Zeolites: Potential soil amendments for improving nutrient and water use efficiency and agriculture productivity

The fertilizer use in developing countries has shown a steady increase over the last few decades, and the use and manufacture of N fertilizers contributes to about 60% of the total release of reactive N. Higher farm subsidies and lower N fertilizer prices have further increased N inputs. Inappropriate fertilization patterns and excessive use of N fertilizer have resulted in considerable N losses through ammonia NH3 volatilization and NO2 leaching. This has meant that NUE has been as low as ~35%. An efficient crop nutrient management is important practice and thus, new designer or smart N fertilizers technologies are needed to support the increasing demand and avoid the low nitrogen use efficiency (NUE). The ammonia nitrogen volatilization and nitrate leaching can be reduced or prevented by the use of zeolite carrier material applications which have N in their framework and act as slow/controlled release fertilizers. These materials will reduce ammonia volatization and nitrate leaching and at the same time increase crop yield. Zeolites are also known for their water holding capacity and in drylands they are the most suitable fertilizers to prolong moisture levels in severe drought like conditions. In addition to macronutrients, micronutrients can also be introduced into zeolites which can supplement nutrient deficient soils. Thus, zeolites along with increasing yield can also increase the nutrient and water use efficiency of drylands

Doubling Farmers’ Income: KISAN–MITrA, Proceedings of National Workshop on Doubling Farmers’ Income through Scalingup: KISAN–MITrA (Knowledge-based Integrated Sustainable Agriculture Network – Mission India for Transforming Agriculture)

India holds 142 million hectares of arable land in 137 million farm households and has 46 of the 60 soil types in the world with 15 agro climatic zones varying from arid to humid tropics, hot arid deserts to cold deserts with varying annual rainfall 11,873 mm at Mawsynram, Meghalaya to 166 mm at Jaisalmer, Rajasthan. It is the largest producer of spices, pulses, milk, tea, cashew and jute; and the second largest producer of wheat, rice, fruits and vegetables, sugarcane, cotton and oilseeds. Inspite of these remarkable figures, agriculture contributes to only 17% to the national gross domestic product value by 56 per cent of population engaged in farming. The stagnated growth rate of 3.1 % and food security for the ever-growing population in India along with poverty amongst rural population has always been a challenging task. In order to tackle this situation, a total of 60 selected participants representing Department of Agriculture, Government of India, national research institutions, state agricultural universities, corporates, international research centres and NGO groups brainstormed on the topic of doubling farmers’ income by the year 2022 as envisioned by Hon. Prime Minister of India Shri Narendra Modi..

Targeted re-sequencing of linkage region on 2q21 identifies a novel functional variant for hip and knee osteoarthritis

Objective: The aim of the study was to identify genetic variants predisposing to primary hip and knee osteoarthritis (OA) in a sample of Finnish families. Methods: Genome wide analysis was performed using 15 independent families (279 individuals) originating from Central Finland identified as having multiple individuals with primary hip and/or knee OA. Targeted re-sequencing was performed for three samples from one 33-member, four-generation family contributing most significantly to the LOD score. In addition, exome sequencing was performed in three family members from the same family. Results: Genome wide linkage analysis identified a susceptibility locus on chromosome 2q21 with a multipoint LOD score of 3.91. Targeted re-sequencing and subsequent linkage analysis revealed a susceptibility insertion variant rs11446594. It locates in a predicted strong enhancer element region with maximum LOD score 3.42 under dominant model of inheritance. Insertion creates a recognition sequence for ELF3 and HMGA1 transcription factors. Their DNA-binding affinity is highly increased in the presence of A-allele compared to wild type null allele. Conclusion: A potentially novel functional OA susceptibility variant was identified by targeted resequencing. This variant locates in a predicted regulatory site and creates a recognition sequence for ELF3 and HMGA1 transcription factors that are predicted to play a significant role in articular cartilage homeostasis. (C) 2015 The Authors. Published by Elsevier Ltd and Osteoarthritis Research Society International.Peer reviewe

Chromosome 1p13 genetic variants antagonize the risk of myocardial infarction associated with high ApoB serum levels

PMCID: PMC3480949This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited

The geography of recent genetic ancestry across Europe

The recent genealogical history of human populations is a complex mosaic formed by individual migration, large-scale population movements, and other demographic events. Population genomics datasets can provide a window into this recent history, as rare traces of recent shared genetic ancestry are detectable due to long segments of shared genomic material. We make use of genomic data for 2,257 Europeans (the POPRES dataset) to conduct one of the first surveys of recent genealogical ancestry over the past three thousand years at a continental scale. We detected 1.9 million shared genomic segments, and used the lengths of these to infer the distribution of shared ancestors across time and geography. We find that a pair of modern Europeans living in neighboring populations share around 10-50 genetic common ancestors from the last 1500 years, and upwards of 500 genetic ancestors from the previous 1000 years. These numbers drop off exponentially with geographic distance, but since genetic ancestry is rare, individuals from opposite ends of Europe are still expected to share millions of common genealogical ancestors over the last 1000 years. There is substantial regional variation in the number of shared genetic ancestors: especially high numbers of common ancestors between many eastern populations likely date to the Slavic and/or Hunnic expansions, while much lower levels of common ancestry in the Italian and Iberian peninsulas may indicate weaker demographic effects of Germanic expansions into these areas and/or more stably structured populations. Recent shared ancestry in modern Europeans is ubiquitous, and clearly shows the impact of both small-scale migration and large historical events. Population genomic datasets have considerable power to uncover recent demographic history, and will allow a much fuller picture of the close genealogical kinship of individuals across the world.Comment: Full size figures available from http://www.eve.ucdavis.edu/~plralph/research.html; or html version at http://ralphlab.usc.edu/ibd/ibd-paper/ibd-writeup.xhtm

Anomaly detection in elderly daily behavior in ambient sensing environments

Current ubiquitous computing applications for smart homes aim to enhance people’s daily living respecting age span. Among the target groups of people, elderly are a population eager for “choices for living arrangements”, which would allow them to continue living in their homes but at the same time provide the health care they need. Given the growing elderly population, there is a need for statistical models able to capture the recurring patterns of daily activity life and reason based on this information. We present an analysis of real-life sensor data collected from 40 different households of elderly people, using motion, door and pressure sensors. Our objective is to automatically observe and model the daily behavior of the elderly and detect anomalies that could occur in the sensor data. For this purpose, we first introduce an abstraction layer to create a common ground for home sensor configurations. Next, we build a probabilistic spatio-temporal model to summarize daily behavior. Anomalies are then defined as significant changes from the learned behavioral model and detected using a cross-entropy measure. We have compared the detected anomalies with manually collected annotations and the results show that the presented approach is able to detect significant behavioral changes of the elderly

Contribution of Nutrients through Critical Irrigation from Diverse Water Sources in Selected Watersheds of Semi-arid Tropical India

Critical irrigation is one of the most important management options to protect the crop during weather aberrations like dry spells at critical stages of the crop growth in semi arid condition. Various water harvesting structures are useful in watershed areas to cope up with mid-season droughts. These structures provide critical irrigations at sensitive crop growth stages by which they supply essential nutrients to some extent. We estimated the contribution of various sources of water in terms of plant nutrients and to what extent critical irrigations meet nutrient requirements of various crops. By giving 4 cm irrigation, the maximum major nutrient (kg ha-1) addition in the studied watersheds is of the following order NO3 (5.2, Kothapalli); SO4 (15.2, Kolar); Na (72.0, Haveri); K (3.6, Govardhanapura); Ca (38.5, Semli and Shyamapura); Mg (20.5, Kothapalli) and for micronutrients (g ha-1) Fe (109, Kolar); Zn (40, Kothapalli); Mn (90, Kolar); Cu (120, ICRISAT) and B (190, ICRISAT). Percentage of recommended dose of nutrients which can be met by three irrigations in cereal crops (5- 10, 15-100, 10-20% in N,S,K respectively); legumes (5-30,10-100, 5-10% of N,S,K respectively); cotton (10-15, 25-30, 5-10% of N,S,K, respectively) and micronutrients such as Fe, Zn, Mn, Cu and B to the full extent. With the number of critical irrigations increased, application of secondary and micro nutrients should be avoided which otherwise leads to higher cost of alleviation and environmental pollution

Heavy metals concentration in soils under rainfed agro-ecosystems and their relationship with soil properties and management practices

Heavy metals are governed by parent material of soils and influenced by the soil physicochemical properties and soil and crop management practices. This paper evaluates total heavy metal concentrations in rainfed soils under diverse management practices of tropical India. Vertisols (clayey soils with high shrink/swell capacity) had the highest concentrations of heavy metals. However, chromium (Cr) content was above the threshold value in Aridisol [calcium carbonate (CaCO3)]-containing soils of the arid environments with subsurface horizon development. Concentration increased at lower depths (>30 cm). Basaltic soils showed higher concentrations of nickel (Ni), copper (Cu) and manganese (Mn). Cadmium (Cd), cobalt (Co), Cu and Mn concentrations were higher in soils cultivated to cotton, whereas Cr concentration was above the threshold level of 110 mg kg−1 in food crop cultivated soils. As the specific soil surface is closely related to clay content and clay type, soil’s ability to retain heavy metals is more closely tied to the specific surface than to the soil cation exchange capacity. Higher positive correlations were found between heavy metal concentrations and clay content [Cd(r = 0.85; p ≤ 0.01); Co (r = 0.88; p ≤ 0.05); Ni (r = 0.87; p ≤ 0.01); Co (r = 0.81; p ≤ 0.05); Zn (r = 0.49; p ≤ 0.01); Cr (r = 0.80; p ≤ 0.05); Mn (r = 0.79; p ≤ 0.01)]. The amounts of nitrogen–phosphorus–potassium applied showed a positive correlation with Co and Ni (r = 0.62; p ≤ 0.05). As several soils used for growing food crops are high in Ni, Cr and Mn, the flow of these metals in soil–plant–livestock/human chain needs further attention

Partial pulmonary embolization disrupts alveolarization in fetal sheep

BACKGROUND: Although bronchopulmonary dysplasia is closely associated with an arrest of alveolar development and pulmonary capillary dysplasia, it is unknown whether these two features are causally related. To investigate the relationship between pulmonary capillaries and alveolar formation, we partially embolized the pulmonary capillary bed. METHODS: Partial pulmonary embolization (PPE) was induced in chronically catheterized fetal sheep by injection of microspheres into the left pulmonary artery for 1 day (1d PPE; 115d gestational age; GA) or 5 days (5d PPE; 110-115d GA). Control fetuses received vehicle injections. Lung morphology, secondary septal crests, elastin, collagen, myofibroblast, PECAM1 and HIF1 alpha abundance and localization were determined histologically. VEGF-A, Flk-1, PDGF-A and PDGF-R alpha mRNA levels were measured using real-time PCR. RESULTS: At 130d GA (term approximately 147d), in embolized regions of the lung the percentage of lung occupied by tissue was increased from 29 +/- 1% in controls to 35 +/- 1% in 1d PPE and 44 +/- 1% in 5d PPE fetuses (p < 0.001). Secondary septal crest density was reduced from 8 +/- 0% in controls to 5 +/- 0% in 1d PPE and 4 +/- 0% in 5d PPE fetuses (p < 0.05), indicating impaired alveolar formation. The deposition of differentiated myofibroblasts (23 +/- 1% vs 28 +/- 1%; p < 0.001) and elastin fibres (3 +/- 0% vs 4 +/- 0%; p < 0.05) were also impaired in embolized lung regions of PPE fetuses compared to controls. PPE did not alter the deposition of collagen or PECAM1. At 116d GA in 5d PPE fetuses, markers of hypoxia indicated that a small and transient hypoxic event had occurred (hypoxia in 6.7 +/- 1.4% of the tissue within embolized regions of 5d PPE fetuses at 116d compared to 0.8 +/- 0.2% of tissue in control regions). There was no change in the proportion of tissue labelled with HIF1 alpha. There was no change in mRNA levels of the angiogenic factors VEGF and Flk-1, although a small increase in PDGF-R alpha expression at 116d GA, from 1.00 +/- 0.12 in control fetuses to 1.61 +/- 0.18 in 5d PPE fetuses may account for impaired differentiation of alveolar myofibroblasts and alveolar development. CONCLUSIONS: PPE impairs alveolarization without adverse systemic effects and is a novel model for investigating the role of pulmonary capillaries and alveolar myofibroblasts in alveolar formation

Modeling precision treatment of breast cancer

Background: First-generation molecular profiles for human breast cancers have enabled the identification of features that can predict therapeutic response; however, little is known about how the various data types can best be combined to yield optimal predictors. Collections of breast cancer cell lines mirror many aspects of breast cancer molecular pathobiology, and measurements of their omic and biological therapeutic responses are well-suited for development of strategies to identify the most predictive molecular feature sets. Results: We used least squares-support vector machines and random forest algorithms to identify molecular features associated with responses of a collection of 70 breast cancer cell lines to 90 experimental or approved therapeutic agents. The datasets analyzed included measurements of copy number aberrations, mutations, gene and isoform expression, promoter methylation and protein expression. Transcriptional subtype contributed strongly to response predictors for 25% of compounds, and adding other molecular data types improved prediction for 65%. No single molecular dataset consistently out-performed the others, suggesting that therapeutic response is mediated at multiple levels in the genome. Response predictors were developed and applied to TCGA data, and were found to be present in subsets of those patient samples. Conclusions: These results suggest that matching patients to treatments based on transcriptional subtype will improve response rates, and inclusion of additional features from other profiling data types may provide additional benefit. Further, we suggest a systems biology strategy for guiding clinical trials so that patient cohorts most likely to respond to new therapies may be more efficiently identified