Renato Lima

Renato Lima
University of São Paulo | USP · Department of Ecology (IB)

Ph.D. in Ecology

About

62
Publications
24,736
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Introduction
Brazilian ecologist mainly interested in the ecology and conservation of tropical forests, with emphasis on the pattern and processes controlling the structure, diversity and dynamics of tree communities. Previously working as a post-doc fellow at the Theoretical Ecology Lab, Universidade de São Paulo (USP, Brazil) and currently Marie-Curie fellow at the Naturalis Biodiversity Center (The Netherlands).

Publications

Publications (62)
Article
Full-text available
We assess gap size and shape distributions, two important descriptors of the forest disturbance regime, by asking: which statistical model best describes gap size distribution; can simple geometric forms adequately describe gap shape; does gap size or shape vary with forest type, gap age or the method used for gap delimitation; and how similar are...
Article
Full-text available
In stable populations with constant demographic rates, size distributions reflect size-dependent patterns of growth and mortality. However, population growth can also affect size distributions, which may not be aligned with current growth and mortality. Using 25 y of demographic data from the 50-ha Barro Colorado Island plot, we examined how inters...
Article
Full-text available
Tropical forests are being deforested worldwide, and the remaining fragments are suffering from biomass and biodiversity erosion. Quantifying this erosion is challenging because ground data on tropical biodiversity and biomass are often sparse. Here, we use an unprecedented dataset of 1819 field surveys covering the entire Atlantic Forest biodivers...
Article
Endemic species are important for biodiversity conservation. Yet, quantifying endemism remains challenging because endemism concepts can be too strict (i.e., pure endemism) or too subjective (i.e., near endemism). We propose a data-driven approach to objectively estimate the proportion of records inside a given the target area (i.e., endemism level...
Article
Full-text available
1. Species records from biological collections are becoming increasingly available online. This unprecedented availability of records has largely supported recent studies in taxonomy, biogeography, macroecology, and biodiversity conservation. Biological collections vary in their documentation and notation standards, which have changed through time....
Article
Full-text available
Species under milder climates (e.g., warm and wet) tend to experience lower variability in temperature and rainfall regimes and might occur in narrower climatic ranges than species that tolerate harsher conditions (e.g., cold or dry climates). Thus, tree species that occur under harsh conditions should have a broader climatic range, being a small s...
Article
Full-text available
Aim Locally abundant species are typically widespread, while locally scarce species are geographically restricted—the so‐called abundance‐occupancy relationships (AORs). AORs help explain the drivers of species rarity and community assembly, but little is known about how variation around such relationship is driven by species traits and niche‐based...
Article
Full-text available
Understanding the mechanisms controlling forest carbon storage is crucial to support "nature-based" solutions for climate change mitigation. We used a dataset of 892 Atlantic Forest inventories to assess the direct and indirect effects of environmental conditions, human impacts, tree community proprieties, and sampling methods on tree above-ground...
Article
Data on tropical forests are in high demand. But ground forest measurements are hard to sustain and the people who make them are extremely disadvantaged compared to those who use them. We propose a new approach to forest data that focuses on the needs of data originators, and ensures users and funders contribute properly.
Article
Full-text available
Climate change is one of the main drivers of species extinction in the twentyfirst-century. Here, we (1) quantify potential changes in species’ bioclimatic area of habitat (BAH) of 135 native potential agroforestry species from the Brazilian flora, using two different climate change scenarios (SSP2-4.5 and SSP5-8.5) and dispersal scenarios, where s...
Article
Full-text available
Species co-occurrences in local communities can arise independent or dependent on species’ niches. However, the role of niche-dependent processes has not been thoroughly deciphered when generalized to biogeographical scales, probably due to combined shortcomings of data and methodology. Here, we explored the influence of environmental filtering and...
Article
Aim Here we examine the functional profile of regional tree species pools across the latitudinal distribution of Neotropical moist forests, and test trait–climate relationships among local communities. We expected opportunistic strategies (acquisitive traits, small seeds) to be overrepresented in species pools further from the equator, but also in...
Preprint
Full-text available
Species records from biological collections are becoming increasingly available online. This unprecedented availability of records has largely supported recent studies in taxonomy, bio-geography, macro-ecology, and biodiversity conservation. Biological collections vary in their documentation and notation standards, which have changed through time....
Chapter
Full-text available
The Atlantic Forest is one of the most important biodiversity hotspots, yet only a few studies have attempted to summarize tree diversity patterns across its full extent. With the increasing availability of primary biodiversity data, such a synthesis is potentially feasible; however, a critical assessment of the available information is needed to u...
Article
Full-text available
Many authors have tried to explain the shape of the species abundance distribution (SAD). Some of them have suggested that sampling spatial scale is an important factor shaping SADs. These suggestions, however, did not consider the indirect and well-known effect of sample size, which increases as samples are combined to generate SADs at larger spat...
Preprint
Full-text available
Tropical forests are being deforested worldwide, and the remaining fragments are suffering from biomass and biodiversity erosion. Quantifying this erosion is challenging because ground data on tropical biodiversity and biomass are often sparse. Here, we use an unprecedented dataset of 1,819 field surveys covering the entire Atlantic Forest biodiver...
Article
Full-text available
Amazonian forests are extraordinarily diverse, but the estimated species richness is very much debated. Here, we apply an ensemble of parametric estimators and a novel technique that includes conspecific spatial aggregation to an extended database of forest plots with up-to-date taxonomy. We show that the species abundance distribution of Amazonia...
Article
Full-text available
Amazonian forests are extraordinarily diverse, but the estimated species richness is very much debated. Here, we apply an ensemble of parametric estimators and a novel technique that includes conspecific spatial aggregation to an extended database of forest plots with up-to-date taxonomy. We show that the species abundance distribution of Amazonia...
Article
Full-text available
Amazonian forests are extraordinarily diverse, but the estimated species richness is very much debated. Here, we apply an ensemble of parametric estimators and a novel technique that includes conspecific spatial aggregation to an extended database of forest plots with up-to-date taxonomy. We show that the species abundance distribution of Amazonia...
Article
Amazonian forests are extraordinarily diverse, but the estimated species richness is very much debated. Here, we apply an ensemble of parametric estimators and a novel technique that includes conspecific spatial aggregation to an extended database of forest plots with up-to-date taxonomy. We show that the species abundance distribution of Amazonia...
Article
Full-text available
Amazonian forests are extraordinarily diverse, but the estimated species richness is very much debated. Here, we apply an ensemble of parametric estimators and a novel technique that includes conspecific spatial aggregation to an extended database of forest plots with up-to-date taxonomy. We show that the species abundance distribution of Amazonia...
Preprint
Full-text available
Endemic species are essential for setting conservation priorities. Yet, quantifying endemism remains challenging because endemism concepts can be too strict (i.e. pure endemism) or too subjective (i.e. near endemism). We use a data-driven approach to objectively estimate the proportion of records outside a given the target area (i.e. endemism level...
Article
Full-text available
Aim Forest fragmentation is among the principal causes of global biodiversity loss, yet how it affects mutualistic interactions between plants and animals at large spatial scale is poorly understood. In particular, tropical forest regeneration depends on animal‐mediated seed dispersal, but the seed‐dispersing animals face rapid decline due to fores...
Preprint
Full-text available
Many authors have tried to explain the shape of the species abundance distribution (SAD). Some of them have suggested that sampling scale is an important factor shaping SADs. These suggestions, however, did not consider the indirect and well-known effect of sample size, which increases as samples are combined to generate SADs at larger scales. Here...
Article
Full-text available
Amazonian forests are extraordinarily diverse, but the estimated species richness is very much debated. Here, we apply an ensemble of parametric estimators and a novel technique that includes conspecific spatial aggregation to an extended database of forest plots with up-to-date taxonomy. We show that the species abundance distribution of Amazonia...
Article
Trophic rewilding has been suggested as a restoration tool to restore ecological interactions and reverse defaunation and its cascading effects on ecosystem functioning. One of the ecological processes that has been jeopardized by defaunation is animal-mediated seed dispersal. Here, we propose an approach that combines joint species distribution mo...
Article
The aim of this study was to characterize the structure and composition of the tree and shrub community in a 77-ha fragment of Restinga forest in Caraguatatuba, São Paulo, Brazil. In this fragment, forty 20 × 20-m plots (1.6 ha) were systematically allocated and all trees with a stem diameter at breast height (DBH) ≥4.8 cm were sampled. Sixteen plo...
Article
Full-text available
DNA barcoding helps to identify species, especially when identification is based on parts of organisms or life stages such as seeds, pollen, wood, roots or juveniles. However, the implementation of this approach strongly depends on the existence of complete reference libraries of DNA sequences. If such a library is incomplete, DNA-based identificat...
Presentation
Full-text available
Overabundant bamboos often affect negatively forest structure and ecological process such as seed rain, seedling establishment, survival, and growth. We tested the prediction that the bird community, seed rain profile, seedling and sapling establishment, and tree demography are altered in Guadua tagoara patches, a large-sized woody bamboo native fr...
Article
Full-text available
Assessing the conservation value of restoration plantings is critical to support the global forest landscape restoration movement. We assessed the implications of tree species selection in the restoration of Brazil's Atlantic Forest regarding carbon stocking and species conservation. This assessment was based on a comprehensive dataset of seedling...
Article
Full-text available
Carbon storage is widely acknowledged as one of the most valuable forest ecosystem services. Deforestation, logging, fragmentation, fire, and climate change have significant effects on tropical carbon stocks; however, an elusive and yet undetected decrease in carbon storage may be due to defaunation of large seed dispersers. Many large tropical tre...
Article
Full-text available
The structure of the Atlantic Forest (AF) has been studied for almost 70 years. However, the related existing knowledge is spread over hundreds of documents, many of them unpublished and/or difficult to access. Synthesis initiatives are available, but they are restricted to only a few parts or types of the AF or are focused on species occurrence. H...
Article
Full-text available
In forestry, the description of tree sizes is commonly performed by fitting statistical models to diameter distributions. However, there is little agreement on which models are more flexible to this end, especially in tropical forests. Here we provide the simultaneous evaluation at species and subplot levels of 10 models using large data sets from...
Article
Full-text available
The composition and diversity of Cerrado were evaluated in three different sites in eastern Mato Grosso do Sul, one of the most threatened and poorly studied areas in the Brazilian Cerrado. Vascular species were surveyed along trails in different Cerrado physiognomies, with special regard to shrub and tree species. Additionally, in the areas of cer...
Article
Full-text available
Aims: The coastal Brazilian rainforest on white-sand (restinga) ranks among the most fragmented forest types in the tropics, owing to both the patchy distribution of sandy soils and widespread coastal development activities. Here we study the environmental and evolutionary determinants of a forest tree assemblage at a single restinga forest in Sout...
Thesis
Full-text available
Pattern description – search for trends or non-random arrangements in communities, has a long history in plant ecology. Commonly, the structure and diversity of plant communities are described based on their size class distribution (SDD), spatial distribution (SSD) and species abundance distribution (SAD). This is because there is an underlying ass...
Article
Full-text available
With fast growth rates and clonal reproduction, bamboos can rapidly invade forest areas, drastically changing their original structure. In the Brazilian Atlantic Forest, where recent mapping efforts have shown that woody bamboos dominate large areas, the present study assessed the differences in soil and vegetation between plots dominated (>90% of...
Article
Full-text available
In the Montane and Submontane Rain Forest of the Carlos Botelho State Park - PECB (ca. 37,000 ha) the composition, richness and geographical distribution of native, vascular forest species was evaluated. The analysis of 1143 species of 140 families supported the pattern found for other forests of Eastern Brazil, showing high species richness of Myr...
Article
Full-text available
Located in the Serra de Paranapiacaba, South of São Paulo State, the Carlos Botelho State Park (PECB) shelters more than 37,000 ha of Atlantic Forest in one of the most important and large remnants of this Biome in Brazil. In the Park the Montane and Submontane rain forests are the predominant types of forests. Aiming to organize the available flor...
Article
Full-text available
This work presents an analysis of the vegetation of the Carlos Botelho State Park (a 37.644,36 hectares conservation unit located in the Vale do Ribeira do Iguape Region, São Paulo state, southeastern Brazil) as a contribution for the elaboration of its Management Plan. Field data were obtained through a Rapid Ecological Assessment – REA, carried o...
Article
Full-text available
We assessed the structure, diversity and distribution of tree species in a 10.24-ha permanent plot of high Restinga forest (HRF) in southeastern Brazil. We sampled 15,040 individuals belonging to 45 families, 87 genera and 116 species (density= 1,468 trees ha-1, and basal area= 28.0 m2 ha-1). Mean richness was lower than other types of tropical for...
Article
We present a review of more than 30 years of ecological restoration in the Brazilian part of the Atlantic Forest. Based on what has been done in this biome, we try to summarize the main findings and challenges for restoration in this highly threatened forest biome. We found that many past experiences did not result in self-perpetuating forests, for...
Article
Full-text available
This study aimed to characterize the structure of the herb stratum in relation to light availability in the Submontane Atlantic Rain Forest at the Carlos Botelho State Park, SP, Brazil. Fortyone 10 x10 m plots were established under the closed canopy (18 plots), small and medium canopy gaps (11) and large canopy gaps dominated by Guadua tagoara (Ne...
Article
Full-text available
In the Atlantic Montane Rain Forest of south-eastern Brazil, a field study was carried out to describe the forest disturbance regime, analyse canopy gap composition and evaluate the influence of habitat parameters on gap tree species composition. We characterized canopy gaps considering the group of variables as follows: area, type and number of tr...
Article
A study was carried out to characterize the general pattern of tree mortality and damage in an old-growth semideciduous seasonal forest in the Caetetus Ecological Station, southeastern Brazil, and to assess species-specific patterns of mode and frequency of disturbances. We counted all disturbance events promoted by trees or parts of them larger th...
Article
Full-text available
The canopy disturbance regime and the influence of gap methods on the interpretation of forest structure and dynamics were evaluated in a tropical semi-deciduous forest in south-eastern Brazil. We encountered a gap density of 11.2 gaps ha−1 and an average size which varied from 121 to 333 m2 depending on the gap delimitation method considered (mini...
Thesis
Full-text available
In a 10.24 ha permanent plot of Tropical Lower Montane Atlantic Rain Forest in the Carlos Botelho State Park (Sete Barras, SP, Brazil), this study aimed to describe the canopy disturbance regime and to assess natural regeneration under different light regimes. In order to do so, the plot was completely surveyed for canopy gaps that were measured an...
Article
Full-text available
In the Atlantic Montane Rain Forest of South-eastern Brazil, a study was carried out to describe and evaluate canopy gap colonization. Gap composition by herb species was assessed through their soil coverage and woody species by measuring and identifying all individuals taller than one meter. Gap structure (gap size, number and diameter of treefall...
Article
Full-text available
This paper presents a critic review of the available knowledge on canopy gap structure and regeneration in Tropical Rain Forests. Separated on different issues such as gap size, type of treefall, physical environment, regeneration sources and ecological groups, each issue is explored in detail through the main studies published. Hence, old issues a...
Article
Full-text available
This paper presents a critic review of the available knowledge on canopy gap structure and regeneration in Tropical Rain Forests. Separated on different issues such as gap size, type of treefall, physical environment, regeneration sources and ecological groups, each issue is explored in detail through the main studies published. Hence, old issues a...
Article
Full-text available
In the tropical Atlantic Forest, 42 canopy gaps had their areas estimated using four different field methods of measurement: Runkle, Brokaw and Green [Runkle, J.R., 1981. Gap formation in some old-growth forests of the eastern United States. Ecology 62, 1041–1051; Brokaw, N.V.L., 1982. The definition of treefall gap and its effect on measures of fo...

Questions

Question (1)
Question
I'm starting a project that will compile the existing literature of different morphological and functional traits of shrub and tree species occurring in the Atlantic Forest. I would like to know what researchers are working on this subject or compiling similar information in the same forest biome for a possible collaboration, or joint efforts to compile trait data of Neotropical tree species.

Projects

Projects (3)
Project
Estimate the regional conservation status of tree species from Santa Catarina State; Assess the population sizes of tree species from Santa Catarina State; Measure the reduction of population sizes from time series;
Project
A temporal evaluation of forest structure, composition, and ecological processes (e.g., regeneration, seed dispersal, plant-animal interactions).
Project
Project that aims to compile and synthesize the existing knowledge on the structure and diversity of neotropical tree communities and on the functional traits of their species. Currently, the project mainly contains information from the forest formations of Atlantic Forest (lato sensu) and Cerrado biomes, but it is expanding to include other Neotropical forest formations, giving priority to extra-Amazonian neotropical forests. Currently the project contains more than 750 tree community surveys >0.1ha assembled, corresponding ca. 900 hectares, 1,2 million trees and 3400 valid species. The coordination of the project is currently based at Universidade de São Paulo, with the collaboration of researchers from other universities. See more details on the project at: http://labtrop.ib.usp.br/doku.php?id=projetos:treeco:start