Transcriptome response of cassava leaves under natural shade

Cassava is an important staple crop in tropical and sub-tropical areas. As a common farming practice, cassava is usually cultivated intercropping with other crops and subjected to various degrees of shading, which causes reduced productivity. Herein, a comparative transcriptomic analysis was performed on a series of developmental cassava leaves under both full sunlight and natural shade conditions. Gene expression profiles of these two conditions exhibited similar developmental transitions, e.g. genes related to cell wall and basic cellular metabolism were highly expressed in immature leaves, genes involved in lipid metabolism and tetrapyrrole synthesis were highly expressed during the transition stages, and genes related to photosynthesis and carbohydrates metabolism were highly expressed in mature leaves. Compared with the control, shade significantly induced the expression of genes involved in light reaction of photosynthesis, light signaling and DNA synthesis/chromatin structure; however, the genes related to anthocyanins biosynthesis, heat shock, calvin cycle, glycolysis, TCA cycle, mitochondrial electron transport, and starch and sucrose metabolisms were dramatically depressed. Moreover, the shade also influenced the expression of hormone-related genes and transcriptional factors. The findings would improve our understanding of molecular mechanisms of shade response, and shed light on pathways associated with shade-avoidance syndrome for cassava improvement

Transcriptome response of cassava leaves under natural shade

Cassava is an important staple crop in tropical and sub-tropical areas. As a common farming practice, cassava is usually cultivated intercropping with other crops and subjected to various degrees of shading, which causes reduced productivity. Herein, a comparative transcriptomic analysis was performed on a series of developmental cassava leaves under both full sunlight and natural shade conditions. Gene expression profiles of these two conditions exhibited similar developmental transitions, e.g. genes related to cell wall and basic cellular metabolism were highly expressed in immature leaves, genes involved in lipid metabolism and tetrapyrrole synthesis were highly expressed during the transition stages, and genes related to photosynthesis and carbohydrates metabolism were highly expressed in mature leaves. Compared with the control, shade significantly induced the expression of genes involved in light reaction of photosynthesis, light signaling and DNA synthesis/chromatin structure; however, the genes related to anthocyanins biosynthesis, heat shock, calvin cycle, glycolysis, TCA cycle, mitochondrial electron transport, and starch and sucrose metabolisms were dramatically depressed. Moreover, the shade also influenced the expression of hormone-related genes and transcriptional factors. The findings would improve our understanding of molecular mechanisms of shade response, and shed light on pathways associated with shade-avoidance syndrome for cassava improvement

Dissecting the mechanism of the nonheme iron endoperoxidase FtmOx1 using substrate analogues

FtmOx1 is a nonheme iron (NHFe) endoperoxidase, catalyzing three disparate reactions, endoperoxidation, alcohol dehydrogenation, and dealkylation, under in vitro conditions; the diversity complicates its mechanistic studies. In this study, we use two substrate analogues to simplify the FtmOx1-catalyzed reaction to either a dealkylation or an alcohol dehydrogenation reaction for structure-function relationship analysis to address two key FtmOx1 mechanistic questions: (1) Y224 flipping in the proposed COX-like model vs α-ketoglutarate (αKG) rotation proposed in the CarC-like mechanistic model and (2) the involvement of a Y224 radical (COX-like model) or a Y68 radical (CarC-like model) in FtmOx1-catalysis. When 13-oxo-fumitremorgin B (7) is used as the substrate, FtmOx1-catalysis changes from the endoperoxidation to a hydroxylation reaction and leads to dealkylation. In addition, consistent with the dealkylation side-reaction in the COX-like model prediction, the X-ray structure of the FtmOx1•CoII•αKG•7 ternary complex reveals a flip of Y224 to an alternative conformation relative to the FtmOx1•FeII•αKG binary complex. Verruculogen (2) was used as a second substrate analogue to study the alcohol dehydrogenation reaction to examine the involvement of the Y224 radical or Y68 radical in FtmOx1-catalysis, and again, the results from the verruculogen reaction are more consistent with the COX-like model.R24 GM134210 - NIGMS NIH HHSPublished versio

Cassava genome from a wild ancestor to cultivated varieties

Cassava is a major tropical food crop in the Euphorbiaceae family that has high carbohydrate production potential and adaptability to diverse environments. Here we present the draft genome sequences of a wild ancestor and a domesticated variety of cassava and comparative analyses with a partial inbred line. We identify 1,584 and 1,678 gene models specific to the wild and domesticated varieties, respectively, and discover high heterozygosity and millions of single-nucleotide variations. Our analyses reveal that genes involved in photosynthesis, starch accumulation and abiotic stresses have been positively selected, whereas those involved in cell wall biosynthesis and secondary metabolism, including cyanogenic glucoside formation, have been negatively selected in the cultivated varieties, reflecting the result of natural selection and domestication. Differences in microRNA genes and retrotransposon regulation could partly explain an increased carbon flux towards starch accumulation and reduced cyanogenic glucoside accumulation in domesticated cassava. These results may contribute to genetic improvement of cassava through better understanding of its biology

Degradation of Tetracycline on SiO₂-TiO₂-C Aerogel Photocatalysts under Visible Light

SiO2-TiO2-C aerogel photocatalysts with different carbon loadings were synthesized by using sol-gel chemistry. The anatase crystal and nonmetal carbon dopant were introduced during the sol preparation and formed by hydrothermal treatment, which can simultaneously enhance the adsorption ability and visible light photo-activity. A high surface area (759 g cm−3) SiO2-TiO2-C aerogel composite can remove up to 80% tetracycline hydrochloride within 180 min under visible light. The characterization of the gel structures shows that the homogeneous dispersion of O, Si, Ti and C in the skeleton, indicating that hydrothermal synthesis could provide a very feasible way for the preparation of composite materials. n(C):n(Ti) molar ratio of 3.5 gives the best catalytic performance of the hybrid aerogel, and the cyclic test still confirms over 60% degradation activity after seven use cycles. All catalysis reaction followed the pseudo-first-order rate reaction with high correlation coefficient. The electrons and holes in the compound could be effectively restrained with doping proper amount of C, and ESR results indicate that the oxidation process was dominated by the hydroxyl radical (•OH) and superoxide radical (•O2−) generated in the system

Ambient-Dried Silica Aerogel Powders Derived from Coal Gangue by Using One-Pot Method

In this paper, we report a new and convenient method for the synthesis of insulating aerogel by recycling solid waste coal gangue, which can reduce the industrial production cost of silica aerogels and realize high value-added utilization of solid waste. Sodium silicate was prepared from a cheap industrial waste coal gangue as the precursor for silica aerogels, which was used for silica wet gel preparation by a one pot method; this method of solvent exchange/surface modification was carried out quickly by mechanical stirring process, and the wet gels derived from coal gangue were dried under ambient pressure condition. A high surface area (~748 m2/g) nanostructured aerogel with a 3D open porous microstructure was synthesized, which exhibits a low density (~0.18 g/cm3) and a superior thermal insulation performance (~0.033 W·m−1·K−1). More significantly, the synthetic yield of silica aerogel powder by recycling coal gangue can reach 92%

Stochastic Multicriteria Acceptability Analysis for Evaluation of Combined Heat and Power Units

Combined heat and power (CHP) is a promising technology that can contribute to energy efficiency and environmental protection. More CHP-based energy systems are planned for the future. This makes the evaluation and selection of CHP systems very important. In this paper, 16 CHP units representing different technologies are taken into account for multicriteria evaluation with respect to the end users’ requirements. These CHP technologies cover a wide range of power outputs and fuel types. They are evaluated from the energy, economy and environment (3E) points of view, specifically including the criteria of efficiency, investment cost, electricity cost, heat cost, CO2 production and footprint. Uncertainties and imprecision are common both in criteria measurements and weights, therefore the stochastic multicriteria acceptability analysis (SMAA) model is used in aiding this decision making problem. These uncertainties are treated better using a probability distribution function and Monte Carlo simulation in the model. Moreover, the idea of “feasible weight space (FWS)” which represents the union of all preference information from decision makers (DMs) is proposed. A complementary judgment matrix (CJM) is introduced to determine the FWS. It can be found that the idea of FWS plus CJM is well compatible with SMAA and thus make the evaluation reliable.Peer reviewe