Auxin-mediated fruit development and ripening: new insight on the role of ARFs and their action mechanism in tomato (S. lycopersicum)

The plant hormone auxin coordinates plant development through the regulation of a specific set of auxin-regulated genes and Auxin Response Factors (ARFs) are transcriptional regulators modulating the expression of auxin-response genes. Recent data demonstrated that members of this gene family are able to regulate fruit set and fruit ripening. ARFs are known to act in concert with Aux/IAA to control auxin-dependent transcriptional activity of target genes. However, little is known about other partners of ARFs. The main objective of the thesis research project was to gain more insight on the involvement of ARFs in fruit development and ripening and to uncover their interaction with other protein partners beside Aux/IAAs. Mining the tomato expression databases publicly available revealed that among all tomato ARFs, SlARF2 displays the highest expression levels in fruit with a marked ripening-associated pattern of expression. This prompted us to uncover the physiological significance of SlARF2 and in particular to investigate its role in fruit development and ripening. Two paralogs, SlARF2A and SlARF2B, were identified in the tomato genome and transactivation assay in a single cell system revealed that the two SlARF2 proteins are nuclear localized and act as repressors of auxin-responsive genes. In fruit tissues, SlARF2A is ethylene-regulated while SlARF2B is auxin-induced. Knock-down of SlARF2A or SlARF2B results in altered ripening with spiky fruit phenotype, whereas simultaneous down-regulation of SlARF2A and SlARF2B leads to more severe ripening inhibition suggesting a functional redundancy among the two SlARF2 paralogs during fruit ripening. Double knock-down fruits produce less climacteric ethylene and show delayed pigment accumulation and higher firmness. Exogenous ethylene treatment cannot reverse the ripening defect phenotypes suggesting that SlARF2 may act downstream of ethylene signaling. The expression of key ethylene biosynthesis and signaling genes is dramatically disturbed in SlARF2 down-regulated fruit and major regulators of the ripening process, like RIN, CNR, NOR, TAGL1, are under-expressed. The data support the notion that SlARF2 is instrumental to fruit ripening and may act at the crossroads of auxin and ethylene signaling. Altogether, while ethylene is known as a key hormone of climacteric fruit ripening, the ripening phenotypes associated with SlARF2 down-regulation bring unprecedented evidence supporting the role of auxin in the control of this developmental process. To further extend our knowledge of the molecular mechanism by which ARFs regulate the expression of auxin-responsive genes we sought to investigate interactions SlARF and putative partners, mainly Aux/IAAs and Topless co-reppressors (TPLs) reported to be key players in gene repression dependent on auxin signaling. To this end, genes encoding all members of the tomato TPL family were isolated and using a yeast-two-hybrid approach comprehensive protein-protein interaction maps were constructed. The study revealed that Aux/IAA interact preferentially with activator SlARFs while Sl-TPLs interact only with repressor SlARFs. The data support the hypothesis that activator ARFs recruit Sl-TPLs co-repressors via Aux/IAAs as intermediates, while repressor ARFs can physically interact with Sl-TPLs. Further investigation indicated that SlARFs and Sl-TPLs can interact with polycomb complex PRC1 PRC2 components, VRN5 and LHP1, known to be essential players of epigenetic repression of gene transcription through the modification of histones methylation status. These data establish a potential link between ARFs and epigenetic regulation and thereby open new and original perspectives in understanding the mode of action of ARFs. Altogether, the thesis work provides new insight on the role of ARFs and their underlying action mechanisms, and defines SlARF2 as a new component of the regulatory network controlling the ripening process in tomato

Identification of miRNAs and their targets by high-throughput sequencing and degradome analysis in cytoplasmic male-sterile line NJCMS1A and its maintainer NJCMS1B of soybean

Table S1. Summary of small RNA annotations from NJCMS1A and NJCMS1B. Table S2. Known miRNAs identified in NJCMS1A and NJCMS1B. Table S3. Family member distribution in conserved miRNA families. Table S4. Summary of miRNA families found in NJCMS1A and NJCMS1B. Table S5. Novel miRNAs on the other arm of known pre-miRNAs. Table S6. Novel miRNAs identified in NJCMS1A and NJCMS1B. Table S7-1. High-confidence known miRNAs identified in NJCMS1A and NJCMS1B. Table S7-2. High-confidence novel miRNAs identified in NJCMS1A and NJCMS1B. Table S8-1. The up-regulated miRNAs identified in NJCMS1A and NJCMS1B. Table S8-2. The down-regulated miRNAs identified in NJCMS1A and NJCMS1B. Table S9. The targets of miRNAs identified in NJCMS1A and NJCMS1B. Table S10. Targets of novel miRNAs in NJCMS1A and NJCMS1B. Table S11. Primers used in this study. (ZIP 637 kb

Preparation of a New Borehole Sealing Material of Coal Seam Water Infusion

To improve the borehole sealing effect of coal seam water infusion, especially that of coal seam with low permeability and high rigidity, this study investigated the performance test optimization of two cement-based sealing materials. The borehole sealing effect of this coal seam requires high-pressure water infusion. Result shows that when the water-cement ratio is 0.4 and the amount of fiber expansive agent is 10%, the new borehole sealing material displays microexpansion. In addition, the 1-day compressive strength reaches 16 MPa. This result satisfies the material compressive strength requirement under 30 MPa high-pressure water infusion. The sealing performance is also excellent. According to the scanning electron microscopy analysis of new borehole and traditional borehole sealing materials, the surface of new borehole sealing material shows no holes and possesses compactness. The sealing effect is superior to that of other traditional sealing materials. This effect can satisfy the sealing requirement of coal seam water infusion. The new borehole sealing material is considerably significant for the improvement of the water infusion effect

Genome-wide identification, phylogenetic analysis, expression profiling, and protein-protein interaction properties of TOPLESS gene family members in tomato

Members of the TOPLESS gene family emerged recently as key players in gene repression in several mechanisms, especially in auxin perception. The TOPLESS genes constitute, in ‘higher-plant’ genomes, a small multigenic family comprising four to 11 members. In this study, this family was investigated in tomato, a model plant for Solanaceae species and fleshy fruits. Six open reading frames predicted to encode topless-like proteins (SlTPLs) containing the canonical domains (LisH, CTLH, and two WD40 repeats) were identified in the tomato genome. Nuclear localization was confirmed for all members of the SlTPL family with the exception SlTPL6, which localized at the cytoplasm and was excluded from the nucleus. SlTPL genes displayed distinctive expression patterns in different tomato organs, with SlTPL1 showing the highest levels of transcript accumulation in all tissues tested except in ripening fruit where SlTPL3 and SlTPL4 were the most prominently expressed. To gain insight into the specificity of the different TOPLESS paralogues, a protein–protein interaction map between TOPLESS and auxin/indole-3-acetic acid (Aux/IAA) proteins was built using a yeast two-hybrid approach. The PPI map enabled the distinction of two patterns: TOPLESS isoforms interacting with the majority of Aux/IAA, and isoforms with limited capacity for interaction with these protein partners. Interestingly, evolutionary analyses of the TOPLESS gene family revealed that the highly expressed isoforms (SlTPL1, SlTPL3, and SlTPL4) corresponded to the three TPL-related genes undergoing the strongest purifying selection, while the selection was much weaker for SlTPL6, which was expressed at a low level and encoded a protein lacking the capacity to interact with Aux/IAAs

Research Progress on the Application of Spectroscopy in Meat Spoilage Detection

The growth and metabolism of microorganisms is the main cause of meat spoilage. The rapid and nondestructive techniques for detecting microorganisms in meat have attracted more and more attentions. Spectroscopic techniques such as Raman spectroscopy, infrared spectroscopy and spectral imaging show great advantages in rapid and non-destructive detection, but their application in meat spoilage detection has not been timely summarized. Based on an overview of the dominant spoilage organisms and microbial metabolism in meat under different storage conditions, this paper briefly describes the material basis for spectroscopic prediction of meat spoilage. Then, the application of Raman spectroscopy, infrared spectroscopy and spectral imaging technology in predicting the shelf life of meat is summarized. The efficiency of predictive modeling of meat shelf life based on total bacterial count or total volatile basic nitrogen (TVB-N) content and problems existing in this field are highlighted. We anticipate that this review will provide new ideas and theoretical guidance for the development and application of rapid and nondestructive techniques for meat spoilage identification

Sl-ARF4,an Auxin Response Factor involved in the control of sugar metabolism during tomato fruit development

Successful completion of fruit developmental programs depends on the interplay between multiple phytohormones. However,besides ethylene, the impact of other hormones on fruit quality traits remains elusive. A previous study has shown that downregulation of SlARF4, a member of the tomato (Solanum lycopersicum) auxin response factor (ARF) gene family, results in a darkgreen fruit phenotype with increased chloroplasts (Jones et al., 2002). This study further examines the role of this auxin transcriptional regulator during tomato fruit development at the level of transcripts, enzyme activities, and metabolites. It is noteworthy that the dark-green phenotype of antisense SlARF4-suppressed lines is restricted to fruit, suggesting that SlARF4 controls chlorophyll accumulation specifically in this organ. The SlARF4 underexpressing lines accumulate more starch at early stages of fruit development and display enhanced chlorophyll content and photochemical efficiency, which is consistent with the idea that fruit photosynthetic activity accounts for the elevated starch levels. SlARF4 expression is high in pericarp tissues of immature fruit and then undergoes a dramatic decline at the onset of ripening concomitant with the increase in sugar content. The higher starch content in developing fruits of SlARF4 down-regulated lines correlates with the up-regulation of genes and enzyme activities involved in starch biosynthesis, suggesting their negative regulation by SlARF4. Altogether, the data uncover the involvement of ARFs in the control of sugar content, an essential feature of fruit quality, and provide insight into the link between auxin signaling, chloroplastic activity, and sugar metabolism in developing fruit

A specific and rapid method for detecting Bacillus and Acinetobacter species in Daqu

Daqu is a spontaneous, solid-state cereal fermentation product used for saccharification and as a starter culture for Chinese Baijiu production. Bacillus and Acinetobacter, two dominant microbial genera in Daqu, produce enzymes and organic acids that influence the Daqu quality. However, there are no rapid analytical methods for detecting Bacillus and Acinetobacter. We designed primers specific to the genera Bacillus and Acinetobacter to perform genetic comparisons using the 16 S rRNA. After amplification of polymerase chain reaction using specific primers, high-throughput sequencing was performed to detect strains of Bacillus and Acinetobacter. The results showed that the effective amplification rates for Bacillus and Acinetobacter in Daqu were 86.92% and 79.75%, respectively. Thus, we have devised and assessed a method to accurately identify the species associated with Bacillus and Acinetobacter in Daqu, which can also hold significance for bacterial typing and identification

Lattice Boltzmann simulation of alumina-water nanofluid in a square cavity

A lattice Boltzmann model is developed by coupling the density (D2Q9) and the temperature distribution functions with 9-speed to simulate the convection heat transfer utilizing Al2O3-water nanofluids in a square cavity. This model is validated by comparing numerical simulation and experimental results over a wide range of Rayleigh numbers. Numerical results show a satisfactory agreement between them. The effects of Rayleigh number and nanoparticle volume fraction on natural convection heat transfer of nanofluid are investigated in this study. Numerical results indicate that the flow and heat transfer characteristics of Al2O3-water nanofluid in the square cavity are more sensitive to viscosity than to thermal conductivity

Dissociation products and structures of solid H2 S at strong compression

Hydrogen sulfides have recently received a great deal of interest due to the record high superconducting temperatures of up to 203 K observed on strong compression of dihydrogen sulfide (H2S). A joint theoretical and experimental study is presented in which decomposition products and structures of compressed H2S are characterized, and their superconducting properties are calculated. In addition to the experimentally known H2S and H3S phases, our first-principles structure searches have identified several energetically competitive stoichiometries that have not been reported previously; H2S3, H3S2, and H4S3. In particular, H4S3 is predicted to be thermodynamically stable within a large pressure range of 25-113 GPa. High-pressure room-temperature X-ray diffraction measurements confirm the presence of H3S and H4S3 through decomposition of H2S that emerge at 27 GPa and coexist with residual H2S, at least up to the highest pressure studied in our experiments of 140 GPa. Electron-phonon coupling calculations show that H4S3 has a small Tc of below 2 K, and that H2S is mainly responsible for the observed superconductivity of samples prepared at low temperature (<100K).Y. L. and J. H. acknowledge funding from the National Natural Science Foundation of China under Grant No. 11204111 and No. 11404148, the Natural Science Foundation of Jiangsu province under Grant No. BK20130223, and the PAPD of Jiangsu Higher Education Institutions. Y. Z. and Y. M. acknowledge funding from the National Natural Science Foundation of China under Grant Nos. 11274136 and 11534003, the 2012 Changjiang Scholars Program of China. R. J. N. acknowledges financial support from the Engineering and Physical Sciences Research Council (EPSRC) of the U.K. [EP/J017639/1]. Calculations were performed on the Cambridge High Performance Computing Service facility and the HECToR and Archer facilities of the U.K.’s national highperformance computing service (for which access was obtained via the UKCP consortium [EP/K013564/1]). J. R. N. acknowledges financial support from the Cambridge Commonwealth Trust. I. E. acknowledges financial support from the Spanish Ministry of Economy and Competitiveness (FIS2013-48286-C2-2-P). M. C. acknowledges support from the Graphene Flagship and Agence nationale de la recherche (ANR), Grant No. ANR-13-IS10- 0003-01. Work at Carnegie was partially supported by EFree, an Energy Frontier Research Center funded by the DOE, Office of Science, Basic Energy Sciences under Award No. DE-SC-0001057 (salary support for H. L.). The infrastructure and facilities used at Carnegie were supported by NNSA Grant No. DE-NA-0002006, CDAC.This is the author accepted manuscript. The final version is available from the American Physical Society via http://dx.doi.org/10.1103/PhysRevB.93.02010

Solar-thermal conversion and steam generation: a review

Recently, steam generation systems based on solar-thermal conversion have received much interest, and this may be due to the widespread use of solar energy and water sources such as oceans and lakes. The photo-thermal desalination system becomes attractive as it can convert absorbed solar light energy into thermal energy and realise the desalination and water purification of saline water through the evaporation process. In this paper, the research status of solar-thermal conversion materials such as metal-based materials, semiconductor materials, carbon-base materials, organic polymer materials, composite photo-thermal materials and their solar-thermal conversion mechanism in recent years are reviewed. The physical process and evaluation principle of solar-thermal conversion are both carefully introduced. The methods of optimising thermal management and increasing the evaporation rate of a hybrid system are also introduced in detail. Four main applications of solar-thermal conversion technologies (seawater desalination, wastewater purification, sterilisation and power generation) are discussed. Finally, based on the above analysis, the prospects and challenges for future research in the field of desalination are discussed from an engineering and scientific viewpoint to promote the direction of research, in order to stimulate future development and accelerate commercial application