Meeting India’s future water needs: policy options

River basinsWater shortageWater transferGroundwater irrigationWater productivity

Comparative Analysis of Deoxynivalenol Biosynthesis Related Gene Expression among Different Chemotypes of Fusarium graminearum in Spring Wheat

Fusarium mycotoxins, deoxynivalenol (DON) and nivalenol (NIV) act as virulence factors and are essential for symptom development after initial infection in wheat. To date, 16 genes have been identified in the deoxynivalenol biosynthesis pathway. However, a comparative gene expression analysis in different chemotypes of F. graminearum in response to fusarium head blight (FHB) infection remains to be explored. Therefore, in this study, nine genes that involved in trichothecene biosynthesis were analysed among 3-acetyldeoxynivalenol (3-ADON), 15-acetyldeoxynivalenol (15-ADON) and nivalenol (NIV) producing F. graminearum strains in a time course study. Quantitative reverse transcription polymerase chain reaction (qRT-PCR) revealed that the expression of all examined TRI gene transcripts initiated at two days post-inoculation (dpi), peaked at three to four dpi and gradually decreased at seven dpi. The early induction of TRI genes indicates that presence of high levels of TRI gene transcripts at early stages, is important to initiate the biosynthetic pathway of DON and NIV. Comparison of gene expression among the three chemotypes showed that relative expression of TRI genes was higher in 3-ADON producing strains compared with 15-ADON and NIV strains. Comparatively higher levels of gene expression may contribute to the higher levels of DON produced by 3-ADON strains in infected grains

Observations on metal concentrations in commercial landings of two species of tilapia (Oreochromis mossambicus and Oreochromis niloticus) from reservoirs in six river basins in Sri Lanka

Samples of the muscle of two species of tilapia (Oreochromis mossambicus and O. niloticus; 17-20 cm length) were obtained from at least one reservoir in each of the six river basins (Aruvi Aru, Kala Oya, Kirindi Oya, Ma Oya, Mahaweli, and Walawe Ganga catchments) in Sri Lanka. The metals Ca, Cu, Fe, K, Mg, Mn, Na, and Zn were consistently detected in the muscle tissue. Overall, there were few differences in the concentration of metals between the two species of fish, although there were also some statistically significant differences (p &lt; 0.05) in the concentrations of some metals in fish obtained from some of the reservoirs. Aruvi Aru stands out as a river basin in which the two fish species have significantly lower concentration of metals when compared to other river basins. The concentration of the metals studied were below WHO and FSANZ guideline values for fish, suggesting that the consumption of the metals found in tilapia from these reservoirs poses little risk to human health. <br /

The Operational MODIS Cloud Optical and Microphysical Property Product: Overview of the Collection 6 Algorithm and Preliminary Results

Operational Moderate Resolution Imaging Spectroradiometer (MODIS) retrievals of cloud optical and microphysical properties (part of the archived products MOD06 and MYD06, for MODIS Terra and Aqua, respectively) are currently being reprocessed along with other MODIS Atmosphere Team products. The latest "Collection 6" processing stream, which is expected to begin production by summer 2012, includes updates to the previous cloud retrieval algorithm along with new capabilities. The 1 km retrievals, based on well-known solar reflectance techniques, include cloud optical thickness, effective particle radius, and water path, as well as thermodynamic phase derived from a combination of solar and infrared tests. Being both global and of high spatial resolution requires an algorithm that is computationally efficient and can perform over all surface types. Collection 6 additions and enhancements include: (i) absolute effective particle radius retrievals derived separately from the 1.6 and 3.7 !-lm bands (instead of differences relative to the standard 2.1 !-lm retrieval), (ii) comprehensive look-up tables for cloud reflectance and emissivity (no asymptotic theory) with a wind-speed interpolated Cox-Munk BRDF for ocean surfaces, (iii) retrievals for both liquid water and ice phases for each pixel, and a subsequent determination of the phase based, in part, on effective radius retrieval outcomes for the two phases, (iv) new ice cloud radiative models using roughened particles with a specified habit, (v) updated spatially-complete global spectral surface albedo maps derived from MODIS Collection 5, (vi) enhanced pixel-level uncertainty calculations incorporating additional radiative error sources including the MODIS L1 B uncertainty index for assessing band and scene-dependent radiometric uncertainties, (v) and use of a new 1 km cloud top pressure/temperature algorithm (also part of MOD06) for atmospheric corrections and low cloud non-unity emissivity temperature adjustments

Inferring copy number and genotype in tumour exome data

Background: Using whole exome sequencing to predict aberrations in tumours is a cost effective alternative to whole genome sequencing, however is predominantly used for variant detection and infrequently utilised for detection of somatic copy number variation. Results: We propose a new method to infer copy number and genotypes using whole exome data from paired tumour/normal samples. Our algorithm uses two Hidden Markov Models to predict copy number and genotypes and computationally resolves polyploidy/aneuploidy, normal cell contamination and signal baseline shift. Our method makes explicit detection on chromosome arm level events, which are commonly found in tumour samples. The methods are combined into a package named ADTEx (Aberration Detection in Tumour Exome). We applied our algorithm to a cohort of 17 in-house generated and 18 TCGA paired ovarian cancer/normal exomes and evaluated the performance by comparing against the copy number variations and genotypes predicted using Affymetrix SNP 6.0 data of the same samples. Further, we carried out a comparison study to show that ADTEx outperformed its competitors in terms of precision and F-measure. Conclusions: Our proposed method, ADTEx, uses both depth of coverage ratios and B allele frequencies calculated from whole exome sequencing data, to predict copy number variations along with their genotypes. ADTEx is implemented as a user friendly software package using Python and R statistical language. Source code and sample data are freely available under GNU license (GPLv3) at http://adtex.sourceforge.net/

Review on Photomicrography based Full Blood Count (FBC) Testing and Recent Advancements

With advancements in related sub-fields, research on photomicrography in life science is emerging and this is a review on its application towards human full blood count testing which is a primary test in medical practices. For a prolonged period of time, analysis of blood samples is the basis for bio medical observations of living creatures. Cell size, shape, constituents, count, ratios are few of the features identified using DIP based analysis and these features provide an overview of the state of human body which is important in identifying present medical conditions and indicating possible future complications. In addition, functionality of the immune system is observed using results of blood tests. In FBC tests, identification of different blood cell types and counting the number of cells of each type is required to obtain results. Literature discuss various techniques and methods and this article presents an insightful review on human blood cell morphology, photomicrography, digital image processing of photomicrographs, feature extraction and classification, and recent advances. Integration of emerging technologies such as microfluidics, micro-electromechanical systems, and artificial intelligence based image processing algorithms and classifiers with cell sensing have enabled exploration of novel research directions in blood testing applications.

A PRELIMINARY STUDY ON THE PRESENCE OF-HEAVY METALS IN AQUATIC PLANTS FROM A FRESHWATER WETLAND AT KELANIYA

Aquatic plants are known for uptake of heavy metals from water and sediments. Thisvery feature qualifies these plants as wastewater treatment agents. Capacity to absorb,heavy metals however, varies among plants. Three aquatic plants, Pistia stratiotes(floating), Limnocharis jlava (rooted) and Ipomoea aqualica (rooted plant with floatingrunners) from lriyawetiya wetland at Kelaniya were tested for the presence of copper,zinc, lead, nickel, cadmium, manganese, tin and chromium in the plant tissues.P. stratiotes, L. jlava and 1. aquatica plants were collected from the inlets, outlets and themiddle part of the wetland and above heavy metal concentrations in acid-digested rootand shoot samples were measured separately using atomic absorption spectrophotometer.Tin (Sn) is the heavy metal that was found in relatively large quantities in all threeplants, and Ipomoea aquatica recorded the highest content of Sn. Next highestoccurrence was observed with Cr and the contents were highest in the rooted plant, L.jlava, indicating that the sediment loads of Cr may be greater than the load in the watercolumn. All other heavy metals occur in relatively low concentrations in all three plantspecies, indicating partly the lower loading rates of these heavy metals in Iriyawetiyawetland.Occurrence of heavy metals in the roots was generally higher than that of the shoots.Greater Cr concentrations were recorded from roots of floating species, P. stratiotes andI. aquatica than the rooted species, L. flava.Except for cadmium (in P. slratioles) and manganese (in L. flava and 1. aquaticay;content of all the other heavy metals that occur in the plants that have been collectedfrom the inlets was greater than that of those collected from the outlet, indicating thewetlands' capacity to remove heavy metals from water and sediment through plantuptake.