cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.14277530
title: Transferability of heterologous primers in Brycon falcatus

description: ABSTRACT The genusBryconcomprises fish species of significant socioeconomic and biological importance in Brazil. Despite that, the genetic knowledge about these species is scarce, especially regardingBrycon falcatus. Thus, the objective of this study was to evaluate the transferability of heterologous microsatellite primers inB. falcatus for the first time. Heterologous primers obtained from B. opalinus, B. hilarii, B. insignis, B. orbignyanus, B. amazonicus, Prochilodus argenteus, Prochilodus lineatus, Piaractus mesopotamicus, and Colossoma macropomum were evaluated. The primers that showed the best amplification patterns were applied to a sample of 22 individuals and the genetic parameters were calculated. Nine primers displayed satisfactory cross-amplification withB. falcatus: BoM5 (Brycon opalinus); Bh8, Bh13 and Bh16 (B. hilarii); Borg59 (B. orbignyanus); Bag22 (B. amazonicus); Par12 and Par80 (P. argenteus), and Cm1A8 (C. macropomum). The genetic parameters (number of alleles, effective alleles, allele richness, and expected and observed heterozygosity) and the polymorphic information content (PIC) confirmed the viability of these primers for population genetics analyses. Our study demonstrates the potential of transferability of microsatellite markers from related species and even different genera to B. falcatus, providing usefull tools for future population genetic studies in this species.
DOI: 10.6084/m9.figshare.14277531
title: Provenance of heavy and clay minerals in bottom sediments of Green Lake, an Amazonian fluvial lake in Brazil

description: ABSTRACT Studies on provenance of minerals in Amazonian rivers focus mostly on suspended sediments, while processes that control bottom-sediment production and distribution are still little known. We determined the provenance of the bottom sediments of Green Lake, a micro-basin draining into the Tapajós River, in the eastern Brazilian Amazon. We used X-ray powder diffraction (XRD), Fourier-transform infrared spectroscopy (FTIR), scanning electron microscope (SEM) and, cathodoluminescence techniques to analyze clay, light and heavy minerals of 22 samples. The lake is L-shaped, with 5.5 m maximum depth, and predominance of mud over sand in the center. Quartz and feldspar were dominant in the light fraction, while zircon, tourmaline, kyanite, rutile, and staurolite were dominant in the heavy fraction. The clay fraction was dominated by kaolinite, with morphology and degree of crystallinity indicative of a detrital origin related to weathering. The Alter do Chão Formation (ACF) is suggested as the main source of sand sediments and heavy minerals, due to their mineralogical and percentage similarity. The provenance of kaolinite was mainly the ACF, with a minor contribution of the Amazon and Tapajós rivers. The primary origin of the heavy minerals in the ACF indicates the basement of the Amazonas Basin as source rock and this formation as a source of sediments for Green Lake through weathering and erosion processes under current tropical conditions. The presence of Aulacoseira granulata and Aulacoseira ambigua indicates the importance of current erosive processes on sediment production.
DOI: 10.6084/m9.figshare.14277534.v1
title: Vegetative rescue potential of Brazil nut through epicormic shoots on detached branches

description: ABSTRACT Obtaining juvenile material may favor the clonal propagation of Brazil nut, Bertholletia excelsa. We aimed to assess the emission of epicormic shoots on detached branches of Brazil nut trees as a function of the mother tree and branch diameter, in order to provide juvenile material for use in clonal multiplication. The experimental design was completely randomized in a 6 (mother trees) x 3 (stem diameter: &lt; 20 20-40 and 40-80 mm) factorial design, with four replicates. Every five days the number of shoots emitted was counted and the sprouting speed index and average sprouting time were calculated. The number of epicormic shoots and the sprouting speed index were dependent on the interaction between mother tree and branch diameter. Branches with larger diameter (20-40 and 40-80 mm) showed higher potential for obtaining propagules for use in Brazil nut clonal multiplication (cutting, grafting and in vitro cultivation).
DOI: 10.6084/m9.figshare.14277530.v1
title: Transferability of heterologous primers in Brycon falcatus

description: ABSTRACT The genusBryconcomprises fish species of significant socioeconomic and biological importance in Brazil. Despite that, the genetic knowledge about these species is scarce, especially regardingBrycon falcatus. Thus, the objective of this study was to evaluate the transferability of heterologous microsatellite primers inB. falcatus for the first time. Heterologous primers obtained from B. opalinus, B. hilarii, B. insignis, B. orbignyanus, B. amazonicus, Prochilodus argenteus, Prochilodus lineatus, Piaractus mesopotamicus, and Colossoma macropomum were evaluated. The primers that showed the best amplification patterns were applied to a sample of 22 individuals and the genetic parameters were calculated. Nine primers displayed satisfactory cross-amplification withB. falcatus: BoM5 (Brycon opalinus); Bh8, Bh13 and Bh16 (B. hilarii); Borg59 (B. orbignyanus); Bag22 (B. amazonicus); Par12 and Par80 (P. argenteus), and Cm1A8 (C. macropomum). The genetic parameters (number of alleles, effective alleles, allele richness, and expected and observed heterozygosity) and the polymorphic information content (PIC) confirmed the viability of these primers for population genetics analyses. Our study demonstrates the potential of transferability of microsatellite markers from related species and even different genera to B. falcatus, providing usefull tools for future population genetic studies in this species.
DOI: 10.6084/m9.figshare.14277531.v1
title: Provenance of heavy and clay minerals in bottom sediments of Green Lake, an Amazonian fluvial lake in Brazil

description: ABSTRACT Studies on provenance of minerals in Amazonian rivers focus mostly on suspended sediments, while processes that control bottom-sediment production and distribution are still little known. We determined the provenance of the bottom sediments of Green Lake, a micro-basin draining into the Tapajós River, in the eastern Brazilian Amazon. We used X-ray powder diffraction (XRD), Fourier-transform infrared spectroscopy (FTIR), scanning electron microscope (SEM) and, cathodoluminescence techniques to analyze clay, light and heavy minerals of 22 samples. The lake is L-shaped, with 5.5 m maximum depth, and predominance of mud over sand in the center. Quartz and feldspar were dominant in the light fraction, while zircon, tourmaline, kyanite, rutile, and staurolite were dominant in the heavy fraction. The clay fraction was dominated by kaolinite, with morphology and degree of crystallinity indicative of a detrital origin related to weathering. The Alter do Chão Formation (ACF) is suggested as the main source of sand sediments and heavy minerals, due to their mineralogical and percentage similarity. The provenance of kaolinite was mainly the ACF, with a minor contribution of the Amazon and Tapajós rivers. The primary origin of the heavy minerals in the ACF indicates the basement of the Amazonas Basin as source rock and this formation as a source of sediments for Green Lake through weathering and erosion processes under current tropical conditions. The presence of Aulacoseira granulata and Aulacoseira ambigua indicates the importance of current erosive processes on sediment production.
DOI: 10.6084/m9.figshare.14277534
title: Vegetative rescue potential of Brazil nut through epicormic shoots on detached branches

description: ABSTRACT Obtaining juvenile material may favor the clonal propagation of Brazil nut, Bertholletia excelsa. We aimed to assess the emission of epicormic shoots on detached branches of Brazil nut trees as a function of the mother tree and branch diameter, in order to provide juvenile material for use in clonal multiplication. The experimental design was completely randomized in a 6 (mother trees) x 3 (stem diameter: &lt; 20 20-40 and 40-80 mm) factorial design, with four replicates. Every five days the number of shoots emitted was counted and the sprouting speed index and average sprouting time were calculated. The number of epicormic shoots and the sprouting speed index were dependent on the interaction between mother tree and branch diameter. Branches with larger diameter (20-40 and 40-80 mm) showed higher potential for obtaining propagules for use in Brazil nut clonal multiplication (cutting, grafting and in vitro cultivation).
DOI: 10.6084/m9.figshare.14277536
title: Simultaneous selection of cupuassu tree and Brazilian mahogany genotypes in an agroforestry system in Pará state, Brazil

description: ABSTRACT This study aimed to evaluate and select progenies and matrices of cupuassu-tree siblings, and to select Brazilian mahogany matrices with superior characteristics to be used in agroforestry systems (AFS). Twenty-five full cupuassu tree sibling progenies and one Brazilian mahogany half-sibling progeny were evaluated. The study was conducted for 14 years in a commercial property in Tomé Açu, Pará State, Brazil. The number of fruits and fruit yield per plant, as well as the rate of plants with symptoms of witches’ broom disease, were used as response variables for cupuassu. For mahogany, the following response variables were used: total height, commercial height, crown height, diameter at breast height and commercial wood volume. There were five cupuassu tree progenies with interesting characteristics to be used in AFS. Based on the high values observed in the selection accuracy and heritabilities, a good potential for the selection of promising individuals in the cupuassu tree population is inferred. Based on the ranking of genotypic values and their agronomic performance, 10 matrices of cupuassu tree were selected. For Brazilian mahogany, three matrices showed excellent silvicultural performance. The matrices of these two species should be propagated vegetatively in order to evaluate clonal tests.
DOI: 10.6084/m9.figshare.14277536.v1
title: Simultaneous selection of cupuassu tree and Brazilian mahogany genotypes in an agroforestry system in Pará state, Brazil

description: ABSTRACT This study aimed to evaluate and select progenies and matrices of cupuassu-tree siblings, and to select Brazilian mahogany matrices with superior characteristics to be used in agroforestry systems (AFS). Twenty-five full cupuassu tree sibling progenies and one Brazilian mahogany half-sibling progeny were evaluated. The study was conducted for 14 years in a commercial property in Tomé Açu, Pará State, Brazil. The number of fruits and fruit yield per plant, as well as the rate of plants with symptoms of witches’ broom disease, were used as response variables for cupuassu. For mahogany, the following response variables were used: total height, commercial height, crown height, diameter at breast height and commercial wood volume. There were five cupuassu tree progenies with interesting characteristics to be used in AFS. Based on the high values observed in the selection accuracy and heritabilities, a good potential for the selection of promising individuals in the cupuassu tree population is inferred. Based on the ranking of genotypic values and their agronomic performance, 10 matrices of cupuassu tree were selected. For Brazilian mahogany, three matrices showed excellent silvicultural performance. The matrices of these two species should be propagated vegetatively in order to evaluate clonal tests.
DOI: 10.6084/m9.figshare.14277538.v1
title: Genetic diversity and population structure of endangered rosewood from the Peruvian Amazon using ISSR markers

description: ABSTRACT Rosewood, Aniba rosaeodora is an endangered species in Amazon forests and its natural stands have been heavily depleted due to over-exploitation for the cosmetic industry. This study aimed to investigate the genetic diversity and population structure of 90 rosewood accessions from eight localities in the Peruvian Amazon through 11 Inter Simple Sequence Repeats (ISSR) primers. The ISSR primers produced a sum of 378 bands, of which 375 (99.2%) were polymorphic, with an average polymorphism information content (PIC) value of 0.774. The mean effective number of alleles (Ne), Shannon informative index (I), gene diversity (He) and total gene diversity (Ht) were 1.485, 0.294, 0.453 and 0.252, respectively. Analysis of molecular variance (AMOVA) showed the presence of maximum variability within populations (88%). The Structure algorithm, neighbor joining and principal coordinate analysis (PCoA) grouped the 90 rosewood accessions into three main populations (A, B and C). Diversity indices at the inter-population level revealed a greater genetic diversity in population A, due to higher gene flow. The neighbor-joining analysis grouped populations A and B, while population C was found to be divergent at the inter population level. We concluded that population A reflects higher genetic diversity and should be prioritized for future management and conservation plans.
DOI: 10.6084/m9.figshare.14277538
title: Genetic diversity and population structure of endangered rosewood from the Peruvian Amazon using ISSR markers

description: ABSTRACT Rosewood, Aniba rosaeodora is an endangered species in Amazon forests and its natural stands have been heavily depleted due to over-exploitation for the cosmetic industry. This study aimed to investigate the genetic diversity and population structure of 90 rosewood accessions from eight localities in the Peruvian Amazon through 11 Inter Simple Sequence Repeats (ISSR) primers. The ISSR primers produced a sum of 378 bands, of which 375 (99.2%) were polymorphic, with an average polymorphism information content (PIC) value of 0.774. The mean effective number of alleles (Ne), Shannon informative index (I), gene diversity (He) and total gene diversity (Ht) were 1.485, 0.294, 0.453 and 0.252, respectively. Analysis of molecular variance (AMOVA) showed the presence of maximum variability within populations (88%). The Structure algorithm, neighbor joining and principal coordinate analysis (PCoA) grouped the 90 rosewood accessions into three main populations (A, B and C). Diversity indices at the inter-population level revealed a greater genetic diversity in population A, due to higher gene flow. The neighbor-joining analysis grouped populations A and B, while population C was found to be divergent at the inter population level. We concluded that population A reflects higher genetic diversity and should be prioritized for future management and conservation plans.
DOI: 10.6084/m9.figshare.14277540
title: Common opossum population density in an agroforestry system in Bolivia

description: ABSTRACT The common opossum, Didelphis marsupialis thrives near human settlements. Understanding its ecology could help planning management decisions about this species, especially in anthropogenic landscapes. Yet, there are no density estimations for this species throughout its distribution range in Bolivia. We estimated the density of D. marsupialis in a rural agricultural community, where agroforestry plantations and fallows cover most of the land. We counted individuals in line transects and used DISTANCE software to calculate density. We covered a total of 70.21 km in 143 night counts, obtaining 38 records of D. marsupialis. We estimated a density of 0.30 individuals ha-1 (SE = 0.062; range: 0.20 - 0.45 individuals ha-1), with a mean encounter rate of 0.54 individuals km-1. Encounter rate varied between habitats, with mean values of 0.20 in secondary forests and 0.64 in agroforestry plantations. Our density estimate is near the lower range of previously reported values for the common opossum in other countries. We argue that our results may reflect the response to the availability of food resources and predation pressure in agroforestry plantations.
DOI: 10.6084/m9.figshare.14277540.v1
title: Common opossum population density in an agroforestry system in Bolivia

description: ABSTRACT The common opossum, Didelphis marsupialis thrives near human settlements. Understanding its ecology could help planning management decisions about this species, especially in anthropogenic landscapes. Yet, there are no density estimations for this species throughout its distribution range in Bolivia. We estimated the density of D. marsupialis in a rural agricultural community, where agroforestry plantations and fallows cover most of the land. We counted individuals in line transects and used DISTANCE software to calculate density. We covered a total of 70.21 km in 143 night counts, obtaining 38 records of D. marsupialis. We estimated a density of 0.30 individuals ha-1 (SE = 0.062; range: 0.20 - 0.45 individuals ha-1), with a mean encounter rate of 0.54 individuals km-1. Encounter rate varied between habitats, with mean values of 0.20 in secondary forests and 0.64 in agroforestry plantations. Our density estimate is near the lower range of previously reported values for the common opossum in other countries. We argue that our results may reflect the response to the availability of food resources and predation pressure in agroforestry plantations.
DOI: 10.6084/m9.figshare.14277545
title: Niche differentiation mechanisms among canopy frugivores and zoochoric trees in the northeastern extreme of the Amazon

description: ABSTRACT Frugivores and zoocoric trees represent an important proportion of tropical rainforest biodiversity. As niche differences favor species coexistence, we aimed to evaluate morphological and temporal niche segregation mechanisms among zoochoric trees and canopy frugivores in a tropical rainforest in the northeastern extreme of the Brazilian Amazon. We tested the effects of fruit morphology, tree size, frugivore body size and time of day on fruit consumption. We recorded the frugivore species that fed on 72 trees (44 species, 22 genera) and whether these frugivores swallowed the seeds. We monitored trees only once from 07:00 to 17:00 h between January and September 2017. We observed fruit consumption in 20 of the 72 trees. Seventy-three frugivore individuals from 22 species visited the trees. Heavier fruits were consumed by larger frugivores, while seed size was inversely correlated with frugivore size. Narrower fruits and fruits with smaller seeds had greater probability of having their seeds ingested, and larger frugivores were more prone to ingest seeds. Trees bearing fruits with smaller seeds were visited by a greater number of frugivores. Taxonomic groups differed in the time of arrival at fruiting trees. None of the evaluated variables (fruit weight and size, and seed size) affected the richness of frugivores that visited the trees. We concluded that, in the studied forest, fruit morphology (weight, size and seed size) is a niche segregation mechanism among zoochoric trees, while body size and time of day are niche segregation mechanisms among frugivores.
DOI: 10.6084/m9.figshare.14277546
title: Effect of environmental parameters on squamate reptiles in an urban forest fragment in central Amazonia

description: ABSTRACT The increasing urbanization of the Amazonian biome has promoted the creation of several forest fragments surrounded by an urban matrix, but the relationship of animal assemblages to the urban environment, especially in forest fragments, is poorly known. Here we aimed to 1) determine the composition of the squamate fauna of the largest urban forest fragment from central Amazonia, in the Brazilian city of Manaus, and 2) evaluate the influence of environmental parameters on assemblage diversity. We sampled 10 standardized riparian plots through visual search in six surveys between 2008/09 and 2015, totaling 360 observer-hours. We found 15 species of lacertoids (lizards and amphisbaenians) and seven species of snakes through active search. After considering occasional encounters and search in museum collections, we recorded a total of 24 lacertoid and 22 snake species. Multiple regression models indicated that species richness and abundance of individuals increased with the distance from the edge of the fragment, while other structural parameters of the environment did not affect the assemblage. We conclude that this forest fragment 1) consists of a subset of the regional species pool, and 2) undergoes reduction of species richness and abundance of individuals from the center to the borders. This and additional urban forest fragments should be continually monitored in order to evaluate their long-term role in maintaining the tropical biodiversity.
DOI: 10.6084/m9.figshare.14277543
title: Assessment of TerraClass and MapBiomas data on legend and map agreement for the Brazilian Amazon biome

description: ABSTRACT Reliable environmental monitoring and evaluation require high-quality maps of land use and land cover. For the Amazon biome, the TerraClass and MapBiomas projects apply different methodologies to create these maps. We evaluated the agreement between land cover and land use maps generated by TerraClass and MapBiomas (Collections 2 and 3) for the Brazilian Amazon biome, from 2004 to 2014. Specifically, we: (1) described both project legends based on the LCCS (Land Cover Classification System); (2) analyzed the differences between their classes; and (3) compared the mapping differences among the Brazilian states that are totally or partially covered by the Amazon biome. We compared the classifications with a per-pixel approach and performed an evaluation based on agreement matrices. The overall agreement between the projects was 87.4% (TerraClass x MapBiomas 2) and 92.0% (TerraClass x MapBiomas 3). We analyzed methodological differences to explain the disagreements in class identification. We conclude that using these maps together without a properly adapted legend is not recommended for the analysis of land use and land cover change. Depending on the application, one mapping system may be more suitable than the other.
DOI: 10.6084/m9.figshare.14277545.v1
title: Niche differentiation mechanisms among canopy frugivores and zoochoric trees in the northeastern extreme of the Amazon

description: ABSTRACT Frugivores and zoocoric trees represent an important proportion of tropical rainforest biodiversity. As niche differences favor species coexistence, we aimed to evaluate morphological and temporal niche segregation mechanisms among zoochoric trees and canopy frugivores in a tropical rainforest in the northeastern extreme of the Brazilian Amazon. We tested the effects of fruit morphology, tree size, frugivore body size and time of day on fruit consumption. We recorded the frugivore species that fed on 72 trees (44 species, 22 genera) and whether these frugivores swallowed the seeds. We monitored trees only once from 07:00 to 17:00 h between January and September 2017. We observed fruit consumption in 20 of the 72 trees. Seventy-three frugivore individuals from 22 species visited the trees. Heavier fruits were consumed by larger frugivores, while seed size was inversely correlated with frugivore size. Narrower fruits and fruits with smaller seeds had greater probability of having their seeds ingested, and larger frugivores were more prone to ingest seeds. Trees bearing fruits with smaller seeds were visited by a greater number of frugivores. Taxonomic groups differed in the time of arrival at fruiting trees. None of the evaluated variables (fruit weight and size, and seed size) affected the richness of frugivores that visited the trees. We concluded that, in the studied forest, fruit morphology (weight, size and seed size) is a niche segregation mechanism among zoochoric trees, while body size and time of day are niche segregation mechanisms among frugivores.