ability of each emm cluster to interact with host proteins, iGAS were associated with the ability to bind fibrinogen and albumin, whereas SSTI isolates were associated with the ability to bind C4BP, IgA, and IgG. SpeB activity was absent in 79 isolates (25%), in line with the proportion previously observed among iGAS. Null covS and ropB alleles (predicted to eliminate protein function) were detected in 10 (3%) and 12 (4%) isolates, corresponding to an underrepresentation of mutations impairing CovRS function in SSTI relative to iGAS. Overall, these results indicate that the isolates responsible for SSTI are genetically distinct from those recovered from normally sterile sites, supporting a role for mutations impairing CovRS activity specifically in invasive infection and suggesting that this role relies on a differential regulation of other virulence factors besides SpeB

MAMMALS IN PORTUGAL : A data set of terrestrial, volant, and marine mammal occurrences in P ortugal

Mammals are threatened worldwide, with 26% of all species being includedin the IUCN threatened categories. This overall pattern is primarily associatedwith habitat loss or degradation, and human persecution for terrestrial mam-mals, and pollution, open net fishing, climate change, and prey depletion formarine mammals. Mammals play a key role in maintaining ecosystems func-tionality and resilience, and therefore information on their distribution is cru-cial to delineate and support conservation actions. MAMMALS INPORTUGAL is a publicly available data set compiling unpublishedgeoreferenced occurrence records of 92 terrestrial, volant, and marine mam-mals in mainland Portugal and archipelagos of the Azores and Madeira thatincludes 105,026 data entries between 1873 and 2021 (72% of the data occur-ring in 2000 and 2021). The methods used to collect the data were: live obser-vations/captures (43%), sign surveys (35%), camera trapping (16%),bioacoustics surveys (4%) and radiotracking, and inquiries that represent lessthan 1% of the records. The data set includes 13 types of records: (1) burrowsjsoil moundsjtunnel, (2) capture, (3) colony, (4) dead animaljhairjskullsjjaws, (5) genetic confirmation, (6) inquiries, (7) observation of live animal (8),observation in shelters, (9) photo trappingjvideo, (10) predators dietjpelletsjpine cones/nuts, (11) scatjtrackjditch, (12) telemetry and (13) vocalizationjecholocation. The spatial uncertainty of most records ranges between 0 and100 m (76%). Rodentia (n=31,573) has the highest number of records followedby Chiroptera (n=18,857), Carnivora (n=18,594), Lagomorpha (n=17,496),Cetartiodactyla (n=11,568) and Eulipotyphla (n=7008). The data setincludes records of species classified by the IUCN as threatened(e.g.,Oryctolagus cuniculus[n=12,159],Monachus monachus[n=1,512],andLynx pardinus[n=197]). We believe that this data set may stimulate thepublication of other European countries data sets that would certainly contrib-ute to ecology and conservation-related research, and therefore assisting onthe development of more accurate and tailored conservation managementstrategies for each species. There are no copyright restrictions; please cite thisdata paper when the data are used in publications.info:eu-repo/semantics/publishedVersio

Streptococcus canis Are a Single Population Infecting Multiple Animal Hosts Despite the Diversity of the Universally Present M-Like Protein SCM

Streptococcus canis is an animal pathogen which occasionally causes infections in humans. The S. canis M-like protein (SCM) encoded by the scm gene, is its best characterized virulence factor but previous studies suggested it could be absent in a substantial fraction of isolates. We studied the distribution and variability of the scm gene in 188 S. canis isolates recovered from companion animals (n = 152), wild animal species (n = 20), and humans (n = 14). Multilocus sequence typing, including the first characterization of wildlife isolates, showed that the same lineages are present in all animal hosts, raising the possibility of extensive circulation between species. Whole-genome analysis revealed that emm-like genes found previously in S. canis correspond to divergent scm genes, indicating that what was previously believed to correspond to two genes is in fact the same scm locus. We designed primers allowing for the first time the successful amplification of the scm gene in all isolates. Analysis of the scm sequences identified 12 distinct types, which could be divided into two clusters: group I (76%, n = 142) and group II (24%, n = 46) sharing little sequence similarity. The predicted group I SCM showed extensive similarity with each other outside of the N-terminal hypervariable region and a conserved IgG binding domain. This domain was absent from group II SCM variants found in isolates previously thought to lack the scm gene, which also showed greater amino acid variability. Further studies are necessary to elucidate the possible host interacting partners of the group II SCM variants and their role in virulence

Pervasive gaps in Amazonian ecological research

Biodiversity loss is one of the main challenges of our time,1,2 and attempts to address it require a clear un derstanding of how ecological communities respond to environmental change across time and space.3,4 While the increasing availability of global databases on ecological communities has advanced our knowledge of biodiversity sensitivity to environmental changes,5–7 vast areas of the tropics remain understudied.8–11 In the American tropics, Amazonia stands out as the world’s most diverse rainforest and the primary source of Neotropical biodiversity,12 but it remains among the least known forests in America and is often underrepre sented in biodiversity databases.13–15 To worsen this situation, human-induced modifications16,17 may elim inate pieces of the Amazon’s biodiversity puzzle before we can use them to understand how ecological com munities are responding. To increase generalization and applicability of biodiversity knowledge,18,19 it is thus crucial to reduce biases in ecological research, particularly in regions projected to face the most pronounced environmental changes. We integrate ecological community metadata of 7,694 sampling sites for multiple or ganism groups in a machine learning model framework to map the research probability across the Brazilian Amazonia, while identifying the region’s vulnerability to environmental change. 15%–18% of the most ne glected areas in ecological research are expected to experience severe climate or land use changes by 2050. This means that unless we take immediate action, we will not be able to establish their current status, much less monitor how it is changing and what is being lostinfo:eu-repo/semantics/publishedVersio

Mammals in Portugal: a data set of terrestrial, volant, and marine mammal occurrences in Portugal

Mammals are threatened worldwide, with ~26% of all species being included in the IUCN threatened categories. This overall pattern is primarily associated with habitat loss or degradation, and human persecution for terrestrial mammals, and pollution, open net fishing, climate change, and prey depletion for marine mammals. Mammals play a key role in maintaining ecosystems functionality and resilience, and therefore information on their distribution is crucial to delineate and support conservation actions. MAMMALS IN PORTUGAL is a publicly available data set compiling unpublished georeferenced occurrence records of 92 terrestrial, volant, and marine mammals in mainland Portugal and archipelagos of the Azores and Madeira that includes 105,026 data entries between 1873 and 2021 (72% of the data occurring in 2000 and 2021). The methods used to collect the data were: live observations/captures (43%), sign surveys (35%), camera trapping (16%), bioacoustics surveys (4%) and radiotracking, and inquiries that represent less than 1% of the records. The data set includes 13 types of records: (1) burrows | soil mounds | tunnel, (2) capture, (3) colony, (4) dead animal | hair | skulls | jaws, (5) genetic confirmation, (6) inquiries, (7) observation of live animal (8), observation in shelters, (9) photo trapping | video, (10) predators diet | pellets | pine cones/nuts, (11) scat | track | ditch, (12) telemetry and (13) vocalization | echolocation. The spatial uncertainty of most records ranges between 0 and 100 m (76%). Rodentia (n =31,573) has the highest number of records followed by Chiroptera (n = 18,857), Carnivora (n = 18,594), Lagomorpha (n = 17,496), Cetartiodactyla (n = 11,568) and Eulipotyphla (n = 7008). The data set includes records of species classified by the IUCN as threatened (e.g., Oryctolagus cuniculus [n = 12,159], Monachus monachus [n = 1,512], and Lynx pardinus [n = 197]). We believe that this data set may stimulate the publication of other European countries data sets that would certainly contribute to ecology and conservation-related research, and therefore assisting on the development of more accurate and tailored conservation management strategies for each species. There are no copyright restrictions; please cite this data paper when the data are used in publications

Pervasive gaps in Amazonian ecological research

Biodiversity loss is one of the main challenges of our time,1,2 and attempts to address it require a clear understanding of how ecological communities respond to environmental change across time and space.3,4 While the increasing availability of global databases on ecological communities has advanced our knowledge of biodiversity sensitivity to environmental changes,5,6,7 vast areas of the tropics remain understudied.8,9,10,11 In the American tropics, Amazonia stands out as the world's most diverse rainforest and the primary source of Neotropical biodiversity,12 but it remains among the least known forests in America and is often underrepresented in biodiversity databases.13,14,15 To worsen this situation, human-induced modifications16,17 may eliminate pieces of the Amazon's biodiversity puzzle before we can use them to understand how ecological communities are responding. To increase generalization and applicability of biodiversity knowledge,18,19 it is thus crucial to reduce biases in ecological research, particularly in regions projected to face the most pronounced environmental changes. We integrate ecological community metadata of 7,694 sampling sites for multiple organism groups in a machine learning model framework to map the research probability across the Brazilian Amazonia, while identifying the region's vulnerability to environmental change. 15%–18% of the most neglected areas in ecological research are expected to experience severe climate or land use changes by 2050. This means that unless we take immediate action, we will not be able to establish their current status, much less monitor how it is changing and what is being lost

Pervasive gaps in Amazonian ecological research

Biodiversity loss is one of the main challenges of our time,1,2 and attempts to address it require a clear understanding of how ecological communities respond to environmental change across time and space.3,4 While the increasing availability of global databases on ecological communities has advanced our knowledge of biodiversity sensitivity to environmental changes,5,6,7 vast areas of the tropics remain understudied.8,9,10,11 In the American tropics, Amazonia stands out as the world's most diverse rainforest and the primary source of Neotropical biodiversity,12 but it remains among the least known forests in America and is often underrepresented in biodiversity databases.13,14,15 To worsen this situation, human-induced modifications16,17 may eliminate pieces of the Amazon's biodiversity puzzle before we can use them to understand how ecological communities are responding. To increase generalization and applicability of biodiversity knowledge,18,19 it is thus crucial to reduce biases in ecological research, particularly in regions projected to face the most pronounced environmental changes. We integrate ecological community metadata of 7,694 sampling sites for multiple organism groups in a machine learning model framework to map the research probability across the Brazilian Amazonia, while identifying the region's vulnerability to environmental change. 15%–18% of the most neglected areas in ecological research are expected to experience severe climate or land use changes by 2050. This means that unless we take immediate action, we will not be able to establish their current status, much less monitor how it is changing and what is being lost

O ciclo construtivo da Casa de Bragança nos séculos XV e XVI: os seus paços ducais em Guimarães e Lisboa

Tese de doutoramento em Arquitetura (especialidade em Cultura Arquitetónica)Com esta investigação propomos o estudo da arquitectura senhorial quatrocentista patrocinada pela Casa de Bragança, numa análise comparada entre as casas senhoriais construídas por esta família durante o século XV e início do século XVI. Neste período, a Casa de Bragança edificou o paço em Barcelos (c.1410), Guimarães (c.1420), Ourém (c.1440), Porto de Mós (c.1450), Lisboa (c.1500) e Vila Viçosa (c.1501) que, quando analisados em conjunto, permitem identificar uma linhagem de moradas projetadas pelos Bragança segundo motivações político-simbólicas idênticas, que se refletiram em princípios de implantação e de relação com a envolvente análogos. Nesta trajetória secular, olhamos aprofundadamente os paços ducais em Guimarães e em Lisboa, situados no início e no fim da cronologia sobre a qual nos debruçamos. O Paço dos Duques de Bragança em Guimarães foi – a partir do século XVII, num reconhecimento reitera do pelo Estado Novo – entendido como um dos mais importantes monumentos de Guimarães e do país. Fundado nas primeiras décadas de Quatrocentos, foi sede da Casa de Bragança até à mudança definitiva do ducado para Vila Viçosa na centúria seguinte. O Paço dos Duques em Lisboa é, ainda hoje, um edifício relativamente desconhecido e genericamente tido como desaparecido em Setecentos, na sequência do terramoto de 1755. Construído nos alvores do século XVI, época de renovação e reafirmação do poder do Duque de Bragança, este paço ducal representa uma atualização das premissas que impulsionaram a construção ex novo dos palácios da Casa de Bragança, uma mudança que será definitivamente confirma da com a construção do paço ducal em Vila Viçosa. O estudo da evolução arquitetónica de ambos os palácios desde o período da sua fundação até à atualidade, considerando as suas sucessivas ocupações e intervenções, orienta a pesquisa que nos propomos desenvolver. Pretendemos, a partir do reconhecimento tipológico, morfológico e métrico destas seis moradias no geral, e da análise dos paços em Guimarães e Lisboa em particular, articular conhecimentos oriundos, sobretudo, dos campos disciplinares da Arquitectura e da História, estabelecendo nexos alargados entre a ação edificatória dos Bragança nas suas componentes arquitetónica, simbólica e de afirmação territorial.This research aims to study manor houses built by the House of Bragança during the XVth and early-XVIth century: the Earl’s Palace in Barcelos (c.1410), the Ducal Palace in Guimarães (c.1420), the Earl’s Palace in Ourém (c.1440) and in Porto de Mós (c.1450), the Ducal Palace in Lisbon (c.1500) and in Vila Viçosa (c.1501). When analyzed together, these palaces take part in a lineage of manor houses built by this House following similar political motivations and the same architectural typology on a territorial scale. Taking on a closer approach to the Ducal Palace in Guimarães and Lisbon, we set to study the trajectory of the House of Bragança during a period of great convulsion in its history. The Ducal Palace in Guimarães was acknowledged as one of the most important monuments in the coun try before the very notion of heritage was established. Built in the early onset of the XVth century, it was the seat of the House of Bragança until its definite shift towards Alentejo and Vila Viçosa in the following years. The Ducal Palace in Lisbon is still fairly unknown today and is thought to have disappeared in the mid XVIIth century, during the aftermath of Lisbon’s earthquake. Built in the early-XVIth century, a time of renewal of the Bragança’s power and domain, it represents an update in some of the premises that guided the construction of these manor houses, a change in the modus operandi that was later confirmed with the construction of the Ducal Palace in Vila Viçosa. Theoretical and constructive knowledge is articulated from its metric, morphological and typologic analysis, revealing the palaces in a context of continuity and as part of a greater lineage with territorial repercus sions. Broader connections between the Bragança’s expressive constructive endeavours and the territorial domain shown by the palaces’ location sites will be studied, analysing a potential relationship with the establishment of this family in Portuguese society. This research seeks to contribute to understanding a new noble house conception, shaped during a period in which the realm’s stability and thriving relations with Europe created conditions favourable to a changing paradigm.Este trabalho foi financiado pela Fundação para a Ciência e Tecnologia sob a forma de Bolsa de Doutoramento (SFRH/BD/130715/2017), financiado pelo Programa Operacional Temático Fatores de Competitividade (COMPETE) e comparticipados pelo Fundo Comunitário Europeu FEDER

Precision Agriculture in Rice (<i>Oryza sativa</i> L.) Biofortified with Selenium

Remote sensing data are powerful tools that contribute to sustainability and efficiency in crop management. Rice (Oryza sativa L.) is widely recognized as one of the most important crops in terms of economic and social impact. The aim of this study was to evaluate the efficiency of the use of Unmanned Aerial Vehicles (UAVs) in providing valuable information regarding plant health and status with respect to two rice varieties (Ariete and Ceres) submitted to a biofortification workflow with two types of selenium (sodium selenate and sodium selenite). In this context, through the use of synchronized UAVs, the state of the culture was further assessed. As well, digital elevation models, water lines, slope classes/infiltration suitability, and the Normalized Difference Vegetation Index (NDVI) were considered. Additionally, leaf gas exchange measurements were conducted during the biofortification process and Se content in rice was quantified. The NDVI index ranged from 0.76 to 0.80, with no significant differences regarding control. The water drainage pattern following the artificial pattern created by grooves between plots was observed. Furthermore, selenite application up to 100 g Se.ha−1 did not exhibit toxicity effects on the biofortified plants and presented grain enrichment of 16.09 µg g−1 (Ariete) and 15.46 µg g−1 (Ceres). In conclusion, precision agriculture techniques and the utilization of data from leaf gas exchanges allow for efficient monitoring of experimental field conditions and are highly useful tools in decision-making