Pathogen and heavy metal contamination in urban agroecosystems of northern Ghana: Influence of biochar application and wastewater irrigation.

The benefit of biochar as a soil fertility enhancer is well known and has been broadly investigated. Equally, many tropical and subtropical countries use wastewater for irrigation in urban agriculture. To assess the related health risks, we determined pathogen and heavy metal fate associated with biochar application and wastewater irrigation in the urban agriculture of northern Ghana. Rice (Oryza L.) husk biochar (20 t ha-1 ), N-P-K 15-15-15 fertilizer (212.5 kg ha-1 ), and their combinations were evaluated in a field-based experiment. Untreated wastewater and tap water served as irrigation water. Red amaranth (Amaranthus cruentus L.) was used as a test crop and was grown in wet (WS) and dry (DS) cropping seasons. Irrigation water, soil, and vegetables were analyzed for heavy metals, Escherichia coli, fecal coliform, helminth eggs, and Salmonella spp. Unlike the pathogens, analyzed heavy metals from irrigation water and soil were below the FAO/WHO permissible standard for agricultural activities. Wastewater irrigation caused E. coli concentrations ranging from 0.5 to 0.6 (WS) and from 0.7 to 0.8 (DS) log10 colony forming units per gram fresh weight (CFU gFW -1 ) on vegetables and from 1.7 to 2.1 (WS) and from 0.6 to 1.0 (DS) log10 CFU per gram dry weight (gDW -1 ) in soil. Average log10 CFU gFW -1 rates of 6.19 and 3.44 fecal coliform were found on vegetables, whereas in soil, 4.26 and 4.58 log10 CFU gDW -1 were observed in WS and DS, respectively. Helminth egg populations were high in wastewater and were transferred to the crops and soil. Biochar did not affect bacteria contamination. Pathogen contamination on vegetables and in soil were directly linked to the irrigation water, with minimal or no difference observed from biochar application.

Model systems for regeneration: planarians.

Planarians are a group of flatworms. Some planarian species have remarkable regenerative abilities, which involve abundant pluripotent adult stem cells. This makes these worms a powerful model system for understanding the molecular and evolutionary underpinnings of regeneration. By providing a succinct overview of planarian taxonomy, anatomy, available tools and the molecular orchestration of regeneration, this Primer aims to showcase both the unique assets and the questions that can be addressed with this model system.

Body size-dependent energy storage causes Kleiber's law scaling of the metabolic rate in planarians.

Kleiber's law, or the 3/4 -power law scaling of the metabolic rate with body mass, is considered one of the few quantitative laws in biology, yet its physiological basis remains unknown. Here, we report Kleiber's law scaling in the planarian Schmidtea mediterranea. Its reversible and life history-independent changes in adult body mass over 3 orders of magnitude reveal that Kleiber's law does not emerge from the size-dependent decrease in cellular metabolic rate, but from a size-dependent increase in mass per cell. Through a combination of experiment and theoretical analysis of the organismal energy balance, we further show that the mass allometry is caused by body size dependent energy storage. Our results reveal the physiological origins of Kleiber's law in planarians and have general implications for understanding a fundamental scaling law in biology.

Critical Point in Self-Organized Tissue Growth.

We present a theory of pattern formation in growing domains inspired by biological examples of tissue development. Gradients of signaling molecules regulate growth, while growth changes these graded chemical patterns by dilution and advection. We identify a critical point of this feedback dynamics, which is characterized by spatially homogeneous growth and proportional scaling of patterns with tissue length. We apply this theory to the biological model system of the developing wing of the fruit fly Drosophila melanogaster and quantitatively identify signatures of the critical point.

Author Correction: Effects of biochar, waste water irrigation and fertilization on soil properties in West African urban agriculture.

A correction to this article has been published and is linked from the HTML and PDF versions of this paper. The error has not been fixed in the paper.

Agronomic benefits of biochar as a soil amendment after its use as waste water filtration medium.

In many water-scarce countries, waste water is used for irrigation which poses a health risk to farmers and consumers. At the same time, it delivers nutrients to the farming systems. In this study, we tested the hypotheses that biochar can be used as a filter medium for waste water treatment to reduce pathogen loads. At the same time, the biochar is becoming enriched with nutrients and therefore can act as a fertilizer for soil amendment. We used biochar as a filter medium for the filtration of raw waste water and compared the agronomic effects of this "filterchar" (FC) and the untreated biochar (BC) in a greenhouse pot trial on spring wheat biomass production on an acidic sandy soil from Niger. The biochar filter showed the same removal of pathogens as a common sand filter (1.4 log units on average). We did not observe a nutrient accumulation in FC compared to untreated BC. Instead, P, Mg and K were reduced during filtration while N content remained unchanged. Nevertheless, higher biomass (Triticum L. Spp.) production in BC (+72%) and FC (+37%) treatments (20 t ha-1), compared with the unamended control, were found. There were no significant differences in aboveground biomass production between BC and FC. Soil available P content was increased by BC (+106%) and FC (+52%) application. Besides, mineral nitrogen content was reduced in BC treated soil and to a lesser extent when FC was used. This may be explained by reduced sorption affinity for mineral nitrogen compounds on FC surfaces. Although the nutrients provided by FC decreased, due to leaching in the filter, it still yielded higher biomass than the unamended control.

Effects of biochar, waste water irrigation and fertilization on soil properties in West African urban agriculture.

In large areas of sub-Saharan Africa crop production must cope with low soil fertility. To increase soil fertility, the application of biochar (charred biomass) has been suggested. In urban areas, untreated waste water is widely used for irrigation because it is a nutrient-rich year-round water source. Uncertainty exists regarding the interactions between soil properties, biochar, waste water and fertilization over time. The aims of this study were to determine these interactions in two typical sandy, soil organic carbon (SOC) and nutrient depleted soils under urban vegetable production in Tamale (Ghana) and Ouagadougou (Burkina Faso) over two years. The addition of biochar at 2 kg m-2 made from rice husks and corn cobs initially doubled SOC stocks but SOC losses of 35% occurred thereafter. Both biochar types had no effect on soil pH, phosphorous availability and effective cation exchange capacity (CEC) but rice husk biochar retained nitrogen (N). Irrigation with domestic waste water increased soil pH and exchangeable sodium over time. Inorganic fertilization alone acidified soils, increased available phosphorous and decreased base saturation. Organic fertilization increased SOC, N and CEC. The results from both locations demonstrate that the effects of biochar and waste water were less pronounced than reported elsewhere.

Antagonistic Self-Organizing Patterning Systems Control Maintenance and Regeneration of the Anteroposterior Axis in Planarians.

Planarian flatworms maintain their body plan in the face of constant internal turnover and can regenerate from arbitrary tissue fragments. Both phenomena require self-maintaining and self-organizing patterning mechanisms, the molecular mechanisms of which remain poorly understood. We show that a morphogenic gradient of canonical Wnt signaling patterns gene expression along the planarian anteroposterior (A/P) axis. Our results demonstrate that gradient formation likely occurs autonomously in the tail and that an autoregulatory module of Wnt-mediated Wnt expression both shapes the gradient at steady state and governs its re-establishment during regeneration. Functional antagonism between the tail Wnt gradient and an unknown head patterning system further determines the spatial proportions of the planarian A/P axis and mediates mutually exclusive molecular fate choices during regeneration. Overall, our results suggest that the planarian A/P axis is patterned by self-organizing patterning systems deployed from either end that are functionally coupled by mutual antagonism.

Self-organization in development, regeneration and organoids.

Self-organization of cells is a fundamental design principle in biology, yet the inherent non-linearity of self-organizing systems often poses significant challenges in deciphering the underlying mechanisms. Here, we discuss recent progress in this respect, focusing on examples from development, regeneration and organoid differentiation. Together, these three paradigms emphasize the active material properties of tissues that result from the functional coupling between individual cells as active units. Further, we discuss the challenge of obtaining reproducible outcomes on the basis of self-organizing systems, which development and regeneration, but not the current organoid culture protocols, achieve.

Scaling and regeneration of self-organized patterns.

Biological patterns generated during development and regeneration often scale with organism size. Some organisms, e.g., flatworms, can regenerate a rescaled body plan from tissue fragments of varying sizes. Inspired by these examples, we introduce a generalization of Turing patterns that is self-organized and self-scaling. A feedback loop involving diffusing expander molecules regulates the reaction rates of a Turing system, thereby adjusting pattern length scales proportional to system size. Our model captures essential features of body plan regeneration in flatworms as observed in experiments.

Shape mode analysis exposes movement patterns in biology: flagella and flatworms as case studies.

We illustrate shape mode analysis as a simple, yet powerful technique to concisely describe complex biological shapes and their dynamics. We characterize undulatory bending waves of beating flagella and reconstruct a limit cycle of flagellar oscillations, paying particular attention to the periodicity of angular data. As a second example, we analyze non-convex boundary outlines of gliding flatworms, which allows us to expose stereotypic body postures that can be related to two different locomotion mechanisms. Further, shape mode analysis based on principal component analysis allows to discriminate different flatworm species, despite large motion-associated shape variability. Thus, complex shape dynamics is characterized by a small number of shape scores that change in time. We present this method using descriptive examples, explaining abstract mathematics in a graphic way.

Immediate spatial distortions of pointing movements induced by visual landmarks.

We tested the influence of two horizontally aligned visual landmarks on pointing movements to memorized targets, to investigate whether the visuomotor system can make use of an egocentric representation unaffected by visual context. The endpoints of pointing movements were systematically distorted toward the nearest visual landmark, indicating that spatial representations included both target and nontarget information. These distortions were not due to the presence of the landmarks during the movement but, rather, to their presence in the encoding phase. Qualitatively similar distortions were present even with the shortest possible retention phase, when the target was extinguished at movement onset. Finally, we found the same pattern of distortion when participants were forced to remember the target within an allocentric frame of reference. We argue that even early memory representations for pointing movements are influenced by visual information in the surrounding visual field.

Why cast shadows are expendable: insensitivity of human observers and the inherent ambiguity of cast shadows in pictorial art.

The kinds of visual cues artists choose to use or not use in their work can offer insight into perceptual processes. On the basis of the observed paucity of the use of cast shadow in pictorial art, we hypothesized that cast shadows might be relatively expendable as pictorial cues. In this study, we investigated two potential reasons for this expendability: first, viewers might be insensitive to much of the information that cast shadows provide; and, second, ambiguities about what is shadow and what is pigment can often be resolved only through motion-something that static media are ill-equipped to deal with. In experiment 1, we used a visual-search paradigm in which viewers had to determine if there were odd cast shadows in sets of 4, 8, 16, and 32 objects. In experiment 2, viewers had to discriminate between shadow/pigment ambiguities in both still and moving images. Our results demonstrate that viewers are neither particularly sensitive to static cast-shadow incongruities, nor are they able to disambiguate cast shadow from pigment without continuous motion information. Taken together, these results may help explain why cast shadows are relatively rare in static pictorial work.

Egocentric and geocentric frames of reference in memory of large-scale space.

This experiment investigated the frames of reference used in memory to represent the spatial structure of a large-scale outdoor environment. Participants learned the locations of eight objects in an unfamiliar city park by walking through the park on one of two prescribed paths that encircled a large rectangular building. The aligned path was oriented with the building; the misaligned path was rotated by 45 degrees. Later, participants pointed to target objects from imagined vantage points using their memories. Pointing accuracy was higher in the aligned than in the misaligned path group, and the patterns of results differed: In the aligned condition, accuracy was higher for imagined headings parallel to legs of the path and for an imagined heading oriented toward a nearby lake, a salient landmark. In the misaligned condition, pointing accuracy was highest for the imagined heading oriented toward the lake, and decreased monotonically with angular distance. These results indicated that locations of objects were mentally represented in terms of frames of reference defined by the environment but selected on the basis of egocentric experience.

Spatial distortions induced by multiple visual landmarks: how local distortions combine to produce complex distortion patterns.

Visual landmarks introduce systematic distortions into spatial short-term memory for single target positions, the exact form of the distortion depending on the spatial layout of the landmarks. In two experiments, we investigated how the combined effect of two landmarks can be predicted from the effects of individual landmarks. Participants used a mouse cursor to reproduce the positions of briefly presented targets in the context of one, the other, or both landmarks. We found that distortions near a landmark are independent of whether another landmark is present, so that remembered space is partitioned into regions dominated by single landmarks. Interestingly, the display midpoint behaves like a "virtual landmark," with its own pattern of distortion. Results are inconsistent with current models of spatial memory distortions but suggest that attentional processes can lead to enhanced fidelity of salient regions in topographical neural networks while also introducing some spatial biases.

The time course of spatial memory distortions.

Four experiments investigated the memory distortions for the location of a dot in relation to two horizontally aligned landmarks. In Experiment 1, participants reproduced from memory a dot location with respect to the two landmarks. Their performance showed a systematic pattern of distortion that was consistent across individual participants. The three subsequent experiments investigated the time course of spatial memory distortions. Using a visual discrimination task, we were able to map the emergence of spatial distortions within the first 800 msec of the retention interval. After retention intervals as brief as 50 msec, a distortion was already present. In all but one experiment, the distortion increased with longer retention intervals. This early onset of spatial memory distortions might reflect the almost immediate decay of detailed spatial information and the early influence of an enduring spatial memory representation, which encodes spatial information in terms of the perceived structure of space.