127 Works

Data from: Transcriptionally active LTR retrotransposons in Eucalyptus genus are differentially expressed and insertionally polymorphic

Helena Sanchez Marcon, Douglas Silva Domingues, Juliana Costa Silva, Rafael Junqueira Borges, Fábio Filippi Matioli, Marcos Roberto De Mattos Fontes & Celso Luis Marino
Background: In Eucalyptus genus, studies on genome composition and transposable elements (TEs) are particularly scarce. Nearly half of the recently released Eucalyptus grandis genome is composed by retrotransposons and this data provides an important opportunity to understand TE dynamics in Eucalyptus genome and transcriptome. Results: We characterized nine families of transcriptionally active LTR retrotransposons from Copia and Gypsy superfamilies in Eucalyptus grandis genome and we depicted genomic distribution and copy number in two Eucalyptus species....

Data from: Identification of the notothenioid sister lineage illuminates the biogeographic history of an Antarctic adaptive radiation

Thomas J. Near, Alex Dornburg, Richard C. Harrington, Claudio Oliveira, Theodore W. Pietsch, Christine E. Thacker, Takashi P. Satoh, Eri Katayama, Peter C. Wainwright, Joseph T. Eastman & Jeremy M. Beaulieu
Background: Antarctic notothenioids are an impressive adaptive radiation. While they share recent common ancestry with several species-depauperate lineages that exhibit a relictual distribution in areas peripheral to the Southern Ocean, an understanding of their evolutionary origins and biogeographic history is limited as the sister lineage of notothenioids remains unidentified. The phylogenetic placement of notothenioids among major lineages of perciform fishes, which include sculpins, rockfishes, sticklebacks, eelpouts, scorpionfishes, perches, groupers and soapfishes, remains unresolved. We investigate...

Data from: Persistence of the effect of frugivore identity on post-dispersal seed fate: consequences for the assessment of functional redundancy

Ana Paula Lugon, Marion Boutefeu, Emilie Bovy, Fernando Z. Vaz-De-Mello, Marie-Claude Huynen, Mauro Galetti & Laurence Culot
Large frugivores play an important role as seed dispersers and their extinction may affect plant regeneration. The consequences of such extinctions depend on the likelihood of other species being functionally redundant and on how post-dispersal events are affected. We assess the functional redundancy of two seed dispersers of the Atlantic Forest, the muriqui (Brachyteles arachnoides) and the tapir (Tapirus terrestris) through the comparison of their seed dispersal quality, taking into account post-dispersal events. We compare...

Data from: Rare frost events reinforce tropical savanna-forest boundaries

William A. Hoffmann, Samuel W. Flake, Rodolfo C.R. Abreu, Natashi A.L. Pilon, Davi R. Rossatto, Giselda Durigan & Rodolfo C. R. Abreu
1) The ability of vegetation to ameliorate or exacerbate environmental extremes can generate feedbacks that mediate the distribution of biomes. It has been suggested that feedbacks between vegetation and frost damage may be important for maintaining savanna, particularly at the edge of the tropics. 2) We quantified frost damage and air temperature across a network of 30 permanent plots distributed across tropical savanna-forest boundaries in Brazil during an uncommonly hard frost. 3) Tree cover strongly...

Data from: A new species of Allophryne (Anura: Allophrynidae) from the Atlantic Rain Forest biome of eastern Brazil

Ulisses Caramaschi, Victor G. D. Orrico, Julián Faivovich, Iuri R. Dias & Mirco Solé
A new species of the genus Allophryne is described and, in contrast to its congeners that occur in the Amazon Basin, is based on specimens obtained in Uruçuca, State of Bahia, in the Atlantic Rain Forest of eastern Brazil. Allophryne relicta sp. nov. is characterized by a medium body size for the genus (snout–vent length range 19.9–21.9 mm in males); large head (head width about 35% of SVL); large, red-orange eyes, with a large black...

Data from: Molecular phylogeny of Aphyocharacinae (Characiformes, Characidae) with morphological diagnoses for the subfamily and recognized genera

Victor A. Tagliacollo, Rosana Souza-Lima, Ricardo C. Benine & Claudio Oliveira
The subfamily Aphyocharacinae was recently redefined to comprise eight genera: Aphyocharax, Prionobrama, Paragoniates, Phenagoniates, Leptagoniates, Xenagoniates, Rachoviscus and Inpaichthys. This new composition, however, is partly incongruent with results of published molecular studies especially with regards to the positions of Rachoviscus and Inpaichthys. Our goal was to investigate the monophyly of Aphyocharacinae and its interrelationships using three distinct phylogenetic methodologies: Maximum–likelihood and Bayesian analyses of molecular data, and also Parsimony analysis of a concatenated molecular and...

Data from: Importance of deep water uptake in tropical eucalypt forest

Mathias Christina, Yann Nouvellon, Jean-Paul Laclau, Jose L. Stape, Jean-Pierre Bouillet, George R. Lambais & Guerric Le Maire
Climate models predict that the frequency, intensity and duration of drought events will increase in tropical regions. Although water withdrawal from deep soil layers is generally considered to be an efficient adaptation to drought, there is little information on the role played by deep roots in tropical forests. Tropical Eucalyptus plantations managed in short rotation cycles are simple forest ecosystems that may provide an insight into the water use by trees in tropical forests. The...

Data from: Highway widening and underpass effects on vertebrate road mortality

Giordano Ciocheti, Julia Camara De Assis, John Wesley Ribeiro & Milton Cezar Ribeiro
Road widening (a.k.a. road dualling) and the presence of mitigation structures may have opposing effects on the number of animal-vehicle collisions. Their influence in tropical areas is poorly quantified, and we know little about how modifications of road structure affect fauna roadkill and mitigation. We evaluated how road widening and proximity to a wildlife underpass affect roadkill of medium and large mammals, using roadkill records from before and after the widening of 150 km of...

Spatial heterogeneity and habitat configuration overcome habitat composition influences on alpha and beta mammal diversity

André Luis Regolin, Milton Cezar Ribeiro, Felipe Martello, Geruza Leal Melo, Jonas Sponchiado, Luis Fernando De Castro Campanha, Larissa Sayuri Moreira Sugai, Thiago Sanna Freire Silva & Nilton Carlos Cáceres
The effects of habitat fragmentation on different taxa and ecosystems are subject to intense debate, and disentangling them is of utmost importance to support conservation and management strategies. We evaluated the importance of landscape composition and configuration, and spatial heterogeneity to explain α- and β-diversity of mammals across a gradient of percent woody cover and land use diversity. We expected species richness to be positively related to all predictive variables, with the strongest relationship with...

Morphological and molecular characterization of tropical Meloidogyne species in Brazil

Vanessa Rafaela De Carvalho, Julio Cesar Antunes Ferreira, Daniel Dalvan Do Nascimento, Pedro Luiz Martins Soares, José Cola Zanuncio, Bárbara Monteiro De Castro Castro & Silvia Renata Siciliano Wilcken
The identification of Meloidogyne species, based on the perineal pattern of females and the morphology of the anterior portion of males, requires knowledge of the characteristics of each species and, mainly, training and practice. Molecular techniques, applying the concept of integrative taxonomy, have validated the diagnosis of plant-parasitic nematodes through DNA analysis. The objective of the present study was to evaluate the accuracy and feasibility of molecular techniques to identify and discriminate Meloidogyne species that...

Rethinking megafauna

Marcos Moleón, José Sánchez-Zapata, José Donázar, Eloy Revilla, Berta Martín-López, Cayetano Gutiérrez-Cánovas, Wayne Getz, Zebensui Morales-Reyes, Ahimsa Campos-Arceiz, Larry Crowder, Mauro Galetti, Manuela González-Suárez, Fengzhi He, Pedro Jordano, Rebecca Lewison, Robin Naidoo, Norman Owen-Smith, Nuria Selva, Jens-Christian Svenning, José Tella, Christiane Zarfl, Sonja Jähnig, Matt Hayward, Søren Faurby, Nuria García … & Klement Tochner
Concern for megafauna is increasing among scientists and non-scientists. Many studies have emphasized that megafauna play prominent ecological roles and provide important ecosystem services to humanity. But, what precisely are “megafauna”? Here we critically assess the concept of megafauna and propose a goal-oriented framework for megafaunal research. First, we review definitions of megafauna and analyze associated terminology in the scientific literature. Second, we conduct a survey among ecologists and paleontologists to assess the species traits...

Frugivory underpins the nitrogen cycle

Nacho Villar, Claudia Paz, Valesca Zipparro, Sergio Nazareth, Leticia Bulascoschi, Elisabeth Bakker & Mauro Galetti
1. Tropical rainforests are populated by large frugivores that feed upon fruit-producing woody species, yet their role in regulating the cycle of globally important biogeochemical elements such as nitrogen is still unknown. This is particularly relevant because tropical forests play a prominent role in the nitrogen cycle and are becoming rapidly defaunated. Furthermore, frugivory is not considered in current plant-large herbivore-nutrient cycling frameworks exclusively focused on grazers and browsers. 2. Here we used a long-term...

Maintaining genetic integrity with high promiscuity: Frequent hybridization with low introgression in multiple hybrid zones of Melocactus(Cactaceae)

Khan Gulzar, Evandro Marsola De Moraes, Fernando Faria Franco, Gislaine A.R. Silva, Juliana R. Bombonato, Marlon Machado, Diego P. Alonso, Paulo E.M. Ribolla & Dirk C. Albach
Hybridization and introgression between species in contact/hybrid zones provide important insight into the genetic and ecological mechanisms of speciation. Cactaceae represents the most important radiation of true succulent angiosperms in the New World. This diversification continues to date, with species experiencing few intrinsic barriers to gene flow and the frequent occurrence of natural hybridization. Here, we used RAD-Seq single-nucleotide polymorphism (SNP) data to investigate the genetic architecture of hybridization in four hybrid zones hosting Melocactus...

Data from: Molecular responses to freshwater limitation in the mangrove tree Avicennia germinans (Acanthaceae)

Mariana Vargas Cruz, Gustavo Maruyama Mori, Dong-Ha Oh, Maheshi Dassanayake, Maria Imaculada Zucchi, Rafael Silva Oliveira & Anete Pereira De Souza
Environmental variation along the geographical space can shape populations by natural selection. In the context of global warming and changing precipitation regimes, it is crucial to understand the role of environmental heterogeneity in tropical trees adaptation, given their disproportional contribution to water and carbon biogeochemical cycles. Here, we investigated how heterogeneity in freshwater availability along tropical wetlands has influenced molecular variations of the Black Mangrove (Avicennia germinans). Fifty-seven trees were sampled in seven sites differing...

Thyroid hormones and the relation to the reproductive-somatotropic axis and their possible role in embryonic development in response to maternal stress in zebrafish (Danio rerio)

Maira Da Silva Rodrigues
In vertebrates thyroid hormones are involved in the regulation of various physiological processes such as growth, metabolism, behavior, stress and reproductive system. In reproduction, our previous results (FAPESP 2017/ 15793-7; FAPESP BEPE 2018/15319-6) showed strong evidence between thyroid hormones and the hypothalamic-pituitary-gonadal axis in zebrafish. In addition, thyroid hormones are also important for embryonic development, although high doses of these can be impared to growth and cause mortality. Based on this, the present project will...

Espermatogônias tronco de zebrafish, Danio rerio: Caracterização funcional e regulação pelo Fsh (hormônio folículo estimulante)

Beatriz Marques De Souza
As espermatogônias tronco são as células da linhagem germinativa masculina
responsáveis por manter o processo espermatogênico a partir de ciclos de auto-
renovação e diferenciação celular durante a vida reprodutiva masculina. Apesar de
importantes, à caracterização molecular destas células é ainda incipiente na maioria
dos vertebrados, incluindo os peixes teleósteos. Neste sentido, o projeto anterior
desenvolvido pela aluna (FAPESP 2018/17111-3), caracterizou alguns marcadores de
espermatogônias tronco de zebrafish com anticorpos específicos para a espécie por
meio de Western Blot (WB) e imunofluorescência...

DIREITOS AUTORAIS DE DADOS CIENTÍFICOS NO CONTEXTO DA CIÊNCIA ABERTA: estudo do Repositório de dados do Consórcio Madroño

Elizabete.Monteiro@Unesp.Br
No contexto da Ciência Aberta estão inseridos novos fatores em sua agenda como a gestão de dados científicos e os princípios FAIR (Findable, Accessible, Interoperable, Reusable) onde são escritos subprincípios em relação aos dados e aos metadados. A preparação de planos de gestão de dados pelos pesquisadores documentando todo o processo de gestão dos dados, contribuindo para os aplicativos dos princípios FAIR e fornecer insights para a disseminação e reutilização dos dados. O objetivo dessa...

Underlying microevolutionary processes parallel macroevolutionary patterns in ancient Neotropical Mountains - Ecological Niche Modeling and Corridors files

Marcos Vinicius Dantas-Queiroz, Tami Da Costa Cacossi, Bárbara Simões Santos Leal, Cleber Juliano Neves Chaves, Thais Vasconcelos, Leonardo De Melo Versieux & Clarisse Palma-Silva
Aim Ancient climatic fluctuations are invoked as the main driving force that generates the astonishing biodiversity in ancient mountains. As a result, endemism and spatial turnover are usually high and few species are widespread among entire mountain ranges, precluding the understanding of origins of macroevolutionary patterns. Here, we used a species endemic to, but widespread in, one of the most species-rich ancient mountains on the globe to test how environmental changes acted on them and...

Configuração de modelo de receita para captura de valor: proposta de modelo conceitual analítico e evidências de startups do agronegócio brasileiro

Marco Castro
O modelo de receita é um componente ainda pouco explorado na literatura de modelo de negócios, apesar de sua importância para a captura de valor das empresas. Seu significado, características e elementos carecem de maior compreensão para um processo de configuração mais consciente e bem informado em busca da captura de valor. Diante disso, este projeto estabeleceu como objetivo geral desenvolver um modelo conceitual analítico para configuração de um modelo de receita que busque a...

Vertical profile data of light transmission in Atlantic forests along a disturbance gradient

S. Fauset, M.U. Gloor, M.A.P. Aidar, H.C. Freitas, N.M. Fyllas, C.A. Joly, M.A. Marabesi, A.L.C. Rochelle, A. Shenkin & S.A. Vieira
The data set contains vertical profiles of diffuse light transmittance measured within six forest plots in montane Atlantic forest, São Paulo state, Brazil. The plots measured include intact, previously logged and secondary forest in a large continuous forest block of the Serra do Mar State Park (Parque Estadual de Serra do Mar), and two forest fragments outside the park. In each plot 10 - 12 individual light profiles were recorded; the data set contains these...

Lost and found: frogs in a biodiversity hotspot rediscovered with environmental DNA

Carla Martins Lopes, Délio Baêta, Alice Valentini, Mariana Lúcio Lyra, Ariadne Fares Sabbag, João Luiz Gasparini, Tony Dejean, Célio Fernando Baptista Haddad & Kelly Raquel Zamudio
Declines and extinctions are increasing globally and challenging conservationists to keep pace with biodiversity monitoring. Organisms leave DNA traces in the environment and this free DNA in soil, water, and air is referred to as environmental DNA (eDNA). The analysis of eDNA is a highly sensitive method with the potential to rapidly assess local diversity and the status of threatened species. We searched for DNA traces of 30 target amphibian species of conservation concern, at...

Data from: The circular nature of recurrent life-cycle events: a test comparing tropical and temperate phenology

Vanessa Staggemeier, Maria Gabriela Gutierrez Camargo, José Alexandre Diniz-Filho, Robert Freckleton, Lucas Jardim & Patricia Morellato
1. The high diversity of plant species in the tropics has revealed complex phenological patterns and reproductive strategies occurring throughout the year. Describing and analysing tropical plant phenology, and detecting triggers, demands to consider the circular nature of recurrent life-cycle events and the use of appropriated statistical metrics. 2. Here we explore analytical pitfalls potentially affecting results of studies that do not consider the circular nature of phenology data when comparing resting and non-resting systems,...

Strandings of marine mammals, sea turtles and seabirds along the central-south coast of São Paulo, Brazil, from 2015 to 2018.

Rodrigo Del Rio Do Valle, Carolina Pacheco Bertozzi, Alencar Cabral & André Silva Barreto
To assess the potential impacts on seabirds, turtles and marine mammals from oil and gas production from the oceanic Pre-Salt province at Brazil’s Santos Basin, the Brazilian environmental agency (IBAMA) required PETROBRAS, the main oil company in the basin, to implement the “Programa de Monitoramento de Praias da Bacia de Santos” (Santos Basin Beach Monitoring Program - PMP-BS). Since 2015 PMP-BS has been operating along the states of Santa Catarina, Paraná, São Paulo and Rio...

Data from: The relationship between pond habitat depth and functional tadpole diversity in an agricultural landscape

Cássia De Souza Queiroz, Fernando Rodrigues Da Silva & Denise De Cerqueira Rossa-Feres
One of the most important goals of biodiversity studies is to identify which characteristics of local habitats act as filters that determine the diversity of functional traits along environmental gradients. In this study, we investigated the relationship between the environmental variables of ponds and the functional trait diversity distribution of anuran tadpoles in an agricultural area in southeastern Brazil. Our results show that the functional trait diversity of frog tadpoles has a bell-curve-shaped relationship with...

Data from: Partitioning the relative contribution of one-phase and two-phase seed dispersal when evaluating seed dispersal effectiveness

Laurence Culot, Marie-Claude Huynen & Eckhard W. Heymann
Seed dispersal effectiveness (SDE) is a conceptual framework that aims at quantifying the contribution of seed dispersal vectors to plant fitness. While it is well recognized that diplochorous dispersal systems, characterized by two successive dispersal steps performed by two different vectors (Phase I = primary seed dispersal and Phase II = secondary seed dispersal) are common in temperate and tropical regions, little attention has been given to distinguishing the relative contribution of one-phase and two-phase...

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