High resolution TCSPC imaging of diffuse light with a one-dimensional SPAD array scanning system.

We report a time-correlated single-photon counting (TCSPC) imaging system based on a line-scanning architecture. The system benefits from the high fill-factor, active area, and large dimension of an advanced CMOS single-photon avalanche diode (SPAD) array line-sensor. A two-dimensional image is constructed using a moving mirror to scan the line-sensor field-of-view (FOV) across the target, to enable the efficient acquisition of a two-dimensional 0.26 Mpixel TCSPC image. We demonstrate the capabilities of the system for TCSPC imaging and locating objects obscured in scattering media - specifically to locate a series of discrete point sources of light along an optical fibre submerged in a highly scattering solution. We demonstrate that by selectively imaging using early arriving photons which have undergone less scattering than later arriving photons, our TCSPC imaging system is able to locate the position of discrete point sources of light than a non-time-resolved imaging system.

In silico structural and functional analysis of protein encoded by wheat early salt-stress response gene (WESR3).

Salt stress is one of the major abiotic stresses limiting grain yield in wheat (Triticum aestivum L.). Wheat early salt-stress response gene (WESR3) is one of the major salt stress genes, which is affected in the first phase of salt stress. In this study, sequence and structural analysis of protein coded by WESR3 gene was carried out using various bioinformatics tools. Sequence analysis of WESR3 protein revealed the presence of highly conserved regions of Mlo gene family. Three-dimensional modeling was carried out to elucidate its structure and its active site. The sequence analysis revealed that WESR3 protein might be involved in fungal pathogen attack pathway. Thus, in addition to its involvement in abiotic stresses, it also seemed to play an important part in biotic stress pathways. Out of the three modeled protein structures obtained from I-TASSER, HHPred and QUARK, the I-TASSER protein model was the best model based on high confidence score and lesser number of bad contacts. The Ramchandran plot analysis also showed that all amino acid residues of I-TASSER model lie in the allowed region and thus indicating towards the overall good quality of the predicted model. Seventeen active sites were predicted in the protein bearing resemblance to the Mlo family conserved regions. In conclusion, a detailed analysis of WESR3 protein suggested an important role of WESR3 in biotic and abiotic stress. These results aid to the experimental data and help to build up a complete view of WESR3 proteins and their role in plant stress response.

Indicator and probability kriging methods for delineating Cu, Fe, and Mn contamination in groundwater of Najafgarh Block, Delhi, India.

Two non-parametric kriging methods such as indicator kriging and probability kriging were compared and used to estimate the probability of concentrations of Cu, Fe, and Mn higher than a threshold value in groundwater. In indicator kriging, experimental semivariogram values were fitted well in spherical model for Fe and Mn. Exponential model was found to be best for all the metals in probability kriging and for Cu in indicator kriging. The probability maps of all the metals exhibited an increasing risk of pollution over the entire study area. Probability kriging estimator incorporates the information about order relations which the indicator kriging does not, has improved the accuracy of estimating the probability of metal concentrations in groundwater being higher than a threshold value. Evaluation of these two spatial interpolation methods through mean error (ME), mean square error (MSE), kriged reduced mean error (KRME), and kriged reduced mean square error (KRMSE) showed 3.52% better performance of probability kriging over indicator kriging. The combined result of these two kriging method indicated that on an average 26.34%, 65.36%, and 99.55% area for Cu, Fe, and Mn, respectively, are coming under the risk zone with probability of exceedance from a cutoff value is 0.6 or more. The groundwater quality map pictorially represents groundwater zones as "desirable" or "undesirable" for drinking. Thus the geostatistical approach is very much helpful for the planners and decision makers to devise policy guidelines for efficient management of the groundwater resources so as to enhance groundwater recharge and minimize the pollution level.

Assessment of groundwater pollution in West Delhi, India using geostatistical approach.

The exploration, exploitation, and unscientific management of groundwater resources in the National Capital Territory (NCT) of Delhi, India have posed a serious threat of reduction in quantity and deterioration of quality. The objective of the study is to determine the groundwater quality and to assess the risk of groundwater pollution at Najafgarh, NCT of Delhi. The groundwater quality parameters were analyzed from the existing wells of the Najafgarh and the thematic maps were generated using geostatistical concepts. Ordinary kriging and indicator kriging methods were used as geostatistical approach for preparation of thematic maps of the groundwater quality parameters such as bicarbonate, calcium, chloride, electrical conductivity (EC), magnesium, nitrate, sodium, and sulphate with concentrations equal or greater than their respective groundwater pollution cutoff value. Experimental semivariogram values were fitted well in spherical model for the water quality parameters, such as bicarbonate, chloride, EC, magnesium, sodium, and sulphate and in exponential model for calcium and nitrate. The thematic maps of all the groundwater quality parameters exhibited an increasing trend of pollution from the northern and western part of the study area towards the southern and eastern part. The concentration was highest at the southernmost part of the study area but it could not reflect correctly the groundwater pollution status. The indicator kriging method is useful to assess the risk of groundwater pollution by giving the conditional probability of concentrations of different chemical parameters exceeding their cutoff values. Thus, risk assessment of groundwater pollution is useful for proper management of groundwater resources and minimizing the pollution threat.

Statistical approaches for hydrogeochemical characterization of groundwater in West Delhi, India.

Parametric statistical approaches, correlations and multiple linear regressions were used to develop models for the interpretation of hydrogeochemical parameters in the Western part of Delhi state, India. The hydrogeochemical parameters indicated that the groundwater quality is not safe for consumption. The water is moderately saline and the salinity level is increasing over time. There is also the problem of nitrate pollution. The correlation between electrical conductivity (EC) and other water quality parameters except potassium (K(+)), nitrate (NO(3)(-)) and bicarbonate (HCO(3)(-)) is significantly positive and Ca(++)+ Mg(++)/Na(+)+ K(+) is significantly negative. In predicting EC, the multiple R(2) values of 0.996 and 0.985 indicate that 99.6% and 98.5% variability in the observed EC could be ascribed to the combined effect of Na(+), HCO(3)(-), Cl(-), SO(4)(--), NO(3)(-) and Ca(++)+ Mg(++) for the year of 2005 and 2006 respectively. Out of 99.6% of the variability in EC in 2005, 51.2% was due to Cl(-) alone, and 8.5%, 12.5%, 6.1%, 14.7% and 6.7% were due to Na(+), HCO(3)(-), SO(4)(--), NO(3)(-) and Ca(++) + Mg(++). Similarly in 2006, out of 98.5% of the variability in EC, 48.5% was due to Cl(-) alone, and 10.4%, 12.7%, 5.3%, 17.2% and 4.4% were due to Na(+), HCO(3)(-), SO(4)(--), NO(3)(-) and Ca(++)+ Mg(++). The analysis shows that a good correlation exists between EC, Cl(-) and SO(4)(--) either individually or in combination with other ions and the multiple regression models can predict EC at 5% level of significance.

In silico structural and functional analysis of protein encoded by wheat early salt-stress response gene (WESR3).

Salt stress is one of the major abiotic stresses limiting grain yield in wheat (Triticum aestivum L.). Wheat early salt-stress response gene (WESR3) is one of the major salt stress genes, which is affected in the first phase of salt stress. In this study, sequence and structural analysis of protein coded by WESR3 gene was carried out using various bioinformatics tools. Sequence analysis of WESR3 protein revealed the presence of highly conserved regions of Mlo gene family. Three-dimensional modeling was carried out to elucidate its structure and its active site. The sequence analysis revealed that WESR3 protein might be involved in fungal pathogen attack pathway. Thus, in addition to its involvement in abiotic stresses, it also seemed to play an important part in biotic stress pathways. Out of the three modeled protein structures obtained from I-TASSER, HHPred and QUARK, the I-TASSER protein model was the best model based on high confidence score and lesser number of bad contacts. The Ramchandran plot analysis also showed that all amino acid residues of I-TASSER model lie in the allowed region and thus indicating towards the overall good quality of the predicted model. Seventeen active sites were predicted in the protein bearing resemblance to the Mlo family conserved regions. In conclusion, a detailed analysis of WESR3 protein suggested an important role of WESR3 in biotic and abiotic stress. These results aid to the experimental data and help to build up a complete view of WESR3 proteins and their role in plant stress response.

Variability of soil-water quality due to Tsunami-2004 in the coastal belt of Nagapattinam district, Tamilnadu.

In this study, the Tsunami-caused deterioration of soil and groundwater quality in the agricultural fields of coastal Nagapattinam district of Tamilnadu state in India is presented by analyzing their salinity and sodicity parameters. To accomplish this, three sets of soil samples up to a depth of 30 cm from the land surface were collected for the first six months of the year 2005 from 28 locations and the ground water samples were monitored from seven existing dug wells and hand pumps covering the study region at intervals of 3 months. The EC and pH values of both the soil and ground water samples were estimated and the spatial and temporal variability mappings of these parameters were performed using the geostatistical analysis module of ArcGIS((R)). It was observed that the spherical semivariogram fitted well with the data set of both EC and pH and the generated kriged maps explained the spatial and temporal variability under different ranges of EC and pH values. Further, the recorded EC and pH data of soil and ground water during pre-Tsunami periods were compared with the collected data and generated variability soil maps of EC and pH of the post-Tsunami period. It was revealed from this analysis that the soil quality six months after the Tsunami was nearing the pre-Tsunami scenario (EC< 1.5 dS m(-1); pH<8), whereas the quality of ground water remained highly saline and unfit for irrigation and drinking. These observations were compared with the ground scenarios of the study region and possible causes for such changes and the remedial measures for taking up regular agricultural practices are also discussed.