cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.20003681
title: Water restriction and physiological traits in soybean genotypes contrasting for nitrogen fixation drought tolerance

description: ABSTRACT Biological nitrogen fixation (BNF) is essential to the economic viability of the soybean [Glycine max (L.) Merrill] crop in Brazil, but drought may impair the BNF processes. We evaluated physiological traits of nitrogen fixation drought-tolerant (NFDT) (R01-581F, R01-416F and R02-1325) and drought-susceptible (CD 215 and BRS 317) genotypes of soybean subjected to drought or regular water supply between 45 and 55 days after emergence, in an experiment under greenhouse conditions in pots containing non-sterile soil. R01-581F had more stable photosynthetic and transpiration rates, and higher intercellular CO2 levels under drought. Drought reduced the chlorophyll concentration in all genotypes, but with less intensity in R01-581F and R02-1325. The NFDT genotypes generally showed higher concentrations of N, K and Mn in shoots, irrespective of the water condition. Exposure to drought increased total soluble sugars in nodules in all genotypes, as well as the concentrations of ureides in leaves and nodules, whereas ureides in petioles increased only in the susceptible genotypes. Drought negatively affected photosynthetic and BNF attributes; however, R01-581F showed the best performance, with potential for use in breeding programs aiming at drought-tolerant varieties.
DOI: 10.6084/m9.figshare.20003683
title: Data visualization in yield component analysis: an expert study

description: ABSTRACT Even though data visualization is a common analytical tool in numerous disciplines, it has rarely been used in agricultural sciences, particularly in agronomy. In this paper, we discuss a study on employing data visualization to analyze a multiplicative model. This model is often used by agronomists, for example in the so-called yield component analysis. The multiplicative model in agronomy is normally analyzed by statistical or related methods. In practice, unfortunately, usefulness of these methods is limited since they help to answer only a few questions, not allowing for a complex view of the phenomena studied. We believe that data visualization could be used for such complex analysis and presentation of the multiplicative model. To that end, we conducted an expert survey. It showed that visualization methods could indeed be useful for analysis and presentation of the multiplicative model.
DOI: 10.6084/m9.figshare.20003686
title: Rootstock on vine performance and wine quality of ‘Syrah’ under double pruning management

description: ABSTRACT In the Brazilian Southeast, the production of high quality wines is attained by a new management approach called double pruning. This management changes the harvesting of wine grape (Vitis vinifera L.) from wet summer to dry winter through a two pruning procedures carried out during the year. The first pruning is done during the winter to induce a vegetative cycle (all clusters are removed) and a second pruning is done during the summer to induce the reproductive cycle. In this study, ten different rootstocks were compared in order to optimize yield and wine quality of Syrah vines conducted under autumn-winter season by double pruning approach. Syrah grapevines grafted onto ‘Rupestris du Lot’ and ‘IAC 766’ showed the highest pruning weight, while ‘110 Richter’ and ‘161-49 Courdec’ induced the lowest cane vigor. The average production of two seasons identified ‘IAC 766’, ‘Kober 5BB’ and ‘Rupestris du Lot’ as the most productive rootstocks. In both seasons, the grape quality was more influenced by the plant development status than by rootstocks. ‘Syrah’ wine from vigorous and high yielding rootstocks, ‘IAC 766’ and ‘Rupestris du Lot’, showed satisfactory wine phenolic composition and alcohol/acidity balance. This study showed that vigorous rootstock increased yield without compromising grape and winter wine quality of Syrah grapevines subjected to double pruning management in the Brazilian Southeast.
DOI: 10.6084/m9.figshare.20003686.v1
title: Rootstock on vine performance and wine quality of ‘Syrah’ under double pruning management

description: ABSTRACT In the Brazilian Southeast, the production of high quality wines is attained by a new management approach called double pruning. This management changes the harvesting of wine grape (Vitis vinifera L.) from wet summer to dry winter through a two pruning procedures carried out during the year. The first pruning is done during the winter to induce a vegetative cycle (all clusters are removed) and a second pruning is done during the summer to induce the reproductive cycle. In this study, ten different rootstocks were compared in order to optimize yield and wine quality of Syrah vines conducted under autumn-winter season by double pruning approach. Syrah grapevines grafted onto ‘Rupestris du Lot’ and ‘IAC 766’ showed the highest pruning weight, while ‘110 Richter’ and ‘161-49 Courdec’ induced the lowest cane vigor. The average production of two seasons identified ‘IAC 766’, ‘Kober 5BB’ and ‘Rupestris du Lot’ as the most productive rootstocks. In both seasons, the grape quality was more influenced by the plant development status than by rootstocks. ‘Syrah’ wine from vigorous and high yielding rootstocks, ‘IAC 766’ and ‘Rupestris du Lot’, showed satisfactory wine phenolic composition and alcohol/acidity balance. This study showed that vigorous rootstock increased yield without compromising grape and winter wine quality of Syrah grapevines subjected to double pruning management in the Brazilian Southeast.
DOI: 10.6084/m9.figshare.20003687
title: Estimating foliar nitrogen in Eucalyptus using vegetation indexes

description: ABSTRACT Nitrogen (N) has commonly been applied in Eucalyptus stands in Brazil and it has a direct relation with biomass production and chlorophyll content. Foliar N concentrations are used to diagnose soil and plant fertility levels and to develop N fertilizer application rates. Normally, foliar N is obtained using destructive methods, but indirect analyses using Vegetation Indexes (VIs) may be possible. The aim of this work was to evaluate VIs to estimate foliar N concentration in three Eucalyptus clones. Lower crown leaves of three clonal Eucalyptus plantations (25 months old) were classified into five color patterns using the Munsell Plant Tissue Color Chart. For each color, N concentration was determined by the Kjeldahl method and foliar reflectance was measured using a CI-710 Miniature Leaf Spectrometer. Foliar reflectance data were used to obtain the VIs and the VIs were used to estimate N concentrations. In the visible region, the relationship between N concentration and reflectance percentage was negative. The highest correlations between VIs and N concentrations were obtained by the Inflection Point Position (IPP, r = 0.97), Normalized Difference Red-Edge (reNDVI, r = 0.97) and Modified Red-Edge Normalized Difference Vegetation Index (mNDI, r = 0.97). Vegetation indexes on the red edge region provided the most accurate estimates of foliar N concentration. The reNDVI index provided the best N concentration estimates in leaves of different colors of Eucalyptus urophylla × grandis and Eucalyptus urophylla × urophylla (R2 = 0.97 and RMSE = 0.91 g kg−1).
DOI: 10.6084/m9.figshare.20003687.v1
title: Estimating foliar nitrogen in Eucalyptus using vegetation indexes

description: ABSTRACT Nitrogen (N) has commonly been applied in Eucalyptus stands in Brazil and it has a direct relation with biomass production and chlorophyll content. Foliar N concentrations are used to diagnose soil and plant fertility levels and to develop N fertilizer application rates. Normally, foliar N is obtained using destructive methods, but indirect analyses using Vegetation Indexes (VIs) may be possible. The aim of this work was to evaluate VIs to estimate foliar N concentration in three Eucalyptus clones. Lower crown leaves of three clonal Eucalyptus plantations (25 months old) were classified into five color patterns using the Munsell Plant Tissue Color Chart. For each color, N concentration was determined by the Kjeldahl method and foliar reflectance was measured using a CI-710 Miniature Leaf Spectrometer. Foliar reflectance data were used to obtain the VIs and the VIs were used to estimate N concentrations. In the visible region, the relationship between N concentration and reflectance percentage was negative. The highest correlations between VIs and N concentrations were obtained by the Inflection Point Position (IPP, r = 0.97), Normalized Difference Red-Edge (reNDVI, r = 0.97) and Modified Red-Edge Normalized Difference Vegetation Index (mNDI, r = 0.97). Vegetation indexes on the red edge region provided the most accurate estimates of foliar N concentration. The reNDVI index provided the best N concentration estimates in leaves of different colors of Eucalyptus urophylla × grandis and Eucalyptus urophylla × urophylla (R2 = 0.97 and RMSE = 0.91 g kg−1).
DOI: 10.6084/m9.figshare.20003689
title: Least limiting water range for oil palm production in Amazon region, Brazil

description: ABSTRACT In areas cultivated with oil palm, typically mechanized field operations using heavy vehicles may negatively affect soil physical properties and productivity. The aim of this study was to evaluate soil physical quality in an area cultivated with oil palm by monitoring the temporal variation of the soil water content and relating it to the critical limits of the least limiting water range. Soil bulk density (Bd), soil penetration resistance (SR), least limiting water range (LLWR), and water stress days (WSD) were used to assess soil physical quality in planting rows (PR) and the traffic zone (TZ) at depths 0-20, 20-40, and 40-60 cm. The Bd was higher and the LLWR was reduced in TZ only at the surface layer. The effect of temporal variation in soil water content on the soil physical quality was higher in TZ, mainly in subsurface layers. Bd and LLWR did not affect the fresh fruit bunch production; however, WSD in TZ at 20-40 and 40-60 cm layers provided evidence of effects of temporal variation of soil water content on oil palm productivity.
DOI: 10.6084/m9.figshare.20003689.v1
title: Least limiting water range for oil palm production in Amazon region, Brazil

description: ABSTRACT In areas cultivated with oil palm, typically mechanized field operations using heavy vehicles may negatively affect soil physical properties and productivity. The aim of this study was to evaluate soil physical quality in an area cultivated with oil palm by monitoring the temporal variation of the soil water content and relating it to the critical limits of the least limiting water range. Soil bulk density (Bd), soil penetration resistance (SR), least limiting water range (LLWR), and water stress days (WSD) were used to assess soil physical quality in planting rows (PR) and the traffic zone (TZ) at depths 0-20, 20-40, and 40-60 cm. The Bd was higher and the LLWR was reduced in TZ only at the surface layer. The effect of temporal variation in soil water content on the soil physical quality was higher in TZ, mainly in subsurface layers. Bd and LLWR did not affect the fresh fruit bunch production; however, WSD in TZ at 20-40 and 40-60 cm layers provided evidence of effects of temporal variation of soil water content on oil palm productivity.
DOI: 10.6084/m9.figshare.20003690
title: High fire temperature changes soil aggregate stability in slash-and-burn agricultural systems

description: ABSTRACT Fire is a key controlling factor in ecosystem dynamics worldwide, especially, in tropical areas under slash-and-burn agricultural systems. Farmers use fire as a tool to clean the land, and benefit from nutrient enrichment from ash-soil heating. However, fire can cause some detrimental effects on soil systems, such as organic carbon depletion, increased soil erodibility, and changes to aggregate stability. In this study, an experimental fire was applied to a plot of land following the local traditional practice of slash-and-burn. The fire temperature was monitored in the field, and its effect on soil aggregate stability was assessed. The fire temperature on soil surface was measured in four trenches, and it ranged from 355 to 660 °C (average 484 ± 142 °C). The fire temperature did not affect soil organic matter content. However, aggregate stability increased by 10 % in comparison to unburned soil. Moreover, the geometric mean diameter of burned soil was 20 % higher than that of unburned soil. In conclusion, high fire temperature changes soil aggregate stability in slash-and-burn agricultural systems.
DOI: 10.6084/m9.figshare.20003690.v1
title: High fire temperature changes soil aggregate stability in slash-and-burn agricultural systems

description: ABSTRACT Fire is a key controlling factor in ecosystem dynamics worldwide, especially, in tropical areas under slash-and-burn agricultural systems. Farmers use fire as a tool to clean the land, and benefit from nutrient enrichment from ash-soil heating. However, fire can cause some detrimental effects on soil systems, such as organic carbon depletion, increased soil erodibility, and changes to aggregate stability. In this study, an experimental fire was applied to a plot of land following the local traditional practice of slash-and-burn. The fire temperature was monitored in the field, and its effect on soil aggregate stability was assessed. The fire temperature on soil surface was measured in four trenches, and it ranged from 355 to 660 °C (average 484 ± 142 °C). The fire temperature did not affect soil organic matter content. However, aggregate stability increased by 10 % in comparison to unburned soil. Moreover, the geometric mean diameter of burned soil was 20 % higher than that of unburned soil. In conclusion, high fire temperature changes soil aggregate stability in slash-and-burn agricultural systems.
DOI: 10.6084/m9.figshare.20003692
title: Universal tail sequence-SSR applied to molecular characterization of tropical maize hybrids

description: ABSTRACT The development of efficient and low-cost genotyping methods is essential to precise genetic characterization of cultivars. Here, we present a system based on fluorescently labeled universal tail sequence primers (UTSP) to resolve microsatellite (SSR) markers as an alternative for molecular fingerprinting of maize. A set of 20 SSRs using the UTSP presented an average polymorphic information content of 0.84, which provided a probability of random identity ranging from 10−7 to 10−14, and a minimum exclusion power of 99.99998 % in a group of 48 tropical maize single-cross hybrids traded in Brazil. The genetic diversity analysis based on multidimensional scaling explained approximately 28 % of the total variance for the first two coordinates, tending to group the hybrids according to their respective origin. Additionally, this genotyping system presented a high distinctiveness capacity, which is widely recommended for genetic purity and fingerprinting analyses. Thus, this marker system has a strong potential as a tool for complementary analysis of distinguishability, uniformity and stability required for cultivar registration.
DOI: 10.6084/m9.figshare.20003693
title: Reduced sensitivity to azoxystrobin is stable in Monilinia fructicola isolates

description: ABSTRACT A shift towards declining azoxystrobin sensitivity has been previously documented in a collection of Brazilian Monilinia fructicola isolates, but information on the stability of this trait after in vitro sub-culturing is not available. In this study, one highly-sensitive isolate and two isolates with reduced sensitivity to azoxystrobin, not exhibiting point mutations at codons 129, 137 and 143 in the target gene of cytochrome b were used. Two independent experiments consisted of 10 weekly transfers of each strain in potato dextrose agar (PDA). Conidial production and germination were quantified in the initial culture and, again, after the third, sixth and tenth transfer. Measures of mycelial growth were obtained in colonies growing on PDA amended with azoxystrobin at 1 µg mL−1 and salicylhydroxamic acid at 100 µg mL−1. Data were normalized to mycelial growth rate after each of the 10 transfers. The colony diameter in the less sensitive isolates was stable across the transfers in the PDA amended with the fungicide. The conidial production and mycelial growth rate did not decrease in non-amended media either. Our results suggest that the trait of reduced sensitivity to azoxystrobin is stable under no selection pressure for azoxystrobin.
DOI: 10.6084/m9.figshare.20003693.v1
title: Reduced sensitivity to azoxystrobin is stable in Monilinia fructicola isolates

description: ABSTRACT A shift towards declining azoxystrobin sensitivity has been previously documented in a collection of Brazilian Monilinia fructicola isolates, but information on the stability of this trait after in vitro sub-culturing is not available. In this study, one highly-sensitive isolate and two isolates with reduced sensitivity to azoxystrobin, not exhibiting point mutations at codons 129, 137 and 143 in the target gene of cytochrome b were used. Two independent experiments consisted of 10 weekly transfers of each strain in potato dextrose agar (PDA). Conidial production and germination were quantified in the initial culture and, again, after the third, sixth and tenth transfer. Measures of mycelial growth were obtained in colonies growing on PDA amended with azoxystrobin at 1 µg mL−1 and salicylhydroxamic acid at 100 µg mL−1. Data were normalized to mycelial growth rate after each of the 10 transfers. The colony diameter in the less sensitive isolates was stable across the transfers in the PDA amended with the fungicide. The conidial production and mycelial growth rate did not decrease in non-amended media either. Our results suggest that the trait of reduced sensitivity to azoxystrobin is stable under no selection pressure for azoxystrobin.
DOI: 10.6084/m9.figshare.20003692.v1
title: Universal tail sequence-SSR applied to molecular characterization of tropical maize hybrids

description: ABSTRACT The development of efficient and low-cost genotyping methods is essential to precise genetic characterization of cultivars. Here, we present a system based on fluorescently labeled universal tail sequence primers (UTSP) to resolve microsatellite (SSR) markers as an alternative for molecular fingerprinting of maize. A set of 20 SSRs using the UTSP presented an average polymorphic information content of 0.84, which provided a probability of random identity ranging from 10−7 to 10−14, and a minimum exclusion power of 99.99998 % in a group of 48 tropical maize single-cross hybrids traded in Brazil. The genetic diversity analysis based on multidimensional scaling explained approximately 28 % of the total variance for the first two coordinates, tending to group the hybrids according to their respective origin. Additionally, this genotyping system presented a high distinctiveness capacity, which is widely recommended for genetic purity and fingerprinting analyses. Thus, this marker system has a strong potential as a tool for complementary analysis of distinguishability, uniformity and stability required for cultivar registration.
DOI: 10.34740/kaggle/dsv/3750195
title: flickr_fixed
DOI: 10.34740/kaggle/ds/2240992
title: flickr_fixed
DOI: 10.6084/m9.figshare.18849551
title: Novel <i>RCBTB1</i> variants causing later-onset non-syndromic retinal dystrophy with macular chorioretinal atrophy

description: Variants in <i>RCBTB1</i> were recently described to cause a retinal dystrophy with only eight families described to date and a predominant phenotype of macular atrophy and peripheral reticular degeneration. Here, we further evaluate the genotypic and phenotypic characteristics of biallelic <i>RCBTB1</i>-associated retinal dystrophy in a North American clinic population. A retrospective analysis of genetic and clinical features was performed in individuals with biallelic variants in <i>RCBTB1</i>. Three unrelated individuals of French-Canadian descent with rare biallelic <i>RCBTB1</i> variants were identified. All individuals shared a novel p.(Ser342Leu) missense variant; one patient was homozygous whereas the other two each possessed a second unique novel variant p.(Gln120*) and p.(Pro224Leu). All three had macula-predominant disease with symptom onset in the fifth decade of life. This report adds to the genetic diversity of <i>RCBTB1</i>-associated disease. These cases confirm the later-onset, relative to many other retinal dystrophies, and macular focus of disease described in most cases to-date. They are thus a reminder of considering hereditary disease in the differential for later-onset macular atrophy.
DOI: 10.6084/m9.figshare.18849551.v1
title: Novel <i>RCBTB1</i> variants causing later-onset non-syndromic retinal dystrophy with macular chorioretinal atrophy

description: Variants in <i>RCBTB1</i> were recently described to cause a retinal dystrophy with only eight families described to date and a predominant phenotype of macular atrophy and peripheral reticular degeneration. Here, we further evaluate the genotypic and phenotypic characteristics of biallelic <i>RCBTB1</i>-associated retinal dystrophy in a North American clinic population. A retrospective analysis of genetic and clinical features was performed in individuals with biallelic variants in <i>RCBTB1</i>. Three unrelated individuals of French-Canadian descent with rare biallelic <i>RCBTB1</i> variants were identified. All individuals shared a novel p.(Ser342Leu) missense variant; one patient was homozygous whereas the other two each possessed a second unique novel variant p.(Gln120*) and p.(Pro224Leu). All three had macula-predominant disease with symptom onset in the fifth decade of life. This report adds to the genetic diversity of <i>RCBTB1</i>-associated disease. These cases confirm the later-onset, relative to many other retinal dystrophies, and macular focus of disease described in most cases to-date. They are thus a reminder of considering hereditary disease in the differential for later-onset macular atrophy.
DOI: 10.6084/m9.figshare.17704690
title: An extended phenotype of <i>RP1L1</i> maculopathy – case report

description: To report the ophthalmological findings of a new phenotypical variant of <i>RP1L1</i> maculopathy in an Indian patient with a homozygous variant in the <i>RP1L1</i> gene A 39-year-old male presented with complaints of disturbance in the central field of vision in both eyes (BE) for a duration of 6 months. He underwent ophthalmic examinations and diagnostic imaging. A complete retinal degeneration panel consisting of 228 genes was evaluated for pathologic variations using next-generation sequencing (NGS), which showed a variant in the <i>RP1L1</i> gene. On fundus examination, he was found to have ill-defined foveal mottling in BE. Spectral domain optical coherence tomography (SD-OCT) showed sub-foveal hyper-reflective deposits and outer retinal layer disruption. A provisional diagnosis of the atypical variant of adult-onset foveomacular vitelliform dystrophy (AOFVD) was made on the basis of clinical, OCT, Fundus autofluorescence (FAF) and electrophysiological features. Genetic assessment of the proband revealed the presence of a homozygous base pair deletion in exon 4 of <i>RP1L1</i> gene (chr8:g.10468194_10468195del), which results in frameshift and premature truncation of the protein 24 amino acids downstream to codon 1138 (p.Lys1138SerfsTer24). This variant was confirmed in the proband’s parents by Sanger sequencing. The diagnosis was revised to <i>RP1L1</i> maculopathy, as the <i>RP1L1</i> gene variant is most commonly associated with this entity. This report presents the multimodal imaging of a previously unreported phenotype of <i>RP1L1</i> maculopathy associated with a genetic variant of <i>RP1L1</i> gene, thereby expanding the spectrum associated with <i>RP1L1</i> maculopathy.