The effect of drought stress on improved cotton varieties

Abstract Drought stress is one of the most important abiotic stresses influencing performance of crop plants. Therefore, the identification or development of tolerant genotypes is of high importance for incorporating in cotton production. In this study to evaluate the effect of drought stress on some cotton traits, 5 improved cotton varieties were studied in a split plot design with three replications in 2 years (2000)(2001) at 2 locations (Hashemabad and Anbaroloom); one with Mediterranean climate and the other with drought-stress condition. Treatments were irrigation as main plot in 3 levels (I 0 =without irrigation, I 1 =one time irrigation; that carried out 70 days after sowing, and I 2 =at least 3 times irrigation) and varieties as subplot in 5 levels (5 genotypes). In the basis of combined variance analysis significant differences were detected among varieties for yield, boll number, boll weight, length and number of sympodial and monopodial branches. Drought stress decreased yield, boll number, boll weight, and induced earliness. With increasing irrigation frequency, earliness lightly reduced in the former climate probably because of inducing vegetative growth and retarding in generative phase. In latter climate increased irrigation frequency had a positive effect on the yield. It seems that water deficiency has reduced yield via decreasing boll number. The number of formed bolls in stressful conditions was less than that of in non-stressful conditions. Stress tolerance index (STI) revealed that Siokra-324 and Tabladila were more tolerant and stable varieties

Inter simple sequence repeats (ISSR) and random amplified polymorphic DNA (RAPD) analyses of genetic diversity in Mehr cotton cultivar and its crossing progenies

Cotton is cultivated in Iran with diploid and tetraploid forms and hybridization is a means to increase the genetic diversity and obtain new elite cultivars in this crop. This present study considered the molecular genetic diversity in Mehr (Gossypium hirsutum) cotton cultivar and its crossing progenies. 21 of 30 random amplified polymorphic DNA (RAPD) primers produced 220 reproducible bands with average of 10.47 bands per primer and 80.12% of polymorphism. OPR02 primer showed the highest number of effective allele (Ne), Shannon index (I) and genetic diversity (H). Some of the cultivars had specific bands, for example the F1 progeny of Mehr X No. 200, Mehr parental genotype and Mehr X Belilzovar hybrid genotype. Results show that some RAPD bands were present in the F1 progenies, but absent in the parental genotypes. Some others were present in the parental genotypes, but were absent in their hybrids. The highest values of genetic diversity in RAPD markers were obtained in Mehr X Sindose and Mehr X Belilzovar hybrids. Nine of ten inter simple sequence repeats (ISSR) primers used produced 113 reproducible bands with average of 54.35% polymorphism. UBC834 locus revealed the highest number of Ne, I and H values. Also, some ISSR bands occurred only in the parental genotype while some others occurred only in the hybrid genotypes. The highest values of genetic diversity in ISSR markers were obtained in Mehr X Sindose and Mehr X Belilzovar hybrids.Key words: Cotton, genetic diversity, random amplified polymorphic DNA (RAPD), inter simple sequence repeats (ISSR)

Study on Quantitative Characteristics of Three Promising Cotton Genotypes in Country Moderate Regions (Khodafarin)

For recognizing exotic high performance genotypes, three new hybrid cotton genotypes (tbl180, Teskhi-9 and Cri108) were compared with control (Sahel) in a RCBD with four replicates at Khodafarin in 2012 and 2013. Genotypes were planted in six rows in 80×20 cm arrangement. Attributes like yield, homogeneity, boll number, plant weight and plant height were measured. Results showed that year×genotypes interaction for lint yield in both first and second cuts and total, and homogeneity were significant. Differences between two cuts were not significant in all genotypes. The results also revealed that Teskhi-9 having lowes TOL and highest STI values was recognized to be the most adaptable genotype as compared with other two genotypes

A proposed de-identification framework for a cohort of children presenting at a health facility in Uganda.

Data sharing has enormous potential to accelerate and improve the accuracy of research, strengthen collaborations, and restore trust in the clinical research enterprise. Nevertheless, there remains reluctancy to openly share raw data sets, in part due to concerns regarding research participant confidentiality and privacy. Statistical data de-identification is an approach that can be used to preserve privacy and facilitate open data sharing. We have proposed a standardized framework for the de-identification of data generated from cohort studies in children in a low-and-middle income country. We applied a standardized de-identification framework to a data sets comprised of 241 health related variables collected from a cohort of 1750 children with acute infections from Jinja Regional Referral Hospital in Eastern Uganda. Variables were labeled as direct and quasi-identifiers based on conditions of replicability, distinguishability, and knowability with consensus from two independent evaluators. Direct identifiers were removed from the data sets, while a statistical risk-based de-identification approach using the k-anonymity model was applied to quasi-identifiers. Qualitative assessment of the level of privacy invasion associated with data set disclosure was used to determine an acceptable re-identification risk threshold, and corresponding k-anonymity requirement. A de-identification model using generalization, followed by suppression was applied using a logical stepwise approach to achieve k-anonymity. The utility of the de-identified data was demonstrated using a typical clinical regression example. The de-identified data sets was published on the Pediatric Sepsis Data CoLaboratory Dataverse which provides moderated data access. Researchers are faced with many challenges when providing access to clinical data. We provide a standardized de-identification framework that can be adapted and refined based on specific context and risks. This process will be combined with moderated access to foster coordination and collaboration in the clinical research community

A proposed de-identification framework for a cohort of children presenting at a health facility in Uganda

Data sharing has enormous potential to accelerate and improve the accuracy of research, strengthen collaborations, and restore trust in the clinical research enterprise. Nevertheless, there remains reluctancy to openly share raw data sets, in part due to concerns regarding research participant confidentiality and privacy. Statistical data de-identification is an approach that can be used to preserve privacy and facilitate open data sharing. We have proposed a standardized framework for the de-identification of data generated from cohort studies in children in a low-and-middle income country. We applied a standardized de-identification framework to a data sets comprised of 241 health related variables collected from a cohort of 1750 children with acute infections from Jinja Regional Referral Hospital in Eastern Uganda. Variables were labeled as direct and quasi-identifiers based on conditions of replicability, distinguishability, and knowability with consensus from two independent evaluators. Direct identifiers were removed from the data sets, while a statistical risk-based de-identification approach using the k-anonymity model was applied to quasi-identifiers. Qualitative assessment of the level of privacy invasion associated with data set disclosure was used to determine an acceptable re-identification risk threshold, and corresponding k-anonymity requirement. A de-identification model using generalization, followed by suppression was applied using a logical stepwise approach to achieve k-anonymity. The utility of the de-identified data was demonstrated using a typical clinical regression example. The de-identified data sets was published on the Pediatric Sepsis Data CoLaboratory Dataverse which provides moderated data access. Researchers are faced with many challenges when providing access to clinical data. We provide a standardized de-identification framework that can be adapted and refined based on specific context and risks. This process will be combined with moderated access to foster coordination and collaboration in the clinical research community. Author summary Open Data is data that anyone can access, use, and share. Open Data has the potential to facilitate collaboration, enrich research, and advance the analytic capacity to inform decisions. Importantly, Open Data plays a role in fulfilling obligations to research participants and honoring the nature of medical research as a public good. Leaders in industry, academia, and regulatory agencies recognize the value in increased transparency and are focusing on how to openly share data while minimizing the safety risks to research participants. For example, making data open can pose a privacy risk to research participants who have shared personal health information. This risk can be mitigated using data de-identification, a process of removing personal information from a data sets so that an individual’s identity is no longer apparent or cannot be reasonably ascertained from the data. We introduce a simple, statistical risk-based framework for de-identification of clinical data that can be followed by any researcher. This framework will guide open data sharing while improving the protection of research participants

Table2_Smart triage: Development of a rapid pediatric triage algorithm for use in low-and-middle income countries.pdf

IntroductionEarly and accurate recognition of children at risk of progressing to critical illness could contribute to improved patient outcomes and resource allocation. In resource limited settings digital triage tools can support decision making and improve healthcare delivery. We developed a model for rapid identification of critically ill children at triage.MethodsThis was a prospective cohort study of acutely ill children presenting at Jinja Regional Referral Hospital in Eastern Uganda. Variables collected in the emergency department informed the development of a logistic model based on hospital admission using bootstrap stepwise regression. Low and high-risk thresholds for 90% minimum sensitivity and specificity, respectively generated three risk level categories. Performance was assessed using receiver operating characteristic curve analysis on a held-out test set generated by an 80:20 split with 10-fold cross validation. A risk stratification table informed clinical interpretation.ResultsThe model derivation cohort included 1,612 participants, with an admission rate of approximately 23%. The majority of admitted patients were under five years old and presenting with sepsis, malaria, or pneumonia. A 9-predictor triage model was derived: logit (p) = −32.888 + (0.252, square root of age) + (0.016, heart rate) + (0.819, temperature) + (−0.022, mid-upper arm circumference) + (0.048 transformed oxygen saturation) + (1.793, parent concern) + (1.012, difficulty breathing) + (1.814, oedema) + (1.506, pallor). The model afforded good discrimination, calibration, and risk stratification at the selected thresholds of 8% and 40%.ConclusionIn a low income, pediatric population, we developed a nine variable triage model with high sensitivity and specificity to predict who should be admitted. The triage model can be integrated into any digital platform and used with minimal training to guide rapid identification of critically ill children at first contact. External validation and clinical implementation are in progress.</p

Table1_Smart triage: Development of a rapid pediatric triage algorithm for use in low-and-middle income countries.pdf

IntroductionEarly and accurate recognition of children at risk of progressing to critical illness could contribute to improved patient outcomes and resource allocation. In resource limited settings digital triage tools can support decision making and improve healthcare delivery. We developed a model for rapid identification of critically ill children at triage.MethodsThis was a prospective cohort study of acutely ill children presenting at Jinja Regional Referral Hospital in Eastern Uganda. Variables collected in the emergency department informed the development of a logistic model based on hospital admission using bootstrap stepwise regression. Low and high-risk thresholds for 90% minimum sensitivity and specificity, respectively generated three risk level categories. Performance was assessed using receiver operating characteristic curve analysis on a held-out test set generated by an 80:20 split with 10-fold cross validation. A risk stratification table informed clinical interpretation.ResultsThe model derivation cohort included 1,612 participants, with an admission rate of approximately 23%. The majority of admitted patients were under five years old and presenting with sepsis, malaria, or pneumonia. A 9-predictor triage model was derived: logit (p) = −32.888 + (0.252, square root of age) + (0.016, heart rate) + (0.819, temperature) + (−0.022, mid-upper arm circumference) + (0.048 transformed oxygen saturation) + (1.793, parent concern) + (1.012, difficulty breathing) + (1.814, oedema) + (1.506, pallor). The model afforded good discrimination, calibration, and risk stratification at the selected thresholds of 8% and 40%.ConclusionIn a low income, pediatric population, we developed a nine variable triage model with high sensitivity and specificity to predict who should be admitted. The triage model can be integrated into any digital platform and used with minimal training to guide rapid identification of critically ill children at first contact. External validation and clinical implementation are in progress.</p

Table3_Smart triage: Development of a rapid pediatric triage algorithm for use in low-and-middle income countries.pdf

IntroductionEarly and accurate recognition of children at risk of progressing to critical illness could contribute to improved patient outcomes and resource allocation. In resource limited settings digital triage tools can support decision making and improve healthcare delivery. We developed a model for rapid identification of critically ill children at triage.MethodsThis was a prospective cohort study of acutely ill children presenting at Jinja Regional Referral Hospital in Eastern Uganda. Variables collected in the emergency department informed the development of a logistic model based on hospital admission using bootstrap stepwise regression. Low and high-risk thresholds for 90% minimum sensitivity and specificity, respectively generated three risk level categories. Performance was assessed using receiver operating characteristic curve analysis on a held-out test set generated by an 80:20 split with 10-fold cross validation. A risk stratification table informed clinical interpretation.ResultsThe model derivation cohort included 1,612 participants, with an admission rate of approximately 23%. The majority of admitted patients were under five years old and presenting with sepsis, malaria, or pneumonia. A 9-predictor triage model was derived: logit (p) = −32.888 + (0.252, square root of age) + (0.016, heart rate) + (0.819, temperature) + (−0.022, mid-upper arm circumference) + (0.048 transformed oxygen saturation) + (1.793, parent concern) + (1.012, difficulty breathing) + (1.814, oedema) + (1.506, pallor). The model afforded good discrimination, calibration, and risk stratification at the selected thresholds of 8% and 40%.ConclusionIn a low income, pediatric population, we developed a nine variable triage model with high sensitivity and specificity to predict who should be admitted. The triage model can be integrated into any digital platform and used with minimal training to guide rapid identification of critically ill children at first contact. External validation and clinical implementation are in progress.</p

Datasheet1_Smart triage: Development of a rapid pediatric triage algorithm for use in low-and-middle income countries.pdf

IntroductionEarly and accurate recognition of children at risk of progressing to critical illness could contribute to improved patient outcomes and resource allocation. In resource limited settings digital triage tools can support decision making and improve healthcare delivery. We developed a model for rapid identification of critically ill children at triage.MethodsThis was a prospective cohort study of acutely ill children presenting at Jinja Regional Referral Hospital in Eastern Uganda. Variables collected in the emergency department informed the development of a logistic model based on hospital admission using bootstrap stepwise regression. Low and high-risk thresholds for 90% minimum sensitivity and specificity, respectively generated three risk level categories. Performance was assessed using receiver operating characteristic curve analysis on a held-out test set generated by an 80:20 split with 10-fold cross validation. A risk stratification table informed clinical interpretation.ResultsThe model derivation cohort included 1,612 participants, with an admission rate of approximately 23%. The majority of admitted patients were under five years old and presenting with sepsis, malaria, or pneumonia. A 9-predictor triage model was derived: logit (p) = −32.888 + (0.252, square root of age) + (0.016, heart rate) + (0.819, temperature) + (−0.022, mid-upper arm circumference) + (0.048 transformed oxygen saturation) + (1.793, parent concern) + (1.012, difficulty breathing) + (1.814, oedema) + (1.506, pallor). The model afforded good discrimination, calibration, and risk stratification at the selected thresholds of 8% and 40%.ConclusionIn a low income, pediatric population, we developed a nine variable triage model with high sensitivity and specificity to predict who should be admitted. The triage model can be integrated into any digital platform and used with minimal training to guide rapid identification of critically ill children at first contact. External validation and clinical implementation are in progress.</p