Trophic transfer patterns of arsenic in freshwater ecosystem layers in arsenic-endemic Ganges Delta and its potential human health risk

Arsenic (As) is a toxic environmental contaminant with global public health concern. In aquatic ecosystems, the quantification of total As is restricted chiefly to the individual organisms. The present study has quantified the total As in different trophic layers (sediment-water-phytoplankton-periphyton-zooplankton-fish-gastropod-hydrophytes) of lentic freshwater ecosystems. As transfer pathways quantifying the transmission rate across trophic-level compartmental route were delineated using a novel model-based approach along with its potential contamination risk to humans. Lentic water bodies from Indo-Gangetic region, a core area of groundwater As, were selected for the present investigation. The study revealed that among the lower biota, zooplankton were the highest accumulator of total As (5554-11,564 µg kg-1) with magnification (rate = 1.129) of the metalloid, followed by phytoplankton (2579-6865 µg kg-1) and periphytic biofilm (1075 to 4382 µg kg -1). Muscle tissue of zooplanktivore Labeo catla is found to store higher As (80-115 µg kg-1 w.w.) compared to bottom-dwelling omnivore Cirrhinus mrigala (58-92 µg kg-1 w.w.). Whereas, Amblypharyngodon mola has accumulated higher As (203-319 µg kg-1 w.w.) than Puntius sophore (30-98 µg kg-1 w.w.) that raised further concern. The hepatic concentration indicated arsenic-mediated stress based on As stress index (threshold value = 1). Mrigal and Mola showed significant biomagnification among fishes while biodiminution was observed in Catla, Bata, Rohu and Punti. All the studied fishes were under the arsenic mediated stress. In the 'sediment-water-periphytic biofilm-gastropod' compartment, the direct grazing accumulation was higher (rate = 0.618) than the indirect path (rate = 0.587). Stems of edible freshwater macrophytes accumulated lesser As (32-190 µg kg-1 d.w.) than roots (292-946 µg kg-1 d.w.) and leaves (62-231 µg kg-1 d.w.). The target cancer risk (TCR) revealed a greater concern for adults consuming edible macrophyte regularly. Similarly, the varied level of target hazard quotient and TCR for adults consuming fishes from these waterbodies further speculated significant health concerns. The trophic transfer rate of environmental As in soil-water-biota level at an increasing trophic guild and consumer risk analysis have been unravelled for the first time in the Indo-Gangetic plains, which will be helpful for the strategic mitigation of As contamination.

A Geostatistical Framework Predicting Zooplankton Abundance in a Large River: Management Implications towards Potamoplankton Sustainability

The zooplankton community is a widely used bioindicator for the biological assessment of riverine aquatic ecosystems. Phyto-zooplankton interaction and spatially varying river environment parameters perceivably govern their spatial distribution in a large river. This invites the challenge of predicting zooplankton abundance along the river channel. The present article has proposed a geostatistical framework to predict zooplankton abundance along the river course while decoupling phyto-zooplankton relationship from spatial dependency. The strength of secondary data on the river Narmada-a large tropical river in India-has been utilised to accomplish the goal. The nonlinear logistic regression kriging has been found to be the most effective framework. The phyto-zooplankton relationship captured 66% of zooplankton variability, having moderate (37%) residual spatial dependence. The results have shown longitudinally fluctuating spatial variability, which supports the river serial discontinuity concept. The proposed framework has generated smooth zooplankton abundance and sustainability predictive maps that have allowed detection of the change point locations of zooplankton abundance. The map has precisely identified the most productive zone of zooplankton sustainability. The study also has appraised obtaining approximate data in the areas where sampling is infeasible, which will be helpful for location-specific management strategies on a lower spatial scale.

Mobile electrophoresis kit for high school students: Scientific practices with innovation

Gel electrophoresis (GE) is the most preferred and adapted technique for the separation and identification of biological molecules like proteins/peptides and nucleic acids from diverse types of organisms. All over the world, researchers, educators, and students aspiring to work in biochemistry and molecular biology disciplines use the polyacrylamide gel electrophoresis (PAGE) technique for resolving proteins/nucleic acids for understanding the structure and function of any cell. A simple PAGE technique requires a wide range of chemicals/reagents along with a well-equipped and well-spaced laboratory. We have developed a compact and impeccable mobile electrophoresis kit suitable for any vertically oriented PAGE technique. This comprehensive and portable laboratory set-up provides the complete advantages of safety, cost-efficiency, space management, and utility to the researchers for high-throughput research. All new equipment of the mobile electrophoresis kit is fabricated using inexpensive and off-the-rack components. Overall performance of the mobile kit was verified through a practical exercises executed by high school students with positive outcomes.

Impact of barge movement on phytoplankton diversity in a river: A Bayesian risk estimation framework

The adverse effect of barge movement on the river's aquatic ecosystem is of global concern. The phytoplankton community, a bioindicator, is possibly the foremost victim of the barge movement. This study hypothesized phytoplankton diversity loss induced by barge movement in a large river. This article presents a novel risk assessment framework to evaluate the hypothesis-with a goal to uncoupling phytoplankton diversity loss due to barge movement over a spatiotemporal scale. For this purpose, a study was conducted in the Bhagirathi-Hooghly stretch of Inland National Waterway 1 of India. This study has proposed a new index of diversity loss and its inferential framework based on full Bayesian Generalized Linear Mixed Model. The results have diagnosed significant barge-induced impact on the phytoplankton diversity and identified ten most impacted species. The proposed framework has successfully disentangled barge-induced phytoplankton diversity loss from the biological process and predicted a substantive overall risk of phytoplankton loss of 31.44%. Besides, it has uncoupled spatiotemporal differential estimates, suggesting a risk of diversity loss in order of 'During vs After' (38.0%) > 'Before vs After' (30.7%) > 'Before vs During' (24%) barge movement in temporal scale and increasing diversity loss along downstream. Finally, the instant study has highlighted the utility of these results to facilitate better water framework directive for inland waterways.

Evaluation of Three Prokaryote Primers for Identification of Prokaryote Community Structure and Their Abode Preference in Three Distinct Wetland Ecosystems

The ultimate role of prokaryote (bacteria and archaea), the decomposer of the wetland ecosystem, depends on its community structure and its interaction with the environment. The present study has used three universal prokaryote primers to compare prokaryote community structure and diversity of three distinctly different wetlands. The study results revealed that α-diversity indices and phylogenetic differential abundance patterns did not differ significantly among primers, but they did differ significantly across wetlands. Microbial community composition revealed a distinct pattern for each primer in each wetland. Overall comparison of prokaryote communities in sediments of three wetlands revealed the highest prokaryote richness and diversity in Bhomra (freshwater wetland) followed by Malencho (brackish-water wetland) and East Kolkata wetland (EKW) (sewage-fed wetland). Indicator genus analysis identified 21, 4, and 29 unique indicator genera, having preferential abode for Bhomra, EKW, and Malencho, respectively. Prediction of potential roles of these microbes revealed a preference for sulfate-reducing microbes in Malencho and methanogens in Bhomra. The distinct phylogenetic differential abundance pattern, microbial abode preference, and their potential functional role predict ecosystem variables shaping microbial diversity. The variation in community composition of prokaryotes in response to ecosystem variables can serve as the most sensitive bioindicator of wetland ecosystem assessment and management.

Reproductive environment of the decreasing Indian river shad in Asian inland waters: disentangling the climate change and indiscriminative fishing threats

The regional climate has significantly warmed with erratically declining annual rainfall and intensified downpour within a narrower span of monsoon months, which led to an increased trophic state (≈algae) in most inland waters. Freshwater clupeids vitally control the aquatic food chain by grazing on algae. Despite increasing food availability, IUCN Red List® revealed 16 freshwater clupeids with a decreasing population trend. We investigated one such species' reproductive dependencies, Gudusia chapra (Indian river shad), in the lower Gangetic drainage (India) under a mixed context of climate change and overfishing. Monthly rainfall (≥ 60-100 mm) and water temperature (≥ 31-32 °C) are key breeding cues for females. The regional climate seems inclined to fulfill these through the significant part of the breeding season, and indeed the species has maintained consistent breeding phenology over 20 years. Other breeding thresholds relevant to fishing include size at first maturity (≥ 6.8 cm; reduced by ~ 25-36%) and pre-spawning girth (Girth_spawn50 ≥ 7 cm; first record). Girth_spawn50 is a proxy of the minimum mesh size requirement of fishing nets to allow safe passage of "gravid" females (+ 22% bulged abdomen) and breed. The operational fishing nets (3-10 cm mesh) probably have been indulged in indiscriminative fishing of gravid females for generations. Under a favorably changing climate and food availability, existing evidence suggests a fishery-induced evolution in regional females (to circumvent such mesh sizes) through earlier maturation/puberty at smaller sizes. It could be an early warning sign of population collapse (smaller females → lessening fecundity → fewer offspring). Overfishing seemed to be a bigger threat than climate change.

Effect of climato-environmental parameters on chlorophyll a concentration in the lower Ganga basin, India

Introduction: Chlorophyll a concentration proxies the phytoplankton biomass which directly involves in signifying the production functions of aquatic ecosystem. Thus, it is imperative to understand their spatio-temporal kinetics in lotic environment with reference to regional climatic variabilities in the tropical inland waters. Objective: In-situ studies were conducted to examine the changes in phytoplankton biomass in lower Ganga basin as influenced by various environmental parameters under regional climatic variability during 2014-2016. Methods: Firstly, the most key influential environmental parameters on riverine Chl-a concentration were determined. Then the direct cascading effect of changing climatic variables on key environmental parameters were derived through modeling and quantified probable changes in mean Chl-a concentration in the lower stretch of river. Results: Only five environmental parameters namely water temperature, total dissolved solid, salinity, total alkalinity and pH were key factors influencing Chl-a (Multiple R2: 0.638, P < 0.05). Present estimates indicate that if the present rate of regional climatic variability over the last 3 decades (mean air temperature + 0.24 °C, total annual rainfall -196.3 mm) remain consistent over the next three decades (2015-2045), an increase in mean Chl-a by + 170 µgL-1 may likely be expected grossly reaching about 475.94 µg L-1 by the year 2045 or more. Conclusions: The present study is first such comprehending a gross hint towards the probable ecosystem response with an alternative model based methodology in data-deficient situations. Subsequently, the output would also be of great benefit for increase water governance and developing strategy protocol for sustainable water management for greater ecosystem services.

Modeling pre-spawning fitness and optimal climate of spotted snakehead Channa punctata (Bloch, 1793) from a Gangetic floodplain wetland of West Bengal, India

The spawning and well-being of fish in an ecosystem are closely linked to climatic cues, viz., temperature and rainfall. Reduced fitness can affect the reproductive performance and lead to skipped spawning. Benchmarking the threshold fitness required for a fish population to achieve readiness for spawning, and understanding how climatic parameters influence the fitness will aid in predicting the fate of its reproductive success in future climatic conditions. This study determined the threshold condition factor pre-spawning fitness (K_spawn50) at which 50% of the female Channa punctata population can be deemed fit for spawning. The optimal climate within which pre-spawning fitness is attained by this species under Indian climatic conditions was also identified. The study was conducted from June 2015 to September 2016, covering two spawning seasons (June-August) in a Gangetic floodplain wetland of West Bengal, India. The non-parametric Kaplan-Meier method (survival fit) was used for estimation of pre-spawning fitness. "Ready to spawn" females were classified based on binary coding of the gonadal maturity stages. The thermal and precipitation range within which spawning fitness is achieved was identified by using the locally weighted smoothing technique. Female C. punctata pre-spawning fitness (K_spawn50) ranged from 1.26 to 1.39 with an estimated median of 1.29 units. Temperatures between 29 and 32 °C and rainfall above 100 mm were conducive to attaining the requisite pre-spawning fitness in C. punctata. This is the first study benchmarking the pre-spawning fitness and optimal climate for C. punctata. Understanding spawning requirements can inform the climate change-induced impacts on reproductive plasticity and evolutionary adaptations of snakeheads in the Ganga river basin.

Oxidative cyanation of 2-oxindoles: formal total synthesis of (±)-gliocladin C

Efficient oxidative direct cyanations of 3-alkyl/aryl 2-oxindoles using Cyano-1,2-BenziodoXol-3(1H)-one (CBX) (2a) have been reported under 'transition metal-free' conditions to synthesize a wide variety of 3-cyano 3-alkyl/aryl 2-oxindoles sharing an all-carbon quaternary center under additive-free conditions. The application of this process is shown by the formal total synthesis of (±)-gliocladin C (11c) in a few steps.

Impact assessment of barge trafficking on phytoplankton abundance and Chl a concentration, in River Ganga, India

Impact of barge movement on phytoplankton abundance and biomass was assessed in the lower stretch of river Ganga, popularly known as Bhagirathi-Hooghly river, during April 2016 to March, 2017. Based on the magnitude of tide, intensity of shipping and boating activities, the stretch from Baranagar to Lalbag (278 km), located at latitude (22°38'33.41"N to 24°10'59.75"N) and longitude (88°21'21.29"E to 88°16'5.65"E) was divided into three zones viz. zone—I (Baranagar to Barrackpore), zone II (Triveni to Balagarh) and zone III (Nabadweep to Lalbag). Water samples were collected randomly from six stations covering 22 barge movements at their passage at three different time intervals viz., 30 minutes before ‘barge movement’, during ‘barge movement’ and 30 minutes after ‘barge movement’. Analysis revealed the presence of 52 phytoplankton taxa belonged to 5 phylum during the study period. The abundance of phytoplankton was highest in zone—I followed by zone III and the zone II. A 44% decrease (1,997 ±1,510 ul^-1) in phytoplankton abundance was observed during ‘barge movement’ with respect to normal condition (3,513 ± 2,239 ul^-1) which could be due to propeller turbulence in the passage. Cell damage study revealed 21% damage in phytoplankton cell structure in ‘during barge’ followed by ‘after barge’ (10%) condition compared to natural state (6%). Study revealed that phytoplankton biomass (Chlorophyll a) was influenced by ‘barge movement’ in the sampling stretches and the impact was assessed by one way ANOVA. The effect was found significant at Barrackpore (p <0.01), Triveni (p <0.01), Balagarh (p <0.01) and Lalbag (p <0.01) where as it was insignificant at Baranagar and Nabadweep, which may be due to continuous and existing boat trafficking at Baranagar and Nabadweep. Two way ANOVA computed using ‘barge movement’ and sampling stations showed significant (p<0.01) effect on magnitude of Chl a concentrations in the sampling locations. Thus, the ‘barge movement’ influenced phytoplankton abundance and biomass, it had a detrimental effect on phytoplankton cell architecture also. The data set of this work serves as foundation information to understand the ecological implications augmented barge induced environmental disturbances in waterways. This is the first such study which depicts the impact of ‘barge movement’ on aquatic food chain linkages in Bhagirathi- Hooghly river.

Climato-environmental influence on breeding phenology of native catfishes in River Ganga and modeling species response to climatic variability for their conservation

The main objectives of the present study were to quantify the environmental, especially temperature and rainfall, effects on breeding phenology of selected catfish species and to predict changes in breeding phenology of the selected species in relation to climatic variability for the Ganga River Basin. The study showed that changes in rainfall pattern may have the most profound effect on gonad maturation and breeding of Mystus tengara and Mystus cavasius followed by the effect of increased water temperature due to rising air temperature. Indication of region-specific adaptation was noticed in reproductive phenology of Eutropiichthys vacha based on local trends of warming climate. The other habitat parameters, such as dissolved oxygen, alkalinity, nitrate, and phosphate, were correlated with gonad maturity and spawning. Climatic variability may bring region-specific changes in breeding phenology of fish species in the Ganga River. Under a warming climate, changes in precipitation pattern manifested into riverine flow pulse may be the key driver in dictating breeding phenology. Our study indicates E. vacha as a climate sensitive species that may be selected as a target species for climate change impact studies.

A tetrad apparatus for protein gel casting, electrophoresis, staining, and scanning techniques with dual sensors for automatic detection of gel polymerization and protein migration

Recent advancements in biochemical sciences have facilitated researchers to explore the structure and function of macro molecules in a cell. PAGE is one of the most favored and adapted laboratory techniques. Due to its simple and economical procedures, several variants or new modifications are routinely observed in the basic electrophoresis technique that comprises gel casting, electrophoresis, staining, and imaging process which consequently necessitates additional apparatuses/components in the laboratory. Operation of these additional apparatuses/components lengthens the pre- and postelectrophoresis procedures involving many intermittent tedious and time-consuming steps. A universal apparatus that can facilitate all such associated techniques is lacking and is of utmost importance for fast and effective results. An apparatus that can perform synchronized action of slab gel casting (16 × 16 cm), electrophoresis (SDS-PAGE), dye staining (Coomassie), and imaging (scanning) techniques with real-time monitoring through sensor technology is described in this article. The estimated cost (∼$150) of fabrication of the apparatus is very economical and simple assembly procedure of the main apparatus can be completed within ∼30 min after fabrication.

User-friendly tool kits for protein gel electrophoresis techniques: A training program for high school students

Recent advancements in biochemical sciences have helped the researchers to explore the molecular logic of life inclusive of its multifarious expressions and explain many facts about the structure and functions of cellular macromolecules. Due to its simple and cost-effective nature, polyacrylamide gel electrophoresis (PAGE) has become the most favored technique for qualitative and quantitative examination of macromolecules. Major drawbacks of such modifications are the cost and operational complexities faced by naïve students. Many interlinking laboratory equipment are needed in the school laboratories for the conduct of even simple scientific experiment. Some of these costly modern equipment are inaccessible for students of small laboratories, and their alternatives are not easily available. Many of these laboratory equipment required for routine gel electrophoresis technique can be fabricated in their simplest form using off-the-shelf components. A short term biochemistry training program was executed for high school students to provide them "hands-on" training using newly modified equipment, which was proved to be an exciting way of learning biochemical gel separation techniques. © 2018 International Union of Biochemistry and Molecular Biology, 46(5):566-577, 2018.

Simple and rapid system for two-dimensional gel electrophoresis technique: A laboratory exercise for high school students

Polyacrylamide gel electrophoresis (PAGE) is the most classical technique favored worldwide for resolution of macromolecules in many biochemistry laboratories due to its incessant advanced developments and wide modifications. These ever-growing advancements in the basic laboratory equipments lead to emergence of many expensive, complex, and tricky laboratory equipments. Practical courses of biochemistry at high school or undergraduate levels are often affected by these complications. Two dimensional gel electrophoresis technique (2D-PAGE) used for resolving thousands of proteins in a gel is a combination of isoelectric focusing (first dimension gel electrophoresis technique) and sodium-dodecylsulphate PAGE (second dimension gel electrophoresis technique or SDS-PAGE). Two different laboratory equipments are needed to carry out effective 2D-PAGE technique, which also invites extra burden to the school laboratory. Here, we describe a low cost, time saving and simple gel cassette for protein 2D-PAGE technique that uses easily fabricated components and routine off-the-shelf materials. The performance of the apparatus was verified in a practical exercise by a group of high school students with positive outcomes. © 2018 by The International Union of Biochemistry and Molecular Biology, 46(3):237-244, 2018.

Benchmarking pre-spawning fitness, climate preferendum of some catfishes from river Ganga and its proposed utility in climate research

The concept of threshold condition factor (Fulton), beyond which more than 50% of the female fish population may attain readiness for spawning coined as pre-spawning fitness (K _spawn50), has been proposed in the present article and has been estimated by applying the non-parametric Kaplan-Meier method for fitting survival function. A binary coding strategy of gonadal maturity stages was used to classify whether a female fish is "ready to spawn" or not. The proposed K _spawn50 has been generated for female Mystus tengara (1.13-1.21 units), M. cavasius (0.846-0.945 units), and Eutropiichthys vacha (0.716-0.799 units). Information on the range of egg parameters (fecundity, egg weight, egg diameter) expected at the pre-spawning stage was also generated. Additional information on species-specific thermal and precipitation window (climate preferendum) within which K _spawn50 is attained was also generated through the LOESS smoothing technique. Water temperatures between 31 and 36 °C (M. tengara), 30 and 32 °C (M. cavasius), and 29.5 and 31 °C (E. vacha) and monthly rainfall between 200 and 325 mm (M. tengara), > 250 mm (M. cavasius), and around 50 mm and between 350 and 850 mm (E. vacha) were found to be optimum for attainment of K _spawn50. The importance of parameterization and benchmarking of K _spawn50 in addition to other conventional reproductive biology parameters has been discussed in the present article. The purposes of the present study were fulfilled by generating baseline information and similar information may be generated for other species replicating the innovative methodology used in this study.

Deletion diagnostics for the generalised linear mixed model with independent random effects

The Generalised linear mixed model (GLMM) is widely used for modelling environmental data. However, such data are prone to influential observations, which can distort the estimated exposure-response curve particularly in regions of high exposure. Deletion diagnostics for iterative estimation schemes commonly derive the deleted estimates based on a single iteration of the full system holding certain pivotal quantities such as the information matrix to be constant. In this paper, we present an approximate formula for the deleted estimates and Cook's distance for the GLMM, which does not assume that the estimates of variance parameters are unaffected by deletion. The procedure allows the user to calculate standardised DFBETAs for mean as well as variance parameters. In certain cases such as when using the GLMM as a device for smoothing, such residuals for the variance parameters are interesting in their own right. In general, the procedure leads to deleted estimates of mean parameters, which are corrected for the effect of deletion on variance components as estimation of the two sets of parameters is interdependent. The probabilistic behaviour of these residuals is investigated and a simulation based procedure suggested for their standardisation. The method is used to identify influential individuals in an occupational cohort exposed to silica. The results show that failure to conduct post model fitting diagnostics for variance components can lead to erroneous conclusions about the fitted curve and unstable confidence intervals.

Effectiveness of tibolone on the reduction of menopausal problems—a Bayesian semi-parametric interpretation

Two major physiological problems women experience at the time of menopause are hot flush and vaginal dryness. Exploratory investigations reveal that these two binary outcomes are very much dependent as both of them have predominant oestrogenic effects. A primary interest is to investigate how the bivariate association and the marginal univariate risks are affected by repeated measurements on each woman over several months. To achieve this we propose a very general class of bivariate binary models. Parametric inference is drawn on the basis of full non-parametric Bayesian approach under Dirichlet process mixture. Study addresses some more interesting phenomena on the effectiveness of tibolone treatment in reducing menopausal problems. A simulation study further strengthens the proposed methodology.

Semiparametric Analysis of Two-Level Bivariate Binary Data

In medical studies, paired binary responses are often observed for each study subject over timepoints or clusters. A primary interest is to investigate how the bivariate association and marginal univariate risks are affected by repeated measurements on each subject. To achieve this we propose a very general class of semiparametric bivariate binary models. The subject-specific effects involved in the bivariate log odds ratio and the univariate logit components are assumed to follow a nonparametric Dirichlet process (DP). We propose a hybrid method to draw model-based inferences. In the framework of the proposed hybrid method, estimation of parameters is done by implementing the Monte Carlo expectation-maximization algorithm. The proposed methodology is illustrated through a study on the effectiveness of tibolone for reducing menopausal problems experienced by Indian women. A simulation study is also conducted to evaluate the efficiency of the new methodology.

A Semiparametric Mixture Model for Analyzing Clustered Competing Risks Data

A very general class of multivariate life distributions is considered for analyzing failure time clustered data that are subject to censoring and multiple modes of failure. Conditional on cluster-specific quantities, the joint distribution of the failure time and event indicator can be expressed as a mixture of the distribution of time to failure due to a certain type (or specific cause), and the failure type distribution. We assume here the marginal probabilities of various failure types are logistic functions of some covariates. The cluster-specific quantities are subject to some unknown distribution that causes frailty. The unknown frailty distribution is modeled nonparametrically using a Dirichlet process. In such a semiparametric setup, a hybrid method of estimation is proposed based on the i.i.d. Weighted Chinese Restaurant algorithm that helps us generate observations from the predictive distribution of the frailty. The Monte Carlo ECM algorithm plays a vital role for obtaining the estimates of the parameters that assess the extent of the effects of the causal factors for failures of a certain type. A simulation study is conducted to study the consistency of our methodology. The proposed methodology is used to analyze a real data set on HIV infection of a cohort of female prostitutes in Senegal.