Microbiologia molecular na aquacultura: em busca de uma comunidade microbiana saudável

The microbial communities of aquaculture systems are involved in maintaining the health and growth of farmed organisms. They participate in nutrient cycling, nutrition, disease control and water quality of the system and effluents. We use DGGE fingerprint techniques and high-throughput sequencing analyzes to access the semi-intensive and intensive aquaculture microbiota. First, we investigated the composition of the bacterioplankton communities of a recirculating aquaculture system (RAS) used for the production of juveniles sole (Solea senegalensis). The most abundant orders detected in the aquaculture of sole were: Alteromonadales, Rhodobacterales, Oceanospirillales, Vibrionales and Flavobacteriales. OTUs related to potential fish pathogens in aquaculture systems were detected, as well as naturally occurring probiotic bacteria. These may have played a role in suppressing potential pathogens of fish, keeping the aquaculture free from disease. In an aquaculture of adult sole, the presence of fish was described as the main factor influencing bacterial composition. Here, supply water served as an important seed bank for the colonization of bacterial populations in the hatchery RAS tanks, mainly related to probiotic bacteria. The importance of this compartment for the maintenance of a healthy aquaculture and its importance in the development of strategies for microbial manipulation/management of aquaculture was reinforced. Subsequently, we describe the seasonal dynamics and potential interactions of bacterial and microeukaryotic plankton communities in a semi-intensive aquaculture for European sea bass (Dicentrarchus labrax) over a year. The most abundant bacterial classes were Gammaproteobacteria, Flavobacteriia and Alphaproteobacteria; while the microeukaryotic communities were dominated by the Ochrophyta, Chlorophyta and Ciliophora groups. Here, in addition to the potential effects of abiotic parameters on microbial plankton, there was a correlation between bacterial and microeukaryote populations which may be an indication of trophic and / or metabolic interdependence between these two domains. These studies allowed us to describe the normal microbiota of aquaculture systems, their ecological interactions and the impacts exerted by environmental factors in order to support the development of strategies for the maintenance of a productive and healthy environment.As comunidades microbianas dos sistemas de aquacultura estão envolvidas na manutenção da saúde e crescimento dos organismos cultivados. Participam no ciclo dos nutrientes, nutrição, controle de doenças e qualidade da água do sistema e efluentes. Neste trabalho foram utilizadas técnicas independentes de cultivo (Denaturing Gradient Gel Electrophoresis e sequenciação) para caracterizar o microbioma da água de um sistema semi-intensivo e um sistema intensivo de aquacultura de peixes. Primeiro, investigamos a composição das comunidades bacterioplânctonicas de um sistema de aquacultura recirculante (SRA) utilizado para a produção de juvenis de linguado (Solea senegalensis). As ordens mais abundantes detectadas nas aquaculturas de liguado foram: Alteromonadales, Rhodobacterales, Oceanospirillales, Vibrionales e Flavobacteriales. Foram detetadas sequências com similaridade a espécies potencialmente patogénicas, assim como sequências com similaridade a grupos previamente descritos como probióticos. É discutido o papel destas ultimas na supressão dos potenciais patógenos de peixes e manutenção de um ambiente saudável (sem surtos de doenças). Numa aquacultura de adultos de linguados, a presença dos peixes foi descrita como um dos principais fatores determinantes na composição das comunidades bacterianas. Aqui, a água atuou como um importante banco de sementes para a colonização de populações bacterianas nos tanques do SRA, principalmente das relacionadas às bactérias probióticas. Este trabalho demonstra que a origem da água pode ter um papel relevante na manutenção de uma comunidade microbiana saudável, reforçando a sua importância em possíveis estratégias de manipulação/gestão microbiana das aquaculturas. Posteriormente, descrevemos a dinâmica sazonal e potenciais interações das comunidades de plâncton bacteriano e microeucariótico em uma aquicultura semi-intensiva para robalo (Dicentrarchus labrax) durante um ano. As classes bacterianas mais abundantes foram Gammaproteobacteria, Flavobacteriia e Alphaproteobacteria; enquanto a comunidades microeucariotica foi dominada pelos grupos Ochrophyta, Chlorophyta e Ciliophora. Aqui, além dos efeitos potenciais dos parâmetros abióticos no plâncton microbiano, houve correlação entre as populações de bactérias e microeucariotos o que pode ser uma indicação de interdependência trófica e / ou metabólica entre estes dois domínios. Estes estudos permitiram-nos descrever o microbioma normal de sistemas de aquacultura, suas interações ecológicas e os impactos exercidos pelos fatores ambientais com o intuito de fundamentar o desenvolvimento de estratégias para a manutenção de um ambiente produtivo e saudável.Programa Doutoral em Biologi

NEOTROPICAL CARNIVORES: a data set on carnivore distribution in the Neotropics

Mammalian carnivores are considered a key group in maintaining ecological health and can indicate potential ecological integrity in landscapes where they occur. Carnivores also hold high conservation value and their habitat requirements can guide management and conservation plans. The order Carnivora has 84 species from 8 families in the Neotropical region: Canidae; Felidae; Mephitidae; Mustelidae; Otariidae; Phocidae; Procyonidae; and Ursidae. Herein, we include published and unpublished data on native terrestrial Neotropical carnivores (Canidae; Felidae; Mephitidae; Mustelidae; Procyonidae; and Ursidae). NEOTROPICAL CARNIVORES is a publicly available data set that includes 99,605 data entries from 35,511 unique georeferenced coordinates. Detection/non-detection and quantitative data were obtained from 1818 to 2018 by researchers, governmental agencies, non-governmental organizations, and private consultants. Data were collected using several methods including camera trapping, museum collections, roadkill, line transect, and opportunistic records. Literature (peer-reviewed and grey literature) from Portuguese, Spanish and English were incorporated in this compilation. Most of the data set consists of detection data entries (n = 79,343; 79.7%) but also includes non-detection data (n = 20,262; 20.3%). Of those, 43.3% also include count data (n = 43,151). The information available in NEOTROPICAL CARNIVORES will contribute to macroecological, ecological, and conservation questions in multiple spatio-temporal perspectives. As carnivores play key roles in trophic interactions, a better understanding of their distribution and habitat requirements are essential to establish conservation management plans and safeguard the future ecological health of Neotropical ecosystems. Our data paper, combined with other large-scale data sets, has great potential to clarify species distribution and related ecological processes within the Neotropics. There are no copyright restrictions and no restriction for using data from this data paper, as long as the data paper is cited as the source of the information used. We also request that users inform us of how they intend to use the data

Measurement of the double-differential inclusive jet cross section in proton-proton collisions at s\sqrt{s} = 5.02 TeV

International audienceThe inclusive jet cross section is measured as a function of jet transverse momentum $p_\mathrm{T}$ and rapidity $y$. The measurement is performed using proton-proton collision data at $\sqrt{s}$ = 5.02 TeV, recorded by the CMS experiment at the LHC, corresponding to an integrated luminosity of 27.4 pb$^{-1}$. The jets are reconstructed with the anti-$k_\mathrm{T}$ algorithm using a distance parameter of $R$ = 0.4, within the rapidity interval $\lvert y\rvert$$\lt$ 2, and across the kinematic range 0.06 $\lt$$p_\mathrm{T}$$\lt$ 1 TeV. The jet cross section is unfolded from detector to particle level using the determined jet response and resolution. The results are compared to predictions of perturbative quantum chromodynamics, calculated at both next-to-leading order and next-to-next-to-leading order. The predictions are corrected for nonperturbative effects, and presented for a variety of parton distribution functions and choices of the renormalization/factorization scales and the strong coupling $\alpha_\mathrm{S}$

Measurement of the double-differential inclusive jet cross section in proton-proton collisions at s= \sqrt{s} = 5.02 TeV

The inclusive jet cross section is measured as a function of jet transverse momentum $p_{\mathrm{T}}$ and rapidity $y$. The measurement is performed using proton-proton collision data at $\sqrt{s} =$ 5.02 TeV, recorded by the CMS experiment at the LHC, corresponding to an integrated luminosity of 27.4$\,\text{pb}^{-1}$. The jets are reconstructed with the anti-$k_{\mathrm{T}}$ algorithm using a distance parameter of $R=$ 0.4, within the rapidity interval $|y| <$ 2, and across the kinematic range 0.06 $< p_{\mathrm{T}} <$ 1 TeV. The jet cross section is unfolded from detector to particle level using the determined jet response and resolution. The results are compared to predictions of perturbative quantum chromodynamics, calculated at both next-to-leading order and next-to-next-to-leading order. The predictions are corrected for nonperturbative effects, and presented for a variety of parton distribution functions and choices of the renormalization/factorization scales and the strong coupling $\alpha_\mathrm{S}$.The inclusive jet cross section is measured as a function of jet transverse momentum $p_\mathrm{T}$ and rapidity $y$. The measurement is performed using proton-proton collision data at $\sqrt{s}$ = 5.02 TeV, recorded by the CMS experiment at the LHC, corresponding to an integrated luminosity of 27.4 pb$^{-1}$. The jets are reconstructed with the anti-$k_\mathrm{T}$ algorithm using a distance parameter of $R$ = 0.4, within the rapidity interval $\lvert y\rvert$$\lt$ 2, and across the kinematic range 0.06 $\lt$$p_\mathrm{T}$$\lt$ 1 TeV. The jet cross section is unfolded from detector to particle level using the determined jet response and resolution. The results are compared to predictions of perturbative quantum chromodynamics, calculated at both next-to-leading order and next-to-next-to-leading order. The predictions are corrected for nonperturbative effects, and presented for a variety of parton distribution functions and choices of the renormalization/factorization scales and the strong coupling $\alpha_\mathrm{S}$

Measurement of the double-differential inclusive jet cross section in proton-proton collisions at s\sqrt{s} = 5.02 TeV

International audienceThe inclusive jet cross section is measured as a function of jet transverse momentum $p_\mathrm{T}$ and rapidity $y$. The measurement is performed using proton-proton collision data at $\sqrt{s}$ = 5.02 TeV, recorded by the CMS experiment at the LHC, corresponding to an integrated luminosity of 27.4 pb$^{-1}$. The jets are reconstructed with the anti-$k_\mathrm{T}$ algorithm using a distance parameter of $R$ = 0.4, within the rapidity interval $\lvert y\rvert$$\lt$ 2, and across the kinematic range 0.06 $\lt$$p_\mathrm{T}$$\lt$ 1 TeV. The jet cross section is unfolded from detector to particle level using the determined jet response and resolution. The results are compared to predictions of perturbative quantum chromodynamics, calculated at both next-to-leading order and next-to-next-to-leading order. The predictions are corrected for nonperturbative effects, and presented for a variety of parton distribution functions and choices of the renormalization/factorization scales and the strong coupling $\alpha_\mathrm{S}$

Measurement of the double-differential inclusive jet cross section in proton-proton collisions at s\sqrt{s} = 5.02 TeV

International audienceThe inclusive jet cross section is measured as a function of jet transverse momentum $p_\mathrm{T}$ and rapidity $y$. The measurement is performed using proton-proton collision data at $\sqrt{s}$ = 5.02 TeV, recorded by the CMS experiment at the LHC, corresponding to an integrated luminosity of 27.4 pb$^{-1}$. The jets are reconstructed with the anti-$k_\mathrm{T}$ algorithm using a distance parameter of $R$ = 0.4, within the rapidity interval $\lvert y\rvert$$\lt$ 2, and across the kinematic range 0.06 $\lt$$p_\mathrm{T}$$\lt$ 1 TeV. The jet cross section is unfolded from detector to particle level using the determined jet response and resolution. The results are compared to predictions of perturbative quantum chromodynamics, calculated at both next-to-leading order and next-to-next-to-leading order. The predictions are corrected for nonperturbative effects, and presented for a variety of parton distribution functions and choices of the renormalization/factorization scales and the strong coupling $\alpha_\mathrm{S}$

Measurement of the double-differential inclusive jet cross section in proton-proton collisions at s\sqrt{s} = 5.02 TeV

International audienceThe inclusive jet cross section is measured as a function of jet transverse momentum $p_\mathrm{T}$ and rapidity $y$. The measurement is performed using proton-proton collision data at $\sqrt{s}$ = 5.02 TeV, recorded by the CMS experiment at the LHC, corresponding to an integrated luminosity of 27.4 pb$^{-1}$. The jets are reconstructed with the anti-$k_\mathrm{T}$ algorithm using a distance parameter of $R$ = 0.4, within the rapidity interval $\lvert y\rvert$$\lt$ 2, and across the kinematic range 0.06 $\lt$$p_\mathrm{T}$$\lt$ 1 TeV. The jet cross section is unfolded from detector to particle level using the determined jet response and resolution. The results are compared to predictions of perturbative quantum chromodynamics, calculated at both next-to-leading order and next-to-next-to-leading order. The predictions are corrected for nonperturbative effects, and presented for a variety of parton distribution functions and choices of the renormalization/factorization scales and the strong coupling $\alpha_\mathrm{S}$

Search for stealth supersymmetry in final states with two photons, jets, and low missing transverse momentum in proton-proton collisions at s\sqrt{s} = 13 TeV

International audienceThe results of a search for stealth supersymmetry in final states with two photons and jets, targeting a phase space region with low missing transverse momentum ($p_\text{T}^\text{miss}$), are reported. The study is based on a sample of proton-proton collisions at $\sqrt{s}$ =13 TeV collected by the CMS experiment, corresponding to an integrated luminosity of 138 fb$^{-1}$. As LHC results continue to constrain the parameter space of the minimal supersymmetric standard model, the low $p_\text{T}^\text{miss}$ regime is increasingly valuable to explore. To estimate the backgrounds due to standard model processes in such events, we apply corrections derived from simulation to an estimate based on a control selection in data. The results are interpreted in the context of simplified stealth supersymmetry models with gluino and squark pair production. The observed data are consistent with the standard model predictions, and gluino (squark) masses of up to 2150 (1850) GeV are excluded at the 95% confidence level

Search for narrow trijet resonances in proton-proton collisions at s\sqrt{s} = 13 TeV

International audienceThe first search for narrow resonances decaying to three well-separated hadronic jets is presented. The search uses proton-proton collision data corresponding to an integrated luminosity of 138 fb$^{-1}$ at $\sqrt{s}$ = 13 TeV, collected at the CERN LHC. No significant deviations from the background predictions are observed between 1.75-9.00 TeV. The results provide the first mass limits on a right-handed boson Z$_{\mathrm{R}}$ decaying to three gluons, an excited quark decaying via a vector boson to three quarks, as well as updated limits on a Kaluza-Klein gluon decaying via a radion to three gluons