cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.14279210
title: Alternative products on Asian soybean rust control and their influence on defoliation, productivity and yield components

description: ABSTRACT To study the efficiency of Asian soybean rust (Phakopsora pachyrhizi) control and to test the effects of using alternative products and fungicides, two field experiments were conducted during the harvest seasons 2013/2014 and 2014/2015. Treatments for the experiments were: 1- control (water); 2- acibenzolar-S-methyl; 3- calcium; 4- micronutrients: copper, manganese and zinc; 5- micronutrients: manganese, zinc and molybdenum; 6- NK fertilizer; 7- Ascophyllum nodosum, and 8- azoxystrobin + cyproconazole. The evaluated variables were: Asian soybean rust severity, defoliation, productivity and yield components. Based on severity data, the area under the disease progress curve was calculated. In the two experiments, the alternative products had no effect on Asian soybean rust or defoliation. Only the treatment with fungicide controlled the disease and decreased defoliation. The yield component affected by the treatments was the number of pods per plant, in both harvest seasons. Treatment with the fungicide protected soybean from yield loss in both experiments. Defoliation was strongly correlated with the weight of one thousand seeds and the number of pods per plant, emphasizing the importance of maintaining the leaf area to ensure the maintenance of the yield components in soybean crop.
DOI: 10.6084/m9.figshare.14279213
title: Field resistance and molecular detection of the orange rust resistance gene linked to G1 marker in Brazilian cultivars of sugarcane

description: ABSTRACT Sugarcane (Saccharum spp.), an important crop for tropical and subtropical countries, is used in the production of sugar and biofuel. Orange rust, a disease caused by the fungus Puccinia kuehnii, can reduce the yield and harm the sugarcane industry. Molecular markers linked to resistance genes can help breeding programs confirm introgression of favorable alleles, find new resistance sources and release new cultivars that have durable resistance. In the current study, the aims were (i) to evaluate in the field the resistance to orange rust of 24 Brazilian commercial cultivars; (ii) to assess the frequency of the allele at G1 marker locus in the set of cultivars, and (iii) to study the usefulness of G1 marker to predict the resistant phenotype and its potential for marker assisted selection. A diagrammatic scale, which ranged from 1 (plants without symptoms) to 9 (highly susceptible plants), was used to determine the disease severity. Considering resistant cultivars those with mean severity up to 3, G1 marker efficiency in predicting the resistant phenotype was 71.43%. In addition, there was a reduction of 35% in the overall mean severity when G1 marker was present. G1 marker is an important molecular tool that can be used by breeding programs in the search for sugarcane cultivars resistant to orange rust.
DOI: 10.6084/m9.figshare.14279210.v1
title: Alternative products on Asian soybean rust control and their influence on defoliation, productivity and yield components

description: ABSTRACT To study the efficiency of Asian soybean rust (Phakopsora pachyrhizi) control and to test the effects of using alternative products and fungicides, two field experiments were conducted during the harvest seasons 2013/2014 and 2014/2015. Treatments for the experiments were: 1- control (water); 2- acibenzolar-S-methyl; 3- calcium; 4- micronutrients: copper, manganese and zinc; 5- micronutrients: manganese, zinc and molybdenum; 6- NK fertilizer; 7- Ascophyllum nodosum, and 8- azoxystrobin + cyproconazole. The evaluated variables were: Asian soybean rust severity, defoliation, productivity and yield components. Based on severity data, the area under the disease progress curve was calculated. In the two experiments, the alternative products had no effect on Asian soybean rust or defoliation. Only the treatment with fungicide controlled the disease and decreased defoliation. The yield component affected by the treatments was the number of pods per plant, in both harvest seasons. Treatment with the fungicide protected soybean from yield loss in both experiments. Defoliation was strongly correlated with the weight of one thousand seeds and the number of pods per plant, emphasizing the importance of maintaining the leaf area to ensure the maintenance of the yield components in soybean crop.
DOI: 10.6084/m9.figshare.14279215
title: Inheritance of soybean resistance to Corynespora cassiicola

description: ABSTRACT The incidence of target spot, caused by Corynespora cassiicola, has gained increasing importance among the main soybean diseases in Brazil, and using susceptible cultivars can cause yield losses. Different susceptibility/resistance levels have been observed among cultivars in commercial crops but the genetics of the resistance to this pathogen is still unknown. To study the inheritance of soybean resistance to C. cassiicola, crosses were developed between cultivars including one cultivar resistant to target spot, BRS 316RR, one moderately resistant cultivar, BRS 184, and one susceptible cultivar BMX Potência RR. Parental generations, as well as F2 and F2:3 derived from their crosses, were evaluated as to severity and lesion size after inoculation with the pathogen. Quantitative analysis was applied to the data, and genetic models were adjusted for means and variances. Predominance of additive genetic effects controlling soybean resistance to C. cassiicola is suggested for the different crosses. The genetic models adjusted for the means detected an additive genetic effect more frequently. The additive variance D was detected only for the trait lesion size and had low heritability, indicating high environmental effect influencing the reaction. Based on mean and variance genetic models, further genetic gains are expected in the cross BRS 316RR x BMX Potência RR. The effect of genetic dominance was not important. The presence of significant epistasis in crosses between susceptible cultivars indicates the existence of at least two genes affecting resistance and that are interacting. The normal continuous distribution of the frequency of the number of individuals in different classes of resistance indicates that the resistance to C. cassiicola is quantitatively inherited and there is predominance of an additive genetic effect and low heritability.
DOI: 10.6084/m9.figshare.14279213.v1
title: Field resistance and molecular detection of the orange rust resistance gene linked to G1 marker in Brazilian cultivars of sugarcane

description: ABSTRACT Sugarcane (Saccharum spp.), an important crop for tropical and subtropical countries, is used in the production of sugar and biofuel. Orange rust, a disease caused by the fungus Puccinia kuehnii, can reduce the yield and harm the sugarcane industry. Molecular markers linked to resistance genes can help breeding programs confirm introgression of favorable alleles, find new resistance sources and release new cultivars that have durable resistance. In the current study, the aims were (i) to evaluate in the field the resistance to orange rust of 24 Brazilian commercial cultivars; (ii) to assess the frequency of the allele at G1 marker locus in the set of cultivars, and (iii) to study the usefulness of G1 marker to predict the resistant phenotype and its potential for marker assisted selection. A diagrammatic scale, which ranged from 1 (plants without symptoms) to 9 (highly susceptible plants), was used to determine the disease severity. Considering resistant cultivars those with mean severity up to 3, G1 marker efficiency in predicting the resistant phenotype was 71.43%. In addition, there was a reduction of 35% in the overall mean severity when G1 marker was present. G1 marker is an important molecular tool that can be used by breeding programs in the search for sugarcane cultivars resistant to orange rust.
DOI: 10.6084/m9.figshare.14279215.v1
title: Inheritance of soybean resistance to Corynespora cassiicola

description: ABSTRACT The incidence of target spot, caused by Corynespora cassiicola, has gained increasing importance among the main soybean diseases in Brazil, and using susceptible cultivars can cause yield losses. Different susceptibility/resistance levels have been observed among cultivars in commercial crops but the genetics of the resistance to this pathogen is still unknown. To study the inheritance of soybean resistance to C. cassiicola, crosses were developed between cultivars including one cultivar resistant to target spot, BRS 316RR, one moderately resistant cultivar, BRS 184, and one susceptible cultivar BMX Potência RR. Parental generations, as well as F2 and F2:3 derived from their crosses, were evaluated as to severity and lesion size after inoculation with the pathogen. Quantitative analysis was applied to the data, and genetic models were adjusted for means and variances. Predominance of additive genetic effects controlling soybean resistance to C. cassiicola is suggested for the different crosses. The genetic models adjusted for the means detected an additive genetic effect more frequently. The additive variance D was detected only for the trait lesion size and had low heritability, indicating high environmental effect influencing the reaction. Based on mean and variance genetic models, further genetic gains are expected in the cross BRS 316RR x BMX Potência RR. The effect of genetic dominance was not important. The presence of significant epistasis in crosses between susceptible cultivars indicates the existence of at least two genes affecting resistance and that are interacting. The normal continuous distribution of the frequency of the number of individuals in different classes of resistance indicates that the resistance to C. cassiicola is quantitatively inherited and there is predominance of an additive genetic effect and low heritability.
DOI: 10.15468/dl.fecgok
title: Occurrence Download

description: A dataset containing 1130 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Achatina fulica (Bowdich, 1822)"
 ]
}

 The dataset includes 1130 records from 45 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000432-150805223722583/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3pvdbn
title: Occurrence Download

description: A dataset containing 2492 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "Country is Hong Kong",
 "Country is China",
 "Country is Chinese Taipei"
 ]
 },
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Leiothrix lutea (Scopoli, 1786)"
 ]
}

 The dataset includes 2492 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0231336-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.t5rc6c
title: Occurrence Download

description: A dataset containing 10452 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Portugal",
 "TaxonKey is Alcedo atthis (Linnaeus, 1758)"
 ]
}

 The dataset includes 10452 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008138-181108115102211/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vxkjy4
title: Occurrence Download

description: A dataset containing 36303 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Taxon occurrence data for the FungalRoot database"
 ]
}

 The dataset includes 36303 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011594-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6hbzxe
title: Occurrence Download

description: A dataset containing 3229 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Desmodus rotundus (E.Geoffroy, 1810)",
 "Geometry POLYGON((-121.66 8.84,-121.66 33.39,-79.9 33.39,-79.9 8.84,-121.66 8.84))",
 "HasGeospatialIssue is false",
 "BasisOfRecord is Specimen"
 ]
}

 The dataset includes 3229 records from 28 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000432-150922153815467/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6dknk7
title: Occurrence Download

description: A dataset containing 59804 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Pseudorasbora parva (Temminck & Schlegel, 1846)"
 ]
}

 The dataset includes 59804 records from 166 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0277078-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ngk2zy
title: Occurrence Download

description: A dataset containing 9307 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Conirostrum sitticolor Lafresnaye, 1840"
 ]
}

 The dataset includes 9307 records from 87 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0053446-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ce3sms
title: Occurrence Download

description: A dataset listing the 433 species recorded in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Didelphimorphia"
 ]
}

 The dataset's 433 records were derived from 356 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0075079-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jlhn2k
title: Occurrence Download

description: A dataset containing 93 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mozambique",
 "TaxonKey is Cercopithecus Linnaeus, 1758"
 ]
}

 The dataset includes 93 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000432-180131172636756/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xawgsz
title: Occurrence Download

description: A dataset containing 1087 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Canada",
 "TaxonKey is Lampsilis radiata (Gmelin, 1791)"
 ]
}

 The dataset includes 1087 records from 22 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0049081-200221144449610/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3humm7
title: Occurrence Download

description: A dataset containing 1758 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Cistothorus apolinari Chapman, 1914, Cistothorus apolinari Chapman, 1914, Cistothorus apolinari Chapman, 1914)",
 "DecimalLatitude is greater than or equal to -14",
 "DecimalLatitude is less than or equal to 13",
 "DecimalLongitude is greater than or equal to -83",
 "DecimalLongitude is less than or equal to -60"
 ]
}

 The dataset includes 1758 records from 22 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0066876-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.nn44mc
title: Occurrence Download

description: A dataset containing 34087 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Mimosa pigra L."
 ]
}

 The dataset includes 34087 records from 378 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0317491-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.lwe5or
title: Occurrence Download

description: A dataset containing 866 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Conus ermineus Born, 1778"
 ]
}

 The dataset includes 866 records from 35 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000433-150811131857512/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.m7ipip
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 2015",
 "Month is greater than or equal to December",
 "Country is United States of America",
 "TaxonKey is Trichoptera"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000433-160509122628363/datasets/export for details.
DOI: 10.15468/dl.nvypmc
title: Occurrence Download

description: A dataset containing 68 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Aotus infulatus (Kuhl, 1820)"
 ]
}

 The dataset includes 68 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0240399-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2g5ehu
title: Occurrence Download

description: A dataset containing 640496 species occurrences available in GBIF matching the query:
{
 "Country" : [
 "is Viet Nam"
 ]
}

 The dataset includes 640496 records from 1211 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0304595-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.3803619
title: SIRAH-CoV2 initiative: nsp7-nsp8 complex (PDB id:6YHU)

description: This dataset contains the trajectory of a 10 microseconds-long coarse-grained molecular dynamics simulation of SARS-CoV2 nsp7-nsp8 complex (PDB id: 6YHU, Bioassembly 1). Simulations have been performed using the SIRAH force field running with the Amber18 package at the Uruguayan National Center for Supercomputing (ClusterUY) under the conditions reported in Machado et al. JCTC 2019, adding 150 mM NaCl according to Machado & Pantano JCTC 2020. The file 6YHU_SIRAHcg_rawdata.tar contains all the raw information required to visualize (on VMD), analyze, backmap, and eventually continue the simulations using Amber18 or higher. Step-By-Step tutorials for running, visualizing, and analyzing CG trajectories using SirahTools can be found at www.sirahff.com. Additionally, the file 6YHU_SIRAHcg_10us_prot.tar contains only the protein coordinates, while 6YHU_SIRAHcg_10us_prot_skip10ns.tar contains one frame every 10ns. To take a quick look at the trajectory: 1- Untar the file 6YHU_SIRAHcg_10us_prot_skip10ns.tar 2- Open the trajectory on VMD using the command line: vmd 6yhu_SIRAHcg_prot.prmtop 6yhu_SIRAHcg_prot.ncrst 6yhu_SIRAHcg_prot_10us_skip10ns.nc -e sirah_vmdtk.tcl Note that you can use normal VMD drawing methods as vdw, licorice, etc., and coloring by restype, element, name, etc. This dataset is part of the SIRAH-CoV2 initiative. For further details, please contact Martín Soñora (msonora@pasteur.edu.uy) Sergio Pantano (spantano@pasteur.edu.uy).
description: {"references": ["Machado et al. JCTC 2019 (DOI: 10.1021/acs.jctc.9b00006)", "Machado & Pantano JCTC 2020 (DOI:10.1021/acs.jctc.9b00953)", "Machado & Pantano Bioinformatics 2016 (DOI:10.1093/bioinformatics/btw020)"]}
DOI: 10.6084/m9.figshare.12073254
title: Common factors and spatial dependence: an application to US house prices

description: This article considers panel data models with cross-sectional dependence arising from both spatial autocorrelation and unobserved common factors. It proposes estimation methods that employ cross-sectional averages as factor proxies, including the 2SLS, Best 2SLS, and GMM estimations. The proposed estimators are robust to unknown heteroskedasticity and serial correlation in the disturbances, unrequired to estimate the number of unknown factors, and computationally tractable. The article establishes the asymptotic distributions of these estimators and compares their consistency and efficiency properties. Extensive Monte Carlo experiments lend support to the theoretical findings and demonstrate the satisfactory finite sample performance of the proposed estimators. The empirical section of the article finds strong evidence of spatial dependence of real house price changes across 377 Metropolitan Statistical Areas in the US from 1975Q1 to 2014Q4.
DOI: 10.6084/m9.figshare.12073254.v1
title: Common factors and spatial dependence: an application to US house prices

description: This article considers panel data models with cross-sectional dependence arising from both spatial autocorrelation and unobserved common factors. It proposes estimation methods that employ cross-sectional averages as factor proxies, including the 2SLS, Best 2SLS, and GMM estimations. The proposed estimators are robust to unknown heteroskedasticity and serial correlation in the disturbances, unrequired to estimate the number of unknown factors, and computationally tractable. The article establishes the asymptotic distributions of these estimators and compares their consistency and efficiency properties. Extensive Monte Carlo experiments lend support to the theoretical findings and demonstrate the satisfactory finite sample performance of the proposed estimators. The empirical section of the article finds strong evidence of spatial dependence of real house price changes across 377 Metropolitan Statistical Areas in the US from 1975Q1 to 2014Q4.
DOI: 10.5281/zenodo.3814373
title: SIRAH-CoV2 initiative: ORF7A enconded accessory protein (PDB id:6W37)

description: This dataset contains the trajectory of a 10 microseconds-long coarse-grained molecular dynamics simulation of SARS-CoV2 ORF7a encoded accessory protein (PDB id: 6W37). Simulations have been performed using the SIRAH force field running with the Amber18 package at the Uruguayan National Center for Supercomputing (ClusterUY) under the conditions reported in Machado et al. JCTC 2019, adding 150 mM NaCl according to Machado & Pantano JCTC 2020. The file 6W37_SIRAHcg_rawdata.tar contains all the raw information required to visualize (on VMD), analyze, backmap, and eventually, continue the simulations using Amber18 or higher. Step-By-Step tutorials for running, visualizing, and analyzing CG trajectories using SirahTools can be found at www.sirahff.com. Additionally, the file 6W37_SIRAHcg_10us_prot.tar contains only the protein coordinates, while 6W37_SIRAHcg_10us_prot_skip10ns.tar contains one frame every 10ns. To take a quick look at the trajectory: 1- Untar the file 6W37_SIRAHcg_10us_prot_skip10ns.tar 2- Open the trajectory on VMD using the command line: vmd 6w37_SIRAHcg_prot.prmtop 6w37_SIRAHcg_prot.ncrst 6w37_SIRAHcg_prot_10us_skip10ns.nc -e sirah_vmdtk.tcl Note that you can use normal VMD drawing methods as vdw, licorice, etc., and coloring by restype, element, name, etc. This dataset is part of the SIRAH-CoV2 initiative. For further details, please contact Martín Soñora (msonora@pasteur.edu.uy) or Sergio Pantano (spantano@pasteur.edu.uy).
description: {"references": ["Machado et al. JCTC 2019 (DOI: 10.1021/acs.jctc.9b00006)", "Machado & Pantano JCTC 2020 (DOI:10.1021/acs.jctc.9b00953)", "Machado & Pantano Bioinformatics 2016 (DOI:10.1093/bioinformatics/btw020)"]}