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Sample records for secondary wall formation

  1. Hormonal regulation of secondary cell wall formation.

    PubMed

    Didi, Vojtěch; Jackson, Phil; Hejátko, Jan

    2015-08-01

    Secondary cell walls (SCWs) have critical functional importance but also constitute a high proportion of the plant biomass and have high application potential. This is true mainly for the lignocellulosic constituents of the SCWs in xylem vessels and fibres, which form a structured layer between the plasma membrane and the primary cell wall (PCW). Specific patterning of the SCW thickenings contributes to the mechanical properties of the different xylem cell types, providing the plant with mechanical support and facilitating the transport of solutes via vessels. In the last decade, our knowledge of the basic molecular mechanisms controlling SCW formation has increased substantially. Several members of the multi-layered regulatory cascade participating in the initiation and transcriptional regulation of SCW formation have been described, and the first cellular components determining the pattern of SCW at the subcellular resolution are being uncovered. The essential regulatory role of phytohormones in xylem development is well known and the molecular mechanisms that link hormonal signals to SCW formation are emerging. Here, we review recent knowledge about the role of individual plant hormones and hormonal crosstalk in the control over the regulatory cascades guiding SCW formation and patterning. Based on the analogy between many of the mechanisms operating during PCW and SCW formation, recently identified mechanisms underlying the hormonal control of PCW remodelling are discussed as potentially novel mechanisms mediating hormonal regulatory inputs in SCW formation. PMID:26002972

  2. Engineering the Oryza sativa cell wall with rice NAC transcription factors regulating secondary wall formation

    PubMed Central

    Yoshida, Kouki; Sakamoto, Shingo; Kawai, Tetsushi; Kobayashi, Yoshinori; Sato, Kazuhito; Ichinose, Yasunori; Yaoi, Katsuro; Akiyoshi-Endo, Miho; Sato, Hiroko; Takamizo, Tadashi; Ohme-Takagi, Masaru; Mitsuda, Nobutaka

    2013-01-01

    Plant tissues that require structural rigidity synthesize a thick, strong secondary cell wall of lignin, cellulose and hemicelluloses in a complicated bridged structure. Master regulators of secondary wall synthesis were identified in dicots, and orthologs of these regulators have been identified in monocots, but regulation of secondary cell wall formation in monocots has not been extensively studied. Here we demonstrate that the rice transcription factors SECONDARY WALL NAC DOMAIN PROTEINs (SWNs) can regulate secondary wall formation in rice (Oryza sativa) and are potentially useful for engineering the monocot cell wall. The OsSWN1 promoter is highly active in sclerenchymatous cells of the leaf blade and less active in xylem cells. By contrast, the OsSWN2 promoter is highly active in xylem cells and less active in sclerenchymatous cells. OsSWN2 splicing variants encode two proteins; the shorter protein (OsSWN2S) has very low transcriptional activation ability, but the longer protein (OsSWN2L) and OsSWN1 have strong transcriptional activation ability. In rice, expression of an OsSWN2S chimeric repressor, driven by the OsSWN2 promoter, resulted in stunted growth and para-wilting (leaf rolling and browning under normal water conditions) due to impaired vascular vessels. The same OsSWN2S chimeric repressor, driven by the OsSWN1 promoter, caused a reduction of cell wall thickening in sclerenchymatous cells, a drooping leaf phenotype, reduced lignin and xylose contents and increased digestibility as forage. These data suggest that OsSWNs regulate secondary wall formation in rice and manipulation of OsSWNs may enable improvements in monocotyledonous crops for forage or biofuel applications. PMID:24098302

  3. Engineering the Oryza sativa cell wall with rice NAC transcription factors regulating secondary wall formation.

    PubMed

    Yoshida, Kouki; Sakamoto, Shingo; Kawai, Tetsushi; Kobayashi, Yoshinori; Sato, Kazuhito; Ichinose, Yasunori; Yaoi, Katsuro; Akiyoshi-Endo, Miho; Sato, Hiroko; Takamizo, Tadashi; Ohme-Takagi, Masaru; Mitsuda, Nobutaka

    2013-01-01

    Plant tissues that require structural rigidity synthesize a thick, strong secondary cell wall of lignin, cellulose and hemicelluloses in a complicated bridged structure. Master regulators of secondary wall synthesis were identified in dicots, and orthologs of these regulators have been identified in monocots, but regulation of secondary cell wall formation in monocots has not been extensively studied. Here we demonstrate that the rice transcription factors SECONDARY WALL NAC DOMAIN PROTEINs (SWNs) can regulate secondary wall formation in rice (Oryza sativa) and are potentially useful for engineering the monocot cell wall. The OsSWN1 promoter is highly active in sclerenchymatous cells of the leaf blade and less active in xylem cells. By contrast, the OsSWN2 promoter is highly active in xylem cells and less active in sclerenchymatous cells. OsSWN2 splicing variants encode two proteins; the shorter protein (OsSWN2S) has very low transcriptional activation ability, but the longer protein (OsSWN2L) and OsSWN1 have strong transcriptional activation ability. In rice, expression of an OsSWN2S chimeric repressor, driven by the OsSWN2 promoter, resulted in stunted growth and para-wilting (leaf rolling and browning under normal water conditions) due to impaired vascular vessels. The same OsSWN2S chimeric repressor, driven by the OsSWN1 promoter, caused a reduction of cell wall thickening in sclerenchymatous cells, a drooping leaf phenotype, reduced lignin and xylose contents and increased digestibility as forage. These data suggest that OsSWNs regulate secondary wall formation in rice and manipulation of OsSWNs may enable improvements in monocotyledonous crops for forage or biofuel applications. PMID:24098302

  4. Molecular Mechanisms for Vascular Development and Secondary Cell Wall Formation

    PubMed Central

    Yang, Jung Hyun; Wang, Huanzhong

    2016-01-01

    Vascular tissues are important for transporting water and nutrients throughout the plant and as physical support of upright growth. The primary constituents of vascular tissues, xylem, and phloem, are derived from the meristematic vascular procambium and cambium. Xylem cells develop secondary cell walls (SCWs) that form the largest part of plant lignocellulosic biomass that serve as a renewable feedstock for biofuel production. For the last decade, research on vascular development and SCW biosynthesis has seen rapid progress due to the importance of these processes to plant biology and to the biofuel industry. Plant hormones, transcriptional regulators and peptide signaling regulate procambium/cambium proliferation, vascular patterning, and xylem differentiation. Transcriptional regulatory pathways play a pivot role in SCW biosynthesis. Although most of these discoveries are derived from research in Arabidopsis, many genes have shown conserved functions in biofuel feedstock species. Here, we review the recent advances in our understanding of vascular development and SCW formation and discuss potential biotechnological uses. PMID:27047525

  5. Molecular Mechanisms for Vascular Development and Secondary Cell Wall Formation.

    PubMed

    Yang, Jung Hyun; Wang, Huanzhong

    2016-01-01

    Vascular tissues are important for transporting water and nutrients throughout the plant and as physical support of upright growth. The primary constituents of vascular tissues, xylem, and phloem, are derived from the meristematic vascular procambium and cambium. Xylem cells develop secondary cell walls (SCWs) that form the largest part of plant lignocellulosic biomass that serve as a renewable feedstock for biofuel production. For the last decade, research on vascular development and SCW biosynthesis has seen rapid progress due to the importance of these processes to plant biology and to the biofuel industry. Plant hormones, transcriptional regulators and peptide signaling regulate procambium/cambium proliferation, vascular patterning, and xylem differentiation. Transcriptional regulatory pathways play a pivot role in SCW biosynthesis. Although most of these discoveries are derived from research in Arabidopsis, many genes have shown conserved functions in biofuel feedstock species. Here, we review the recent advances in our understanding of vascular development and SCW formation and discuss potential biotechnological uses. PMID:27047525

  6. MYB58 and MYB63 are transcriptional activators of the lignin biosynthetic pathway during secondary cell wall formation in Arabidopsis.

    PubMed

    Zhou, Jianli; Lee, Chanhui; Zhong, Ruiqin; Ye, Zheng-Hua

    2009-01-01

    It has previously been shown that SECONDARY WALL-ASSOCIATED NAC DOMAIN PROTEIN1 (SND1) is a key transcription factor regulating secondary cell wall formation, including the biosynthesis of cellulose, xylan, and lignin. In this study, we show that two closely related SND1-regulated MYB transcription factors, MYB58 and MYB63, are transcriptional regulators specifically activating lignin biosynthetic genes during secondary wall formation in Arabidopsis thaliana. MYB58 and MYB63 are phylogenetically distinct from previously characterized MYBs shown to be associated with secondary wall formation or phenylpropanoid metabolism. Expression studies showed that MYB58 and MYB63 are specifically expressed in fibers and vessels undergoing secondary wall thickening. Dominant repression of their functions led to a reduction in secondary wall thickening and lignin content. Overexpression of MYB58 and MYB63 resulted in specific activation of lignin biosynthetic genes and concomitant ectopic deposition of lignin in cells that are normally unlignified. MYB58 was able to activate directly the expression of lignin biosynthetic genes and a secondary wall-associated laccase (LAC4) gene. Furthermore, the expression of MYB58 and MYB63 was shown to be regulated by the SND1 close homologs NST1, NST2, VND6, and VND7 and their downstream target MYB46. Together, our results indicate that MYB58 and MYB63 are specific transcriptional activators of lignin biosynthesis in the SND1-mediated transcriptional network regulating secondary wall formation. PMID:19122102

  7. Spatially and temporally restricted expression of PtrMYB021 regulates secondary cell wall formation in Arabidopsis

    DOE PAGESBeta

    Wang, Wei; Li, Eryang; Porth, Ilga; Chen, Jin-Gui; Mansfield, Shawn D.; Douglas, Carl J.; Wang, Shucai

    2016-02-02

    Among the R2R3 MYB transcription factors that involve in the regulation of secondary cell wall formation in Arabidopsis, MYB46 alone is sufficient to induce the entire secondary cell wall biosynthesis program. PtrMYB021, the poplar homolog of MYB46, has been reported to regulate secondary cell wall formation when expressed in Arabidopsis. We report here that spatially and temporally restricted expression of PtrMYB021 is critical for its function in regulating secondary cell wall formation. By using quantitative RT-PCR, we found that PtrMYB021 was expressed primarily in xylem tissues. When expressed in Arabidopsis under the control of PtrCesA8, but not the 35S promoter,more » PtrMYB021 increased secondary cell wall thickness, which is likely caused by increased lignification as well as changes in cell wall carbohydrate composition. Consistent with this, elevated expression of lignin and cellulose biosynthetic genes were observed in the transgenic plants. Finally, when expressed in Arabidopsis protoplasts as fusion proteins to the Gal4 DNA binding domain, PtrMYB021 activated the reporter gene Gal4-GUS. In summary, our results suggest that PtrMYB021 is a transcriptional activator, and spatially and temporally restricted expression of PtrMYB021 in Arabidopsis regulates secondary cell wall formation by activating a subset of secondary cell wall biosynthesis genes.« less

  8. Poplar PdMYB221 is involved in the direct and indirect regulation of secondary wall biosynthesis during wood formation.

    PubMed

    Tang, Xianfeng; Zhuang, Yamei; Qi, Guang; Wang, Dian; Liu, Huanhuan; Wang, Kairong; Chai, Guohua; Zhou, Gongke

    2015-01-01

    Wood is formed by the successive addition of secondary xylem, which consists of cells with a conspicuously thickened secondary wall composed mainly of cellulose, xylan and lignin. Currently, few transcription factors involved in the direct regulation of secondary wall biosynthesis have been characterized in tree species. Here, we show that PdMYB221, a poplar ortholog of the Arabidopsis R2R3-MYB transcription factor AtMYB4, directly regulates secondary wall biosynthesis during wood formation. PdMYB221 is predominantly expressed in cells of developing wood, and the protein it encodes localizes to the nucleus and acts as a transcriptional repressor. Ectopic expression of PdMYB221 resulted in reduced cell wall thicknesses of fibers and vessels in Arabidopsis inflorescence stems. The amounts of cellulose, xylose, and lignin were decreased and the expression of key genes synthesizing the three components was suppressed in PdMYB221 overexpression plants. Transcriptional activation assays showed that PdMYB221 repressed the promoters of poplar PdCESA7/8, PdGT47C, PdCOMT2 and PdCCR1. Electrophoretic mobility shift assays revealed that PdMYB221 bound directly to the PdCESA8, PdGT47C, and PdCOMT2 promoters. Together, our results suggest that PdMYB221 may be involved in the negative regulation of secondary wall formation through the direct and indirect suppression of the gene expression of secondary wall biosynthesis. PMID:26179205

  9. Poplar PdMYB221 is involved in the direct and indirect regulation of secondary wall biosynthesis during wood formation

    PubMed Central

    Tang, Xianfeng; Zhuang, Yamei; Qi, Guang; Wang, Dian; Liu, Huanhuan; Wang, Kairong; Chai, Guohua; Zhou, Gongke

    2015-01-01

    Wood is formed by the successive addition of secondary xylem, which consists of cells with a conspicuously thickened secondary wall composed mainly of cellulose, xylan and lignin. Currently, few transcription factors involved in the direct regulation of secondary wall biosynthesis have been characterized in tree species. Here, we show that PdMYB221, a poplar ortholog of the Arabidopsis R2R3-MYB transcription factor AtMYB4, directly regulates secondary wall biosynthesis during wood formation. PdMYB221 is predominantly expressed in cells of developing wood, and the protein it encodes localizes to the nucleus and acts as a transcriptional repressor. Ectopic expression of PdMYB221 resulted in reduced cell wall thicknesses of fibers and vessels in Arabidopsis inflorescence stems. The amounts of cellulose, xylose, and lignin were decreased and the expression of key genes synthesizing the three components was suppressed in PdMYB221 overexpression plants. Transcriptional activation assays showed that PdMYB221 repressed the promoters of poplar PdCESA7/8, PdGT47C, PdCOMT2 and PdCCR1. Electrophoretic mobility shift assays revealed that PdMYB221 bound directly to the PdCESA8, PdGT47C, and PdCOMT2 promoters. Together, our results suggest that PdMYB221 may be involved in the negative regulation of secondary wall formation through the direct and indirect suppression of the gene expression of secondary wall biosynthesis. PMID:26179205

  10. Identification of novel transcription factors regulating secondary cell wall formation in Arabidopsis

    PubMed Central

    Cassan-Wang, Hua; Goué, Nadia; Saidi, Mohammed N.; Legay, Sylvain; Sivadon, Pierre; Goffner, Deborah; Grima-Pettenati, Jacqueline

    2013-01-01

    The presence of lignin in secondary cell walls (SCW) is a major factor preventing hydrolytic enzymes from gaining access to cellulose, thereby limiting the saccharification potential of plant biomass. To understand how lignification is regulated is a prerequisite for selecting plant biomass better adapted to bioethanol production. Because transcriptional regulation is a major mechanism controlling the expression of genes involved in lignin biosynthesis, our aim was to identify novel transcription factors (TFs) dictating lignin profiles in the model plant Arabidopsis. To this end, we have developed a post-genomic approach by combining four independent in-house SCW-related transcriptome datasets obtained from (1) the fiber cell wall-deficient wat1 Arabidopsis mutant, (2) Arabidopsis lines over-expressing either the master regulatory activator EgMYB2 or (3) the repressor EgMYB1 and finally (4) Arabidopsis orthologs of Eucalyptus xylem-expressed genes. This allowed us to identify 502 up- or down-regulated TFs. We preferentially selected those present in more than one dataset and further analyzed their in silico expression patterns as an additional selection criteria. This selection process led to 80 candidates. Notably, 16 of them were already proven to regulate SCW formation, thereby validating the overall strategy. Then, we phenotyped 43 corresponding mutant lines focusing on histological observations of xylem and interfascicular fibers. This phenotypic screen revealed six mutant lines exhibiting altered lignification patterns. Two of them [Bel-like HomeoBox6 (blh6) and a zinc finger TF] presented hypolignified SCW. Three others (myb52, myb-like TF, hb5) showed hyperlignified SCW whereas the last one (hb15) showed ectopic lignification. In addition, our meta-analyses highlighted a reservoir of new potential regulators adding to the gene network regulating SCW but also opening new avenues to ultimately improve SCW composition for biofuel production. PMID:23781226

  11. Rice BRITTLE CULM 5 (BRITTLE NODE) is Involved in Secondary Cell Wall Formation in the Sclerenchyma Tissue of Nodes

    PubMed Central

    Aohara, Tsutomu; Kotake, Toshihisa; Kaneko, Yasuko; Takatsuji, Hiroshi; Tsumuraya, Yoichi; Kawasaki, Shinji

    2009-01-01

    Several brittle culm (bc) mutants known in grasses are considered excellent materials to study the process of secondary cell wall formation. The brittle phenotype of the rice bc5 (brittle node) mutant appears exclusively in the developed nodes, which is distinct from other bc mutants (bc1, 2, 3, 4, 6 and 7) that show the brittle phenotype in culms and leaves. To address the defects of the rice bc5 mutant in node-specific cell wall formation, we analyzed tissue morphology and cell wall composition. The bc5 mutation was found to affect the cell wall deposition of node sclerenchyma tissues at 1 week after heading, the stage at which the cell wall sugar content is reduced, in the bc5 nodes, compared with wild-type nodes. Moreover, decreased accumulation of lignin and thickness of cell walls in the sclerenchyma tissues were also observed in the bc5 nodes. The amounts of cellulose and hemicellulose were reduced to 53 and 65% of those in the wild-type plants, respectively. Sugar composition and glycosidic linkage analyses of the hemicellulose showed that the accumulation of glucuronosyl arabinoxylan in bc5 nodes was perturbed by the mutation. The bc5 locus was narrowed to an approximately 3.1 Mb region of chromosome 2, where none of the other bc genes is located. The bc5 mutation appeared to reduce the expression levels of the OsCesA genes in the nodes after heading. The results indicate that the BC5 gene regulates the development of secondary cell walls of node sclerenchyma tissues. PMID:19812064

  12. Impact of chamber wall loss of gaseous organic compounds on secondary organic aerosol formation: explicit modeling of SOA formation from alkane and alkene oxidation

    NASA Astrophysics Data System (ADS)

    La, Y. S.; Camredon, M.; Ziemann, P. J.; Valorso, R.; Matsunaga, A.; Lannuque, V.; Lee-Taylor, J.; Hodzic, A.; Madronich, S.; Aumont, B.

    2016-02-01

    Recent studies have shown that low volatility gas-phase species can be lost onto the smog chamber wall surfaces. Although this loss of organic vapors to walls could be substantial during experiments, its effect on secondary organic aerosol (SOA) formation has not been well characterized and quantified yet. Here the potential impact of chamber walls on the loss of gaseous organic species and SOA formation has been explored using the Generator for Explicit Chemistry and Kinetics of the Organics in the Atmosphere (GECKO-A) modeling tool, which explicitly represents SOA formation and gas-wall partitioning. The model was compared with 41 smog chamber experiments of SOA formation under OH oxidation of alkane and alkene series (linear, cyclic and C12-branched alkanes and terminal, internal and 2-methyl alkenes with 7 to 17 carbon atoms) under high NOx conditions. Simulated trends match observed trends within and between homologous series. The loss of organic vapors to the chamber walls is found to affect SOA yields as well as the composition of the gas and the particle phases. Simulated distributions of the species in various phases suggest that nitrates, hydroxynitrates and carbonylesters could substantially be lost onto walls. The extent of this process depends on the rate of gas-wall mass transfer, the vapor pressure of the species and the duration of the experiments. This work suggests that SOA yields inferred from chamber experiments could be underestimated up a factor of 2 due to the loss of organic vapors to chamber walls.

  13. Impact of chamber wall loss of gaseous organic compounds on secondary organic aerosol formation: explicit modeling of SOA formation from alkane and alkene oxidation

    NASA Astrophysics Data System (ADS)

    La, Y. S.; Camredon, M.; Ziemann, P. J.; Valorso, R.; Matsunaga, A.; Lannuque, V.; Lee-Taylor, J.; Hodzic, A.; Madronich, S.; Aumont, B.

    2015-09-01

    Recent studies have shown that low volatility gas-phase species can be lost onto the smog chamber wall surfaces. Although this loss of organic vapors to walls could be substantial during experiments, its effect on secondary organic aerosol (SOA) formation has not been well characterized and quantified yet. Here the potential impact of chamber walls on the loss of gaseous organic species and SOA formation has been explored using the Generator for Explicit Chemistry and Kinetics of the Organics in the Atmosphere (GECKO-A) modeling tool which explicitly represents SOA formation and gas/wall partitioning. The model was compared with 41 smog chamber experiments of SOA formation under OH oxidation of alkane and alkene series (linear, cyclic and C12-branched alkanes and terminal, internal and 2-methyl alkenes with 7 to 17 carbon atoms) under high NOx conditions. Simulated trends match observed trends within and between homologous series. The loss of organic vapors to the chamber walls is found to affect SOA yields as well as the composition of the gas and the particle phases. Simulated distributions of the species in various phases suggest that nitrates, hydroxynitrates and carbonylesters could substantially be lost onto walls. The extent of this process depends on the rate of gas/wall mass transfer, the vapor pressure of the species and the duration of the experiments. This work suggests that SOA yields inferred from chamber experiments could be underestimated up to 0.35 yield unit due to the loss of organic vapors to chamber walls.

  14. Impact of chamber wall loss of gaseous organic compounds on secondary organic aerosol formation: Explicit modeling of SOA formation from alkane and alkene oxidation

    DOE PAGESBeta

    La, Y. S.; Camredon, M.; Ziemann, P. J.; Valorso, R.; Matsunaga, A.; Lannuque, V.; Lee-Taylor, J.; Hodzic, A.; Madronich, S.; Aumont, B.

    2016-02-08

    Recent studies have shown that low volatility gas-phase species can be lost onto the smog chamber wall surfaces. Although this loss of organic vapors to walls could be substantial during experiments, its effect on secondary organic aerosol (SOA) formation has not been well characterized and quantified yet. Here the potential impact of chamber walls on the loss of gaseous organic species and SOA formation has been explored using the Generator for Explicit Chemistry and Kinetics of the Organics in the Atmosphere (GECKO-A) modeling tool, which explicitly represents SOA formation and gas–wall partitioning. The model was compared with 41 smog chambermore » experiments of SOA formation under OH oxidation of alkane and alkene series (linear, cyclic and C12-branched alkanes and terminal, internal and 2-methyl alkenes with 7 to 17 carbon atoms) under high NOx conditions. Simulated trends match observed trends within and between homologous series. The loss of organic vapors to the chamber walls is found to affect SOA yields as well as the composition of the gas and the particle phases. Simulated distributions of the species in various phases suggest that nitrates, hydroxynitrates and carbonylesters could substantially be lost onto walls. The extent of this process depends on the rate of gas–wall mass transfer, the vapor pressure of the species and the duration of the experiments. Furthermore, this work suggests that SOA yields inferred from chamber experiments could be underestimated up a factor of 2 due to the loss of organic vapors to chamber walls.« less

  15. Graft union formation in grapevine induces transcriptional changes related to cell wall modification, wounding, hormone signalling, and secondary metabolism

    PubMed Central

    Cookson, Sarah Jane; Clemente Moreno, Maria José; Hevin, Cyril; Nyamba Mendome, Larissa Zita; Delrot, Serge; Trossat-Magnin, Claudine; Ollat, Nathalie

    2013-01-01

    Grafting is particularly important to the cultivation of perennial crops such as grapevine (Vitis vinifera) because rootstocks can provide resistance to soil-borne pests and diseases as well as improve tolerance to some abiotic stresses. Successful grafting is a complex biochemical and structural process beginning with the adhesion of the two grafted partners, followed by callus formation and the establishment of a functional vascular system. At the molecular level, the sequence of events underlying graft union formation remains largely uncharacterized. The present study investigates the transcriptome of grapevine rootstock and graft interface tissues sampled 3 d and 28 d after grafting of over-wintering stems in the spring. Many genes were differentially expressed over time, from 3 d to 28 d after grafting, which could be related to the activation of stem growth and metabolic activity in the spring. This hypothesis is supported by the up-regulation of many genes associated with cell wall synthesis, and phloem and xylem development. Generally, there was an up-regulation of gene expression in the graft interface tissue compared with the rootstock, particularly genes involved in cell wall synthesis, secondary metabolism, and signalling. Although there was overlap between the genes differentially expressed over time (from 3 d to 28 d after grafting) with the gene differentially expressed between the rootstock and the graft interface, numerous graft interface-specific genes were identified. PMID:23698628

  16. The Dual Functions of WLIM1a in Cell Elongation and Secondary Wall Formation in Developing Cotton Fibers[C][W

    PubMed Central

    Han, Li-Bo; Li, Yuan-Bao; Wang, Hai-Yun; Wu, Xiao-Min; Li, Chun-Li; Luo, Ming; Wu, Shen-Jie; Kong, Zhao-Sheng; Pei, Yan; Jiao, Gai-Li; Xia, Gui-Xian

    2013-01-01

    LIN-11, Isl1 and MEC-3 (LIM)-domain proteins play pivotal roles in a variety of cellular processes in animals, but plant LIM functions remain largely unexplored. Here, we demonstrate dual roles of the WLIM1a gene in fiber development in upland cotton (Gossypium hirsutum). WLIM1a is preferentially expressed during the elongation and secondary wall synthesis stages in developing fibers. Overexpression of WLIM1a in cotton led to significant changes in fiber length and secondary wall structure. Compared with the wild type, fibers of WLIM1a-overexpressing plants grew longer and formed a thinner and more compact secondary cell wall, which contributed to improved fiber strength and fineness. Functional studies demonstrated that (1) WLIM1a acts as an actin bundler to facilitate elongation of fiber cells and (2) WLIM1a also functions as a transcription factor to activate expression of Phe ammonia lyase–box genes involved in phenylpropanoid biosynthesis to build up the secondary cell wall. WLIM1a localizes in the cytosol and nucleus and moves into the nucleus in response to hydrogen peroxide. Taken together, these results demonstrate that WLIM1a has dual roles in cotton fiber development, elongation, and secondary wall formation. Moreover, our study shows that lignin/lignin-like phenolics may substantially affect cotton fiber quality; this finding may guide cotton breeding for improved fiber traits. PMID:24220634

  17. PtrWRKY19, a novel WRKY transcription factor, contributes to the regulation of pith secondary wall formation in Populus trichocarpa

    PubMed Central

    Yang, Li; Zhao, Xin; Yang, Fan; Fan, Di; Jiang, Yuanzhong; Luo, Keming

    2016-01-01

    WRKY proteins are one of the largest transcription factor families in higher plants and play diverse roles in various biological processes. Previous studies have shown that some WRKY members act as negative regulators of secondary cell wall formation in pith parenchyma cells. However, the regulatory mechanism of pith secondary wall formation in tree species remains largely unknown. In this study, PtrWRKY19 encoding a homolog of Arabidopsis WRKY12 was isolated from Populus trichocarpa. PtrWRKY19 was expressed in all tissues tested, with highest expression in stems, especially in pith. PtrWRKY19 was located in the nucleus and functioned as a transcriptional repressor. Ectopic expression of PtrWRKY19 in an atwrky12 mutant successfully rescued the phenotype in pith cell walls caused by the defect of AtWRKY12, suggesting that PtrWRKY19 had conserved functions for homologous AtWRKY12. Overexpression of PtrWRKY19 in poplar plants led to a significant increase in the number of pith parenchyma cells. qRT-PCR analysis showed that lignin biosynthesis-related genes were repressed in transgenic plants. In transcient reporter assays, PtrWRKY19 was identified to repress transcription from the PtoC4H2 promoter containing the conserved W-box elements. These results indicated that PtrWRKY19 may function as a negative regulator of pith secondary wall formation in poplar. PMID:26819184

  18. Cell differentiation, secondary cell-wall formation and transformation of callus tissue of Pinus radiata D. Don.

    PubMed

    Möller, Ralf; McDonald, Armando G; Walter, Christian; Harris, Philip J

    2003-09-01

    Tracheid and sclereid differentiation was induced in callus cultures of Pinus radiata D. Don by culturing on a basal medium containing activated charcoal but no phytohormones; sclereids differentiated in callus derived from xylem strips, but not in callus derived from hypocotyl segments. The tracheids differentiated in hypocotyl-derived callus had helical, scalariform, reticulated or pitted secondary cell-wall patterns, but those differentiated in xylem-derived callus had a reticulate or pitted pattern. The thickened tracheid and sclereid walls contained lignin as indicated by the red colour reaction given with phloroglucinol-HCl. The presence of lignin in the cell walls of differentiated callus was confirmed using pyrolysis gas chromatography-mass spectrometry by the detection of phenylpropanoid components derived from lignin. Lignin was also detected using solid-state (13)C cross-polarisation/magic-angle spinning nuclear magnetic resonance spectroscopy and quantified as thioglycolic acid lignin. Monosaccharide analyses of the cell walls isolated from differentiated and undifferentiated calli showed that the cell walls of the differentiated calli contained higher proportions of glucose and mannose, consistent with the presence of greater proportions of gluco- and/or galactogluco-mannans in the secondary cell walls of the differentiated cells. A protocol for the stable transformation of undifferentiated, xylem-derived cultures was successfully developed. Transgenic cell lines were established following Biolistic particle bombardment with a plasmid containing the coding region of the nptII gene and the coding region of the cad gene from P. radiata. Expression of the nptII gene in transgenic lines was confirmed by an NPTII-enzyme-linked immunosorbent assay. The overexpression of cad in the transgenic lines resulted in a down-regulation of cinnamyl alcohol dehydrogenase (EC 1.1.1.195) expression. PMID:12811558

  19. Visualization of particle complexes in the plasma membrane of Micrasterias denticulata associated with the formation of cellulose fibrils in primary and secondary cell walls

    PubMed Central

    1980-01-01

    Highly ordered arrays of intramembrane particles are observed in freeze- fractured plasma membranes of the green alga Micrasterias denticulata during the synthesis of the secondary cell wall. The observable architecture of the complex consists primarily of a precise hexagonal array of from 3 to 175 rosettes, consisting of 6 particles each, which fracture with the P-face. The complexes are observed at the ends of impressions of cellulose fibrils. The distance between rows of rosettes is equal to the center-to-center distance between parallel cellulose fibrils of the secondary wall. Correlation of the structure of the complex with the pattern of deposition indicates that the size of a given fibril is proportional to the number of rosettes engaged in its formation. Vesicles containing hexagonal arrays of rosettes are found in the cytoplasm and can be observed in the process of fusing with the plasma membrane, suggesting that the complexes are first assembled in the cytoplasm and then incorporated into the plasma membrane, where they become active in fibril formation. Single rosettes appear to be responsible for the synthesis of microfibrils during primary wall growth. Similar rosettes have now been detected in a green alga, in fern protonemata, and in higher plant cells. This structure, therefore, probably represents a significant component of the cellulose synthesizing mechanism in a large variety of plant cells. PMID:7189756

  20. Visualization of particle complexes in the plasma membrane of Micrasterias denticulata associated with the formation of cellulose fibrils in primary and secondary cell walls.

    PubMed

    Giddings, T H; Brower, D L; Staehelin, L A

    1980-02-01

    Highly ordered arrays of intramembrane particles are observed in freeze-fractured plasma membranes of the green alga Micrasterias denticulata during the synthesis of the secondary cell wall. The observable architecture of the complex consists primarily of a precise hexagonal array of from 3 to 175 rosettes, consisting of 6 particles each, which fracture with the P-face. The complexes are observed at the ends of impressions of cellulose fibrils. The distance between rows of rosettes is equal to the center-to-center distance between parallel cellulose fibrils of the secondary wall. Correlation of the structure of the complex with the pattern of deposition indicates that the size of a given fibril is proportional to the number of rosettes engaged in its formation. Vesicles containing hexagonal arrays of rosettes are found in the cytoplasm and can be observed in the process of fusing with the plasma membrane, suggesting that the complexes are first assembled in the cytoplasm and then incorporated into the plasma membrane, where they become active in fibril formation. Single rosettes appear to be responsible for the synthesis of microfibrils during primary wall growth. Similar rosettes have now been detected in a green alga, in fern protonemata, and in higher plant cells. This structure, therefore, probably represents a significant component of the cellulose synthesizing mechanism in a large variety of plant cells. PMID:7189756

  1. Identification of lignin genes and regulatory sequences involved in secondary cell wall formation in Acacia auriculiformis and Acacia mangium via de novo transcriptome sequencing

    PubMed Central

    2011-01-01

    Background Acacia auriculiformis × Acacia mangium hybrids are commercially important trees for the timber and pulp industry in Southeast Asia. Increasing pulp yield while reducing pulping costs are major objectives of tree breeding programs. The general monolignol biosynthesis and secondary cell wall formation pathways are well-characterized but genes in these pathways are poorly characterized in Acacia hybrids. RNA-seq on short-read platforms is a rapid approach for obtaining comprehensive transcriptomic data and to discover informative sequence variants. Results We sequenced transcriptomes of A. auriculiformis and A. mangium from non-normalized cDNA libraries synthesized from pooled young stem and inner bark tissues using paired-end libraries and a single lane of an Illumina GAII machine. De novo assembly produced a total of 42,217 and 35,759 contigs with an average length of 496 bp and 498 bp for A. auriculiformis and A. mangium respectively. The assemblies of A. auriculiformis and A. mangium had a total length of 21,022,649 bp and 17,838,260 bp, respectively, with the largest contig 15,262 bp long. We detected all ten monolignol biosynthetic genes using Blastx and further analysis revealed 18 lignin isoforms for each species. We also identified five contigs homologous to R2R3-MYB proteins in other plant species that are involved in transcriptional regulation of secondary cell wall formation and lignin deposition. We searched the contigs against public microRNA database and predicted the stem-loop structures of six highly conserved microRNA families (miR319, miR396, miR160, miR172, miR162 and miR168) and one legume-specific family (miR2086). Three microRNA target genes were predicted to be involved in wood formation and flavonoid biosynthesis. By using the assemblies as a reference, we discovered 16,648 and 9,335 high quality putative Single Nucleotide Polymorphisms (SNPs) in the transcriptomes of A. auriculiformis and A. mangium, respectively, thus yielding

  2. Rolling-leaf14 is a 2OG-Fe (II) oxygenase family protein that modulates rice leaf rolling by affecting secondary cell wall formation in leaves.

    PubMed

    Fang, Likui; Zhao, Fangming; Cong, Yunfei; Sang, Xianchun; Du, Qing; Wang, Dezhong; Li, Yunfeng; Ling, Yinghua; Yang, Zhenglin; He, Guanghua

    2012-06-01

    As an important agronomic trait, leaf rolling in rice (Oryza sativa L.) has attracted much attention from plant biologists and breeders. Moderate leaf rolling increases the amount of photosynthesis in cultivars and hence raises grain yield. Here, we describe the map-based cloning of the gene RL14, which was found to encode a 2OG-Fe (II) oxygenase of unknown function. rl14 mutant plants had incurved leaves because of the shrinkage of bulliform cells on the adaxial side. In addition, rl14 mutant plants displayed smaller stomatal complexes and decreased transpiration rates, as compared with the wild type. Defective development could be rescued functionally by the expression of wild-type RL14. RL14 was transcribed in sclerenchymatous cells in leaves that remained wrapped inside the sheath. In mature leaves, RL14 accumulated mainly in the mesophyll cells that surround the vasculature. Expression of genes related to secondary cell wall formation was affected in rl14-1 mutants, and cellulose and lignin content were altered in rl14-1 leaves. These results reveal that the RL14 gene affects water transport in leaves by affecting the composition of the secondary cell wall. This change in water transport results in water deficiency, which is the major reason for the abnormal shape of the bulliform cells. PMID:22329407

  3. The role of HD-ZIP III transcription factors and miR165/166 in vascular development and secondary cell wall formation

    PubMed Central

    Du, Qian; Wang, Huanzhong

    2015-01-01

    The Arabidopsis vascular system is composed of xylem and phloem, which form a well-defined collateral pattern in vascular bundles. Xylary element and fibers develop secondary cell walls (SCWs) that provide mechanical strength to support plant growth and to transport water and minerals to all above ground organs. SCWs also constitute the majority of terrestrial biomass for biofuel production. The biosynthesis of secondary cell walls are known to be under transcriptional regulation. Transcription factors, such as NAC (NAM, ATAF1/2 and CUC2) and MYB domain proteins, serve as master regulators in SCW development. Recent studies indicated that Class III homeodomain leucine zipper transcription factors (HD-ZIP III TFs) and microRNA 165/166 (miR165/166) may play important roles in SCW formation. Here we discuss the diverse functions of miR165/166 and HD-ZIPIII in vascular development and their interaction with the regulatory pathways of SCW biosynthesis. PMID:26340415

  4. Visualization of cellulose synthases in Arabidopsis secondary cell walls.

    PubMed

    Watanabe, Y; Meents, M J; McDonnell, L M; Barkwill, S; Sampathkumar, A; Cartwright, H N; Demura, T; Ehrhardt, D W; Samuels, A L; Mansfield, S D

    2015-10-01

    Cellulose biosynthesis in plant secondary cell walls forms the basis of vascular development in land plants, with xylem tissues constituting the vast majority of terrestrial biomass. We used plant lines that contained an inducible master transcription factor controlling xylem cell fate to quantitatively image fluorescently tagged cellulose synthase enzymes during cellulose deposition in living protoxylem cells. The formation of secondary cell wall thickenings was associated with a redistribution and enrichment of CESA7-containing cellulose synthase complexes (CSCs) into narrow membrane domains. The velocities of secondary cell wall-specific CSCs were faster than those of primary cell wall CSCs during abundant cellulose production. Dynamic intracellular of endomembranes, in combination with increased velocity and high density of CSCs, enables cellulose to be synthesized rapidly in secondary cell walls. PMID:26450210

  5. Secondary cell walls: biosynthesis and manipulation.

    PubMed

    Kumar, Manoj; Campbell, Liam; Turner, Simon

    2016-01-01

    Secondary cell walls (SCWs) are produced by specialized plant cell types, and are particularly important in those cells providing mechanical support or involved in water transport. As the main constituent of plant biomass, secondary cell walls are central to attempts to generate second-generation biofuels. Partly as a consequence of this renewed economic importance, excellent progress has been made in understanding how cell wall components are synthesized. SCWs are largely composed of three main polymers: cellulose, hemicellulose, and lignin. In this review, we will attempt to highlight the most recent progress in understanding the biosynthetic pathways for secondary cell wall components, how these pathways are regulated, and how this knowledge may be exploited to improve cell wall properties that facilitate breakdown without compromising plant growth and productivity. While knowledge of individual components in the pathway has improved dramatically, how they function together to make the final polymers and how these individual polymers are incorporated into the wall remain less well understood. PMID:26663392

  6. Anther Wall Formation in Solanaceae Species

    PubMed Central

    CARRIZO GARCÍA, CAROLINA

    2002-01-01

    Anther wall formation was studied in 32 species belonging to 27 genera of Solanaceae. Dicotyledonous and basic types of wall formation were observed, as well as several deviations due to subsequent periclinal divisions in the layers formed (middle layers and sometimes the endothecium). One type of wall formation was observed in each species. Some genera are uniform in their type of wall formation, while others are heterogeneous; a similar situation was observed at the tribal level. Summarizing all reported information on anther wall formation in the Solanaceae, 64 % of species show the basic type, while the remaining 36 % show the dicotyledonous type. Thus, neither type predominates, and no single type characterizes genera, tribes or the entire family. PMID:12451025

  7. Cellulose-hemicellulose interaction in wood secondary cell-wall

    NASA Astrophysics Data System (ADS)

    Zhang, Ning; Li, Shi; Xiong, Liming; Hong, Yu; Chen, Youping

    2015-12-01

    The wood cell wall features a tough and relatively rigid fiber reinforced composite structure. It acts as a pressure vessel, offering protection against mechanical stress. Cellulose microfibrils, hemicellulose and amorphous lignin are the three major components of wood. The structure of secondary cell wall could be imagined as the same as reinforced concrete, in which cellulose microfibrils acts as reinforcing steel bar and hemicellulose-lignin matrices act as the concrete. Therefore, the interface between cellulose and hemicellulose/lignin plays a significant role in determine the mechanical behavior of wood secondary cell wall. To this end, we present a molecular dynamics (MD) simulation study attempting to quantify the strength of the interface between cellulose microfibrils and hemicellulose. Since hemicellulose binds with adjacent cellulose microfibrils in various patterns, the atomistic models of hemicellulose-cellulose composites with three typical binding modes, i.e. bridge, loop and random binding modes are constructed. The effect of the shape of hemicellulose chain on the strength of hemicellulose-cellulose composites under shear loadings is investigated. The contact area as well as hydrogen bonds between cellulose and hemicellulose, together with the covalent bonds in backbone of hemicellulose chain are found to be the controlling parameters which determine the strength of the interfaces in the composite system. For the bridge binding model, the effect of shear loading direction on the strength of the cellulose material is also studied. The obtained results suggest that the shear strength of wood-inspired engineering composites can be optimized through maximizing the formations of the contributing hydrogen bonds between cellulose and hemicellulose.

  8. The formation and evolution of domain walls

    NASA Technical Reports Server (NTRS)

    Press, William H.; Ryden, Barbara S.; Spergel, David N.

    1991-01-01

    Domain walls are sheet-like defects produced when the low energy vacuum has isolated degenerate minima. The researchers' computer code follows the evolution of a scalar field, whose dynamics are determined by its Lagrangian density. The topology of the scalar field determines the evolution of the domain walls. This approach treats both wall dynamics and reconnection. The researchers investigated not only potentials that produce single domain walls, but also potentials that produce a network of walls and strings. These networks arise in axion models where the U(1) Peccei-Quinn symmetry is broken into Z sub N discrete symmetries. If N equals 1, the walls are bounded by strings and the network quickly disappears. For N greater than 1, the network of walls and strings behaved qualitatively just as the wall network shown in the figures given here. This both confirms the researchers' pessimistic view that domain walls cannot play an important role in the formation of large scale structure and implies that axion models with multiple minimum can be cosmologically disastrous.

  9. An arabidopsis gene regulatory network for secondary cell wall synthesis

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The plant cell wall is an important factor for determining cell shape, function and response to the environment. Secondary cell walls, such as those found in xylem, are composed of cellulose, hemicelluloses and lignin and account for the bulk of plant biomass. The coordination between transcriptiona...

  10. An Arabidopsis Gene Regulatory Network for Secondary Cell Wall Synthesis

    PubMed Central

    Taylor-Teeples, M; Lin, L; de Lucas, M; Turco, G; Toal, TW; Gaudinier, A; Young, NF; Trabucco, GM; Veling, MT; Lamothe, R; Handakumbura, PP; Xiong, G; Wang, C; Corwin, J; Tsoukalas, A; Zhang, L; Ware, D; Pauly, M; Kliebenstein, DJ; Dehesh, K; Tagkopoulos, I; Breton, G; Pruneda-Paz, JL; Ahnert, SE; Kay, SA; Hazen, SP; Brady, SM

    2014-01-01

    Summary The plant cell wall is an important factor for determining cell shape, function and response to the environment. Secondary cell walls, such as those found in xylem, are composed of cellulose, hemicelluloses and lignin and account for the bulk of plant biomass. The coordination between transcriptional regulation of synthesis for each polymer is complex and vital to cell function. A regulatory hierarchy of developmental switches has been proposed, although the full complement of regulators remains unknown. Here, we present a protein-DNA network between Arabidopsis transcription factors and secondary cell wall metabolic genes with gene expression regulated by a series of feed-forward loops. This model allowed us to develop and validate new hypotheses about secondary wall gene regulation under abiotic stress. Distinct stresses are able to perturb targeted genes to potentially promote functional adaptation. These interactions will serve as a foundation for understanding the regulation of a complex, integral plant component. PMID:25533953

  11. Secondary organic aerosol formation of primary, secondary and tertiary Amines

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Amines have been widely identified in ambient aerosol in both urban and rural environments and they are potential precursors for formation of nitrogen-containing secondary organic aerosols (SOA). However, the role of amines in SOA formation has not been well studied. In this wrok, we use UC-Riversid...

  12. FORMATION OF SECONDARY ORGANIC AEROSOL

    EPA Science Inventory

    (1) Gas-phase chemistry. With the clear and profound effect of the VOC/NOx ratio on SOA formation, we will augment gas-phase VOC oxidation mechanisms in atmospheric models to account for the effect of NOx level on the mechanism of SOA formation; (2) Revis...

  13. Cellulose synthesis in two secondary cell wall processes in a single cell type

    PubMed Central

    Mendu, Venugopal; Stork, Jozsef; Harris, Darby; DeBolt, Seth

    2011-01-01

    Plant cells have a rigid cell wall that constrains internal turgor pressure yet extends in a regulated and organized manner to allow the cell to acquire shape. The primary load-bearing macromolecule of a plant cell wall is cellulose, which forms crystalline microfibrils that are organized with respect to a cell's function and shape requirements. A primary cell wall is deposited during expansion whereas secondary cell wall is synthesized post expansion during differentiation. A complex form of asymmetrical cellular differentiation occurs in Arabidopsis seed coat epidermal cells, where we have recently shown that two secondary cell wall processes occur that utilize different cellulose synthase (CESA) proteins. One process is to produce pectinaceous mucilage that expands upon hydration and the other is a radial wall thickening that reinforced the epidermal cell structure. Our data illustrate polarized specialization of CESA5 in facilitating mucilage attachment to the parent seed and CESA2, CESA5 and CESA9 in radial cell wall thickening and formation of the columella. Herein, we present a model for the complexity of cellulose biosynthesis in this highly differentiated cell type with further evidence supporting each cellulosic secondary cell wall process. PMID:22057330

  14. Processes and problems in secondary star formation

    SciTech Connect

    Klein, R.I.; Whitaker, R.W.; Sandford M.T. II

    1984-03-01

    Recent developments relating the conditions in molecular clouds to star formation triggered by a prior stellar generation are reviewed. Primary processes are those that lead to the formation of a first stellar generation. The secondary processes that produce stars in response to effects caused by existing stars are compared and evaluated in terms of the observational data presently available. We discuss the role of turbulence to produce clumpy cloud structures and introduce new work on colliding inter-cloud gas flows leading to non-linear inhomogeneous cloud structures in an intially smooth cloud. This clumpy morphology has important consequences for secondary formation. The triggering processes of supernovae, stellar winds, and H II regions are discussed with emphasis on the consequences for radiation driven implosion as a promising secondary star formation mechanism. Detailed two-dimensional, radiation-hydrodynamic calculations of radiation driven implosion are discussed. This mechanism is shown to be highly efficient in synchronizing the formation of new stars in congruent to 1-3 x 10/sup 4/ years and could account for the recent evidence for new massive star formation in several UCHII regions. It is concluded that, while no single theory adequately explains the variety of star formation observed, a uniform description of star formation is likely to involve several secondary processes. Advances in the theory of star formation will require multiple dimensional calculations of coupled processes. The important non-linear interactions include hydrodynamics, radiation transport, and magnetic fields.

  15. A zoom into the nanoscale texture of secondary cell walls

    PubMed Central

    2014-01-01

    Background Besides classical utilization of wood and paper, lignocellulosic biomass has become increasingly important with regard to biorefinery, biofuel production and novel biomaterials. For these new applications the macromolecular assembly of cell walls is of utmost importance and therefore further insights into the arrangement of the molecules on the nanolevel have to be gained. Cell wall recalcitrance against enzymatic degradation is one of the key issues, since an efficient degradation of lignocellulosic plant material is probably the most crucial step in plant conversion to energy. A limiting factor for in-depth analysis is that high resolution characterization techniques provide structural but hardly chemical information (e.g. Transmission Electron Microscopy (TEM), Atomic Force Microscopy (AFM)), while chemical characterization leads to a disassembly of the cell wall components or does not reach the required nanoscale resolution (Fourier Tranform Infrared Spectroscopy (FT-IR), Raman Spectroscopy). Results Here we use for the first time Scanning Near-Field Optical Microscopy (SNOM in reflection mode) on secondary plant cell walls and reveal a segmented circumferential nanostructure. This pattern in the 100 nm range was found in the secondary cell walls of a softwood (spruce), a hardwood (beech) and a grass (bamboo) and is thus concluded to be consistent among various plant species. As the nanostructural pattern is not visible in classical AFM height and phase images it is proven that the contrast is not due to changes in surfaces topography, but due to differences in the molecular structure. Conclusions Comparative analysis of model substances of casted cellulose nanocrystals and spin coated lignin indicate, that the SNOM signal is clearly influenced by changes in lignin distribution or composition. Therefore and based on the known interaction of lignin and visible light (e.g. fluorescence and resonance effects), we assume the elucidated nanoscale

  16. Organosulfate Formation in Biogenic Secondary Organic Aerosol

    EPA Science Inventory

    Organosulfates of isoprene, α-pinene, and β-pinene have recently been identified in both laboratory-generated and ambient secondary organic aerosol (SOA). In this study, the mechanism and ubiquity of organosulfate formation in biogenic SOA is investigated by a comprehensive seri...

  17. Navigating the transcriptional roadmap regulating plant secondary cell wall deposition

    PubMed Central

    Hussey, Steven G.; Mizrachi, Eshchar; Creux, Nicky M.; Myburg, Alexander A.

    2013-01-01

    The current status of lignocellulosic biomass as an invaluable resource in industry, agriculture, and health has spurred increased interest in understanding the transcriptional regulation of secondary cell wall (SCW) biosynthesis. The last decade of research has revealed an extensive network of NAC, MYB and other families of transcription factors regulating Arabidopsis SCW biosynthesis, and numerous studies have explored SCW-related transcription factors in other dicots and monocots. Whilst the general structure of the Arabidopsis network has been a topic of several reviews, they have not comprehensively represented the detailed protein–DNA and protein–protein interactions described in the literature, and an understanding of network dynamics and functionality has not yet been achieved for SCW formation. Furthermore the methodologies employed in studies of SCW transcriptional regulation have not received much attention, especially in the case of non-model organisms. In this review, we have reconstructed the most exhaustive literature-based network representations to date of SCW transcriptional regulation in Arabidopsis. We include a manipulable Cytoscape representation of the Arabidopsis SCW transcriptional network to aid in future studies, along with a list of supporting literature for each documented interaction. Amongst other topics, we discuss the various components of the network, its evolutionary conservation in plants, putative modules and dynamic mechanisms that may influence network function, and the approaches that have been employed in network inference. Future research should aim to better understand network function and its response to dynamic perturbations, whilst the development and application of genome-wide approaches such as ChIP-seq and systems genetics are in progress for the study of SCW transcriptional regulation in non-model organisms. PMID:24009617

  18. Lignin Formation in Wheat Coleoptile Cell Walls

    PubMed Central

    Whitmore, F. W.

    1971-01-01

    Four growth-influencing compounds—hydroxyproline, 2,2′-dipyridyl, 2-chloroethylphosphonic acid, and indoleacetic acid—were used to examine the relationship between lignin formation and growth of wheat coleoptile sections. Hydroxyproline and 2-chloroethylphosphonic acid, at low concentrations, inhibited growth and increased lignin content. Dipyridyl, which promoted coleoptile elongation, decreased lignin content. Indoleacetic acid caused a 300% increase in growth at 0.1 mm but resulted in lignin content no different from controls with no auxin. Chemical and anatomical evidence is given which indicates that lignin is present in the epidermal cell walls of the wheat coleoptile. It is thus possible that bonding between lignin and hemicellulose may have some influence on coleoptile growth. Images PMID:16657843

  19. Arabidopsis Fragile Fiber8, Which Encodes a Putative Glucuronyltransferase, Is Essential for Normal Secondary Wall Synthesis

    PubMed Central

    Zhong, Ruiqin; Peña, Maria J.; Zhou, Gong-Ke; Nairn, C. Joseph; Wood-Jones, Alicia; Richardson, Elizabeth A.; Morrison, W. Herbert; Darvill, Alan G.; York, William S.; Ye, Zheng-Hua

    2005-01-01

    Secondary walls in vessels and fibers of dicotyledonous plants are mainly composed of cellulose, xylan, and lignin. Although genes involved in biosynthesis of cellulose and lignin have been intensively studied, little is known about genes participating in xylan synthesis. We found that Arabidopsis thaliana fragile fiber8 (fra8) is defective in xylan synthesis. The fra8 mutation caused a dramatic reduction in fiber wall thickness and a decrease in stem strength. FRA8 was found to encode a member of glycosyltransferase family 47 and exhibits high sequence similarity to tobacco (Nicotiana plumbaginifolia) pectin glucuronyltransferase. FRA8 is expressed specifically in developing vessels and fiber cells, and FRA8 is targeted to Golgi. Comparative analyses of cell wall polysaccharide fractions from fra8 and wild-type stems showed that the xylan and cellulose contents are drastically reduced in fra8, whereas xyloglucan and pectin are elevated. Further structural analysis of cell walls revealed that although wild-type xylans contain both glucuronic acid and 4-O-methylglucuronic acid residues, xylans from fra8 retain only 4-O-methylglucuronic acid, indicating that the fra8 mutation results in a specific defect in the addition of glucuronic acid residues onto xylans. These findings suggest that FRA8 is a glucuronyltransferase involved in the biosynthesis of glucuronoxylan during secondary wall formation. PMID:16272433

  20. Arabidopsis histidine-containing phosphotransfer factor 4 (AHP4) negatively regulates secondary wall thickening of the anther endothecium during flowering.

    PubMed

    Jung, Kwang Wook; Oh, Seung-Ick; Kim, Yun Young; Yoo, Kyoung Shin; Cui, Mei Hua; Shin, Jeong Sheop

    2008-04-30

    Cytokinins are essential hormones in plant development. Arabidopsis histidine-containing phosphotransfer proteins (AHPs) are mediators in a multistep phosphorelay pathway for cytokinin signaling. The exact role of AHP4 has not been elucidated. In this study, we demonstrated young flower-specific expression of AHP4, and compared AHP4-overexpressing (Ox) trangenic Arabidopsis lines and an ahp4 knock-out line. AHP4-Ox plants had reduced fertility due to a lack of secondary cell wall thickening in the anther endothecium and inhibition of IRREGURAR XYLEMs (IRXs) expression in young flowers. Conversely, ahp4 anthers had more lignified anther walls than the wild type, and increased IRXs expression. Our study indicates that AHP4 negatively regulates thickening of the secondary cell wall of the anther endothecium, and provides new insight into the role of cytokinins in formation of secondary cell walls via the action of AHP4. PMID:18413999

  1. Secondary structure formation in peptide amphiphile micelles

    NASA Astrophysics Data System (ADS)

    Tirrell, Matthew

    2012-02-01

    Peptide amphiphiles (PAs) are capable of self-assembly into micelles for use in the targeted delivery of peptide therapeutics and diagnostics. PA micelles exhibit a structural resemblance to proteins by having folded bioactive peptides displayed on the exterior of a hydrophobic core. We have studied two factors that influence PA secondary structure in micellar assemblies: the length of the peptide headgroup and amino acids closest to the micelle core. Peptide length was systematically varied using a heptad repeat PA. For all PAs the addition of a C12 tail induced micellization and secondary structure. PAs with 9 amino acids formed beta-sheet interactions upon aggregation, whereas the 23 and 30 residue peptides were displayed in an apha-helical conformation. The 16 amino acid PA experienced a structural transition from helix to sheet, indicating that kinetics play a role in secondary structure formation. A p53 peptide was conjugated to a C16 tail via various linkers to study the effect of linker chemistry on PA headgroup conformation. With no linker the p53 headgroup was predominantly alpha helix and a four alanine linker drastically changed the structure of the peptide headgroup to beta-sheet, highlighting the importance of hydrogen boding potential near the micelle core.

  2. Chemistry of secondary organic aerosol formation

    NASA Astrophysics Data System (ADS)

    Yee, Lindsay Diana

    The photooxidation of volatile organic compounds (VOCs) in the atmosphere can lead to the formation of secondary organic aerosol (SOA), a major component of fine particulate matter. Improvements to air quality require insight into the many reactive intermediates that lead to SOA formation, of which only a small fraction have been measured at the molecular level. This thesis describes the chemistry of secondary organic aerosol (SOA) formation from several atmospherically relevant hydrocarbon precursors. Photooxidation experiments of methoxyphenol and phenolic compounds and C12 alkanes were conducted in the Caltech Environmental Chamber. These experiments include the first photooxidation studies of these precursors run under sufficiently low NOx levels, such that RO2 + HO2 chemistry dominates, an important chemical regime in the atmosphere. Using online Chemical Ionization Mass Spectrometery (CIMS), key gas-phase intermediates that lead to SOA formation in these systems were identified. With complementary particle-phase analyses, chemical mechanisms elucidating the SOA formation from these compounds are proposed. Three methoxyphenol species (phenol, guaiacol, and syringol) were studied to model potential photooxidation schemes of biomass burning intermediates. SOA yields (ratio of mass of SOA formed to mass of primary organic reacted) exceeding 25% are observed. Aerosol growth is rapid and linear with the organic conversion, consistent with the formation of essentially non-volatile products. Gas and aerosol-phase oxidation products from the guaiacol system show that the chemical mechanism consists of highly oxidized aromatic species in the particle phase. Syringol SOA yields are lower than that of phenol and guaiacol, likely due to unique chemistry dependent on methoxy group position. The photooxidation of several C12 alkanes of varying structure n-dodecane, 2-methylundecane, cyclododecane, and hexylcyclohexane) were run under extended OH exposure to investigate the

  3. Characterization of microRNAs Expressed during Secondary Wall Biosynthesis in Acacia mangium

    PubMed Central

    Ong, Seong Siang; Wickneswari, Ratnam

    2012-01-01

    MicroRNAs (miRNAs) play critical regulatory roles by acting as sequence specific guide during secondary wall formation in woody and non-woody species. Although thousands of plant miRNAs have been sequenced, there is no comprehensive view of miRNA mediated gene regulatory network to provide profound biological insights into the regulation of xylem development. Herein, we report the involvement of six highly conserved amg-miRNA families (amg-miR166, amg-miR172, amg-miR168, amg-miR159, amg-miR394, and amg-miR156) as the potential regulatory sequences of secondary cell wall biosynthesis. Within this highly conserved amg-miRNA family, only amg-miR166 exhibited strong differences in expression between phloem and xylem tissue. The functional characterization of amg-miR166 targets in various tissues revealed three groups of HD-ZIP III: ATHB8, ATHB15, and REVOLUTA which play pivotal roles in xylem development. Although these three groups vary in their functions, -psRNA target analysis indicated that miRNA target sequences of the nine different members of HD-ZIP III are always conserved. We found that precursor structures of amg-miR166 undergo exhaustive sequence variation even within members of the same family. Gene expression analysis showed three key lignin pathway genes: C4H, CAD, and CCoAOMT were upregulated in compression wood where a cascade of miRNAs was downregulated. This study offers a comprehensive analysis on the involvement of highly conserved miRNAs implicated in the secondary wall formation of woody plants. PMID:23251324

  4. Characterization of microRNAs expressed during secondary wall biosynthesis in Acacia mangium.

    PubMed

    Ong, Seong Siang; Wickneswari, Ratnam

    2012-01-01

    MicroRNAs (miRNAs) play critical regulatory roles by acting as sequence specific guide during secondary wall formation in woody and non-woody species. Although thousands of plant miRNAs have been sequenced, there is no comprehensive view of miRNA mediated gene regulatory network to provide profound biological insights into the regulation of xylem development. Herein, we report the involvement of six highly conserved amg-miRNA families (amg-miR166, amg-miR172, amg-miR168, amg-miR159, amg-miR394, and amg-miR156) as the potential regulatory sequences of secondary cell wall biosynthesis. Within this highly conserved amg-miRNA family, only amg-miR166 exhibited strong differences in expression between phloem and xylem tissue. The functional characterization of amg-miR166 targets in various tissues revealed three groups of HD-ZIP III: ATHB8, ATHB15, and REVOLUTA which play pivotal roles in xylem development. Although these three groups vary in their functions, -psRNA target analysis indicated that miRNA target sequences of the nine different members of HD-ZIP III are always conserved. We found that precursor structures of amg-miR166 undergo exhaustive sequence variation even within members of the same family. Gene expression analysis showed three key lignin pathway genes: C4H, CAD, and CCoAOMT were upregulated in compression wood where a cascade of miRNAs was downregulated. This study offers a comprehensive analysis on the involvement of highly conserved miRNAs implicated in the secondary wall formation of woody plants. PMID:23251324

  5. The PARVUS gene is expressed in cells undergoing secondary wall thickening and essential for glucuronoxylan biosynthesis

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Xylan together with cellulose and lignin are the three major components of secondary walls in wood and elucidation of the biosynthetic pathway of xylan is of importance for potential modification of secondary wall composition to produce wood with improved properties. So far, three Arabidopsis glycos...

  6. NAC-MYB-based transcriptional regulation of secondary cell wall biosynthesis in land plants

    PubMed Central

    Nakano, Yoshimi; Yamaguchi, Masatoshi; Endo, Hitoshi; Rejab, Nur Ardiyana; Ohtani, Misato

    2015-01-01

    Plant cells biosynthesize primary cell walls (PCW) in all cells and produce secondary cell walls (SCWs) in specific cell types that conduct water and/or provide mechanical support, such as xylem vessels and fibers. The characteristic mechanical stiffness, chemical recalcitrance, and hydrophobic nature of SCWs result from the organization of SCW-specific biopolymers, i.e., highly ordered cellulose, hemicellulose, and lignin. Synthesis of these SCW-specific biopolymers requires SCW-specific enzymes that are regulated by SCW-specific transcription factors. In this review, we summarize our current knowledge of the transcriptional regulation of SCW formation in plant cells. Advances in research on SCW biosynthesis during the past decade have expanded our understanding of the transcriptional regulation of SCW formation, particularly the functions of the NAC and MYB transcription factors. Focusing on the NAC-MYB-based transcriptional network, we discuss the regulatory systems that evolved in land plants to modify the cell wall to serve as a key component of structures that conduct water and provide mechanical support. PMID:25999964

  7. The irregular xylem 2 mutant is an allele of korrigan that affects the secondary cell wall of Arabidopsis thaliana.

    PubMed

    Szyjanowicz, Pio M J; McKinnon, Iain; Taylor, Neil G; Gardiner, John; Jarvis, Mike C; Turner, Simon R

    2004-03-01

    The irregular xylem 2 (irx2) mutant of Arabidopsis thaliana exhibits a cellulose deficiency in the secondary cell wall, which is brought about by a point mutation in the KORRIGAN (KOR) beta,1-4 endoglucanase (beta,1-4 EGase) gene. Measurement of the total crystalline cellulose in the inflorescence stem indicates that the irx2 mutant contains approximately 30% of the level present in the wild type (WT). Fourier-Transform Infra Red (FTIR) analysis, however, indicates that there is no decrease in cellulose in primary cell walls of the cortical and epidermal cells of the stem. KOR expression is correlated with cellulose synthesis and is highly expressed in cells synthesising a secondary cell wall. Co-precipitation experiments, using either an epitope-tagged form of KOR or IRX3 (AtCesA7), suggest that KOR is not an integral part of the cellulose synthase complex. These data are supported by immunolocalisation of KOR that suggests that KOR does not localise to sites of secondary cell wall deposition in the developing xylem. The defect in irx2 plant is consistent with a role for KOR in the later stages of secondary cell wall formation, suggesting a role in processing of the growing microfibrils or release of the cellulose synthase complex. PMID:14871312

  8. Suppression of xylan endotransglycosylase PtxtXyn10A affects cellulose microfibril angle in secondary wall in aspen wood.

    PubMed

    Derba-Maceluch, Marta; Awano, Tatsuya; Takahashi, Junko; Lucenius, Jessica; Ratke, Christine; Kontro, Inkeri; Busse-Wicher, Marta; Kosik, Ondrej; Tanaka, Ryo; Winzéll, Anders; Kallas, Åsa; Leśniewska, Joanna; Berthold, Fredrik; Immerzeel, Peter; Teeri, Tuula T; Ezcurra, Ines; Dupree, Paul; Serimaa, Ritva; Mellerowicz, Ewa J

    2015-01-01

    Certain xylanases from family GH10 are highly expressed during secondary wall deposition, but their function is unknown. We carried out functional analyses of the secondary-wall specific PtxtXyn10A in hybrid aspen (Populus tremula × tremuloides). PtxtXyn10A function was analysed by expression studies, overexpression in Arabidopsis protoplasts and by downregulation in aspen. PtxtXyn10A overexpression in Arabidopsis protoplasts resulted in increased xylan endotransglycosylation rather than hydrolysis. In aspen, the enzyme was found to be proteolytically processed to a 68 kDa peptide and residing in cell walls. Its downregulation resulted in a corresponding decrease in xylan endotransglycosylase activity and no change in xylanase activity. This did not alter xylan molecular weight or its branching pattern but affected the cellulose-microfibril angle in wood fibres, increased primary growth (stem elongation, leaf formation and enlargement) and reduced the tendency to form tension wood. Transcriptomes of transgenic plants showed downregulation of tension wood related genes and changes in stress-responsive genes. The data indicate that PtxtXyn10A acts as a xylan endotransglycosylase and its main function is to release tensional stresses arising during secondary wall deposition. Furthermore, they suggest that regulation of stresses in secondary walls plays a vital role in plant development. PMID:25307149

  9. Formation of charged ferroelectric domain walls with controlled periodicity.

    PubMed

    Bednyakov, Petr S; Sluka, Tomas; Tagantsev, Alexander K; Damjanovic, Dragan; Setter, Nava

    2015-01-01

    Charged domain walls in proper ferroelectrics were shown recently to possess metallic-like conductivity. Unlike conventional heterointerfaces, these walls can be displaced inside a dielectric by an electric field, which is of interest for future electronic circuitry. In addition, theory predicts that charged domain walls may influence the electromechanical response of ferroelectrics, with strong enhancement upon increased charged domain wall density. The existence of charged domain walls in proper ferroelectrics is disfavoured by their high formation energy and methods of their preparation in predefined patterns are unknown. Here we develop the theoretical background for the formation of charged domain walls in proper ferroelectrics using energy considerations and outline favourable conditions for their engineering. We experimentally demonstrate, in BaTiO3 single crystals the controlled build-up of high density charged domain wall patterns, down to a spacing of 7 μm with a predominant mixed electronic and ionic screening scenario, hinting to a possible exploitation of charged domain walls in agile electronics and sensing devices. PMID:26516026

  10. Formation of charged ferroelectric domain walls with controlled periodicity

    PubMed Central

    Bednyakov, Petr S.; Sluka, Tomas; Tagantsev, Alexander K.; Damjanovic, Dragan; Setter, Nava

    2015-01-01

    Charged domain walls in proper ferroelectrics were shown recently to possess metallic-like conductivity. Unlike conventional heterointerfaces, these walls can be displaced inside a dielectric by an electric field, which is of interest for future electronic circuitry. In addition, theory predicts that charged domain walls may influence the electromechanical response of ferroelectrics, with strong enhancement upon increased charged domain wall density. The existence of charged domain walls in proper ferroelectrics is disfavoured by their high formation energy and methods of their preparation in predefined patterns are unknown. Here we develop the theoretical background for the formation of charged domain walls in proper ferroelectrics using energy considerations and outline favourable conditions for their engineering. We experimentally demonstrate, in BaTiO3 single crystals the controlled build-up of high density charged domain wall patterns, down to a spacing of 7 μm with a predominant mixed electronic and ionic screening scenario, hinting to a possible exploitation of charged domain walls in agile electronics and sensing devices. PMID:26516026

  11. Arabidopsis NMD3 Is Required for Nuclear Export of 60S Ribosomal Subunits and Affects Secondary Cell Wall Thickening

    PubMed Central

    Chen, Mei-Qin; Zhang, Ai-Hong; Zhang, Quan; Zhang, Bao-Cai; Nan, Jie; Li, Xia; Liu, Na; Qu, Hong; Lu, Cong-Ming; Sudmorgen; Zhou, Yi-Hua; Xu, Zhi-Hong; Bai, Shu-Nong

    2012-01-01

    NMD3 is required for nuclear export of the 60S ribosomal subunit in yeast and vertebrate cells, but no corresponding function of NMD3 has been reported in plants. Here we report that Arabidopsis thaliana NMD3 (AtNMD3) showed a similar function in the nuclear export of the 60S ribosomal subunit. Interference with AtNMD3 function by overexpressing a truncated dominant negative form of the protein lacking the nuclear export signal sequence caused retainment of the 60S ribosomal subunits in the nuclei. More interestingly, the transgenic Arabidopsis with dominant negative interference of AtNMD3 function showed a striking failure of secondary cell wall thickening, consistent with the altered expression of related genes and composition of cell wall components. Observation of a significant decrease of rough endoplasmic reticulum (RER) in the differentiating interfascicular fiber cells of the transgenic plant stems suggested a link between the defective nuclear export of 60S ribosomal subunits and the abnormal formation of the secondary cell wall. These findings not only clarified the evolutionary conservation of NMD3 functions in the nuclear export of 60S ribosomal subunits in yeast, animals and plants, but also revealed a new facet of the regulatory mechanism underlying secondary cell wall thickening in Arabidopsis. This new facet is that the nuclear export of 60S ribosomal subunits and the formation of RER may play regulatory roles in coordinating protein synthesis in cytoplasm and transcription in nuclei. PMID:22558264

  12. Characterizing the formation of secondary organic aerosols

    SciTech Connect

    Lunden, Melissa; Black, Douglas; Brown, Nancy

    2004-02-01

    combination of the aerosol and gas phase data, will continue to provide important information on the extent to which biogenic emissions contribute to secondary organic aerosol and may elucidate important interactions between anthropogenic and biogenic sources. The results of these studies, performed in the field, will contribute to the growing effort to produce robust models for particulate formation that are necessary for air quality planning and source apportionment.

  13. Effect of Compliant Walls on Secondary Instabilities in Boundary-Layer Transition

    NASA Technical Reports Server (NTRS)

    Joslin, Ronald D.; Morris, Philip J.

    1991-01-01

    For aerodynamic and hydrodynamic vehicles, it is highly desirable to reduce drag and noise levels. A reduction in drag leads to fuel savings. In particular for submersible vehicles, a decrease in noise levels inhibits detection. A suggested means to obtain these reduction goals is by delaying the transition from laminar to turbulent flow in external boundary layers. For hydrodynamic applications, a passive device which shows promise for transition delays is the compliant coating. In previous studies with a simple mechanical model representing the compliant wall, coatings were found that provided transition delays as predicted from the semi-empirical e(sup n) method. Those studies were concerned with the linear stage of transition where the instability of concern is referred to as the primary instability. For the flat-plate boundary layer, the Tollmien-Schlichting (TS) wave is the primary instability. In one of those studies, it was shown that three-dimensional (3-D) primary instabilities, or oblique waves, could dominate transition over the coatings considered. From the primary instability, the stretching and tilting of vorticity in the shear flow leads to a secondary instability mechanism. This has been theoretical described by Herbert based on Floquet theory. In the present study, Herbert's theory is used to predict the development of secondary instabilities over isotropic and non-isotropic compliant walls. Since oblique waves may be dominant over compliant walls, a secondary theory extention is made to allow for these 3-D primary instabilities. The effect of variations in primary amplitude, spanwise wavenumber, and Reynolds number on the secondary instabilities are examined. As in the rigid wall case, over compliant walls the subharmonic mode of secondary instability dominates for low-amplitude primary disturbances. Both isotropic and non-isotropic compliant walls lead to reduced secondary growth rates compared to the rigid wall results. For high frequencies

  14. Secondary instability of high-speed flows and the influence of wall cooling and suction

    NASA Technical Reports Server (NTRS)

    El-Hady, Nabil M.

    1992-01-01

    The periodic streamwise modulation of the supersonic and hypersonic boundary layers by a two-dimensional first-mode or second-mode wave makes the resulting base flow susceptible to a broadband spanwise-periodic three-dimensional type of instability. The principal parametric resonance of this instability (subharmonic) has been analyzed using Floquet theory. The effect of Mach number and the effectiveness of wall cooling or wall suction in controlling the onset, the growth rate, and the vortical structure of the subharmonic secondary instability are assessed for both a first-mode and a second-mode primary wave. Results indicate that the secondary subharmonic instability of an insulated wall boundary layer is weakened as Mach number increases. Cooling of the wall destabilizes the secondary subharmonic of a second-mode primary wave, but stabilizes it when the primary wave is a first mode. Suction stabilizes the secondary subharmonic at all Mach numbers.

  15. Secondary instability of high-speed flows and the influence of wall cooling and suction

    NASA Technical Reports Server (NTRS)

    El-Hady, Nabil M.

    1992-01-01

    The periodic streamwise modulation of the supersonic and hypersonic boundary layers by a two dimensional first mode or second mode wave makes the resulting base flow susceptible to a broadband spanwise-periodic three dimensional type of instability. The principal parametric resonance of this instability (subharmonic) was analyzed using Floquet theory. The effect of Mach number and the effectiveness of wall cooling or wall suction in controlling the onset, the growth rate, and the vortical nature of the subharmonic secondary instability are assessed for both a first mode and a second mode primary wave. Results indicate that the secondary subharmonic instability of the insulated wall boundary layer is weakened as Mach number increases. Cooling of the wall destabilizes the secondary subharmonic of a second mode primary wave, but stabilizes it when the primary wave is a first mode. Suction stabilizes the secondary subharmonic at all Mach numbers.

  16. Regulation of auxin on secondary cell wall cellulose biosynthesis in developing cotton fibers

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Cotton (Gossypium hirsutum L.) fibers are unicellular trichomes that differentiate from epidermal cells of developing cotton ovules. Mature fibers exhibit thickened secondary walls composed of nearly pure cellulose. Cotton fiber development is divided into four overlapping phases, 1) initiation sta...

  17. Comparative structure and biomechanics of plant primary and secondary cell walls

    PubMed Central

    Cosgrove, Daniel J.; Jarvis, Michael C.

    2012-01-01

    Recent insights into the physical biology of plant cell walls are reviewed, summarizing the essential differences between primary and secondary cell walls and identifying crucial gaps in our knowledge of their structure and biomechanics. Unexpected parallels are identified between the mechanism of expansion of primary cell walls during growth and the mechanisms by which hydrated wood deforms under external tension. There is a particular need to revise current “cartoons” of plant cell walls to be more consistent with data from diverse approaches and to go beyond summarizing limited aspects of cell walls, serving instead as guides for future experiments and for the application of new techniques. PMID:22936943

  18. Mesenchymal Wnt Signaling Promotes Formation of Sternum and Thoracic Body Wall

    PubMed Central

    Snowball, John; Ambalavanan, Manoj; Cornett, Bridget; Lang, Richard; Whitsett, Jeff; Sinner, Debora

    2015-01-01

    Midline defects account for approximately 5% of congenital abnormalities observed at birth. However, the molecular mechanisms underlying the formation of the ventral body wall are not well understood. Recent studies linked mutations in Porcupine—an O-acetyl transferase mediating Wnt ligand acylation—with defects in the thoracic body wall. We hypothesized that anomalous Wnt signaling is involved in the pathogenesis of defective closure of the thoracic body wall. We generated a mouse model wherein Wntless (Wls), which encodes a cargo receptor mediating secretion of Wnt ligands, was conditionally deleted from the developing mesenchyme using Dermo1Cre mice. Wlsf/f;Dermo1Cre/+ embryos died during mid-gestation. At E13.5, skeletal defects were observed in the forelimbs, jaw, and rib cage. At E14.5, midline defects in the thoracic body wall began to emerge: the sternum failed to fuse and the heart protruded through the body wall at the midline (ectopia cordis). To determine the molecular mechanism underlying the phenotype observed in Wlsf/f;Dermo1Cre/+ embryos, we tested whether Wnt/β-catenin signaling was operative in developing the embryonic ventral body wall using Axin2LacZ and BatGal reporter mice. While Wnt/β-catenin signaling activity was observed at the midline of the ventral body wall before sternal fusion, this pattern of activity was altered and scattered throughout the body wall after mesenchymal deletion of Wls. Mesenchymal cell migration was disrupted in Wlsf/f;Dermo1Cre/+ thoracic body wall partially due to anomalous non-canonical Wnt signaling as determined by in vitro assays. Deletion of Lrp5 and Lrp6 receptors, which mediate Wnt/β-catenin signaling in the mesenchyme, partially recapitulated the phenotype observed in the chest midline of Wlsf/f;Dermo1Cre/+ embryos supporting a role for Wnt/β-catenin signaling activity in the normal formation of the ventral body wall mesenchyme. We conclude that Wls-mediated secretion of Wnt ligands from the

  19. The toughness of secondary cell wall and woody tissue

    PubMed Central

    Lucas, P. W.; Tan, H. T. W.; Cheng, P. Y.

    1997-01-01

    The 'across grain' toughness of 51 woods has been determined on thin wet sections using scissors. The moisture content of sections and the varying sharpness of the scissor blades had little effect on the results. In thin sections (less than 0.6mm), toughness rose linearly with section thickness. The intercept toughness at zero thickness, estimated from regression analysis, was proportional to relative density, consistent with values reported for non-woody plant tissues. Extrapolation of the intercept toughness of these woods and other plant tissues/materials to a relative density of 1.0 predicted a toughness of 3.45kJ m-2 , which we identify with the intrinsic toughness of the cell wall. This quantity appears to predict published results from KIC tests on woods and is related to the propensity for crack deflection. The slope of the relationship between section thickness and toughness, describing the work of plastic buckling of cells, was not proportional to relative density, the lightest (balsa) and heaviest (lignum vitae) woods fracturing with less plastic work than predicted. The size of the plastic zone around the crack tip was estimated to be 0.5mm in size. From this, the hypothetical overall toughness of a thick (greater than 1 mm) block of solid cell wall material was calculated as 39.35 kJ m-2, due to both cell wall resistance (10 per cent) and the plastic buckling of cells (90 per cent). This value successfully predicts the toughness of most commercial woods (of relative densities between 0.2 and 0.8) from 'work area' tests in tension and bending. Though density was the most important factor, both fibre width/fibre length (in hardwoods) and lignin/cellulose ratios were negatively correlated with the work of plastic buckling, after correcting for density. At low densities the work of plastic buckling in the longitudinal radial (LR) direction exceeded that in longitudinal tangential (LT), but the reverse was true for relative densities above 0.25. This could

  20. Regulation of secondary cell wall biosynthesis by poplar R2R3 MYB transcription factor PtrMYB152 in Arabidopsis

    SciTech Connect

    Wang, Shucai; Li, Eryang; Porth, Ilga; Chen, Jin-Gui; Mansfield, Shawn D.; Douglas, Carl

    2014-05-23

    Poplar has 192 annotated R2R3 MYB genes, of which only three have been shown to play a role in the regulation of secondary cell wall formation. Here we report the characterization of PtrMYB152, a poplar homolog of the Arabidopsis R2R3 MYB transcription factor AtMYB43, in the regulation of secondary cell wall biosynthesis. The expression of PtrMYB152 in secondary xylem is about 18 times of that in phloem. When expressed in Arabidopsis under the control of either 35S or PtrCesA8 promoters, PtrMYB152 increased secondary cell wall thickness, which is likely caused by increased lignification. Accordingly, elevated expression of genes encoding sets of enzymes in secondary wall biosynthesis were observed in transgenic plants expressing PtrMYB152. Arabidopsis protoplast transfection assays suggested that PtrMYB152 functions as a transcriptional activator. Taken together, our results suggest that PtrMYB152 may be part of a regulatory network activating expression of discrete sets of secondary cell wall biosynthesis genes.

  1. CEF1/OsMYB103L is involved in GA-mediated regulation of secondary wall biosynthesis in rice.

    PubMed

    Ye, Yafeng; Liu, Binmei; Zhao, Meng; Wu, Kun; Cheng, Weimin; Chen, Xiangbin; Liu, Qian; Liu, Zan; Fu, Xiangdong; Wu, Yuejin

    2015-11-01

    Although the main genes in rice involved in the biosynthesis of secondary wall components have been characterized, the molecular mechanism underlying coordinated regulation of genes expression is not clear. In this study, we reported a new rice variety, cef1, showed the culm easily fragile (CEF) without other concomitant phenotypes. The CEF1 gene encodes a MYB family transcription factor OsMYB103L, was cloned based on map-based approach. Bioinformatics analyses indicated that CEF1 belongs to the R2R3-MYB subfamily and highly similar to Arabidopsis AtMYB103. Expression pattern analysis indicated that CEF1 is mainly expressed in internodes and panicles. Biochemical assays demonstrated that OsMYB103L is a nuclear protein and shows high transcriptional activation activity at C-terminus. OsMYB103L mediates cellulose biosynthesis and secondary walls formation mainly through directly binding the CESA4, CESA7, CESA9 and BC1 promoters and regulating their expression. OsMYB103L may also function as a master switch to regulate the expression of several downstream TFs, which involved in secondary cell wall biosynthesis. Furthermore, OsMYB103L physically interacts with SLENDER RICE1 (SLR1), a DELLA repressor of GA signaling, and involved in GA-mediated regulation of cellulose synthesis pathway. Our findings revealed that OsMYB103L plays an important role in GA-regulating secondary cell wall synthesis, and the manipulation of this gene provide a new strategy to help the straw decay in soil. PMID:26350403

  2. Development of Cellulosic Secondary Walls in Flax Fibers Requires β-Galactosidase1[C][W][OA

    PubMed Central

    Roach, Melissa J.; Mokshina, Natalia Y.; Badhan, Ajay; Snegireva, Anastasiya V.; Hobson, Neil; Deyholos, Michael K.; Gorshkova, Tatyana A.

    2011-01-01

    Bast (phloem) fibers, tension wood fibers, and other cells with gelatinous-type secondary walls are rich in crystalline cellulose. In developing bast fibers of flax (Linum usitatissimum), a galactan-enriched matrix (Gn-layer) is gradually modified into a mature cellulosic gelatinous-layer (G-layer), which ultimately comprises most of the secondary cell wall. Previous studies have correlated this maturation process with expression of a putative β-galactosidase. Here, we demonstrate that β-galactosidase activity is in fact necessary for the dynamic remodeling of polysaccharides that occurs during normal secondary wall development in flax fibers. We found that developing stems of transgenic (LuBGAL-RNAi) flax with reduced β-galactosidase activity had lower concentrations of free Gal and had significant reductions in the thickness of mature cellulosic G-layers compared with controls. Conversely, Gn-layers, labeled intensively by the galactan-specific LM5 antibody, were greatly expanded in LuBGAL-RNAi transgenic plants. Gross morphology and stem anatomy, including the thickness of bast fiber walls, were otherwise unaffected by silencing of β-galactosidase transcripts. These results demonstrate a specific requirement for β-galactosidase in hydrolysis of galactans during formation of cellulosic G-layers. Transgenic lines with reduced β-galactosidase activity also had biochemical and spectroscopic properties consistent with a reduction in cellulose crystallinity. We further demonstrated that the tensile strength of normal flax stems is dependent on β-galactosidase-mediated development of the phloem fiber G-layer. Thus, the mechanical strength that typifies flax stems is dependent on a thick, cellulosic G-layer, which itself depends on β-galactosidase activity within the precursor Gn-layer. These observations demonstrate a novel role for matrix polysaccharides in cellulose deposition; the relevance of these observations to the development of cell walls in other

  3. Formation of hydrogen peroxide in electron irradiated secondary effluent

    SciTech Connect

    Cooper, W.J.; Sosa, D.; Cadavid, E.M. ); Waite, T.D.; Kurucz, C.N. )

    1989-01-01

    The results of the formation of hydrogen peroxide in a chlorinated secondary wastewater are presented in this paper. This research project utilizes a large scale 1.5 MeV, 50 mA, electron accelerator located at the Virginia Key Wastewater Treatment Plant in Miami, Florida. Secondary chlorinated wastewater is connected to the influent of the electron beam facility and can be treated at 120 gpm. The formation of the oxidant hydrogen peroxide has been related to electron dose. Experimental results are presented and discussed.

  4. Structure of cellulose-deficient secondary cell walls from the irx3 mutant of Arabidopsis thaliana.

    PubMed

    Ha, Marie-Ann; MacKinnon, Iain M; Sturcová, Adriana; Apperley, David C; McCann, Maureen C; Turner, Simon R; Jarvis, Michael C

    2002-09-01

    In the Arabidopsis mutant irx3, truncation of the AtCesA7 gene encoding a xylem-specific cellulose synthase results in reduced cellulose synthesis in the affected xylem cells and collapse of mature xylem vessels. Here we describe spectroscopic experiments to determine whether any cellulose, normal or abnormal, remained in the walls of these cells and whether there were consequent effects on other cell-wall polysaccharides. Xylem cell walls from irx3 and its wild-type were prepared by anatomically specific isolation and were examined by solid-state NMR spectroscopy and FTIR microscopy. The affected cell walls of irx3 contained low levels of crystalline cellulose, probably associated with primary cell walls. There was no evidence that crystalline cellulose was replaced by less ordered glucans. From the molecular mobility of xylans and lignin it was deduced that these non-cellulosic polymers were cross-linked together in both irx3 and the wild-type. The disorder previously observed in the spatial pattern of non-cellulosic polymer deposition in the secondary walls of irx3 xylem could not be explained by any alteration in the structure or cross-linking of these polymers and may be attributed directly to the absence of cellulose microfibrils which, in the wild-type, scaffold the organisation of the other polymers into a coherent secondary cell wall. PMID:12165296

  5. The role of the secondary cell wall in plant resistance to pathogens.

    PubMed

    Miedes, Eva; Vanholme, Ruben; Boerjan, Wout; Molina, Antonio

    2014-01-01

    Plant resistance to pathogens relies on a complex network of constitutive and inducible defensive barriers. The plant cell wall is one of the barriers that pathogens need to overcome to successfully colonize plant tissues. The traditional view of the plant cell wall as a passive barrier has evolved to a concept that considers the wall as a dynamic structure that regulates both constitutive and inducible defense mechanisms, and as a source of signaling molecules that trigger immune responses. The secondary cell walls of plants also represent a carbon-neutral feedstock (lignocellulosic biomass) for the production of biofuels and biomaterials. Therefore, engineering plants with improved secondary cell wall characteristics is an interesting strategy to ease the processing of lignocellulosic biomass in the biorefinery. However, modification of the integrity of the cell wall by impairment of proteins required for its biosynthesis or remodeling may impact the plants resistance to pathogens. This review summarizes our understanding of the role of the plant cell wall in pathogen resistance with a focus on the contribution of lignin to this biological process. PMID:25161657

  6. The role of the secondary cell wall in plant resistance to pathogens

    PubMed Central

    Miedes, Eva; Vanholme, Ruben; Boerjan, Wout; Molina, Antonio

    2014-01-01

    Plant resistance to pathogens relies on a complex network of constitutive and inducible defensive barriers. The plant cell wall is one of the barriers that pathogens need to overcome to successfully colonize plant tissues. The traditional view of the plant cell wall as a passive barrier has evolved to a concept that considers the wall as a dynamic structure that regulates both constitutive and inducible defense mechanisms, and as a source of signaling molecules that trigger immune responses. The secondary cell walls of plants also represent a carbon-neutral feedstock (lignocellulosic biomass) for the production of biofuels and biomaterials. Therefore, engineering plants with improved secondary cell wall characteristics is an interesting strategy to ease the processing of lignocellulosic biomass in the biorefinery. However, modification of the integrity of the cell wall by impairment of proteins required for its biosynthesis or remodeling may impact the plants resistance to pathogens. This review summarizes our understanding of the role of the plant cell wall in pathogen resistance with a focus on the contribution of lignin to this biological process. PMID:25161657

  7. The history of the walls of the Acropolis of Athens and the natural history of secondary fracture healing process.

    PubMed

    Lyritis, G P

    2000-09-01

    During its long and adventurous history, the Acropolis of Athens has been a site of many dramatic events. It suffered its most disastrous destruction during the Persian wars. Under the command of King Xerxes, the Persians invaded Athens and ruined the Temple of the Parthenon and the walls of the Acropolis. After their victorious sea battle at Salamis, the Athenians, led by Themistocles, returned home and tried to repair the damage. Their priority still was to defend their city by restoring the walls of the Acropolis. Materials of all kinds were salvaged from the ruins of the Acropolis and used for an immediate reconstruction of the walls. Later, when the Athenians became the leaders of the Greek world, it was decided that the walls should be rebuilt in a proper artistic way. Themistocles suggested that a small section of the walls, which had formerly been a part of the urgent restoration, should remain in place so as to remind the citizens of this historical event. This is a characteristic example of the biological and mechanical adaptation of fracture callus to musculoskeletal function. After a period of urgency with the fixation of a fracture by means of a primitive secondary callus formation, the broken limb gradually returns to its usual function. Increased mechanical loading enhances the remodelling of the callus and the replacement of woven bone with lamellar bone. PMID:15758516

  8. The role of low volatile organics on secondary organic aerosol formation

    NASA Astrophysics Data System (ADS)

    Kokkola, H.; Yli-Pirilä, P.; Vesterinen, M.; Korhonen, H.; Keskinen, H.; Romakkaniemi, S.; Hao, L.; Kortelainen, A.; Joutsensaari, J.; Worsnop, D. R.; Virtanen, A.; Lehtinen, K. E. J.

    2014-02-01

    Large-scale atmospheric models, which typically describe secondary organic aerosol (SOA) formation based on chamber experiments, tend to systematically underestimate observed organic aerosol burdens. Since SOA constitutes a significant fraction of atmospheric aerosol, this discrepancy translates into an underestimation of SOA contribution to radiative forcing of atmospheric aerosol. Here we show that the underestimation of SOA yields can be partly explained by wall losses of SOA forming compounds during chamber experiments. We present a chamber experiment where α-pinene and ozone are injected into a Teflon chamber. When these two compounds react, we observe rapid formation and growth of new particles. Theoretical analysis of this formation and growth event indicates rapid formation of oxidized volatile organic compounds (OVOC) of very low volatility in the chamber. If these oxidized organic compounds form in the gas phase, their wall losses will have significant implications on their partitioning between the gas and particle phase. Although these OVOCs of very low volatility contribute to the growth of new particles, their mass will almost completely be depleted to the chamber walls during the experiment, while the depletion of OVOCs of higher volatilities is less efficient. According to our model simulations, the volatilities of OVOC contributing to the new particle formation event can be of the order of 10-5 μg m-3.

  9. EFFECT OF ACIDITY ON SECONDARY ORGANIC AEROSOL FORMATION FROM ISOPRENE

    EPA Science Inventory

    The effect of particle-phase acidity on secondary organic aerosol (SOA) formation from isoprene is investigated in a laboratory chamber study, in which the acidity of the inorganic seed aerosol was controlled systematically. The observed enhancement in SOA mass concentration is c...

  10. Secondary eyewall formation as a progressive boundary layer response

    NASA Astrophysics Data System (ADS)

    Abarca, S. F.; Montgomery, M. T.; Bell, M. M.

    2012-12-01

    The robust observational (satellite based) evidence that secondary eyewalls are common features in major hurricanes contrasts with the scarce in situ observations of the phenomena and its life cycle. This lack of observations has resulted in an incomplete understanding of the dynamics of secondary eyewall formation (SEF). A wide variety of physical processes have been invoked to explain SEF, but only the recently proposed theory of a progressive boundary layer control in SEF has been supported by a variety of full physics mesoscale numerical integrations. The RAINEX field project provided unique observations of the secondary eyewall of Hurricane Rita (2005) both before and during the time Rita exhibited a clear secondary eyewall structure. These observations have contributed to the advancement of the understanding of the secondary eyewall phenomenon. However, in the RAINEX experiment, there was limited data sampling during the development of the secondary wind maxima, thereby precluding a complete observational investigation of the dynamics of SEF. In this presentation we adopt an azimuthally-averaged perspective of the flow dynamics and we test the newly proposed theory of a progressive boundary layer control on SEF. Specifically, we use both RAINEX data as well as data from high resolution, full physics mesoscale numerical simulations to initialize and force an axisymmetric slab boundary layer model with radial diffusion included. The objective is to investigate whether such a reduced boundary layer model can generate secondary wind maxima as a response to environments like those that result in SEF in nature and in full physics simulations.

  11. FT-IR examination of the development of secondary cell wall in cotton fibers

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The secondary cell wall development of cotton fibers harvested at 18, 20, 24, 28, 32, 36 and 40 days after flowering was examined using attenuated total reflection Fourier transform-infrared (ATR FT-IR) spectroscopy. Generally, a progressive intensity increase for bands assigned to cellulose Iß was ...

  12. Development of secondary cell wall in cotton fibers as examined with Fourier transform-infrared spectroscopy

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Our presentation will focus on continuing efforts to examine secondary cell wall development in cotton fibers using infrared Spectroscopy. Cotton fibers harvested at 18, 20, 24, 28, 32, 36 and 40 days after flowering were examined using attenuated total reflection Fourier transform-infrared (ATR FT-...

  13. The structure of secondary cell wall polymers: how Gram-positive bacteria stick their cell walls together.

    PubMed

    Schäffer, Christina; Messner, Paul

    2005-03-01

    The cell wall of Gram-positive bacteria has been a subject of detailed chemical study over the past five decades. Outside the cytoplasmic membrane of these organisms the fundamental polymer is peptidoglycan (PG), which is responsible for the maintenance of cell shape and osmotic stability. In addition, typical essential cell wall polymers such as teichoic or teichuronic acids are linked to some of the peptidoglycan chains. In this review these compounds are considered as 'classical' cell wall polymers. In the course of recent investigations of bacterial cell surface layers (S-layers) a different class of 'non-classical' secondary cell wall polymers (SCWPs) has been identified, which is involved in anchoring of S-layers to the bacterial cell surface. Comparative analyses have shown considerable differences in chemical composition, overall structure and charge behaviour of these SCWPs. This review discusses the progress that has been made in understanding the structural principles of SCWPs, which may have useful applications in S-layer-based 'supramolecular construction kits' in nanobiotechnology. PMID:15758211

  14. Secondary Sphere Formation Enhances the Functionality of Cardiac Progenitor Cells

    PubMed Central

    Cho, Hyun-Jai; Lee, Ho-Jae; Youn, Seock-Won; Koh, Seok-Jin; Won, Joo-Yun; Chung, Yeon-Ju; Cho, Hyun-Ju; Yoon, Chang-Hwan; Lee, Sae-Won; Lee, Eun Ju; Kwon, Yoo-Wook; Lee, Hae-Young; Lee, Sang Hun; Ho, Won-Kyung; Park, Young-Bae; Kim, Hyo-Soo

    2012-01-01

    Loss of cardiomyocytes impairs cardiac function after myocardial infarction (MI). Recent studies suggest that cardiac stem/progenitor cells could repair the damaged heart. However, cardiac progenitor cells are difficult to maintain in terms of purity and multipotency when propagated in two-dimensional culture systems. Here, we investigated a new strategy that enhances potency and enriches progenitor cells. We applied the repeated sphere formation strategy (cardiac explant → primary cardiosphere (CS) formation → sphere-derived cells (SDCs) in adherent culture condition → secondary CS formation by three-dimensional culture). Cells in secondary CS showed higher differentiation potentials than SDCs. When transplanted into the infarcted myocardium, secondary CSs engrafted robustly, improved left ventricular (LV) dysfunction, and reduced infarct sizes more than SDCs did. In addition to the cardiovascular differentiation of transplanted secondary CSs, robust vascular endothelial growth factor (VEGF) synthesis and secretion enhanced neovascularization in the infarcted myocardium. Microarray pathway analysis and blocking experiments using E-selectin knock-out hearts, specific chemicals, and small interfering RNAs (siRNAs) for each pathway revealed that E-selectin was indispensable to sphere initiation and ERK/Sp1/VEGF autoparacrine loop was responsible for sphere maturation. These results provide a simple strategy for enhancing cellular potency for cardiac repair. Furthermore, this strategy may be implemented to other types of stem/progenitor cell-based therapy. PMID:22713697

  15. Abundance of mixed linkage glucan in mature tissues and secondary cell walls of grasses.

    PubMed

    Vega-Sánchez, Miguel E; Verhertbruggen, Yves; Scheller, Henrik V; Ronald, Pamela C

    2013-02-01

    (1,3; 1,4)-β-D-glucan, also known as mixed linkage glucan (MLG), is a polysaccharide that in flowering plants is unique to the cell walls of grasses and other related members of Poales. MLG is highly abundant in endosperm cell walls, where it is considered a storage carbohydrate. In vegetative tissues, MLG transiently accumulates in the primary cell walls of young, elongating organs. In evolutionary distant species such as Equisetum, MLG accumulates predominantly in old tissues in the stems. Similarly, we have recently shown that rice accumulates a large amount of MLG in mature stems, which prompted us to re-evaluate the hypothesis that MLG is solely related to growth in grass vegetative tissues. Here, we summarize data that confirms the presence of MLG in secondary cell walls and mature tissues in rice and other grasses. Along with these results, we discuss additional evidence indicating a broader role for MLG than previously considered. PMID:23299432

  16. Longitudinal domain wall formation in elongated assemblies of ferromagnetic nanoparticles

    PubMed Central

    Varón, Miriam; Beleggia, Marco; Jordanovic, Jelena; Schiøtz, Jakob; Kasama, Takeshi; Puntes, Victor F.; Frandsen, Cathrine

    2015-01-01

    Through evaporation of dense colloids of ferromagnetic ~13 nm ε-Co particles onto carbon substrates, anisotropic magnetic dipolar interactions can support formation of elongated particle structures with aggregate thicknesses of 100–400 nm and lengths of up to some hundred microns. Lorenz microscopy and electron holography reveal collective magnetic ordering in these structures. However, in contrast to continuous ferromagnetic thin films of comparable dimensions, domain walls appear preferentially as longitudinal, i.e., oriented parallel to the long axis of the nanoparticle assemblies. We explain this unusual domain structure as the result of dipolar interactions and shape anisotropy, in the absence of inter-particle exchange coupling. PMID:26416297

  17. FORMATION CRITERIA AND THE MASS OF SECONDARY POPULATION III STARS

    SciTech Connect

    Susa, Hajime; Umemura, Masayuki; Hasegawa, Kenji E-mail: umemura@ccs.tsukuba.ac.jp

    2009-09-01

    We explore the formation of secondary Population III (Pop III) stars under radiation hydrodynamic (RHD) feedback by a preformed massive star. To properly treat RHD feedback, we perform three-dimensional RHD simulations incorporating the radiative transfer of ionizing photons as well as H{sub 2} dissociating photons from a preformed star. A collapsing gas cloud is settled at a given distance from a 120 M{sub sun} Pop III star, and the evolution of the cloud is pursued including RHD feedback. We derive the threshold density depending on the distance, above which the cloud can keep collapsing owing to the shielding of H{sub 2} dissociating radiation. We find that an H{sub 2} shell formed ahead of an ionizing front works effectively to shield the H{sub 2} dissociating radiation, leading to the positive feedback for the secondary Pop III star formation. Also, near the threshold density, the envelope of gas cloud is stripped significantly by a shock associated with an ionizing front. By comparing the mass accretion timescale with the Kelvin-Helmholtz timescale, we estimate the mass of secondary Pop III stars. It turns out that the stripping by a shock can reduce the mass of secondary Pop III stars down to {approx}20 M{sub sun}.

  18. Secondary instability of high-speed flows and the influence of wall cooling and suction

    NASA Technical Reports Server (NTRS)

    El-Hady, Nabil M.

    1991-01-01

    The periodic streamwise modulation of the supersonic and hypersonic boundary layers by a two-dimensional first-mode or second-mode wave makes the resulting base flow susceptible to a broad-band spanwise-periodic three-dimensional type of instability. The principal parametric resonance of this instability (subharmonic) has been analyzed using Floquet theory. The effect of Mach number and the effectiveness of wall cooling or wall suction in controlling the onset, the growth rate, and the vortical structure of the subharmonic secondary instability are assessed for both a first-mode and a second-mode primary wave.

  19. New Particle Formation and Secondary Organic Aerosol in Beijing

    NASA Astrophysics Data System (ADS)

    Hu, M.; Yue, D.; Guo, S.; Hu, W.; Huang, X.; He, L.; Wiedensohler, A.; Zheng, J.; Zhang, R.

    2011-12-01

    Air pollution in Beijing has been a major concern due to being a mega-city and green Olympic Games requirements. Both long term and intensive field measurements have been conducted at an Urban Air Quality Monitoring Station in the campus of Peking University since 2004. Aerosol characteristics vary seasonally depending on meteorological conditions and source emissions. Secondary compositions of SNA (sum of sulfate, nitrate, and ammonium) and SOA (secondary organic aerosol) become major fraction of fine particles, which may enhance aerosol impacts on visibility and climate change. The transformation processes of new particle formation (NPF) and secondary organic aerosol have been focused on. It was found that gaseous sulfuric acid, ammonia, and organic compounds are important precursors to NPF events in Beijing and H2SO4-NH3-H2O ternary nucleation is one of the important mechanisms. The contributions of condensation and neutralization of sulfuric acid, coagulation, and organics to the growth of the new particles are estimated as 45%, 34%, and 21%, respectively. Tracer-based method to estimate biogenic and anthropogenic SOA was established by using gas chromatography-mass spectrometry. Secondary organic tracers derived from biogenic (isoprene, α-pinene, β-caryophyllene) and anthropogenic (toluene) contributed 32% at urban site and 35% at rural site, respectively. Other source apportionment techniques were also used to estimate secondary organic aerosols, including EC tracer method, water soluble organic carbon content, chemical mass balance model, and AMS-PMF method.

  20. Evaluation of secondary organic aerosol formation in winter

    NASA Astrophysics Data System (ADS)

    Strader, Ross; Lurmann, Fred; Pandis, Spyros N.

    Three different methods are used to predict secondary organic aerosol (SOA) concentrations in the San Joaquin Valley of California during the winter of 1995-1996 [Integrated Monitoring Study, (IMS95)]. The first of these methods estimates SOA by using elemental carbon as a tracer of primary organic carbon. The second method relies on a Lagrangian trajectory model that simulates the formation, transport, and deposition of secondary organic aerosol. The model includes a recently developed gas-particle partitioning mechanism. Results from both methods are in good agreement with the chemical speciation of organic aerosol during IMS95 and suggest that most of the OC measured during IMS95 is of primary origin. Under suitable conditions (clear skies, low winds, low mixing heights) as much as 15-20 μg C m -3 of SOA can be produced, mainly due to oxidation of aromatics. The low mixing heights observed during the winter in the area allow accumulation of SOA precursors and the acceleration of SOA formation. Clouds and fog slow down the production of secondary compounds, reducing their concentrations by a factor of two or three from the above maximum levels. In addition, it appears that there is significant diurnal variation of SOA concentration. A strong dependence of SOA concentrations on temperature is observed, along with the existence of an optimal temperature for SOA formation.

  1. Formation of halogen-induced secondary organic aerosol (XOA)

    NASA Astrophysics Data System (ADS)

    Kamilli, Katharina; Ofner, Johannes; Zetzsch, Cornelius; Held, Andreas

    2013-04-01

    Reactive halogen species (RHS) are very important due to their potential of stratospheric ozone depletion and surface ozone destruction. RHS seem to interact with precursors of secondary organic aerosol (SOA) similarly to common atmospheric oxidants like OH radicals and ozone. The potential interaction of RHS with preformed SOA has recently been studied (Ofner et al., 2012). Although aerosol formation from reaction of RHS with typical SOA precursors was previously studied (e.g. Cai et al., 2006), no data are available on bromine-induced aerosol formation from organic precursors yet. An aerosol smog-chamber was used to examine the halogen-induced secondary organic aerosol (XOA) formation under atmospheric conditions using simulated sunlight. With a concentration of 10 ppb for the organic precursor, 2 ppb for molecular chlorine, and 10 ppb for molecular bromine, the experimental setup is close to ambient conditions. By combined measurements of the aerosol size distribution, ozone and NOx mixing ratios, as well as the decay of the organic precursor, aerosol yields and aerosol growth rates were determined. The decay of the organic precursor was analyzed by capillary gas chromatography coupled with flame-ionization detection (GC-FID) and the aerosol size distribution was measured using a Scanning Mobility Particle Sizer (SMPS). Additionally, with the decay rate of the precursor and the calculated photolysis rates of molecular halogen species, based on the well-known spectrum of the solar simulator, mechanistic details on the XOA formation pathways can be determined. We observed XOA formation even at very low precursor and RHS concentrations with a diameter mode at 10-20 nm and a number concentration up to 1000000 particles cm-3. While the XOA formation from chlorine is very rapid, the interaction of bromine with the organic precursors is about five times slower. The aerosol yield reached maximum values of 0.01 for the reaction of chlorine with α-pinene and 0.0004 for

  2. Secondary Organic Aerosol formation from the gas-phase ozonolysis of 3-methylcatechol and 4-methylcatechol

    NASA Astrophysics Data System (ADS)

    Coeur-Tourneur, Cécile; Foulon, Valentine; Laréal, Michel; Cassez, Andy; Zhao, Weixiong

    2010-05-01

    Secondary Organic Aerosol (SOA) formation during the ozonolysis of 3-methylcatechol (3-methyl-1,2-dihydroxybenzene) and 4-methylcatechol (3-methyl-1,2-dihydroxybenzene) was investigated using a simulation chamber (8 m3) at atmospheric pressure, room temperature (294 ± 2 K) and low relative humidity (5-10%). The initial mixing ratios were as follows (in ppb): 3-methylcatechol (194-1059), 4-methylcatechol (204-1188) and ozone (93-531). The ozone and methylcatechol concentrations were followed by UV photometry and GC-FID (Gas Chromatography - Flame ionization detector), respectively and the aerosol production was monitored using a SMPS (Scanning Mobility Particle Sizer). The SOA yields (Y) were determined as the ratio of the suspended aerosol mass corrected for wall losses (Mo) to the total reacted methylcatechol concentrations assuming a particle density of 1.4 g cm-3. The aerosol formation yield increases as the initial methylcatechol concentration increases, and leads to aerosol yields ranging from 32% to 67% and from 30% to 64% for 3-methylcatechol and 4-methylcatechol, respectively. Y is a strong function of Mo and the organic aerosol formation can be expressed by a one-product gas/particle partitioning absorption model. These data are comparable to those published in a recent study on secondary organic aerosol formation from catechol ozonolysis. To our knowledge, this work represents the first investigation of SOA formation from the ozone reaction with methylcatechols.

  3. Starting to gel: how Arabidopsis seed coat epidermal cells produce specialized secondary cell walls.

    PubMed

    Voiniciuc, Cătălin; Yang, Bo; Schmidt, Maximilian Heinrich-Wilhelm; Günl, Markus; Usadel, Björn

    2015-01-01

    For more than a decade, the Arabidopsis seed coat epidermis (SCE) has been used as a model system to study the synthesis, secretion and modification of cell wall polysaccharides, particularly pectin. Our detailed re-evaluation of available biochemical data highlights that Arabidopsis seed mucilage is more than just pectin. Typical secondary wall polymers such as xylans and heteromannans are also present in mucilage. Despite their low abundance, these components appear to play essential roles in controlling mucilage properties, and should be further investigated. We also provide a comprehensive community resource by re-assessing the mucilage phenotypes of almost 20 mutants using the same conditions. We conduct an in-depth functional evaluation of all the SCE genes described in the literature and propose a revised model for mucilage production. Further investigation of SCE cells will improve our understanding of plant cell walls. PMID:25658798

  4. Starting to Gel: How Arabidopsis Seed Coat Epidermal Cells Produce Specialized Secondary Cell Walls

    PubMed Central

    Voiniciuc, Cătălin; Yang, Bo; Schmidt, Maximilian Heinrich-Wilhelm; Günl, Markus; Usadel, Björn

    2015-01-01

    For more than a decade, the Arabidopsis seed coat epidermis (SCE) has been used as a model system to study the synthesis, secretion and modification of cell wall polysaccharides, particularly pectin. Our detailed re-evaluation of available biochemical data highlights that Arabidopsis seed mucilage is more than just pectin. Typical secondary wall polymers such as xylans and heteromannans are also present in mucilage. Despite their low abundance, these components appear to play essential roles in controlling mucilage properties, and should be further investigated. We also provide a comprehensive community resource by re-assessing the mucilage phenotypes of almost 20 mutants using the same conditions. We conduct an in-depth functional evaluation of all the SCE genes described in the literature and propose a revised model for mucilage production. Further investigation of SCE cells will improve our understanding of plant cell walls. PMID:25658798

  5. Pinoresinol reductase 1 impacts lignin distribution during secondary cell wall biosynthesis in Arabidopsis.

    PubMed

    Zhao, Qiao; Zeng, Yining; Yin, Yanbin; Pu, Yunqiao; Jackson, Lisa A; Engle, Nancy L; Martin, Madhavi Z; Tschaplinski, Timothy J; Ding, Shi-You; Ragauskas, Arthur J; Dixon, Richard A

    2015-04-01

    Pinoresinol reductase (PrR) catalyzes the conversion of the lignan (-)-pinoresinol to (-)-lariciresinol in Arabidopsis thaliana, where it is encoded by two genes, PrR1 and PrR2, that appear to act redundantly. PrR1 is highly expressed in lignified inflorescence stem tissue, whereas PrR2 expression is barely detectable in stems. Co-expression analysis has indicated that PrR1 is co-expressed with many characterized genes involved in secondary cell wall biosynthesis, whereas PrR2 expression clusters with a different set of genes. The promoter of the PrR1 gene is regulated by the secondary cell wall related transcription factors SND1 and MYB46. The loss-of-function mutant of PrR1 shows, in addition to elevated levels of pinoresinol, significantly decreased lignin content and a slightly altered lignin structure with lower abundance of cinnamyl alcohol end groups. Stimulated Raman scattering (SRS) microscopy analysis indicated that the lignin content of the prr1-1 loss-of-function mutant is similar to that of wild-type plants in xylem cells, which exhibit a normal phenotype, but is reduced in the fiber cells. Together, these data suggest an association of the lignan biosynthetic enzyme encoded by PrR1 with secondary cell wall biosynthesis in fiber cells. PMID:25107662

  6. Pinoresinol reductase 1 impacts lignin distribution during secondary cell wall biosynthesis in Arabidopsis

    DOE PAGESBeta

    Zhao, Qiao; Zeng, Yining; Yin, Yanbin; Pu, Yunqiao; Jackson, Lisa A.; Engle, Nancy L.; Martin, Madhavi Z.; Tschaplinski, Timothy J.; Ding, Shi-You; Ragauskas, Arthur J.; et al

    2014-08-05

    In this paper, pinoresinol reductase (PrR) catalyzes the conversion of the lignan (-)-pinoresinol to (-)-lariciresinol in Arabidopsis thaliana, where it is encoded by two genes, PrR1 and PrR2, that appear to act redundantly. PrR1 is highly expressed in lignified inflorescence stem tissue, whereas PrR2 expression is barely detectable in stems. Co-expression analysis has indicated that PrR1 is co-expressed with many characterized genes involved in secondary cell wall biosynthesis, whereas PrR2 expression clusters with a different set of genes. The promoter of the PrR1 gene is regulated by the secondary cell wall related transcription factors SND1 and MYB46. The loss-of-function mutantmore » of PrR1 shows, in addition to elevated levels of pinoresinol, significantly decreased lignin content and a slightly altered lignin structure with lower abundance of cinnamyl alcohol end groups. Stimulated Raman scattering (SRS) microscopy analysis indicated that the lignin content of the prr1-1 loss-of-function mutant is similar to that of wild-type plants in xylem cells, which exhibit a normal phenotype, but is reduced in the fiber cells. Finally, together, these data suggest an association of the lignan biosynthetic enzyme encoded by PrR1 with secondary cell wall biosynthesis in fiber cells.« less

  7. Pinoresinol reductase 1 impacts lignin distribution during secondary cell wall biosynthesis in Arabidopsis

    SciTech Connect

    Zhao, Qiao; Zeng, Yining; Yin, Yanbin; Pu, Yunqiao; Jackson, Lisa A.; Engle, Nancy L.; Martin, Madhavi Z.; Tschaplinski, Timothy J.; Ding, Shi-You; Ragauskas, Arthur J.; Dixon, Richard A.

    2014-08-05

    In this paper, pinoresinol reductase (PrR) catalyzes the conversion of the lignan (-)-pinoresinol to (-)-lariciresinol in Arabidopsis thaliana, where it is encoded by two genes, PrR1 and PrR2, that appear to act redundantly. PrR1 is highly expressed in lignified inflorescence stem tissue, whereas PrR2 expression is barely detectable in stems. Co-expression analysis has indicated that PrR1 is co-expressed with many characterized genes involved in secondary cell wall biosynthesis, whereas PrR2 expression clusters with a different set of genes. The promoter of the PrR1 gene is regulated by the secondary cell wall related transcription factors SND1 and MYB46. The loss-of-function mutant of PrR1 shows, in addition to elevated levels of pinoresinol, significantly decreased lignin content and a slightly altered lignin structure with lower abundance of cinnamyl alcohol end groups. Stimulated Raman scattering (SRS) microscopy analysis indicated that the lignin content of the prr1-1 loss-of-function mutant is similar to that of wild-type plants in xylem cells, which exhibit a normal phenotype, but is reduced in the fiber cells. Finally, together, these data suggest an association of the lignan biosynthetic enzyme encoded by PrR1 with secondary cell wall biosynthesis in fiber cells.

  8. Granuloma formation secondary to Achilles tendon repair with nonabsorbable suture

    PubMed Central

    Kara, Adnan; Celik, Haluk; Seker, Ali; Uysal, Mehmet Ali; Uzun, Metin; Malkoc, Melih

    2014-01-01

    INTRODUCTION Several complications can be observed after Achilles tendon repairs. In this study we aimed to report granuloma formation secondary to Achilles tendon repair with Ethibond (Ethicon INC, Somerville, New Jersey) suture. PRESENTATION OF CASE A 31 year-old man operated for Achilles tendon rupture. The Ethibond suture was used for primary repair. The patient attended to polyclinic with the complaints of swelling and discharge around the operation site four months after operation. A mass around distal portion of the Achilles tendon was detected. The granulomatous tissue was excised. Inside the mass Ethibond suture was detected. On histopathologic examination, typical findings of the foreign body reaction were observed. No microorganism was cultivated in the tissue culture. The patient has no complaint on the twelfth month control after surgery. DISCUSSION The results of primary repair of Achilles tendon are good but several complications were reported. In tendon repairs generally nonabsorbable sutures are used. The Ethibond is nonabsorbable, braided suture. In the literature, granuloma formations secondary to the suture materials such as polygylactine and braided polyethylen–polyester after Achilles tendon repair were reported but granuloma secondary to the Ethibond is very rare. CONCLUSION Although Ethibond suture is a strong and safe material for Achilles tendon repairs it may cause soft tissue problems such as granuloma. PMID:25212905

  9. Characteristics of wall sheath and secondary electron emission under different electron temperatures in a Hall thruster

    NASA Astrophysics Data System (ADS)

    Duan, Ping; Qin, Hai-Juan; Zhou, Xin-Wei; Cao, An-Ning; Chen, Long; Gao, Hong

    2014-07-01

    In this paper, a two-dimensional physical model is established in a Hall thruster sheath region to investigate the influences of the electron temperature and the propellant on the sheath potential drop and the secondary electron emission in the Hall thruster, by the particle-in-cell (PIC) method. The numerical results show that when the electron temperature is relatively low, the change of sheath potential drop is relatively large, the surface potential maintains a stable value and the stability of the sheath is good. When the electron temperature is relatively high, the surface potential maintains a persistent oscillation, and the stability of the sheath reduces. As the electron temperature increases, the secondary electron emission coefficient on the wall increases. For three kinds of propellants (Ar, Kr, and Xe), as the ion mass increases the sheath potentials and the secondary electron emission coefficients reduce in sequence.

  10. A R2R3-MYB transcription factor that is specifically expressed in cotton (Gossypium hirsutum) fibers affects secondary cell wall biosynthesis and deposition in transgenic Arabidopsis.

    PubMed

    Sun, Xiang; Gong, Si-Ying; Nie, Xiao-Ying; Li, Yang; Li, Wen; Huang, Geng-Qing; Li, Xue-Bao

    2015-07-01

    Secondary cell wall (SCW) is an important industrial raw material for pulping, papermaking, construction, lumbering, textiles and potentially for biofuel production. The process of SCW thickening of cotton fibers lays down the cellulose that will constitute the bulk (up to 96%) of the fiber at maturity. In this study, a gene encoding a MYB-domain protein was identified in cotton (Gossypium hirsutum) and designated as GhMYBL1. Quantitative real-time polymerase chain reaction (RT-PCR) analysis revealed that GhMYBL1 was specifically expressed in cotton fibers at the stage of secondary wall deposition. Further analysis indicated that this protein is a R2R3-MYB transcription factor, and is targeted to the cell nucleus. Overexpression of GhMYBL1 in Arabidopsis affected the formation of SCW in the stem xylem of the transgenic plants. The enhanced SCW thickening also occurred in the interfascicular fibers, xylary fibers and vessels of the GhMYBL1-overexpression transgenic plants. The expression of secondary wall-associated genes, such as CesA4, CesA7, CesA8, PAL1, F5H and 4CL1, were upregulated, and consequently, cellulose and lignin biosynthesis were enhanced in the GhMYBL1 transgenic plants. These data suggested that GhMYBL1 may participate in modulating the process of secondary wall biosynthesis and deposition of cotton fibers. PMID:25534543

  11. Widespread primary, but geographically restricted secondary, human introductions of wall lizards, Podarcis muralis.

    PubMed

    Michaelides, Sozos N; While, Geoffrey M; Zajac, Natalia; Uller, Tobias

    2015-06-01

    Establishing the introduction pathways of alien species is a fundamental task in invasion biology. The common wall lizard, Podarcis muralis, has been widely introduced outside of its native range in both Europe and North America, primarily through escaped pets or deliberate release of animals from captive or wild populations. Here, we use Bayesian clustering, approximate Bayesian computation (ABC) methods and network analyses to reconstruct the origin and colonization history of 23 non-native populations of wall lizards in England. Our analyses show that established populations in southern England originate from at least nine separate sources of animals from native populations in France and Italy. Secondary introductions from previously established non-native populations were supported for eleven (47%) populations. In contrast to the primary introductions, secondary introductions were highly restricted geographically and appear to have occurred within a limited time frame rather than being increasingly common. Together, these data suggest that extant wall lizard populations in England are the result of isolated accidental and deliberate releases of imported animals since the 1970s, with only local translocation of animals from established non-native populations. Given that populations introduced as recently as 25 years ago show evidence of having adapted to cool climate, discouraging further translocations may be important to prevent more extensive establishment on the south coast of England. PMID:25891955

  12. Characteristics of wall sheath and secondary electron emission under different electron temperature in Hall thruster

    NASA Astrophysics Data System (ADS)

    Duan, Ping; Qin, Haijuan; Cao, Anning; Zhou, Xinwei; Chen, Long; Gao, Hong

    2013-09-01

    Characteristics of discharge channel wall plasma sheath in Hall thruster have great effects on its performance. In this paper, we establish a two-dimensional physical model in Hall thruster sheath area to investigate the influences of the different electron temperature, propellant and particle weight on sheath potential and secondary electron emission in Hall thruster, by the method of Particle In Cell (PIC) simulation. And the electric field at the particle position is obtained by solving the Poisson's equation. The numerical results show that when the electron temperature is low, the change of sheath potential drop is bigger than that with electrons at high temperature, the surface potential maintains a stable value and the stability of the sheath is good. When the electron temperature is high, the surface potential maintains persistent oscillation, and the stability of the sheath is reduced. Along with the increase of electron temperature, the coefficient of secondary electron emission in wall reduce after the first increasing. For three kinds of propellant (Ar, Kr, Xe), with the increase of ion mass, sheath potential and the secondary electron emission coefficient in turn reduce.

  13. Intrusive growth of primary and secondary phloem fibres in hemp stem determines fibre-bundle formation and structure.

    PubMed

    Snegireva, Anastasia; Chernova, Tatyana; Ageeva, Marina; Lev-Yadun, Simcha; Gorshkova, Tatyana

    2015-01-01

    Plant fibres-cells with important mechanical functions and a widely used raw material-are usually identified in microscopic sections only after reaching a significant length or after developing a thickened cell wall. We characterized the early developmental stages of hemp (Cannabis sativa) stem phloem fibres, both primary (originating from the procambium) and secondary (originating in the cambium), when they still had only a primary cell wall. We gave a major emphasis to the role of intrusive elongation, the specific type of plant cell growth by which fibres commonly attain large cell length. We could identify primary phloem fibres at a distance of only 1.2-1.5 mm from the shoot apical meristem when they grew symplastically with the surrounding tissues. Half a millimeter further downwards along the stem, fibres began their intrusive elongation, which led to a sharp increase in fibre numbers visible within the stem cross-sections. The intrusive elongation of primary phloem fibres was completed within the several distal centimetres of the growing stem, before the onset of their secondary cell wall formation. The formation of secondary phloem fibres started long after the beginning of secondary xylem formation. Our data indicate that only a small portion of the fusiform cambial initials (<10 %) give rise directly or via their derivatives to secondary phloem fibres. The key determinant of final bundle structure, both for primary and secondary phloem fibres, is intrusive growth. Through bi-directional elongation, fibres join other fibres initiated individually in other stem levels, thus forming the bundles. Our results provide the specific developmental basis for further biochemical and molecular-genetic studies of phloem fibre development in hemp, but may be applied to many other species. PMID:26019229

  14. Intrusive growth of primary and secondary phloem fibres in hemp stem determines fibre-bundle formation and structure

    PubMed Central

    Snegireva, Anastasia; Chernova, Tatyana; Ageeva, Marina; Lev-Yadun, Simcha; Gorshkova, Tatyana

    2015-01-01

    Plant fibres—cells with important mechanical functions and a widely used raw material—are usually identified in microscopic sections only after reaching a significant length or after developing a thickened cell wall. We characterized the early developmental stages of hemp (Cannabis sativa) stem phloem fibres, both primary (originating from the procambium) and secondary (originating in the cambium), when they still had only a primary cell wall. We gave a major emphasis to the role of intrusive elongation, the specific type of plant cell growth by which fibres commonly attain large cell length. We could identify primary phloem fibres at a distance of only 1.2–1.5 mm from the shoot apical meristem when they grew symplastically with the surrounding tissues. Half a millimeter further downwards along the stem, fibres began their intrusive elongation, which led to a sharp increase in fibre numbers visible within the stem cross-sections. The intrusive elongation of primary phloem fibres was completed within the several distal centimetres of the growing stem, before the onset of their secondary cell wall formation. The formation of secondary phloem fibres started long after the beginning of secondary xylem formation. Our data indicate that only a small portion of the fusiform cambial initials (<10 %) give rise directly or via their derivatives to secondary phloem fibres. The key determinant of final bundle structure, both for primary and secondary phloem fibres, is intrusive growth. Through bi-directional elongation, fibres join other fibres initiated individually in other stem levels, thus forming the bundles. Our results provide the specific developmental basis for further biochemical and molecular-genetic studies of phloem fibre development in hemp, but may be applied to many other species. PMID:26019229

  15. Predicting secondary organic aerosol formation rates in southeast Texas

    NASA Astrophysics Data System (ADS)

    Russell, Matthew; Allen, David T.

    2005-04-01

    Rates of secondary organic aerosol (SOA) formation, due to the reactions of aromatics and monoterpenes, were estimated for southeast Texas by incorporating a modified version of the Statewide Air Pollution Research Center's chemical mechanism (SAPRC99) into the Comprehensive Air Quality Model with extensions (CAMx version 3.10). The model included explicit representation of the reactions of five SOA precursors (α-pinene, β-pinene, sabinene, d-limonene, and Δ3-carene). Reactions of each SOA precursor with O3, OH radical, and NO3 radical were included. The model also included separate reactions for low- and high-SOA-yield aromatic groups with the OH radical. SOA yields in the mechanisms were estimated using compound-specific yield information (ΔSOA/ΔHC) derived from smog chamber experiments conducted by J. R. Odum and colleagues and R. J. Griffin and colleagues. The form of the SOA yield model was based on the work of J. R. Odum and colleagues and is a function of existing organic aerosol concentrations. Existing organic aerosol concentrations were estimated on the basis of ambient measurements of total organic carbon in southeast Texas. The reactions of monoterpenes (predominantly α-pinene and β-pinene) with ozone led to the most regional SOA formation, followed by monoterpenes with the nitrate radical. Aromatic-OH reactions led to less regional SOA formation compared to monoterpenes; however, this formation occurs close to the urban and industrial areas of Houston. In contrast, SOA formation due to the reactions of monoterpenes occurred in the forested areas north of the urban area. The results of this study are in qualitative agreement with estimates of SOA formation based on ambient data from the same time period.

  16. Mutations of Arabidopsis TBL32 and TBL33 Affect Xylan Acetylation and Secondary Wall Deposition

    PubMed Central

    Yuan, Youxi; Teng, Quincy; Zhong, Ruiqin; Haghighat, Marziyeh; Richardson, Elizabeth A.; Ye, Zheng-Hua

    2016-01-01

    Xylan is a major acetylated polymer in plant lignocellulosic biomass and it can be mono- and di-acetylated at O-2 and O-3 as well as mono-acetylated at O-3 of xylosyl residues that is substituted with glucuronic acid (GlcA) at O-2. Based on the finding that ESK1, an Arabidopsis thaliana DUF231 protein, specifically mediates xylan 2-O- and 3-O-monoacetylation, we previously proposed that different acetyltransferase activities are required for regiospecific acetyl substitutions of xylan. Here, we demonstrate the functional roles of TBL32 and TBL33, two ESK1 close homologs, in acetyl substitutions of xylan. Simultaneous mutations of TBL32 and TBL33 resulted in a significant reduction in xylan acetyl content and endoxylanase digestion of the mutant xylan released GlcA-substituted xylooligomers without acetyl groups. Structural analysis of xylan revealed that the tbl32 tbl33 mutant had a nearly complete loss of 3-O-acetylated, 2-O-GlcA-substituted xylosyl residues. A reduction in 3-O-monoacetylated and 2,3-di-O-acetylated xylosyl residues was also observed. Simultaneous mutations of TBL32, TBL33 and ESK1 resulted in a severe reduction in xylan acetyl level down to 15% of that of the wild type, and concomitantly, severely collapsed vessels and stunted plant growth. In particular, the S2 layer of secondary walls in xylem vessels of tbl33 esk1 and tbl32 tbl33 esk1 exhibited an altered structure, indicating abnormal assembly of secondary wall polymers. These results demonstrate that TBL32 and TBL33 play an important role in xylan acetylation and normal deposition of secondary walls. PMID:26745802

  17. Mutations of Arabidopsis TBL32 and TBL33 affect xylan acetylation and secondary wall deposition

    DOE PAGESBeta

    Yuan, Youxi; Teng, Quincy; Zhong, Ruiqin; Haghighat, Marziyeh; Richardson, Elizabeth A.; Ye, Zheng -Hua; Zhang, Jin -Song

    2016-01-08

    Xylan is a major acetylated polymer in plant lignocellulosic biomass and it can be monoand di-acetylated at O-2 and O-3 as well as mono-acetylated at O-3 of xylosyl residues that is substituted with glucuronic acid (GlcA) at O-2. Based on the finding that ESK1, an Arabidopsis thaliana DUF231 protein, specifically mediates xylan 2-O- and 3-O-monoacetylation, we previously proposed that different acetyltransferase activities are required for regiospecific acetyl substitutions of xylan. Here, we demonstrate the functional roles of TBL32 and TBL33, two ESK1 close homologs, in acetyl substitutions of xylan. Simultaneous mutations of TBL32 and TBL33 resulted in a significant reductionmore » in xylan acetyl content and endoxylanase digestion of the mutant xylan released GlcA-substituted xylooligomers without acetyl groups. Structural analysis of xylan revealed that the tbl32 tbl33 mutant had a nearly complete loss of 3-O-acetylated, 2-O-GlcA-substituted xylosyl residues. A reduction in 3-Omonoacetylated and 2,3-di-O-acetylated xylosyl residues was also observed. Simultaneous mutations of TBL32, TBL33 and ESK1 resulted in a severe reduction in xylan acetyl level down to 15% of that of the wild type, and concomitantly, severely collapsed vessels and stunted plant growth. In particular, the S2 layer of secondary walls in xylem vessels of tbl33 esk1 and tbl32 tbl33 esk1 exhibited an altered structure, indicating abnormal assembly of secondary wall polymers. Furthermore, these results demonstrate that TBL32 and TBL33 play an important role in xylan acetylation and normal deposition of secondary walls.« less

  18. Disruption of secondary wall cellulose biosynthesis alters cadmium translocation and tolerance in rice plants.

    PubMed

    Song, Xue-Qin; Liu, Li-Feng; Jiang, Yi-Jun; Zhang, Bao-Cai; Gao, Ya-Ping; Liu, Xiang-Ling; Lin, Qing-Shan; Ling, Hong-Qing; Zhou, Yi-Hua

    2013-05-01

    Tricheary elements (TEs), wrapped by secondary cell wall, play essential roles in water, mineral, and nutrient transduction. Cadmium (Cd) is a toxic heavy metal that is absorbed by roots and transported to shoot, leaves, and grains through vascular systems in plants. As rice is a major source of Cd intake, many efforts have been made to establish 'low-Cd rice'. However, no links have been found between cellulose biosynthesis and cadmium accumulation. We report here a rice brittle culm13 mutant, resulting from a novel missense mutation (E101K) [corrected] in the N-terminus of cellulose synthase subunit 9 (CESA9). Except for the abnormal mechanical strength, the mutant plants are morphologically indistinguishable from the wild-type plants. Transmission electron microscopy (TEM) and chemical analyses showed a slight reduction in secondary wall thickness and 22% decrease in cellulose content in bc13 plants. Moreover, this mutation unexpectedly confers the mutant plants Cd tolerance due to less Cd accumulation in leaves. Expression analysis of the genes required for Cd uptake and transport revealed complicated alterations after applying Cd to wild-type and bc13. The mutants were further found to have altered vascular structure. More importantly, Cd concentration in the xylem saps from the bc13 plants was significantly lower than that from the wild-type. Combining the analyses of CESA9 gene expression and Cd content retention in the cell-wall residues, we conclude that CESA9(E101K) [corrected] mutation alters cell-wall properties in the conducting tissues, which consequently affects Cd translocation efficiency that largely contributes to the low Cd accumulation in the mutant plants. PMID:23376772

  19. Characterization and Localization of Insoluble Organic Matrices Associated with Diatom Cell Walls: Insight into Their Roles during Cell Wall Formation

    PubMed Central

    Tesson, Benoit; Hildebrand, Mark

    2013-01-01

    Organic components associated with diatom cell wall silica are important for the formation, integrity, and function of the cell wall. Polysaccharides are associated with the silica, however their localization, structure, and function remain poorly understood. We used imaging and biochemical approaches to describe in detail characteristics of insoluble organic components associated with the cell wall in 5 different diatom species. Results show that an insoluble organic matrix enriched in mannose, likely the diatotepum, is localized on the proximal surface of the silica cell wall. We did not identify any organic matrix embedded within the silica. We also identified a distinct material consisting of glucose polymer with variable localization depending on the species. In some species this component was directly involved in the morphogenesis of silica structure while in others it appeared to be only a structural component of the cell wall. A novel glucose-rich structure located between daughter cells during division was also identified. This work for the first time correlates the structure, composition, and localization of insoluble organic matrices associated with diatom cell walls. Additionally we identified a novel glucose polymer and characterized its role during silica structure formation. PMID:23626714

  20. Formation of secondary organic aerosol from isoprene oxidation over Europe

    NASA Astrophysics Data System (ADS)

    Karl, M.; Tsigaridis, K.; Vignati, E.; Dentener, F.

    2009-01-01

    The role of isoprene as a precursor to secondary organic aerosol (SOA) over Europe is studied with the two-way nested global chemistry transport model TM5. The inclusion of the formation of SOA from isoprene oxidation in our model almost doubles the atmospheric burden of SOA over Europe compared to SOA formation from terpenes and aromatics. The reference simulation, which considers SOA formation from isoprene, terpenes and aromatics, predicts a yearly European production rate of 1.0 Tg SOA yr-1 and an annual averaged atmospheric burden of about 50 Gg SOA over Europe. A fraction of 35% of the SOA produced in the boundary layer over Europe is transported to higher altitudes or to other world regions. Summertime measurements of particulate organic matter (POM) during the extensive EMEP OC/EC campaign 2002/2003 are better reproduced when SOA formation from isoprene is taken into account, reflecting also the strong seasonality of isoprene and other biogenic volatile organic compounds (BVOC) emissions from vegetation. However, during winter, our model strongly underestimates POM, likely caused by missing wood burning in the emission inventories. Uncertainties in the parameterisation of isoprene SOA formation have been investigated. Maximum SOA production is found for irreversible sticking (non-equilibrium partitioning) of condensable vapours on particles, with tropospheric SOA production over Europe increased by a factor of 4 in summer compared to the reference case. Completely neglecting SOA formation from isoprene results in the lowest estimate (0.51 Tg SOA yr-1). The amount and the nature of the absorbing matter are shown to be another key uncertainty when predicting SOA levels. Tropospheric isoprene SOA production over Europe in summer more than doubles when, in addition to pre-existing carbonaceous aerosols, condensation of semi volatile vapours on ammonium and sulphate aerosols is considered. Consequently, smog chamber experiments on SOA formation should be

  1. Formation of secondary organic aerosol from isoprene oxidation over Europe

    NASA Astrophysics Data System (ADS)

    Karl, M.; Tsigaridis, K.; Vignati, E.; Dentener, F.

    2009-09-01

    The role of isoprene as a precursor to secondary organic aerosol (SOA) over Europe is studied with the two-way nested global chemistry transport model TM5. The inclusion of the formation of SOA from isoprene oxidation in our model almost doubles the atmospheric burden of SOA over Europe compared to SOA formation from terpenes and aromatics. The reference simulation, which considers SOA formation from isoprene, terpenes and aromatics, predicts a yearly European production rate of 1.0 Tg SOA yr-1 and an annual averaged atmospheric burden of about 50 Gg SOA over Europe. A fraction of 35% of the SOA produced in the boundary layer over Europe is transported to higher altitudes or to other world regions. Summertime measurements of organic matter (OM) during the extensive EMEP OC/EC campaign 2002/2003 are better reproduced when SOA formation from isoprene is taken into account, reflecting also the strong seasonality of isoprene and other biogenic volatile organic compounds (BVOC) emissions from vegetation. However, during winter, our model strongly underestimates OM, likely caused by missing wood burning in the emission inventories. Uncertainties in the parameterisation of isoprene SOA formation have been investigated. Maximum SOA production is found for irreversible sticking (non-equilibrium partitioning) of condensable vapours on particles, with tropospheric SOA production over Europe increased by a factor of 4 in summer compared to the reference case. Completely neglecting SOA formation from isoprene results in the lowest estimate (0.51 Tg SOA yr-1). The amount and the nature of the absorbing matter are shown to be another key uncertainty when predicting SOA levels. Consequently, smog chamber experiments on SOA formation should be performed with different types of seed aerosols and without seed aerosols in order to derive an improved treatment of the absorption of SOA in the models. Consideration of a number of recent insights in isoprene SOA formation mechanisms

  2. Domain wall formation in late-time phase transitions

    NASA Technical Reports Server (NTRS)

    Kolb, Edward W.; Wang, Yun

    1992-01-01

    We examine domain wall formulation in late time phase transitions. We find that in the invisible axion domain wall phenomenon, thermal effects alone are insufficient to drive different parts of the disconnected vacuum manifold. This suggests that domain walls do not form unless either there is some supplemental (but perhaps not unreasonable) dynamics to localize the scalar field responsible for the phase transition to the low temperature maximum (to an extraordinary precision) before the onset of the phase transition, or there is some non-thermal mechanism to produce large fluctuations in the scalar field. The fact that domain wall production is not a robust prediction of late time transitions may suggest future directions in model building.

  3. Secondary eyewall formation in high resolution, realistic hurricane simulations

    NASA Astrophysics Data System (ADS)

    Abarca Fuente, Sergio Federico

    This dissertation explores the dynamics of secondary eyewall formation (SEF) through the analysis of high resolution (1.33 km), realistic integrations of the National Center for Atmospheric Research Advanced Hurricane Weather Research and Forecasting model. Numerical simulations of Hurricanes Katrina and Rita (2005) and Igor (2010) are analyzed. The evolution of these storms was well captured by the model and each simulation exhibited a secondary eyewall (SE): a ring of deep convection separate from the primary eyewall that develops a strong acceleration of the tangential wind. This acceleration manifests itself as an abrupt radial expansion of the tangential wind field, sometimes followed by an independent wind maximum. The convective and wind structures of the SE in the simulations are shown to be consistent with observations. The results presented suggest that unbalanced dynamic processes are fundamental in SEF. It is shown that vortical hot towers (VHTs) are the convective structures that constitute the SE. Their collective effects account for, (a) the establishment of the convective maximum, (b) the weakening of the primary eyewall through competition for inflow (that may culminate with an eyewall replacement cycle) and (c) the wind acceleration, that may or may not express itself as an independent secondary maximum in the tangential wind field. It is shown that the establishment of the VHTs that constitute the SE can be the result of different processes: (1) the release of large amounts of buoyant energy at the radius of the SE; and (2) the accumulation of potential vorticity at the stagnation radius of vortex Rossby waves. In either case, the SE is characterized by a positive potential vorticity anomaly in the lower troposphere that is further enhanced by VHT activity and the axisymmetrization of their remnants, increasing the likelihood for future convection to occur.

  4. Environmental and Biofilm-dependent Changes in a Bacillus cereus Secondary Cell Wall Polysaccharide*

    PubMed Central

    Candela, Thomas; Maes, Emmanuel; Garénaux, Estelle; Rombouts, Yoann; Krzewinski, Frédéric; Gohar, Michel; Guérardel, Yann

    2011-01-01

    Bacterial species from the Bacillus genus, including Bacillus cereus and Bacillus anthracis, synthesize secondary cell wall polymers (SCWP) covalently associated to the peptidoglycan through a phospho-diester linkage. Although such components were observed in a wide panel of B. cereus and B. anthracis strains, the effect of culture conditions or of bacterial growth state on their synthesis has never been addressed. Herein we show that B. cereus ATCC 14579 can synthesize not only one, as previously reported, but two structurally unrelated secondary cell wall polymers (SCWP) polysaccharides. The first of these SCWP, →4)[GlcNAc(β1–3)]GlcNAc(β1–6)[Glc(β1-3)][ManNAc(α1–4)]GalNAc(α1–4)ManNAc(β1→, although presenting an original sequence, fits to the already described the canonical sequence motif of SCWP. In contrast, the second polysaccharide was made up by a totally original sequence, →6)Gal(α1–2)(2-R-hydroxyglutar-5-ylamido)Fuc2NAc4N(α1-6)GlcNAc(β1→, which no equivalent has ever been identified in the Bacillus genus. In addition, we established that the syntheses of these two polysaccharides were differently regulated. The first one is constantly expressed at the surface of the bacteria, whereas the expression of the second is tightly regulated by culture conditions and growth states, planktonic, or biofilm. PMID:21784857

  5. Modeling Secondary Organic Aerosol Formation From Emissions of Combustion Sources

    NASA Astrophysics Data System (ADS)

    Jathar, Shantanu Hemant

    Atmospheric aerosols exert a large influence on the Earth's climate and cause adverse public health effects, reduced visibility and material degradation. Secondary organic aerosol (SOA), defined as the aerosol mass arising from the oxidation products of gas-phase organic species, accounts for a significant fraction of the submicron atmospheric aerosol mass. Yet, there are large uncertainties surrounding the sources, atmospheric evolution and properties of SOA. This thesis combines laboratory experiments, extensive data analysis and global modeling to investigate the contribution of semi-volatile and intermediate volatility organic compounds (SVOC and IVOC) from combustion sources to SOA formation. The goals are to quantify the contribution of these emissions to ambient PM and to evaluate and improve models to simulate its formation. To create a database for model development and evaluation, a series of smog chamber experiments were conducted on evaporated fuel, which served as surrogates for real-world combustion emissions. Diesel formed the most SOA followed by conventional jet fuel / jet fuel derived from natural gas, gasoline and jet fuel derived from coal. The variability in SOA formation from actual combustion emissions can be partially explained by the composition of the fuel. Several models were developed and tested along with existing models using SOA data from smog chamber experiments conducted using evaporated fuel (this work, gasoline, fischertropschs, jet fuel, diesels) and published data on dilute combustion emissions (aircraft, on- and off-road gasoline, on- and off-road diesel, wood burning, biomass burning). For all of the SOA data, existing models under-predicted SOA formation if SVOC/IVOC were not included. For the evaporated fuel experiments, when SVOC/IVOC were included predictions using the existing SOA model were brought to within a factor of two of measurements with minor adjustments to model parameterizations. Further, a volatility

  6. Vortex head-to-head domain walls and their formation in onion-state ring elements

    NASA Astrophysics Data System (ADS)

    Park, M. H.; Hong, Y. K.; Choi, B. C.; Donahue, M. J.; Han, H.; Gee, S. H.

    2006-03-01

    Magnetization configuration of vortex head-to-head (HTH) domain walls and the wall-formation process in Ni80Fe20 ring elements were investigated using magnetic force microscopy (MFM) and micromagnetic simulation. At remanence, two types of vortex HTH domain walls were observed to be stable in the onion configuration, depending on the film thickness: single- and double-vortex HTH domain walls for 40 and 65nm thick ring elements, respectively. As the vortex core nucleated during formation of the HTH domain wall, exchange energy began to decrease, accompanied by an increase in the width of the wall. Vortex nucleation in the 65nm thick ring was found to be much faster than in the 40nm thick ring element. This effect can be attributed to the higher initial magnetostatic energy density in the thicker ring.

  7. SECONDARY ORGANIC AEROSOL FORMATION FROM THE IRRADIATION OF SIMULATED AUTOMOBILE EXHAUST

    EPA Science Inventory

    A laboratory study was conducted to evaluate the potential for secondary organic aerosol formation from emissions from automotive exhaust. The goal was to determine to what extent photochemical oxidation products of these hydrocarbons contribute to secondary organic aerosol (SO...

  8. Cotton GhMYB7 is predominantly expressed in developing fibers and regulates secondary cell wall biosynthesis in transgenic Arabidopsis.

    PubMed

    Huang, Junfeng; Chen, Feng; Wu, Siyu; Li, Juan; Xu, Wenliang

    2016-02-01

    The secondary cell wall in mature cotton fibers contains over 90% cellulose with low quantities of xylan and lignin. However, little is known regarding the regulation of secondary cell wall biosynthesis in cotton fibers. In this study, we characterized an R2R3-MYB transcription factor, GhMYB7, in cotton. GhMYB7 is expressed at a high level in developing fibers and encodes a MYB protein that is targeted to the cell nucleus and has transcriptional activation activity. Ectopic expression of GhMYB7 in Arabidopsis resulted in small, curled, dark green leaves and also led to shorter inflorescence stems. A cross-sectional assay of basal stems revealed that cell wall thickness of vessels and interfascicular fibers was higher in transgenic lines overexpressing GhMYB7 than in the wild type. Constitutive expression of GhMYB7 in Arabidopsis activated the expression of a suite of secondary cell wall biosynthesis-related genes (including some secondary cell wall-associated transcription factors), leading to the ectopic deposition of cellulose and lignin. The ectopic deposition of secondary cell walls may have been initiated before the cessation of cell expansion. Moreover, GhMYB7 was capable of binding to the promoter regions of AtSND1 and AtCesA4, suggesting that GhMYB7 may function upstream of NAC transcription factors. Collectively, these findings suggest that GhMYB7 is a potential transcriptional activator, which may participate in regulating secondary cell wall biosynthesis of cotton fibers. PMID:26803299

  9. Secondary organic aerosol formation from road vehicle emissions

    NASA Astrophysics Data System (ADS)

    Pieber, Simone M.; Platt, Stephen M.; El Haddad, Imad; Zardini, Alessandro A.; Suarez-Bertoa, Ricardo; Slowik, Jay G.; Huang, Ru-Jin; Hellebust, Stig; Temime-Roussel, Brice; Marchand, Nicolas; Drinovec, Luca; Mocnik, Grisa; Baltensperger, Urs; Astorga, Covadogna; Prévôt, André S. H.

    2014-05-01

    Organic aerosol particles (OA) are a major fraction of the submicron particulate matter. OA consists of directly emitted primary (POA) and secondary OA (SOA). SOA is formed in-situ in the atmosphere via the reaction of volatile organic precursors. The partitioning of SOA species depends not only on the exposure to oxidants, but for instance also on temperature, relative humidity (RH), and the absorptive mass chemical composition (presence of inorganics) and concentration. Vehicle exhaust is a known source of POA and likely contributes to SOA formation in urban areas [1;2]. This has recently been estimated by (i) analyzing ambient data from urban areas combined with fuel consumption data [3], (ii) by examining the chemical composition of raw fuels [4], or (iii) smog chamber studies [5, 6]. Contradictory and thus somewhat controversial results in the relative quantity of SOA from diesel vs. gasoline vehicle exhaust were observed. In order to elucidate the impact of variable ambient conditions on the potential SOA formation of vehicle exhaust, and its relation to the emitted gas phase species, we studied SOA formed from the exhaust of passenger cars and trucks as a function of fuel and engine type (gasoline, diesel) at different temperatures (T 22 vs. -7oC) and RH (40 vs. 90%), as well as with different levels of inorganic salt concentrations. The exhaust was sampled at the tailpipe during regulatory driving cycles on chassis dynamometers, diluted (200 - 400x) and introduced into the PSI mobile smog chamber [6], where the emissions were subjected to simulated atmospheric ageing. Particle phase instruments (HR-ToF-AMS, aethalometers, CPC, SMPS) and gas phase instruments (PTR-TOF-MS, CO, CO2, CH4, THC, NH3 and other gases) were used online during the experiments. We found that gasoline emissions, because of cold starts, were generally larger than diesel, especially during cold temperatures driving cycles. Gasoline vehicles also showed the highest SOA formation

  10. Building and degradation of secondary cell walls: are there common patterns of lamellar assembly of cellulose microfibrils and cell wall delamination?

    PubMed

    De Micco, Veronica; Ruel, Katia; Joseleau, Jean-Paul; Aronne, Giovanna

    2010-08-01

    During cell wall formation and degradation, it is possible to detect cellulose microfibrils assembled into thicker and thinner lamellar structures, respectively, following inverse parallel patterns. The aim of this study was to analyse such patterns of microfibril aggregation and cell wall delamination. The thickness of microfibrils and lamellae was measured on digital images of both growing and degrading cell walls viewed by means of transmission electron microscopy. To objectively detect, measure and classify microfibrils and lamellae into thickness classes, a method based on the application of computerized image analysis combined with graphical and statistical methods was developed. The method allowed common classes of microfibrils and lamellae in cell walls to be identified from different origins. During both the formation and degradation of cell walls, a preferential formation of structures with specific thickness was evidenced. The results obtained with the developed method allowed objective analysis of patterns of microfibril aggregation and evidenced a trend of doubling/halving lamellar structures, during cell wall formation/degradation in materials from different origin and which have undergone different treatments. PMID:20532796

  11. Nonequilibrium atmospheric secondary organic aerosol formation and growth.

    PubMed

    Perraud, Véronique; Bruns, Emily A; Ezell, Michael J; Johnson, Stanley N; Yu, Yong; Alexander, M Lizabeth; Zelenyuk, Alla; Imre, Dan; Chang, Wayne L; Dabdub, Donald; Pankow, James F; Finlayson-Pitts, Barbara J

    2012-02-21

    Airborne particles play critical roles in air quality, health effects, visibility, and climate. Secondary organic aerosols (SOA) formed from oxidation of organic gases such as α-pinene account for a significant portion of total airborne particle mass. Current atmospheric models typically incorporate the assumption that SOA mass is a liquid into which semivolatile organic compounds undergo instantaneous equilibrium partitioning to grow the particles into the size range important for light scattering and cloud condensation nuclei activity. We report studies of particles from the oxidation of α-pinene by ozone and NO(3) radicals at room temperature. SOA is primarily formed from low-volatility ozonolysis products, with a small contribution from higher volatility organic nitrates from the NO(3) reaction. Contrary to expectations, the particulate nitrate concentration is not consistent with equilibrium partitioning between the gas phase and a liquid particle. Rather the fraction of organic nitrates in the particles is only explained by irreversible, kinetically determined uptake of the nitrates on existing particles, with an uptake coefficient that is 1.6% of that for the ozonolysis products. If the nonequilibrium particle formation and growth observed in this atmospherically important system is a general phenomenon in the atmosphere, aerosol models may need to be reformulated. The reformulation of aerosol models could impact the predicted evolution of SOA in the atmosphere both outdoors and indoors, its role in heterogeneous chemistry, its projected impacts on air quality, visibility, and climate, and hence the development of reliable control strategies. PMID:22308444

  12. Nonequilibrium atmospheric secondary organic aerosol formation and growth

    PubMed Central

    Perraud, Véronique; Bruns, Emily A.; Ezell, Michael J.; Johnson, Stanley N.; Yu, Yong; Alexander, M. Lizabeth; Zelenyuk, Alla; Imre, Dan; Chang, Wayne L.; Dabdub, Donald; Pankow, James F.; Finlayson-Pitts, Barbara J.

    2012-01-01

    Airborne particles play critical roles in air quality, health effects, visibility, and climate. Secondary organic aerosols (SOA) formed from oxidation of organic gases such as α-pinene account for a significant portion of total airborne particle mass. Current atmospheric models typically incorporate the assumption that SOA mass is a liquid into which semivolatile organic compounds undergo instantaneous equilibrium partitioning to grow the particles into the size range important for light scattering and cloud condensation nuclei activity. We report studies of particles from the oxidation of α-pinene by ozone and NO3 radicals at room temperature. SOA is primarily formed from low-volatility ozonolysis products, with a small contribution from higher volatility organic nitrates from the NO3 reaction. Contrary to expectations, the particulate nitrate concentration is not consistent with equilibrium partitioning between the gas phase and a liquid particle. Rather the fraction of organic nitrates in the particles is only explained by irreversible, kinetically determined uptake of the nitrates on existing particles, with an uptake coefficient that is 1.6% of that for the ozonolysis products. If the nonequilibrium particle formation and growth observed in this atmospherically important system is a general phenomenon in the atmosphere, aerosol models may need to be reformulated. The reformulation of aerosol models could impact the predicted evolution of SOA in the atmosphere both outdoors and indoors, its role in heterogeneous chemistry, its projected impacts on air quality, visibility, and climate, and hence the development of reliable control strategies. PMID:22308444

  13. Co-delivery of cell-wall-forming enzymes in the same vesicle for coordinated fungal cell wall formation.

    PubMed

    Schuster, Martin; Martin-Urdiroz, Magdalena; Higuchi, Yujiro; Hacker, Christian; Kilaru, Sreedhar; Gurr, Sarah J; Steinberg, Gero

    2016-01-01

    Fungal cells are surrounded by an extracellular cell wall. This complex matrix of proteins and polysaccharides protects against adverse stresses and determines the shape of fungal cells. The polysaccharides of the fungal wall include 1,3-β-glucan and chitin, which are synthesized by membrane-bound synthases at the growing cell tip. A hallmark of filamentous fungi is the class V chitin synthase, which carries a myosin-motor domain. In the corn smut fungus Ustilago maydis, the myosin-chitin synthase Mcs1 moves to the plasma membrane in secretory vesicles, being delivered by kinesin-1 and myosin-5. The myosin domain of Mcs1 enhances polar secretion by tethering vesicles at the site of exocytosis. It remains elusive, however, how other cell-wall-forming enzymes are delivered and how their activity is coordinated post secretion. Here, we show that the U. maydis class VII chitin synthase and 1,3-β-glucan synthase travel in Mcs1-containing vesicles, and that their apical secretion depends on Mcs1. Once in the plasma membrane, anchorage requires enzyme activity, which suggests co-synthesis of chitin and 1,3-β-glucan polysaccharides at sites of exocytosis. Thus, delivery of cell-wall-forming enzymes in Mcs1 vesicles ensures local foci of fungal cell wall formation. PMID:27563844

  14. Heteromannan and Heteroxylan Cell Wall Polysaccharides Display Different Dynamics During the Elongation and Secondary Cell Wall Deposition Phases of Cotton Fiber Cell Development

    PubMed Central

    Hernandez-Gomez, Mercedes C.; Runavot, Jean-Luc; Guo, Xiaoyuan; Bourot, Stéphane; Benians, Thomas A.S.; Willats, William G.T.; Meulewaeter, Frank; Knox, J. Paul

    2015-01-01

    The roles of non-cellulosic polysaccharides in cotton fiber development are poorly understood. Combining glycan microarrays and in situ analyses with monoclonal antibodies, polysaccharide linkage analyses and transcript profiling, the occurrence of heteromannan and heteroxylan polysaccharides and related genes in developing and mature cotton (Gossypium spp.) fibers has been determined. Comparative analyses on cotton fibers at selected days post-anthesis indicate different temporal and spatial regulation of heteromannan and heteroxylan during fiber development. The LM21 heteromannan epitope was more abundant during the fiber elongation phase and localized mainly in the primary cell wall. In contrast, the AX1 heteroxylan epitope occurred at the transition phase and during secondary cell wall deposition, and localized in both the primary and the secondary cell walls of the cotton fiber. These developmental dynamics were supported by transcript profiling of biosynthetic genes. Whereas our data suggest a role for heteromannan in fiber elongation, heteroxylan is likely to be involved in the regulation of cellulose deposition of secondary cell walls. In addition, the relative abundance of these epitopes during fiber development varied between cotton lines with contrasting fiber characteristics from four species (G. hirsutum, G. barbadense, G. arboreum and G. herbaceum), suggesting that these non-cellulosic polysaccharides may be involved in determining final fiber quality and suitability for industrial processing. PMID:26187898

  15. Heteromannan and Heteroxylan Cell Wall Polysaccharides Display Different Dynamics During the Elongation and Secondary Cell Wall Deposition Phases of Cotton Fiber Cell Development.

    PubMed

    Hernandez-Gomez, Mercedes C; Runavot, Jean-Luc; Guo, Xiaoyuan; Bourot, Stéphane; Benians, Thomas A S; Willats, William G T; Meulewaeter, Frank; Knox, J Paul

    2015-09-01

    The roles of non-cellulosic polysaccharides in cotton fiber development are poorly understood. Combining glycan microarrays and in situ analyses with monoclonal antibodies, polysaccharide linkage analyses and transcript profiling, the occurrence of heteromannan and heteroxylan polysaccharides and related genes in developing and mature cotton (Gossypium spp.) fibers has been determined. Comparative analyses on cotton fibers at selected days post-anthesis indicate different temporal and spatial regulation of heteromannan and heteroxylan during fiber development. The LM21 heteromannan epitope was more abundant during the fiber elongation phase and localized mainly in the primary cell wall. In contrast, the AX1 heteroxylan epitope occurred at the transition phase and during secondary cell wall deposition, and localized in both the primary and the secondary cell walls of the cotton fiber. These developmental dynamics were supported by transcript profiling of biosynthetic genes. Whereas our data suggest a role for heteromannan in fiber elongation, heteroxylan is likely to be involved in the regulation of cellulose deposition of secondary cell walls. In addition, the relative abundance of these epitopes during fiber development varied between cotton lines with contrasting fiber characteristics from four species (G. hirsutum, G. barbadense, G. arboreum and G. herbaceum), suggesting that these non-cellulosic polysaccharides may be involved in determining final fiber quality and suitability for industrial processing. PMID:26187898

  16. Secondary brown carbon formation via the dicarbonyl imine pathway: nitrogen heterocycle formation and synergistic effects.

    PubMed

    Kampf, C J; Filippi, A; Zuth, C; Hoffmann, T; Opatz, T

    2016-07-21

    Dicarbonyls are known to be important precursors of so-called atmospheric brown carbon, significantly affecting aerosol optical properties and radiative forcing. In this systematic study we report the formation of light-absorbing nitrogen containing compounds from simple 1,2-, 1,3-, 1,4-, and 1,5-dicarbonyl + amine reactions. A combination of spectrophotometric and mass spectrometric techniques was used to characterize reaction products in solutions mimicking atmospheric particulates. Experiments with individual dicarbonyls and dicarbonyl mixtures in ammonium sulfate and glycine solutions demonstrate that nitrogen heterocycles are common structural motifs of brown carbon chromophores formed in such reaction systems. 1,4- and 1,5-dicarbonyl reaction systems, which were used as surrogates for terpene ozonolysis products, showed rapid formation of light-absorbing material and products with absorbance maxima at ∼450 nm. Synergistic effects on absorbance properties were observed in mixed (di-)carbonyl experiments, as indicated by the formation of a strong absorber in ammonium sulfate solutions containing acetaldehyde and acetylacetone. This cross-reaction oligomer shows an absorbance maximum at 385 nm, relevant for the actinic flux region of the atmosphere. This study demonstrates the complexity of secondary brown carbon formation via the imine pathway and highlights that cross-reactions with synergistic effects have to be considered an important pathway for atmospheric BrC formation. PMID:27334793

  17. Kinetics, products, and mechanisms of secondary organic aerosol formation.

    PubMed

    Ziemann, Paul J; Atkinson, Roger

    2012-10-01

    Secondary organic aerosol (SOA) is formed in the atmosphere when volatile organic compounds (VOCs) emitted from anthropogenic and biogenic sources are oxidized by reactions with OH radicals, O(3), NO(3) radicals, or Cl atoms to form less volatile products that subsequently partition into aerosol particles. Once in particles, these organic compounds can undergo heterogenous/multiphase reactions to form more highly oxidized or oligomeric products. SOA comprises a large fraction of atmospheric aerosol mass and can have significant effects on atmospheric chemistry, visibility, human health, and climate. Previous articles have reviewed the kinetics, products, and mechanisms of atmospheric VOC reactions and the general chemistry and physics involved in SOA formation. In this article we present a detailed review of VOC and heterogeneous/multiphase chemistry as they apply to SOA formation, with a focus on the effects of VOC molecular structure on the kinetics of initial reactions with the major atmospheric oxidants, the subsequent reactions of alkyl, alkyl peroxy, and alkoxy radical intermediates, and the composition of the resulting products. Structural features of reactants and products discussed include compound carbon number; linear, branched, and cyclic configurations; the presence of C[double bond, length as m-dash]C bonds and aromatic rings; and functional groups such as carbonyl, hydroxyl, ester, hydroxperoxy, carboxyl, peroxycarboxyl, nitrate, and peroxynitrate. The intention of this review is to provide atmospheric chemists with sufficient information to understand the dominant pathways by which the major classes of atmospheric VOCs react to form SOA products, and the further reactions of these products in particles. This will allow reasonable predictions to be made, based on molecular structure, about the kinetics, products, and mechanisms of VOC and heterogeneous/multiphase reactions, including the effects of important variables such as VOC, oxidant, and NO

  18. Boundary Layer Dynamical Structure During Secondary Eyewall Formation

    NASA Astrophysics Data System (ADS)

    Abarca, S. F.; Montgomery, M. T.; McWilliams, J. C.

    2014-12-01

    Secondary eyewall formation (SEF) is widely recognized as an important research problem in the dynamics of mature tropical cyclones. It has been shown that the development of the wind maxima in SEF occurs within the boundary layer and that it follows a chain of events initiated by a substantial radial expansion of the tangential wind field. In this context, there is not yet a consensus on the phenomenon's essential physics. It has been proposed that the boundary-layer dynamics of a maturing hurricane vortex is an important controlling element in SEF. However, recent literature also argues that hurricane boundary layers and the related coupling with the interior flow can be described through an Ekman-like balance and that shock-like structures are relevant in the swirling boundary layer of the inner core of mature storms. We analyze the radial and vertical structure of the specific forces and accelerations in in the boundary layer in a mature hurricane that includes a canonical eyewall replacement cycle. The case occurred in a mesoscale, convection-permitting numerical simulation of a tropical cyclone, integrated from an initial weak mesoscale vortex in an idealized quiescent environment. The simulation has been studied extensively in the literature. We find that momentum advection is almost everywhere important (some of it is associated with asymmetric eddies). We discuss the implication of our findings on the proposed importance of Ekman-like balance dynamics during SEF. Finally, our analysis does not support the recently proposed idea that the radial advection of radial momentum, and shock-like structures, are closely related to the supergradient wind phenomena observed during SEF.

  19. Modeling SOA formation from alkanes and alkenes in chamber experiments: effect of gas/wall partitioning of organic vapors.

    NASA Astrophysics Data System (ADS)

    Stéphanie La, Yuyi; Camredon, Marie; Ziemann, Paul; Ouzebidour, Farida; Valorso, Richard; Madronich, Sasha; Lee-Taylor, Julia; Hodzic, Alma; Aumont, Bernard

    2014-05-01

    Oxidation products of Intermediate Volatility Organic Compounds (IVOC) are expected to be the major precursors of secondary organic aerosols (SOA). Laboratory experiments were conducted this last decade in the Riverside APRC chamber to study IVOC oxidative mechanisms and SOA formation processes for a large set of linear, branched and cyclic aliphatic hydrocarbons (Ziemann, 2011). This dataset are used here to assess the explicit oxidation model GECKO-A (Generator for Explicit Chemistry and Kinetics of Organics in the Atmosphere) (Aumont et al., 2005). The simulated SOA yields agree with the general trends observed in the chamber experiments. They are (i) increasing with the increasing carbon number; (ii) decreasing with increasing methyl branch number; and (iii) increasing for cyclic compounds compared to their corresponding linear analogues. However, simulated SOA yields are systematically overestimated regardless of the precursors, suggesting missing processes in the model. In this study, we assess whether gas-to-wall partitioning of organic vapors can explain these model/observation mismatches (Matsunaga and Ziemann, 2010). First results show that GECKO-A outputs better match the observations when wall uptake of organic vapors is taken into account. Effects of gas/wall partitioning on SOA yields and composition will be presented. Preliminary results suggest that wall uptake is a major process influencing SOA production in the Teflon chambers. References Aumont, B., Szopa, S., Madronich, S.: Modelling the evolution of organic carbon during its gas-phase tropospheric oxidation: development of an explicit model based on a self generating approach. Atmos.Chem.Phys., 5, 2497-2517 (2005). P. J. Ziemann: Effects of molecular structure on the chemistry of aerosol formation from the OH-radical-initiated oxidation of alkanes and alkenes, Int. Rev.Phys.Chem., 30:2, 161-195 (2011). Matsunaga, A., Ziemann, P. J.: Gas-wall partitioning of organic compounds in a Teflon film

  20. In situ secondary organic aerosol formation from ambient pine forest air using an oxidation flow reactor

    NASA Astrophysics Data System (ADS)

    Palm, B. B.; Campuzano-Jost, P.; Ortega, A. M.; Day, D. A.; Kaser, L.; Jud, W.; Karl, T.; Hansel, A.; Hunter, J. F.; Cross, E. S.; Kroll, J. H.; Peng, Z.; Brune, W. H.; Jimenez, J. L.

    2015-11-01

    Ambient air was oxidized by OH radicals in an oxidation flow reactor (OFR) located in a montane pine forest during the BEACHON-RoMBAS campaign to study biogenic secondary organic aerosol (SOA) formation and aging. High OH concentrations and short residence times allowed for semi-continuous cycling through a large range of OH exposures ranging from hours to weeks of equivalent (eq.) atmospheric aging. A simple model is derived and used to account for the relative time scales of condensation of low volatility organic compounds (LVOCs) onto particles, condensational loss to the walls, and further reaction to produce volatile, non-condensing fragmentation products. More SOA production was observed in the OFR at nighttime (average 4 μg m-3 when LVOC fate corrected) compared to daytime (average 1 μg m-3 when LVOC fate corrected), with maximum formation observed at 0.4-1.5 eq. days of photochemical aging. SOA formation followed a similar diurnal pattern to monoterpenes, sesquiterpenes, and toluene + p-cymene concentrations, including a substantial increase just after sunrise at 07:00 LT. Higher photochemical aging (> 10 eq. days) led to a decrease in new SOA formation and a loss of preexisting OA due to heterogeneous oxidation followed by fragmentation and volatilization. When comparing two different commonly used methods of OH production in OFRs (OFR185 and OFR254), similar amounts of SOA formation were observed. We recommend the OFR185 mode for future forest studies. Concurrent gas-phase measurements of air after OH oxidation illustrate the decay of primary VOCs, production of small oxidized organic compounds, and net production at lower ages followed by net consumption of terpenoid oxidation products as photochemical age increased. New particle formation was observed in the reactor after oxidation, especially during times when precursor gas concentrations and SOA formation were largest. Approximately 6 times more SOA was formed in the reactor from OH oxidation than

  1. Involvement of Extracellular Cu/Zn Superoxide Dismutase in Cotton Fiber Primary and Secondary Cell Wall Biosynthesis

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Extracellular Cu/Zn superoxide dismutases (CSDs) that catalyze the conversion of superoxide to hydrogen peroxide have been suggested to be involved in lignification of secondary walls in spinach, pine and aspen. In cotton fibers, hydrogen peroxide was proposed to be involved in the induction of seco...

  2. Secondary cell wall development in cotton fibers as examined with attenuated total reflection Fourier transform infrared spectroscopy

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Cotton fibers harvested at 18, 20, 24, 28, 32, 36 and 40 days after flowering were examined using attenuated total reflection Fourier transform-infrared (ATR FT-IR) spectroscopy. The selected harvesting points coincide with secondary cell wall (SCW) development in the fibers. Progressive but moderat...

  3. A Novel Isoform of Sucrose Synthase Is Targeted to the Cell Wall during Secondary Cell Wall Synthesis in Cotton Fiber[C][W][OA

    PubMed Central

    Brill, Elizabeth; van Thournout, Michel; White, Rosemary G.; Llewellyn, Danny; Campbell, Peter M.; Engelen, Steven; Ruan, Yong-Ling; Arioli, Tony; Furbank, Robert T.

    2011-01-01

    Sucrose (Suc) synthase (Sus) is the major enzyme of Suc breakdown for cellulose biosynthesis in cotton (Gossypium hirsutum) fiber, an important source of fiber for the textile industry. This study examines the tissue-specific expression, relative abundance, and temporal expression of various Sus transcripts and proteins present in cotton. A novel isoform of Sus (SusC) is identified that is expressed at high levels during secondary cell wall synthesis in fiber and is present in the cell wall fraction. The phylogenetic relationships of the deduced amino acid sequences indicate two ancestral groups of Sus proteins predating the divergence of monocots and dicots and that SusC sequences form a distinct branch in the phylogeny within the dicot-specific clade. The subcellular location of the Sus isoforms is determined, and it is proposed that cell wall-localized SusC may provide UDP-glucose for cellulose and callose synthesis from extracellular sugars. PMID:21757635

  4. Constraining condensed-phase formation kinetics of secondary organic aerosol components from isoprene epoxydiols

    NASA Astrophysics Data System (ADS)

    Riedel, T. P.; Lin, Y.-H.; Zhang, Z.; Chu, K.; Thornton, J. A.; Vizuete, W.; Gold, A.; Surratt, J. D.

    2015-10-01

    Isomeric epoxydiols from isoprene photooxidation (IEPOX) have been shown to produce substantial amounts of secondary organic aerosol (SOA) mass and are therefore considered a major isoprene-derived SOA precursor. Heterogeneous reactions of IEPOX on atmospheric aerosols form various aerosol-phase components or "tracers" that contribute to the SOA mass burden. A limited number of the reaction rate constants for these acid-catalyzed aqueous-phase tracer formation reactions have been constrained through bulk laboratory measurements. We have designed a chemical box model with multiple experimental constraints to explicitly simulate gas- and aqueous-phase reactions during chamber experiments of SOA growth from IEPOX uptake onto acidic sulfate aerosol. The model is constrained by measurements of the IEPOX reactive uptake coefficient, IEPOX and aerosol chamber wall-losses, chamber-measured aerosol mass and surface area concentrations, aerosol thermodynamic model calculations, and offline filter-based measurements of SOA tracers. By requiring the model output to match the SOA growth and offline filter measurements collected during the chamber experiments, we derive estimates of the tracer formation reaction rate constants that have not yet been measured or estimated for bulk solutions.

  5. Constraining condensed-phase formation kinetics of secondary organic aerosol components from isoprene epoxydiols

    NASA Astrophysics Data System (ADS)

    Riedel, T. P.; Lin, Y.-H.; Zhang, Z.; Chu, K.; Thornton, J. A.; Vizuete, W.; Gold, A.; Surratt, J. D.

    2016-02-01

    Isomeric epoxydiols from isoprene photooxidation (IEPOX) have been shown to produce substantial amounts of secondary organic aerosol (SOA) mass and are therefore considered a major isoprene-derived SOA precursor. Heterogeneous reactions of IEPOX on atmospheric aerosols form various aerosol-phase components or "tracers" that contribute to the SOA mass burden. A limited number of the reaction rate constants for these acid-catalyzed aqueous-phase tracer formation reactions have been constrained through bulk laboratory measurements. We have designed a chemical box model with multiple experimental constraints to explicitly simulate gas- and aqueous-phase reactions during chamber experiments of SOA growth from IEPOX uptake onto acidic sulfate aerosol. The model is constrained by measurements of the IEPOX reactive uptake coefficient, IEPOX and aerosol chamber wall losses, chamber-measured aerosol mass and surface area concentrations, aerosol thermodynamic model calculations, and offline filter-based measurements of SOA tracers. By requiring the model output to match the SOA growth and offline filter measurements collected during the chamber experiments, we derive estimates of the tracer formation reaction rate constants that have not yet been measured or estimated for bulk solutions.

  6. Expression of S-adenosylmethionine Hydrolase in Tissues Synthesizing Secondary Cell Walls Alters Specific Methylated Cell Wall Fractions and Improves Biomass Digestibility

    PubMed Central

    Eudes, Aymerick; Zhao, Nanxia; Sathitsuksanoh, Noppadon; Baidoo, Edward E. K.; Lao, Jeemeng; Wang, George; Yogiswara, Sasha; Lee, Taek Soon; Singh, Seema; Mortimer, Jenny C.; Keasling, Jay D.; Simmons, Blake A.; Loqué, Dominique

    2016-01-01

    Plant biomass is a large source of fermentable sugars for the synthesis of bioproducts using engineered microbes. These sugars are stored as cell wall polymers, mainly cellulose and hemicellulose, and are embedded with lignin, which makes their enzymatic hydrolysis challenging. One of the strategies to reduce cell wall recalcitrance is the modification of lignin content and composition. Lignin is a phenolic polymer of methylated aromatic alcohols and its synthesis in tissues developing secondary cell walls is a significant sink for the consumption of the methyl donor S-adenosylmethionine (AdoMet). In this study, we demonstrate in Arabidopsis stems that targeted expression of AdoMet hydrolase (AdoMetase, E.C. 3.3.1.2) in secondary cell wall synthesizing tissues reduces the AdoMet pool and impacts lignin content and composition. In particular, both NMR analysis and pyrolysis gas chromatography mass spectrometry of lignin in engineered biomass showed relative enrichment of non-methylated p-hydroxycinnamyl (H) units and a reduction of dimethylated syringyl (S) units. This indicates a lower degree of methylation compared to that in wild-type lignin. Quantification of cell wall-bound hydroxycinnamates revealed a reduction of ferulate in AdoMetase transgenic lines. Biomass from transgenic lines, in contrast to that in control plants, exhibits an enrichment of glucose content and a reduction in the degree of hemicellulose glucuronoxylan methylation. We also show that these modifications resulted in a reduction of cell wall recalcitrance, because sugar yield generated by enzymatic biomass saccharification was greater than that of wild-type plants. Considering that transgenic plants show no important diminution of biomass yields, and that heterologous expression of AdoMetase protein can be spatiotemporally optimized, this novel approach provides a valuable option for the improvement of lignocellulosic biomass feedstock. PMID:27486577

  7. Expression of S-adenosylmethionine Hydrolase in Tissues Synthesizing Secondary Cell Walls Alters Specific Methylated Cell Wall Fractions and Improves Biomass Digestibility.

    PubMed

    Eudes, Aymerick; Zhao, Nanxia; Sathitsuksanoh, Noppadon; Baidoo, Edward E K; Lao, Jeemeng; Wang, George; Yogiswara, Sasha; Lee, Taek Soon; Singh, Seema; Mortimer, Jenny C; Keasling, Jay D; Simmons, Blake A; Loqué, Dominique

    2016-01-01

    Plant biomass is a large source of fermentable sugars for the synthesis of bioproducts using engineered microbes. These sugars are stored as cell wall polymers, mainly cellulose and hemicellulose, and are embedded with lignin, which makes their enzymatic hydrolysis challenging. One of the strategies to reduce cell wall recalcitrance is the modification of lignin content and composition. Lignin is a phenolic polymer of methylated aromatic alcohols and its synthesis in tissues developing secondary cell walls is a significant sink for the consumption of the methyl donor S-adenosylmethionine (AdoMet). In this study, we demonstrate in Arabidopsis stems that targeted expression of AdoMet hydrolase (AdoMetase, E.C. 3.3.1.2) in secondary cell wall synthesizing tissues reduces the AdoMet pool and impacts lignin content and composition. In particular, both NMR analysis and pyrolysis gas chromatography mass spectrometry of lignin in engineered biomass showed relative enrichment of non-methylated p-hydroxycinnamyl (H) units and a reduction of dimethylated syringyl (S) units. This indicates a lower degree of methylation compared to that in wild-type lignin. Quantification of cell wall-bound hydroxycinnamates revealed a reduction of ferulate in AdoMetase transgenic lines. Biomass from transgenic lines, in contrast to that in control plants, exhibits an enrichment of glucose content and a reduction in the degree of hemicellulose glucuronoxylan methylation. We also show that these modifications resulted in a reduction of cell wall recalcitrance, because sugar yield generated by enzymatic biomass saccharification was greater than that of wild-type plants. Considering that transgenic plants show no important diminution of biomass yields, and that heterologous expression of AdoMetase protein can be spatiotemporally optimized, this novel approach provides a valuable option for the improvement of lignocellulosic biomass feedstock. PMID:27486577

  8. Bacillus anthracis tagO Is Required for Vegetative Growth and Secondary Cell Wall Polysaccharide Synthesis

    PubMed Central

    Lunderberg, J. Mark; Liszewski Zilla, Megan; Missiakas, Dominique

    2015-01-01

    ABSTRACT Bacillus anthracis elaborates a linear secondary cell wall polysaccharide (SCWP) that retains surface (S)-layer and associated proteins via their S-layer homology (SLH) domains. The SCWP is comprised of trisaccharide repeats [→4)-β-ManNAc-(1→4)-β-GlcNAc-(1→6)-α-GlcNAc-(1→] and tethered via acid-labile phosphodiester bonds to peptidoglycan. Earlier work identified UDP-GlcNAc 2-epimerases GneY (BAS5048) and GneZ (BAS5117), which act as catalysts of ManNAc synthesis, as well as a polysaccharide deacetylase (BAS5051), as factors contributing to SCWP synthesis. Here, we show that tagO (BAS5050), which encodes a UDP-N-acetylglucosamine:undecaprenyl-P N-acetylglucosaminyl 1-P transferase, the enzyme that initiates the synthesis of murein linkage units, is required for B. anthracis SCWP synthesis and S-layer assembly. Similar to gneY-gneZ mutants, B. anthracis strains lacking tagO cannot maintain cell shape or support vegetative growth. In contrast, mutations in BAS5051 do not affect B. anthracis cell shape, vegetative growth, SCWP synthesis, or S-layer assembly. These data suggest that TagO-mediated murein linkage unit assembly supports SCWP synthesis and attachment to the peptidoglycan via acid-labile phosphodiester bonds. Further, B. anthracis variants unable to synthesize SCWP trisaccharide repeats cannot sustain cell shape and vegetative growth. IMPORTANCE Bacillus anthracis elaborates an SCWP to support vegetative growth and envelope assembly. Here, we show that some, but not all, SCWP synthesis is dependent on tagO-derived murein linkage units and subsequent attachment of SCWP to peptidoglycan. The data implicate secondary polymer modifications of peptidoglycan and subcellular distributions as a key feature of the cell cycle in Gram-positive bacteria and establish foundations for work on the molecular functions of the SCWP and on inhibitors with antibiotic attributes. PMID:26324447

  9. Pectinous cell wall thickenings formation - A common defense strategy of plants to cope with Pb.

    PubMed

    Krzesłowska, Magdalena; Rabęda, Irena; Basińska, Aneta; Lewandowski, Michał; Mellerowicz, Ewa J; Napieralska, Anna; Samardakiewicz, Sławomir; Woźny, Adam

    2016-07-01

    Lead, one of the most abundant and hazardous trace metals affecting living organisms, has been commonly detected in plant cell walls including some tolerant plants, mining ecotypes and hyperaccumulators. We have previously shown that in tip growing Funaria sp. protonemata cell wall is remodeled in response to lead by formation of thickenings rich in low-methylesterified pectins (pectin epitope JIM5 - JIM5-P) able to bind metal ions, which accumulate large amounts of Pb. Hence, it leads to the increase of cell wall capacity for Pb compartmentalization. Here we show that diverse plant species belonging to different phyla (Arabidopsis, hybrid aspen, star duckweed), form similar cell wall thickenings in response to Pb. These thickenings are formed in tip growing cells such as the root hairs, and in diffuse growing cells such as meristematic and root cap columella cells of root apices in hybrid aspen and Arabidopsis and in mesophyll cells in star duckweed fronds. Notably, all analyzed cell wall thickenings were abundant in JIM5-P and accumulated high amounts of Pb. In addition, the co-localization of JIM5-P and Pb commonly occurred in these cells. Hence, cell wall thickenings formed the extra compartment for Pb accumulation. In this way plant cells increased cell wall capacity for compartmentalization of this toxic metal, protecting protoplast from its toxicity. As cell wall thickenings occurred in diverse plant species and cell types differing in the type of growth we may conclude that pectinous cell wall thickenings formation is a widespread defense strategy of plants to cope with Pb. Moreover, detection of natural defense strategy, increasing plant cell walls capacity for metal accumulation, reveals a promising direction for enhancing plant efficiency in phytoremediation. PMID:27107260

  10. Secondary structure of proteins analyzed ex vivo in vascular wall in diabetic animals using FT-IR spectroscopy.

    PubMed

    Majzner, Katarzyna; Wrobel, Tomasz P; Fedorowicz, Andrzej; Chlopicki, Stefan; Baranska, Malgorzata

    2013-11-12

    In recent years many methods for ex vivo tissue analysis or diagnosis of diseases have been applied, including infrared absorption spectroscopy. Fourier-transform infrared (FT-IR) absorption microspectroscopy allows the simultaneous monitoring of the content of various chemical compounds in tissues with both high selectivity and resolution. Imaging of tissue samples in very short time can be performed using a spectrometer equipped with a Focal Plane Array (FPA) detector. Additionally, a detection of minor components or subtle changes associated with the functional status of a tissue sample is possible when advanced methods of data analysis, such as chemometric techniques, are applied. Monitoring of secondary structures of proteins has already proved to be useful in the analysis of animal tissues in disease states. The aim of this work was to build a mathematical model based on FT-IR measurements for the prediction of alterations in the content of secondary structures of proteins analyzed by FT-IR in the vascular wall of diabetic animals. For that purpose a spectral database of proteins of known crystallography and secondary structures was assembled. Thirty-seven proteins were measured by means of two FT-IR techniques: transflection and Attenuated Total Reflectance (ATR). The obtained model was tested on cross-sections of rat tail, for which the content of proteins and their secondary structures was well characterized. Then, the model was applied for the detection of possible alterations in the secondary structures of proteins in the vascular wall of diabetic rats and mice. The obtained results suggest a prominent increase in E- and S-structures and a decrease in the content of H-structures in the vascular wall from diabetic mice and rats. FT-IR-based studies of secondary structures of proteins may be a novel approach to study complex processes ongoing in the vascular wall. The obtained results are satisfactory; however, the existing limitations of the method are

  11. Plant metabolism and cell wall formation in space (microgravity) and on Earth

    NASA Technical Reports Server (NTRS)

    Lewis, Norman G.

    1994-01-01

    Variations in cell wall chemistry provide vascular plants with the ability to withstand gravitational forces, as well as providing facile mechanisms for correctional responses to various gravitational stimuli, e.g., in reaction wood formation. A principal focus of our current research is to precisely and systematically dissect the essentially unknown mechanism(s) of vascular plant cell wall assembly, particularly with respect to formation of its phenolic constituents, i.e., lignins and suberins, and how gravity impacts upon these processes. Formation of these phenolic polymers is of particular interest, since it appears that elaboration of their biochemical pathways was essential for successful land adaptation. By extrapolation, we are also greatly intrigued as to how the microgravity environment impacts upon 'normal' cell wall assembly mechanisms/metabolism.

  12. MADS-Box Transcription Factor VdMcm1 Regulates Conidiation, Microsclerotia Formation, Pathogenicity, and Secondary Metabolism of Verticillium dahliae

    PubMed Central

    Xiong, Dianguang; Wang, Yonglin; Tian, Longyan; Tian, Chengming

    2016-01-01

    Verticillium dahliae, a notorious phytopathogenic fungus, causes vascular wilt diseases in many plant species resulting in devastating yield losses worldwide. Due to its ability to colonize plant xylem and form microsclerotia, V. dahliae is highly persistent and difficult to control. In this study, we show that the MADS-box transcription factor VdMcm1 is a key regulator of conidiation, microsclerotia formation, virulence, and secondary metabolism of V. dahliae. In addition, our findings suggest that VdMcm1 is involved in cell wall integrity. Finally, comparative RNA-Seq analysis reveals 823 significantly downregulated genes in the VdMcm1 deletion mutant, with diverse biological functions in transcriptional regulation, plant infection, cell adhesion, secondary metabolism, transmembrane transport activity, and cell secretion. When taken together, these data suggest that VdMcm1 performs pleiotropic functions in V. dahliae. PMID:27536281

  13. MADS-Box Transcription Factor VdMcm1 Regulates Conidiation, Microsclerotia Formation, Pathogenicity, and Secondary Metabolism of Verticillium dahliae.

    PubMed

    Xiong, Dianguang; Wang, Yonglin; Tian, Longyan; Tian, Chengming

    2016-01-01

    Verticillium dahliae, a notorious phytopathogenic fungus, causes vascular wilt diseases in many plant species resulting in devastating yield losses worldwide. Due to its ability to colonize plant xylem and form microsclerotia, V. dahliae is highly persistent and difficult to control. In this study, we show that the MADS-box transcription factor VdMcm1 is a key regulator of conidiation, microsclerotia formation, virulence, and secondary metabolism of V. dahliae. In addition, our findings suggest that VdMcm1 is involved in cell wall integrity. Finally, comparative RNA-Seq analysis reveals 823 significantly downregulated genes in the VdMcm1 deletion mutant, with diverse biological functions in transcriptional regulation, plant infection, cell adhesion, secondary metabolism, transmembrane transport activity, and cell secretion. When taken together, these data suggest that VdMcm1 performs pleiotropic functions in V. dahliae. PMID:27536281

  14. Formation of thin walled ceramic solid oxide fuel cells

    DOEpatents

    Claar, Terry D.; Busch, Donald E.; Picciolo, John J.

    1989-01-01

    To reduce thermal stress and improve bonding in a high temperature monolithic solid oxide fuel cell (SOFC), intermediate layers are provided between the SOFC's electrodes and electrolyte which are of different compositions. The intermediate layers are comprised of a blend of some of the materials used in the electrode and electrolyte compositions. Particle size is controlled to reduce problems involving differential shrinkage rates of the various layers when the entire structure is fired at a single temperature, while pore formers are provided in the electrolyte layers to be removed during firing for the formation of desired pores in the electrode layers. Each layer includes a binder in the form of a thermosetting acrylic which during initial processing is cured to provide a self-supporting structure with the ceramic components in the green state. A self-supporting corrugated structure is thus formed prior to firing, which the organic components of the binder and plasticizer removed during firing to provide a high strength, high temperature resistant ceramic structure of low weight and density.

  15. Organic aerosol formation photo-enhanced by the formation of secondary photosensitizers in aerosols.

    PubMed

    Aregahegn, Kifle Z; Nozière, Barbara; George, Christian

    2013-01-01

    Secondary organic aerosols (SOA), which are produced by the transformations of volatile organic compounds in the atmosphere, play a central role in air quality, public health, visibility and climate, but their formation and aging remain poorly characterized. This study evidences a new mechanism for SOA formation based on photosensitized particulate-phase chemistry. Experiments were performed with a horizontal aerosol flow reactor where the diameter growth of the particles was determined as a function of various parameters. In the absence of gas-phase oxidant, experiments in which ammonium sulfate seeds containing glyoxal were exposed to gas-phase limonene and UV light exhibited a photo-induced SOA growth. Further experiments showed that this growth was due to traces of imidazole-2-carboxaldehyde (IC) in the seeds, a condensation product of glyoxal acting as an efficient photosensitizer. Over a 19 min irradiation time, 50 nm seed particles containing this compound were observed to grow between 3.5 and 30 +/- 3% in the presence of either limonene, isoprene, alpha-pinene, beta-pinene, or toluene in concentrations between 1.8 and 352 ppmv. The other condensation products of glyoxal, imidazole (IM) and 2,2-bi1H-imidazole (BI), also acted as photosensitizer but with much less efficiency under the same conditions. In the atmosphere, glyoxal and potentially other gas precursors would thus produce efficient photosensitizers in aerosol and autophotocatalyze SOA growth. PMID:24601000

  16. EVALUATION OF SECONDARY ORGANIC AEROSOL FORMATION IN WINTER. (R823514)

    EPA Science Inventory

    Three different methods are used to predict secondary organic aerosol (SOA)
    concentrations in the San Joaquin Valley of California during the winter of 1995-1996 [Integrated
    Monitoring Study, (IMS95)]. The first of these methods estimates SOA by using elemental carbon as

  17. Kinetic cavity preparation effects on secondary caries formation around resin restorations: a polarized light microscopic in vitro evaluation.

    PubMed

    Hicks, M J; Parkins, F M; Flaitz, C M

    2001-01-01

    The purpose of this in vitro study was to compare the effect of conventional handpiece and kinetic cavity preparation (KCP, air abrasion) techniques of cavity preparation on caries-like enamel lesion formation. After a fluoride-free prophylaxis, twelve human molars were examined macroscopically to ensure that buccal and lingual surfaces were caries-free. Unfilled cavities were prepared in mesiobuccal (conventional [CU]) and mesiolingual (air abrasion [AU]) enamel surfaces. Cavities were prepared in distobuccal (conventional [CF]) and distolingual (air abrasion [AF]) enamel surfaces and restored with composite resin following placement of a bonding agent. Acid-etching of cavity walls was performed only with the conventionally prepared cavities restored with resin. Air abrasion (KCP) prepared cavities were restored without acid-etching of the cavity walls. Teeth were thermocycled (500 cycles, 5 degrees to 50 degrees C, 500 cycles) and exposed to an artificial caries medium for caries initiation and progression. After caries formation, two longitudinal sections were taken from unfilled and filled cavity preparations and examined by polarized light microscopy for wall lesion presence and mean surface lesion depth. Surface lesion depths were similar among groups after the caries initiation period (CU = 225 microns; AU = 237 microns; CF = 241 microns; AF = 251 [p > .05, ANOVA, DMR]), and progression (CU = 437 microns; AU = 415 microns; CF = 405 microns; AF = 429 um [p > 0.05, ANOVA, DMR]). Extensive wall lesions were present in all CU and AU; while small wedge-shaped wall lesions were significantly (p < .05, ANOVA, DMR) fewer in CF (19 percent & 21 percent) and AF (17 percent & 21 percent) following caries initiation and progression compared with unfilled controls. Resin restorations placed in cavities prepared by air abrasion (KCP) and conventional handpiece techniques provided similar degrees of protection against a secondary caries-like challenge. PMID:11475686

  18. Enhancement effect of relative humidity on the formation and regional respiratory deposition of secondary organic aerosol.

    PubMed

    Yu, Kuo-Pin; Lin, Chi-Chi; Yang, Shang-Chun; Zhao, Ping

    2011-07-15

    In this study, we investigated the effect of relative humidity (RH) on the formation of secondary organic aerosol (SOA) generated from the ozonolysis of d-limonene in an environmental chamber. The mass yield and the number concentration of SOA increased seven and eight times, respectively, when the RH increased from 18% to 82%. The measured total loss rates (apparent loss rates) of the number and mass concentration of SOA in the chamber ranged from 1.70 to 1.77 h(-1) and from 2.51 to 2.61 h(-1), respectively, at a controlled ventilation rate of 0.72±0.04 h(-1). The wall-deposition-loss-rate coefficient observed (1.00±0.02 h(-1)) was approximate to the estimated value based on Zhao and Wu's model which includes the factors of turbulence, Brownian diffusion, turbophoresis and surface roughness. According to the ICRP (International Commission on Radiological Protection) model, the inhaled SOA particles are deposited primarily in the alveoli of the lung. The integrated alveolar deposited dose of the mass (surface area) of SOA over 3h accounted for 74.0-74.8% (74.3-74.9%) of the total deposited dose at the investigated RH. Raising the RH resulted in the growth of SOA particle sizes and increment of the deposition dose but did not cause significant changes in the ratio of regional to the total respiratory deposition of SOA. PMID:21570180

  19. Examining the Use of Audience Response Systems in Secondary School Classrooms: A Formative Analysis

    ERIC Educational Resources Information Center

    Kay, Robin; LeSage, Ann; Knaack, Liesel

    2010-01-01

    To date, extensive research has been done on the use of Audience Response Systems (ARSs) in colleges and universities, but not in secondary school schools. The purpose of this study was to conduct a detailed formative analysis on the benefits, challenges, and use of ARSs from the perspective of 659 secondary school students. Key benefits reported…

  20. Formative Assessment in the Grenadian Lower Secondary School: Teachers' Perceptions, Attitudes and Practices

    ERIC Educational Resources Information Center

    Young, James E. J.; Jackman, Mary Grace-Anne

    2014-01-01

    The purpose of this study was to explore the perceptions, attitudes and frequency of use of formative assessment strategies of teachers in the Grenadian lower secondary school (Forms 1, 2 and 3). The study, which was quantitative in nature, involved 252 lower secondary school teachers. Overall the participants had positive perceptions and…

  1. Organic Aerosol Formation Photoenhanced by the Formation of Secondary Photo-sensitizers in ageing Aerosols

    NASA Astrophysics Data System (ADS)

    Aregahegn, Kifle; Nozière, Barbara; George, Christian

    2013-04-01

    Humankind is facing a changing environment possibly due to anthropogenic stress on the atmosphere. In this context, aerosols play a key role by affecting the radiative climate forcing, hydrological cycle, and by their adverse effect on health. The role of organic compounds in these processes is however still poorly understood because of their massive chemical complexity and numerous transformations. This is particularly true for Secondary Organic Aerosol (SOA), which are produced in the atmosphere by organic gases. Traditionally, the driving forces for SOA growth is believed to be the partitioning onto aerosol seeds of condensable gases, either emitted primarily or resulting from the gas phase oxidation of organic gases. However, even the most up-to-date models based on such mechanisms can not account for the SOA mass observed in the atmosphere, suggesting the existence of other, yet unknown formation processes. The present study shows experimental evidence that particulate phase chemistry produces photo-sensitizers that lead to photo-induced formation and growth of secondary organic aerosol in the near UV and the presence of volatile organic compounds (VOC) such as terpenes. By means of an aerosol flow tube reactor equipped with Scanning Mobility Particle Sizer (SMPS) having Kr-85 source aerosol neutralizer, Differential Mobility Analyser (DMA) and Condensation Particle Sizer (CPC), we identified that traces of the aerosol phase product of glyoxal chemistry as is explained in Gallway et al., and Yu et al., namely imidazole-2-carboxaldehyde (IC) is a strong photo-sensitizer when irradiated by near-UV in the presence of volatile organic compounds such as terpenes. Furthermore, the influence of pH, type and concentration of VOCs, composition of seed particles, relative humidity and irradiation intensity on particle growth were studied. This novel photo-sensitizer contributed to more than 30% of SOA growth in 19min irradiation time in the presence of terpenes in the

  2. Exogenous GA₃ Application Enhances Xylem Development and Induces the Expression of Secondary Wall Biosynthesis Related Genes in Betula platyphylla.

    PubMed

    Guo, Huiyan; Wang, Yucheng; Liu, Huizi; Hu, Ping; Jia, Yuanyuan; Zhang, Chunrui; Wang, Yanmin; Gu, Shan; Yang, Chuanping; Wang, Chao

    2015-01-01

    Gibberellin (GA) is a key signal molecule inducing differentiation of tracheary elements, fibers, and xylogenesis. However the molecular mechanisms underlying the effect of GA on xylem elongation and secondary wall development in tree species remain to be determined. In this study, Betula platyphylla (birch) seeds were treated with 300 ppm GA₃ and/or 300 ppm paclobutrazol (PAC), seed germination was recorded, and transverse sections of hypocotyls were stained with toluidine blue; the two-month-old seedlings were treated with 50 μM GA₃ and/or 50 μM PAC, transverse sections of seedling stems were stained using phloroglucinol-HCl, and secondary wall biosynthesis related genes expression was analyzed by real-time quantitative PCR. Results indicated that germination percentage, energy and time of seeds, hypocotyl height and seedling fresh weight were enhanced by GA₃, and reduced by PAC; the xylem development was wider in GA₃-treated plants than in the control; the expression of NAC and MYB transcription factors, CESA, PAL, and GA oxidase was up-regulated during GA₃ treatment, suggesting their role in GA₃-induced xylem development in the birch. Our results suggest that GA₃ induces the expression of secondary wall biosynthesis related genes to trigger xylogenesis in the birch plants. PMID:26404260

  3. Exogenous GA3 Application Enhances Xylem Development and Induces the Expression of Secondary Wall Biosynthesis Related Genes in Betula platyphylla

    PubMed Central

    Guo, Huiyan; Wang, Yucheng; Liu, Huizi; Hu, Ping; Jia, Yuanyuan; Zhang, Chunrui; Wang, Yanmin; Gu, Shan; Yang, Chuanping; Wang, Chao

    2015-01-01

    Gibberellin (GA) is a key signal molecule inducing differentiation of tracheary elements, fibers, and xylogenesis. However the molecular mechanisms underlying the effect of GA on xylem elongation and secondary wall development in tree species remain to be determined. In this study, Betula platyphylla (birch) seeds were treated with 300 ppm GA3 and/or 300 ppm paclobutrazol (PAC), seed germination was recorded, and transverse sections of hypocotyls were stained with toluidine blue; the two-month-old seedlings were treated with 50 μM GA3 and/or 50 μM PAC, transverse sections of seedling stems were stained using phloroglucinol–HCl, and secondary wall biosynthesis related genes expression was analyzed by real-time quantitative PCR. Results indicated that germination percentage, energy and time of seeds, hypocotyl height and seedling fresh weight were enhanced by GA3, and reduced by PAC; the xylem development was wider in GA3-treated plants than in the control; the expression of NAC and MYB transcription factors, CESA, PAL, and GA oxidase was up-regulated during GA3 treatment, suggesting their role in GA3-induced xylem development in the birch. Our results suggest that GA3 induces the expression of secondary wall biosynthesis related genes to trigger xylogenesis in the birch plants. PMID:26404260

  4. Secondary Organic Aerosol Formation from Glyoxal: photochemical versus dark uptake and reversible versus irreversible SOA formation

    NASA Astrophysics Data System (ADS)

    Waxman, E.; Slowik, J.; Kampf, C.; Timkovsky, J.; Noziere, B.; Praplan, A.; Pffafenberger, L.; Holzinger, R.; Hoffmann, T.; Dommen, J.; Prevot, A.; Baltensperger, U.; Volkamer, R.

    2012-04-01

    Glyoxal forms secondary organic aerosol (SOA) by partitioning to the aerosol aqueous phase according to Henry's law. The subsequent processing by heterogeneous and multiphase reactions shifts the partitioning towards aerosols. Currently it is not well understood whether these reactions result in reversible or irreversible SOA formation, and what parameters influence the rate limiting step of multiphase processing. We conducted a series of simulation chamber experiments at PSI in April and May 2011 to investigate processing under dark conditions, UV and/or visible light irradiated conditions, and in the presence and absence of OH radicals. Experiments used ammonium sulfate or ammonium sulfate/fulvic acid mixtures as seed aerosols, and were conducted between 50% and 85% relative humidity at approximately constant RH over the course of any given experiment. Glyoxal was produced photochemically from acetylene, using HONO photolysis as the OH radical source. Gas-phase glyoxal was measured by the CU LED-Cavity Enhanced-DOAS. The Thermal-Desorption Proton-Transfer-Reaction Mass Spectrometer (TD-PTR-MS) and Ion Chromatography Mass Spectrometer (IC-MS) monitored both gas and aerosol-phase organic reaction products. Particle composition was monitored by High-Resolution Time-of-Flight Aerosol Mass Spectrometry (HR-ToF-AMS), and HPLC-ESI MS/MS and LC-MS analysis of filter samples.

  5. Secondary Organic Aerosol Formation from Glyoxal: photochemical versus dark uptake and reversible versus irreversible SOA formation

    NASA Astrophysics Data System (ADS)

    Waxman, E.; Slowik, J. G.; Kampf, C. J.; Timkovsky, J.; Noziere, B.; Praplan, A. P.; Pfaffenberger, L.; Holzinger, R.; Hoffmann, T.; Dommen, J.; Prevot, A. S.; Baltensperger, U.; Volkamer, R.

    2011-12-01

    Glyoxal forms secondary organic aerosol (SOA) by partitioning to the aerosol aqueous phase according to Henry's law. The subsequent processing by heterogeneous and multiphase reactions shifts the partitioning towards aerosols. Currently it is not well understood whether these reactions result in reversible or irreversible SOA formation, and what parameters influence the rate limiting step of multiphase processing. We conducted a series of simulation chamber experiments at PSI in April and May 2011 to investigate processing under dark conditions, UV and/or visible light irradiated conditions, and in the presence and absence of OH radicals. Experiments used ammonium sulfate or ammonium sulfate/fulvic acid mixtures as seed aerosols, and were conducted between 50% and 85% relative humidity at approximately constant RH over the course of any given experiment. Glyoxal was produced photochemically from acetylene, using HONO photolysis as the OH radical source. Gas-phase glyoxal was measured by the CU LED-Cavity Enhanced-DOAS. The Thermal-Desorption Proton-Transfer-Reaction Mass Spectrometer (TD-PTR-MS) and Ion Chromatography Mass Spectrometer (IC-MS) monitored both gas and aerosol-phase organic reaction products. Particle composition was monitored by High-Resolution Time-of-Flight Aerosol Mass Spectrometry (HR-ToF-AMS), and HPLC-ESI MS/MS and LC-MS analysis of filter samples.

  6. Detecting the formation of single-walled carbon nanotube rings by photoabsorption spectroscopy

    NASA Astrophysics Data System (ADS)

    Hida, Akira; Suzuki, Takayuki; Ishibashi, Koji

    2016-08-01

    Photoabsorption spectroscopy was conducted on single-walled carbon nanotubes (SWNTs) during the formation of ring structures. The absorption bands observed before starting the formation gradually shifted while broadening in the middle. When they finally disappeared, it was found, via atomic force microscopy observations, that almost all SWNTs were transformed into rings. The spectral changes were assumed to be due to the changes in the electronic states of SWNTs. This idea was supported by the results of an investigation using a scanning tunneling microscope. It could be said that photoabsorption spectroscopy is useful for detecting ring formation in situ.

  7. α-Casein Inhibits Insulin Amyloid Formation by Preventing the Onset of Secondary Nucleation Processes.

    PubMed

    Librizzi, Fabio; Carrotta, Rita; Spigolon, Dario; Bulone, Donatella; San Biagio, Pier Luigi

    2014-09-01

    α-Casein is known to inhibit the aggregation of several proteins, including the amyloid β-peptide, by mechanisms that are not yet completely clear. We studied its effects on insulin, a system extensively used to investigate the properties of amyloids, many of which are common to all proteins and peptides. In particular, as for other proteins, insulin aggregation is affected by secondary nucleation pathways. We found that α-casein strongly delays insulin amyloid formation, even at extremely low doses, when the aggregation process is characterized by secondary nucleation. At difference, it has a vanishing inhibitory effect on the initial oligomer formation, which is observed at high concentration and does not involve any secondary nucleation pathway. These results indicate that an efficient inhibition of amyloid formation can be achieved by chaperone-like systems, by sequestering the early aggregates, before they can trigger the exponential proliferation brought about by secondary nucleation mechanisms. PMID:26278257

  8. Secondary Aerosol Formation from Oxidation of Aromatics Hydrocarbons by Cl atoms

    NASA Astrophysics Data System (ADS)

    Cai, X.; Griffin, R.

    2006-12-01

    Aerosol Formation From the Oxidation of Aromatic Hydrocarbons by Chlorine Atmospheric secondary organic aerosol (SOA) affects regional and global air quality. The formation mechanisms of SOA via the oxidation of volatile organic compounds by hydroxyl radicals, ozone, and nitrate radicals have been studied intensively during the last decade. Chlorine atoms (Cl) also have been hypothesized to be effective oxidants in marine and industrially influenced areas. Recent work by the authors has indicated that significant amounts of SOA are formed from the oxidation of monoterpenes by Cl. Aromatic hydrocarbons are important for generation of both SOA and ozone in urban areas because of their large emission rates and high reactivity. The goal of this work was to quantify the SOA formation potentials of two representative aromatic hydrocarbons through laboratory chamber experiments in which oxidation was initiated by Cl. The system constructed for this study includes an experimental chamber, a gas chromatograph for quantification of aromatic mixing ratios, a Scanning Mobility Particle Spectrometer to measure SOA size distributions, a zero air generator, and an illuminating system. The model aromatic hydrocarbons chosen for this study are toluene and m-xylene. Aerosol yields are estimated based on measured aerosol volume concentration, the concentration of consumed hydrocarbon, and estimation of wall loss of the newly formed aerosol. Toluene and m-xylene exhibit similar SOA yields from the oxidation initiated by Cl. The toluene SOA yield from Cl-initiated oxidation, however, depends on the ratio between the mixing ratios of the initial chlorine source and toluene in the chamber. For toluene experiments with higher such ratios, SOA yields vary from 0.05 to 0.079 for generated aerosol ranging from 4.2 to12.0 micrograms per cubic meter. In the lower ratio experiments, SOA yields are from 0.033 to 0.064, corresponding to generated aerosol from 3.0 to 11.0 micrograms per cubic

  9. PORTNEUF VALLEY, IDAHO PM-10 DISPERSION MODEL INCLUDING SECONDARY CHEMICAL FORMATION

    EPA Science Inventory

    A dispersion modeling effort for the Portneuf Valley, Pocatello, Idaho PM-10 attainment demonstration is underway. The model will treat the secondary chemical formation process, primarily sulfate and nitrate formation under both the aqueous and gas phases. The model will simul...

  10. Influence of Aerosol Acidity on the Formation of Secondary Organic Aerosol from Biogenic Precursor Hydrocarbons

    EPA Science Inventory

    Secondary organic aerosol (SOA) formation and dynamics may be important factors for the role of aerosols in adverse health effects, visibility and climate change. Formation of SOA occurs when a parent volatile organic compound is oxidized to create products that form in a conden...

  11. Alternative Format Preferences among Secondary School Visually Impaired Students in Nigeria

    ERIC Educational Resources Information Center

    Adetoro, 'Niran

    2012-01-01

    Persons with visual impairment have consistently shown a preference for one alternative reading format over another, often because of factors outside their control. This study adopted survey research design to investigate alternative format preferences among secondary school visually impaired students, focusing on Southwestern Nigeria. Using total…

  12. Disturbance of the bacterial cell wall specifically interferes with biofilm formation.

    PubMed

    Bucher, Tabitha; Oppenheimer-Shaanan, Yaara; Savidor, Alon; Bloom-Ackermann, Zohar; Kolodkin-Gal, Ilana

    2015-12-01

    In nature, bacteria communicate via chemical cues and establish complex communities referred to as biofilms, wherein cells are held together by an extracellular matrix. Much research is focusing on small molecules that manipulate and prevent biofilm assembly by modifying cellular signalling pathways. However, the bacterial cell envelope, presenting the interface between bacterial cells and their surroundings, is largely overlooked. In our study, we identified specific targets within the biosynthesis pathways of the different cell wall components (peptidoglycan, wall teichoic acids and teichuronic acids) hampering biofilm formation and the anchoring of the extracellular matrix with a minimal effect on planktonic growth. In addition, we provide convincing evidence that biofilm hampering by transglycosylation inhibitors and D-Leucine triggers a highly specific response without changing the overall protein levels within the biofilm cells or the overall levels of the extracellular matrix components. The presented results emphasize the central role of the Gram-positive cell wall in biofilm development, resistance and sustainment. PMID:26472159

  13. Secondary organic aerosol formation from the irradiation of simulated automobile exhaust.

    PubMed

    Kleindienst, T E; Corse, E W; Li, W; McIver, C D; Conver, T S; Edney, E O; Driscoll, D J; Speer, R E; Weathers, W S; Tejada, S B

    2002-03-01

    A laboratory study was conducted to evaluate the potential for secondary organic aerosol formation from emissions from automotive exhaust. The goal was to determine to what extent photochemical oxidation products of these hydrocarbons contribute to secondary organic aerosol (SOA) and how well their formation is described by recently developed models for SOA formation. The quality of a surrogate was tested by comparing its reactivity with that from irradiations of authentic automobile exhaust. Experiments for secondary particle formation using the surrogate were conducted in a fixed volume reactor operated in a dynamic mode. The mass concentration of the aerosol was determined from measurements of organic carbon collected on quartz filters and was corrected for the presence of hydrogen, nitrogen, and oxygen atoms in the organic species. A functional group analysis of the aerosol made by Fourier transform infrared (FTIR) spectroscopy indicated PMID:11924857

  14. Secondary organic aerosol formation from the gas phase reaction of hydroxyl radicals with m-, o- and p-cresol

    NASA Astrophysics Data System (ADS)

    Henry, Françoise; Coeur-Tourneur, Cecile; Ledoux, Frédéric; Tomas, Alexandre; Menu, Dominique

    Secondary organic aerosol (SOA) formation during the atmospheric oxidation of cresols was investigated using a large smog chamber (8000 L), at atmospheric pressure, 294±2 K and low relative humidity (6-10%). Cresol oxidation was initiated by irradiation of cresol/CH 3ONO/NO/air mixtures. The cresol loss was measured by gas chromatography with a flame ionization detector (GC-FID) and the temporal evolution of the aerosol was monitored using a scanning mobility particle sizer (SMPS). The overall organic aerosol yield ( Y) was determined as the ratio of the suspended aerosol mass corrected for wall losses ( Mo) to the total reacted cresol concentrations assuming a particle density of 1.4 g cm -3. Analysis of the data clearly show that Y is a strong function of Mo and that SOA formation can be expressed by a one-product gas/particle partitioning absorption model. The aerosol formation is affected by the initial cresol concentration, which leads to aerosol yields from 9% to 42%. These results are in good agreement with a recent study performed on SOA formation from the photo-oxidation of o-cresol in a smog chamber. To our knowledge, the present work represents the first investigation of SOA formation from OH reaction with m- and p-cresol.

  15. Fuel composition and secondary organic aerosol formation: gas-turbine exhaust and alternative aviation fuels.

    PubMed

    Miracolo, Marissa A; Drozd, Greg T; Jathar, Shantanu H; Presto, Albert A; Lipsky, Eric M; Corporan, Edwin; Robinson, Allen L

    2012-08-01

    A series of smog chamber experiments were performed to investigate the effects of fuel composition on secondary particulate matter (PM) formation from dilute exhaust from a T63 gas-turbine engine. Tests were performed at idle and cruise loads with the engine fueled on conventional military jet fuel (JP-8), Fischer-Tropsch synthetic jet fuel (FT), and a 50/50 blend of the two fuels. Emissions were sampled into a portable smog chamber and exposed to sunlight or artificial UV light to initiate photo-oxidation. Similar to previous studies, neat FT fuel and a 50/50 FT/JP-8 blend reduced the primary particulate matter emissions compared to neat JP-8. After only one hour of photo-oxidation at typical atmospheric OH levels, the secondary PM production in dilute exhaust exceeded primary PM emissions, except when operating the engine at high load on FT fuel. Therefore, accounting for secondary PM production should be considered when assessing the contribution of gas-turbine engine emissions to ambient PM levels. FT fuel substantially reduced secondary PM formation in dilute exhaust compared to neat JP-8 at both idle and cruise loads. At idle load, the secondary PM formation was reduced by a factor of 20 with the use of neat FT fuel, and a factor of 2 with the use of the blend fuel. At cruise load, the use of FT fuel resulted in no measured formation of secondary PM. In every experiment, the secondary PM was dominated by organics with minor contributions from sulfate when the engine was operated on JP-8 fuel. At both loads, FT fuel produces less secondary organic aerosol than JP-8 because of differences in the composition of the fuels and the resultant emissions. This work indicates that fuel reformulation may be a viable strategy to reduce the contribution of emissions from combustion systems to secondary organic aerosol production and ultimately ambient PM levels. PMID:22732009

  16. Nonequilibrium Atmospheric Secondary Organic Aerosol Formation and Growth

    SciTech Connect

    Perraud, Veronique M.; Bruns, Emily A.; Ezell, Michael J.; Johnson, Stanley N.; Yu, Yong; Alexander, M. L.; Zelenyuk, Alla; Imre, D.; Chang, W. L.; Dabdub, Donald; Pankow, James F.; Finlayson-Pitts, Barbara J.

    2012-02-21

    Airborne particles play a critical role in air quality, human health effects, visibility and climate. Secondary organic aerosols (SOA) account for a significant portion of total airborne particles. They are formed in reactions of organic gases that produce low volatility and semi-volatile organic compounds (SVOCs). Current atmospheric models assume that SOA are liquids into which SVOCs undergo equilibrium partitioning and grow the particles. However a large discrepancy between model predictions and field measurements of SOA is commonly observed. We report here laboratory studies of the oxidation of a-pinene by ozone and nitrate radicals and show that particle composition is actually consistent with a kinetically determined growth mechanism, and not with equilibrium partitioning between the gas phase and liquid particles. If this is indeed a general phenomenon in air, the formulation of atmospheric SOA models will have to be revised to reflect this new paradigm. This will have significant impacts on quantifying the role of SOA in air quality, visibility, and climate.

  17. Secondary Aerosol: Precursors and Formation Mechanisms. Technical Report on Grant

    SciTech Connect

    Weinstein-Lloyd, Judith B

    2009-05-04

    This project focused on studying trace gases that participate in chemical reactions that form atmospheric aerosols. Ammonium sulfate is a major constituent of these tiny particles, and one important pathway to sulfate formation is oxidation of dissolved sulfur dioxide by hydrogen peroxide in cloud, fog and rainwater. Sulfate aerosols influence the number and size of cloud droplets, and since these factors determine cloud radiative properties, sulfate aerosols also influence climate. Peroxide measurements, in conjunction with those of other gaseous species, can used to distinguish the contribution of in-cloud reaction to new sulfate aerosol formation from gas-phase nucleation reactions. This will lead to more reliable global climate models. We constructed and tested a new 4-channel fluorescence detector for airborne detection of peroxides. We integrated the instrument on the G-1 in January, 2006 and took a test flight in anticipation of the MAX-Mex field program, where we planned to fly under pressurized conditions for the first time. We participated in the 2006 Megacity Initiative: Local and Global Research Observations (MILAGRO) - Megacity Aerosol EXperiment Mexico City (MAX-Mex) field measurement campaign. Peroxide instrumentation was deployed on the DOE G-1 research aircraft based in Veracruz, and at the surface site at Tecamac University.

  18. TEM observation of bacteria-induced plagioclase dissolution and secondary mineral formation

    NASA Astrophysics Data System (ADS)

    Tamura, T.; Kyono, A.; Nishimiya, Y.

    2015-12-01

    Silicate minerals are the most common minerals in the earth's crust. Bacteria are also distributed throughout the earth's surface environment. The silicate minerals are known to be dissolved by organic acids and polysaccharides known as bacteria metabolites. The metabolic activity of bacteria therefore plays an important role in the interaction between dissolution of the silicate minerals and formation of secondary minerals. However, little is known about the secondary mineral formation process associated with the bacterial metabolism. To clarify the bacterial effect on the mineral dissolution and the secondary mineral formation, we closely investigated the effect of bacterial activity on surface texture modification and chemical composition changes of plagioclase which is the most abundant silicate mineral in the earth's crust. The bacteria were isolated from soil and then added in a suitable medium with several plagioclase fragments (Ab100% and An100%). It was incubated for 10 days. Al and Si concentrations in the medium were measured by ICP-AES to monitor the dissolution of the plagioclase. Secondary mineral formation during the incubation was observed by TEM, EDS and SAED methods. The authors will give the experiment results and discuss the effect of bacterial activity on the plagioclase dissolution and the secondary mineral formation in detail.

  19. Lumbar spine osteomyelitis and epidural abscess formation secondary to acupuncture.

    PubMed

    Godhania, Vinesh

    2016-01-01

    A 39-year-old male with no previous medical history presented with abdominal and low back pain. Based on clinical and radiological findings he was diagnosed with L1/L2 osteomyelitis and epidural abscess. Further history taking revealed recent use of acupuncture for treatment of mechanical back pain. The patient was treated conservatively with an extended course of antibiotics, monitored with repeat MRI scans and had a full recovery with no neurological deficit. This is the first reported case of epidural abscess formation and osteomyelitis after acupuncture in the UK. As acupuncture becomes more commonly used in western countries, it is important to be aware of this rare but serious complication. PMID:26976275

  20. Assessment of secondary bubble formation on a backward-facing step geometry

    NASA Astrophysics Data System (ADS)

    Juste, G. L.; Fajardo, P.; Guijarro, A.

    2016-07-01

    Flow visualization experiments and numerical simulations were performed on a narrow three-dimensional backward-facing step (BFS) flow with the main objective of characterizing the secondary bubble appearing at the top wall. The BFS has been widely studied because of its geometrical simplicity as well as its ability to reproduce most of the flow features appearing in many applications in which separation occurs. A BFS test rig with an expansion ratio of 2 and two aspect ratios (AR = 4 and AR = 8) was developed. Tests were performed at range of Reynolds numbers ranging from 50 to 1000; visualization experiments provided a qualitative description of secondary bubble and wall-jet flows. Large eddy simulations were carried out with two different codes for validation. Numerical solutions, once validated with experimental data from the literature, were used to acquire a deeper understanding of the experimental visualizations, to characterize the secondary bubble as a function of the flow variables (Reynolds and AR) and to analyze the effect of the secondary bubble on primary reattachment length. Finally, to decouple the sidewall effects due to the non-slip condition and the intrinsic flow three-dimensionality, numerical experiments with free-slip conditions over the sidewalls were computed. The main differences were as follows: When the non-slip condition is used, the secondary bubble appears at a Reynolds number of approximately 200, increases with the Reynolds number, and is limited to a small part of the span. This recirculation zone interacts with the wall-jets and causes the maximum and minimum lengths in the reattachment line of the primary recirculation. Under free slip conditions, the recirculation bubble appears at a higher Reynolds number and covers the entire channel span.

  1. Secondary island formation in collisional and collisionless kinetic simulations of magnetic reconnection

    SciTech Connect

    Dayton, William S; Roytershteyn, Vadim; Gary, Peter; Yin, L; Albright, B J; Bowers, K J; Karimabadi, H

    2009-01-01

    The evolution of magnetic reconnection in large-scale systems often gives rise to extended current layers that are unstable to the formation of secondary magnetic islands. The role of these islands in the reconnection process and the conditions under which they form remains a subject of debate. In this work, we benchmark two different kinetic particle-in-cell codes to address the formation of secondary islands for several types of global boundary conditions. The influence on reconnection is examined for a range of conditions and collisionality limits. Although secondary islands are observed in all cases, their influence on reconnection may be different depending on the regime. In the collisional limit, the secondary islands playa key role in breaking away from the Sweet-Parker scaling and enabling faster reconnection. In the collisionless limit, their formation is one mechanism for controlling the length of the diffusion region. In both limits, the onset of secondary islands leads to a time dependent behavior in the reconnection rate. In all cases considered, the number of secondary islands increases for larger systems.

  2. WD40-Repeat Proteins in Plant Cell Wall Formation: Current Evidence and Research Prospects

    PubMed Central

    Guerriero, Gea; Hausman, Jean-Francois; Ezcurra, Inés

    2015-01-01

    The metabolic complexity of living organisms relies on supramolecular protein structures which ensure vital processes, such as signal transduction, transcription, translation and cell wall synthesis. In eukaryotes WD40-repeat (WDR) proteins often function as molecular “hubs” mediating supramolecular interactions. WDR proteins may display a variety of interacting partners and participate in the assembly of complexes involved in distinct cellular functions. In plants, the formation of lignocellulosic biomass involves extensive synthesis of cell wall polysaccharides, a process that requires the assembly of large transmembrane enzyme complexes, intensive vesicle trafficking, interactions with the cytoskeleton, and coordinated gene expression. Because of their function as supramolecular hubs, WDR proteins could participate in each or any of these steps, although to date only few WDR proteins have been linked to the cell wall by experimental evidence. Nevertheless, several potential cell wall-related WDR proteins were recently identified using in silico approaches, such as analyses of co-expression, interactome and conserved gene neighborhood. Notably, some WDR genes are frequently genomic neighbors of genes coding for GT2-family polysaccharide synthases in eukaryotes, and this WDR-GT2 collinear microsynteny is detected in diverse taxa. In angiosperms, two WDR genes are collinear to cellulose synthase genes, CesAs, whereas in ascomycetous fungi several WDR genes are adjacent to chitin synthase genes, chs. In this Perspective we summarize and discuss experimental and in silico studies on the possible involvement of WDR proteins in plant cell wall formation. The prospects of biotechnological engineering for enhanced biomass production are discussed. PMID:26734023

  3. Scanning secondary-electron microscopy on ferroelectric domains and domain walls in YMnO{sub 3}

    SciTech Connect

    Li, J.; Yang, H. X.; Tian, H. F.; Ma, C.; Li, J. Q.; Zhang, S.; Zhao, Y. G.

    2012-04-09

    Ferroelectric domain structures in YMnO{sub 3} single crystals on the hexagonal polar surface have been investigated by scanning electron microscopy in secondary electron emission mode. The experimental results demonstrate that the domain, as well as domain walls, can be clearly revealed under the operation voltages ranging from 0.6 to 3 kV. Evolution of domain contrasts arising from electron-beam irradiation can be mainly explained by the pyroelectric effect and related charging process. A rich variety of microstructure features of ferroelectric domains can be clearly revealed in YMnO{sub 3} by this high-resolution technique.

  4. Restricting lignin and enhancing sugar deposition in secondary cell walls enhances monomeric sugar release after low temperature ionic liquid pretreatment

    SciTech Connect

    Scullin, Chessa; Cruz, Alejandro G.; Chuang, Yi -De; Simmons, Blake A.; Loque, Dominique; Singh, Seema

    2015-07-04

    Lignocellulosic biomass has the potential to be a major source of renewable sugar for biofuel production. Before enzymatic hydrolysis, biomass must first undergo a pretreatment step in order to be more susceptible to saccharification and generate high yields of fermentable sugars. Lignin, a complex, interlinked, phenolic polymer, associates with secondary cell wall polysaccharides, rendering them less accessible to enzymatic hydrolysis. Herein, we describe the analysis of engineered Arabidopsis lines where lignin biosynthesis was repressed in fiber tissues but retained in the vessels, and polysaccharide deposition was enhanced in fiber cells with little to no apparent negative impact on growth phenotype.

  5. Restricting lignin and enhancing sugar deposition in secondary cell walls enhances monomeric sugar release after low temperature ionic liquid pretreatment

    DOE PAGESBeta

    Scullin, Chessa; Cruz, Alejandro G.; Chuang, Yi -De; Simmons, Blake A.; Loque, Dominique; Singh, Seema

    2015-07-04

    Lignocellulosic biomass has the potential to be a major source of renewable sugar for biofuel production. Before enzymatic hydrolysis, biomass must first undergo a pretreatment step in order to be more susceptible to saccharification and generate high yields of fermentable sugars. Lignin, a complex, interlinked, phenolic polymer, associates with secondary cell wall polysaccharides, rendering them less accessible to enzymatic hydrolysis. Herein, we describe the analysis of engineered Arabidopsis lines where lignin biosynthesis was repressed in fiber tissues but retained in the vessels, and polysaccharide deposition was enhanced in fiber cells with little to no apparent negative impact on growth phenotype.

  6. Characteristics of secondary flows in rough-wall turbulent boundary layers

    NASA Astrophysics Data System (ADS)

    Vanderwel, Christina; Ganapathisubramani, Bharathram

    2015-11-01

    Large-scale secondary motions consisting of counter-rotating vortices and low- and high-momentum pathways can form in boundary layers that develop over rough surfaces. We experimentally investigated the sensitivity of these secondary motions to spanwise arrangement of the roughness by studying the flow over streamwise-aligned rows of elevated roughness with systematically-varied spacing. The roughness is created with LEGO blocks mounted along the floor of the wind tunnel and Stereo-PIV is used to measure the velocity field in a cross-plane. Results show that the secondary flows are strongest when the spanwise spacing of the surface topology is comparable with the boundary layer thickness. We discuss how these results are relevant to flows over arbitrary topologies and how these secondary motions influence the Reynolds stress distribution in the boundary layer.

  7. Vascular wall hypoxia promotes arterial thrombus formation via augmentation of vascular thrombogenicity.

    PubMed

    Matsuura, Yunosuke; Yamashita, Atsushi; Iwakiri, Takashi; Sugita, Chihiro; Okuyama, Nozomi; Kitamura, Kazuo; Asada, Yujiro

    2015-07-01

    Atherosclerotic lesions represent a hypoxic milieu. However, the significance of this milieu in atherothrombosis has not been established. We aimed to assess the hypothesis that vascular wall hypoxia promotes arterial thrombus formation. We examined the relation between vascular wall hypoxia and arterial thrombus formation using a rabbit model in which arterial thrombosis was induced by 0.5 %-cholesterol diet and repeated balloon injury of femoral arteries. Vascular wall hypoxia was immunohistochemically detected by pimonidazole hydrochloride, a hypoxia marker. Rabbit neointima and THP-1 macrophages were cultured to analyse prothrombotic factor expression under hypoxic conditions (1 % O2). Prothrombotic factor expression and nuclear localisation of hypoxia-inducible factor (HIF)-1α and nuclear factor-kappa B (NF-κB) p65 were immunohistochemically assessed using human coronary atherectomy plaques. Hypoxic areas were localised in the macrophage-rich deep portion of rabbit neointima and positively correlated with the number of nuclei immunopositive for HIF-1α and NF-κB p65, and tissue factor (TF) expression. Immunopositive areas for glycoprotein IIb/IIIa and fibrin in thrombi were significantly correlated with hypoxic areas in arteries. TF and plasminogen activator inhibitor-1 (PAI-1) expression was increased in neointimal tissues and/or macrophages cultured under hypoxia, and both were suppressed by inhibitors of either HIF-1 or NF-κB. In human coronary plaques, the number of HIF-1α-immunopositive nuclei was positively correlated with that of NF-κB-immunopositive nuclei and TF-immunopositive and PAI-1-immunopositive area, and it was significantly higher in thrombotic plaques. Vascular wall hypoxia augments the thrombogenic potential of atherosclerotic plaque and thrombus formation on plaques via prothrombotic factor upregulation. PMID:25833755

  8. Combination of tissue expansion and porcine mesh for secondary abdominal wall closure after pediatric liver transplantation.

    PubMed

    Lafosse, Aurore; de Magnee, Catherine; Brunati, Andrea; Bayet, Bénédicte; Vanwijck, Romain; Manzanares, Javier; Reding, Raymond

    2012-08-01

    We report the case of a two and a half yr boy hospitalized in our Pediatric Transplantation Unit for portal vein thrombosis following liver transplantation. After performing a meso-Rex shunt, abdominal wall closure was impossible without compressing the portal flow. A combination of two techniques was used to perform the reconstruction of the muscular fasciae and skin layers. The association of tissue expanders and porcine mesh (Surgisis(®)) allowed complete abdominal wall closure with good functional and esthetic results. Use of both techniques is a useful alternative for difficult abdominal closure after liver pediatric transplantation. PMID:21848529

  9. ABORTED MICROSPORES Acts as a Master Regulator of Pollen Wall Formation in Arabidopsis.

    PubMed

    Xu, Jie; Ding, Zhiwen; Vizcay-Barrena, Gema; Shi, Jianxin; Liang, Wanqi; Yuan, Zheng; Werck-Reichhart, Danièle; Schreiber, Lukas; Wilson, Zoe A; Zhang, Dabing

    2014-04-29

    Mature pollen is covered by durable cell walls, principally composed of sporopollenin, an evolutionary conserved, highly resilient, but not fully characterized, biopolymer of aliphatic and aromatic components. Here, we report that ABORTED MICROSPORES (AMS) acts as a master regulator coordinating pollen wall development and sporopollenin biosynthesis in Arabidopsis thaliana. Genome-wide coexpression analysis revealed 98 candidate genes with specific expression in the anther and 70 that showed reduced expression in ams. Among these 70 members, we showed that AMS can directly regulate 23 genes implicated in callose dissociation, fatty acids elongation, formation of phenolic compounds, and lipidic transport putatively involved in sporopollenin precursor synthesis. Consistently, ams mutants showed defective microspore release, a lack of sporopollenin deposition, and a dramatic reduction in total phenolic compounds and cutin monomers. The functional importance of the AMS pathway was further demonstrated by the observation of impaired pollen wall architecture in plant lines with reduced expression of several AMS targets: the abundant pollen coat protein extracellular lipases (EXL5 and EXL6), and CYP98A8 and CYP98A9, which are enzymes required for the production of phenolic precursors. These findings demonstrate the central role of AMS in coordinating sporopollenin biosynthesis and the secretion of materials for pollen wall patterning. PMID:24781116

  10. Processes influencing secondary aerosol formation in the San Joaquin Valley during winter

    SciTech Connect

    Frederick W. Lurmann; Steven G. Brown; Michael C. McCarthy; Paul T. Roberts

    2006-12-15

    Air quality data collected in the California Regional PM10/PM2.5 Air Quality Study (CRPAQS) are analyzed to qualitatively assess the processes affecting secondary aerosol formation in the San Joaquin Valley (SJV). This region experiences some of the highest fine particulate matter (PM2.5) mass concentrations in California ({le} 188 {mu}g/m{sup 3} 24-hr average), and secondary aerosol components (as a group) frequently constitute over half of the fine aerosol mass in winter. The analyses are based on 15 days of high-frequency filter and canister measurements and several months of wintertime continuous gas and aerosol measurements. The phase-partitioning of nitrogen oxide (NOx)-related nitrogen species and carbonaceous species shows that concentrations of gaseous precursor species are far more abundant than measured secondary aerosol nitrate or estimated secondary organic aerosols. Comparisons of ammonia and nitric acid concentrations indicate that ammonium nitrate formation is limited by the availability of nitric acid rather than ammonia. Time-resolved aerosol nitrate data collected at the surface and on a 90-m tower suggest that both the daytime and nighttime nitric acid formation pathways are active, and entrainment of aerosol nitrate formed aloft at night may explain the spatial homogeneity of nitrate in the SJV. NOx and volatile organic compound (VOC) emissions plus background O{sub 3} levels are expected to determine NOx oxidation and nitric acid production rates, which currently control the ammonium nitrate levels in the SJV. Secondary organic aerosol formation is significant in winter, especially in the Fresno urban area. Formation of secondary organic aerosol is more likely limited by the rate of VOC oxidation than the availability of VOC precursors in winter. 59 refs., 11 figs., 1 tab.

  11. Formation of Secondary Particulate Matter by Reactions of Gas Phase Hexanal with Sulfate Aerosol Particles

    NASA Astrophysics Data System (ADS)

    Zhang, J.

    2003-12-01

    The formation of secondary particulate matter from the atmospheric oxidation of organic compounds can significantly contribute to the particulate burden, but the formation of organic secondary particulate matter is poorly understood. One way of producing organic secondary particulate matter is the oxidation of hydrocarbons with seven or more carbon atoms to get products with low vapor pressure. However, several recent reports suggest that relatively low molecular weight carbonyls can enter the particle phase by undergoing heterogeneous reactions. This may be a very important mechanism for the formation of organic secondary particulate matter. Atmospheric aldehydes are important carbonyls in the gas phase, which form via the oxidation of hydrocarbons emitted from anthropogenic and biogenic sources. In this poster, we report the results on particle growth by the heterogeneous reactions of hexanal. A 5 L Continuous Stirred Tank Reactor (CSTR) is set up to conduct the reactions in the presence of seed aerosol particles of deliquesced ammonia bisulfate. Hexanal is added into CSTR by syringe pump, meanwhile the concentrations of hexanal are monitored with High Pressure Liquid Chromatograph (HPLC 1050). A differential Mobility Analyzer (TSI 3071) set to an appropriate voltage is employed to obtain monodisperse aerosols, and another DMA associated with a Condensation Nuclear Counter (TSI 7610) is used to measure the secondary particle size distribution by the reaction in CSTR. This permits the sensitive determination of particle growth due to the heterogeneous reaction, very little growth occurs when hexanal added alone. Results for the simultaneous addition of hexanal and alcohols will also be presented.

  12. Porous wall hollow glass microspheres as a medium or substrate for storage and formation of novel materials

    DOEpatents

    Wicks, George G; Serkiz, Steven M.; Zidan, Ragaiy; Heung, Leung K.

    2014-06-24

    Porous wall hollow glass microspheres are provided as a template for formation of nanostructures such as carbon nanotubes, In addition, the carbon nanotubes in combination with the porous wall hollow glass microsphere provides an additional reaction template with respect to carbon nanotubes.

  13. FASTR: A novel data format for concomitant representation of RNA sequence and secondary structure information.

    PubMed

    Bose, Tungadri; Dutta, Anirban; Mh, Mohammed; Gandhi, Hemang; Mande, Sharmila S

    2015-09-01

    Given the importance of RNA secondary structures in defining their biological role, it would be convenient for researchers seeking RNA data if both sequence and structural information pertaining to RNA molecules are made available together. Current nucleotide data repositories archive only RNA sequence data. Furthermore, storage formats which can frugally represent RNA sequence as well as structure data in a single file, are currently unavailable. This article proposes a novel storage format, 'FASTR', for concomitant representation of RNA sequence and structure. The storage efficiency of the proposed FASTR format has been evaluated using RNA data from various microorganisms. Results indicate that the size of FASTR formatted files (containing both RNA sequence as well as structure information) are equivalent to that of FASTA-format files, which contain only RNA sequence information. RNA secondary structure is typically represented using a combination of a string of nucleotide characters along with the corresponding dot-bracket notation indicating structural attributes. 'FASTR' - the novel storage format proposed in the present study enables a frugal representation of both RNA sequence and structural information in the form of a single string. In spite of having a relatively smaller storage footprint, the resultant 'fastr' string(s) retain all sequence as well as secondary structural information that could be stored using a dot-bracket notation. An implementation of the 'FASTR' methodology is available for download at http://metagenomics.atc.tcs.com/compression/fastr. PMID:26333403

  14. Public Health Impacts of Secondary Particulate Formation from Aromatic Hydrocarbons in Gasoline

    EPA Science Inventory

    Background: Aromatic hydrocarbons emitted from gasoline‐powered vehicles contribute to the formation of secondary organic aerosol (SOA), which increases the atmospheric mass concentration of fine particles (PM2.5). Here we estimate the public health burden associated w...

  15. Formative Assessment and Increased Student Involvement Increase Grades in an Upper Secondary School Biology Course

    ERIC Educational Resources Information Center

    Granbom, Martin

    2016-01-01

    This study shows that formative methods and increased student participation has a positive influence on learning measured as grades. The study was conducted during the course Biology A in a Swedish Upper Secondary School. The students constructed grade criteria and defined working methods and type of examination within a given topic, Gene…

  16. Beyond the Classroom Walls: Edmodo in Saudi Secondary School EFL Instruction, Attitudes and Challenges

    ERIC Educational Resources Information Center

    Al-Kathiri, Fatimah

    2015-01-01

    This paper investigates the prospects of integrating Edmodo into Saudi EFL female secondary school instruction. It concentrates on students' perceptions and challenges regarding Edmodo use and its effect on their attitudes towards EFL learning. The 42 participants were divided into two groups. The experimental group received traditional teaching…

  17. Roles of arabinogalactan proteins in cotyledon formation and cell wall deposition during embryo development of Arabidopsis.

    PubMed

    Zhong, Jing; Ren, YuJun; Yu, Miao; Ma, TengFei; Zhang, XueLian; Zhao, Jie

    2011-07-01

    Arabinogalactan proteins (AGPs) are a class of highly glycosylated, widely distributed proteins in higher plants. In the previous study, we found that the green fluorescence from JIM13-labeled AGPs was mainly distributed in embryo proper and the basal part of suspensor but gradually disappeared after the torpedo-stage embryos in Arabidopsis. And (β-D-Glc)(3) Yariv phenylglycoside (βGlcY), a synthetic reagent that specifically binds to AGPs, could inhibit embryo development. In this study, as a continuous work, we investigated the AGP functions in embryo germination, cotyledon formation, and cell wall deposition in Arabidopsis embryos by using immunofluorescent, immunoenzyme, transmission electron microscopy (TEM), and Fourier transform infrared spectroscopy (FTIR) techniques. The results showed that 50 μM βGlcY caused inhibition of embryo germination, formation of abnormal cotyledon embryos, and disorder of cotyledon vasculature. Compared with the normal embryos in vitro and in vivo, the AGPs and pectin signals were quite weaker in the whole abnormal embryos, whereas the cellulose signal was stronger in the shoot apical meristem (SAM) of abnormal embryo by calcofluor white staining. The FTIR assay demonstrated that the cell wall of abnormal embryos was relatively poorer in pectins and richer in cellulose than those of normal embryos. By TEM observation, the SAM cells of the abnormal embryos had less cytoplasm, more plastid and starch grains, and larger vacuole than that of normal embryos. These results indicated that AGPs may play roles in embryo germination, cotyledon formation, cell wall cellulose and pectin deposition, and cell division potentiality during embryo development of Arabidopsis. PMID:20830495

  18. Secondary embryonic axis formation by transplantation of D quadrant micromeres in an oligochaete annelid.

    PubMed

    Nakamoto, Ayaki; Nagy, Lisa M; Shimizu, Takashi

    2011-01-01

    Among spiral cleaving embryos (e.g. mollusks and annelids), it has long been known that one blastomere at the four-cell stage, the D cell, and its direct descendants play an important role in axial pattern formation. Various studies have suggested that the D quadrant acts as the organizer of the embryonic axes in annelids, although this has never been demonstrated directly. Here we show that D quadrant micromeres (2d and 4d) of the oligochaete annelid Tubifex tubifex are essential for embryonic axis formation. When 2d and 4d were ablated the embryo developed into a rounded cell mass covered with an epithelial cell sheet. To examine whether 2d and 4d are sufficient for axis formation they were transplanted to an ectopic position in an otherwise intact embryo. The reconstituted embryo formed a secondary embryonic axis with a duplicated head and/or tail. Cell lineage analyses showed that neuroectoderm and mesoderm along the secondary axis were derived from the transplanted D quadrant micromeres and not from the host embryo. However, endodermal tissue along the secondary axis originated from the host embryo. Interestingly, when either 2d or 4d was transplanted separately to host embryos, the reconstituted embryos failed to form a secondary axis, suggesting that both 2d and 4d are required for secondary axis formation. Thus, the Tubifex D quadrant micromeres have the ability to organize axis formation, but they lack the ability to induce neuroectodermal tissues, a characteristic common to chordate primary embryonic organizers. PMID:21148182

  19. Plasma wall sheath contributions to flux retention during the formation of field-reversed configurations

    NASA Astrophysics Data System (ADS)

    Milroy, R. D.; Slough, J. T.; Hoffman, A. L.

    1984-06-01

    Flux loss during field reversal on the TRX-1 field-reversed θ pinch is found to be much less than predicted by the inertial model of Green and Newton. This can be explained by a pressure bearing, conducting sheath which naturally forms at the wall and limits the flux loss. A one-dimensional (r-t) magnetohydrodynamic (MHD) numerical model has been used to study the formation and effectiveness of the sheath. The calculations are in excellent agreement with experimental measurements over a wide range of operating parameters. The results indicate that good flux trapping can be achieved through the field reversal phase of FRC formation with much slower external field reversal rates than in current experiments.

  20. Ozone and secondary aerosol formation — Analysis of particle observations in the 2009 SHARP campaign

    NASA Astrophysics Data System (ADS)

    Cowin, J.; Yu, X.; Laulainen, N.; Iedema, M.; Lefer, B. L.; Anderson, D.; Pernia, D.; Flynn, J. H.

    2010-12-01

    Particulate matters (PM) play important roles in the formation and transformation of ozone. Although photooxidation of volatile organic compounds with respect to ozone formation in the gas phase is well understood, many unknowns still exist in heterogeneous mechanisms that process soot, secondary aerosols (both inorganic and organic), and key radical precursors such as formaldehyde and nitrous acid. Our main objective is to answer two key science questions: 1) will reduction of fine PM reduce ozone formation? 2) What sources of PM are most culpable? Are they from local chemistry or long-range transport? The field data collected in the 2009 Study of Houston Atmospheric Radical Precursors (SHARP) by our group at the Moody Tower consist of 1) real-time photolysis rates of ozone precursors, 2) particle size distributions, 3) organic carbon and elemental carbon, and 4) an archive of single particle samples taken with the Time Resolved Aerosol Collector (TRAC) sampler. The time resolution of the TRAC sampler is 30 minutes for routine measurements, and 15 minutes during some identified “events” (usually in the mid-afternoon) of high ozone and secondary organic or sulfate particle formation. The latter events last typically about an hour. Five ozone exceedance days occurred during the 6 weeks of deployment. Strong correlation between photochemical activities and organic carbon was observed. Initial data analysis indicates that secondary organic aerosol is a major component of the carbonaceous aerosols observed in Houston. Soot, secondary sulfate, seal salt, and mineral dust particles are determined from single particle analysis using scanning electron microscope and transmission electron microcopy coupled with energy dispersive X-ray spectroscopy. Compared with observations in 2000, the mass percentage of organics is higher (60 vs. 30%), and lower for sulfate (20% vs. 32%). On-going data analysis will focus on the composition, sources, and transformation of primary and

  1. Modeling and analysis of secondary particulate matter formation in the atmosphere

    NASA Astrophysics Data System (ADS)

    Vutukuru, Satish Kumar

    Particulate matter (PM) pollution is one of the major environmental challenges the world is facing today. A significant fraction of ambient PM is derived from gas-to-particle conversion processes---known as secondary PM---from gas-phase emissions such as oxides of nitrogen and sulfur, and volatile organic compounds (VOCs). The formation of secondary PM in a given region depends on the emissions profile and atmospheric conditions (temperature, wind, relative humidity, etc.) of the region. Therefore, three-dimensional computational models are needed to gain insights on PM formation and develop strategies to mitigate particulate pollution. The organic component of secondary PM, known as secondary organic aerosol (SOA), is formed in the atmosphere from gas-phase VOC emissions. In this dissertation, a three-dimensional model for SOA simulation is constructed and applied to the South Coast Air Basin of California (SoCAB). Model predictions show that atmospheric transport plays a significant role in SOA formation in the region. Inland areas experience high SOA levels due to transport of precursor emissions from urban coastal areas of the basin. Similar to SOA, a non-linear relationship exists between the formation of secondary inorganic PM and precursor emissions; Therefore three-dimensional air quality models are often applied to study impacts from emission sources of interest. This dissertation presents two such studies. The UCI-CIT air quality is applied to quantify PM impacts from ship emissions in the region. Results show that ships contribute to particulate nitrate and sulfate increase up to 12.8 and 1.7 mug/m3 respectively, mostly from the secondary formation. Simulations of future year scenario shows dramatic increase of impacts from ships. After the SoCAB, San Joaquin Valley (SJV) region experiences high levels of ambient PM in California. Additional emissions may occur in the SJV from distributed generation (DG) of electricity to meet future power needs. Air

  2. Increasing Gas Hydrate Formation Temperature for Desalination of High Salinity Produced Water with Secondary Guests

    SciTech Connect

    Cha, Jong-Ho; Seol, Yongkoo

    2013-10-07

    We suggest a new gas hydrate-based desalination process using water-immiscible hydrate formers; cyclopentane (CP) and cyclohexane (CH) as secondary hydrate guests to alleviate temperature requirements for hydrate formation. The hydrate formation reactions were carried out in an isobaric condition of 3.1 MPa to find the upper temperature limit of CO2 hydrate formation. Simulated produced water (8.95 wt % salinity) mixed with the hydrate formers shows an increased upper temperature limit from -2 °C for simple CO2 hydrate to 16 and 7 °C for double (CO2 + CP) and (CO2 + CH) hydrates, respectively. The resulting conversion rate to double hydrate turned out to be similar to that with simple CO2 hydrate at the upper temperature limit. Hydrate formation rates (Rf) for the double hydrates with CP and CH are shown to be 22 and 16 times higher, respectively, than that of the simple CO2 hydrate at the upper temperature limit. Such mild hydrate formation temperature and fast formation kinetics indicate increased energy efficiency of the double hydrate system for the desalination process. Dissociated water from the hydrates shows greater than 90% salt removal efficiency for the hydrates with the secondary guests, which is also improved from about 70% salt removal efficiency for the simple hydrates.

  3. Study of Sheath Potential and Plasma Density Profiles in the Presence of Strong Secondary Electron Emission from Walls

    NASA Astrophysics Data System (ADS)

    Trung, Huy-Sinh; Kaganovich, Igor; Khrabrov, Alexander

    2011-10-01

    We study the behavior of plasmas confined within walls, which emit secondary electrons. A set of fluid equations for ions, the Vlasov equation for electrons, and Poisson's equation are solved together numerically to obtain potential and density distributions. We explore the transition to the space charge limited regime in the sheath. The potential and density profiles are monotonic if the emission coefficient is set below the critical emission coefficient. Above the critical emission coefficient, the profiles become non monotonic. We recover the results obtained by Hobbs & Wesson and compare them to the full-scale simulation results of a particle-in-cell code, EDIPIC. Research supported by the Department of Energy National Undergraduate Fellowship Program in Plasma Physics and Fusion Energy Sciences.

  4. Secondary formation of disinfection by-products by UV treatment of swimming pool water.

    PubMed

    Spiliotopoulou, Aikaterini; Hansen, Kamilla M S; Andersen, Henrik R

    2015-07-01

    Formation of disinfection by-products (DBPs) during experimental UV treatment of pool water has previously been reported with little concurrence between laboratory studies, field studies and research groups. In the current study, changes in concentration of seven out of eleven investigated volatile DBPs were observed in experiments using medium pressure UV treatment, with and without chlorine and after post-UV chlorination. Results showed that post-UV chlorine consumption increased, dose-dependently, with UV treatment dose. A clear absence of trihalomethane formation by UV and UV with chlorine was observed, while small yet statistically significant increases in dichloroacetonitrile and dichloropropanone concentrations were detected. Results indicate that post-UV chlorination clearly induced secondary formation of several DBPs. However, the formation of total trihalomethanes was no greater than what could be replicated by performing the DBP formation assay with higher chlorine concentrations to simulate extended chlorination. Post-UV chlorination of water from a swimming pool that continuously uses UV treatment to control combined chlorine could not induce secondary formation for most DBPs. Concurrence for induction of trihalomethanes was identified between post-UV chlorination treatments and simulated extended chlorination time treatment. Trihalomethanes could not be induced by UV treatment of water from a continuously UV treated pool. This indicates that literature reports of experimentally induced trihalomethane formation by UV may be a result of kinetic increase in formation by UV. However, this does not imply that higher trihalomethane concentrations would occur in pools that apply continuous UV treatment. The bromine fraction of halogens in formed trihalomethanes increased with UV dose. This indicates that UV removes bromine atoms from larger molecules that participate in trihalomethane production during post-UV chlorination. Additionally, no significant

  5. Relationship between chain collapse and secondary structure formation in a partially folded protein.

    PubMed

    Nakagawa, Kanako; Yamada, Yoshiteru; Matsumura, Yoshitaka; Tsukamoto, Seiichi; Yamamoto-Ohtomo, Mio; Ohtomo, Hideaki; Okabe, Takahiro; Fujiwara, Kazuo; Ikeguchi, Masamichi

    2014-06-01

    Chain collapse and secondary structure formation are frequently observed during the early stages of protein folding. Is the chain collapse brought about by interactions between secondary structure units or is it due to polymer behavior in a poor solvent (coil-globule transition)? To answer this question, we measured small-angle X-ray scattering for a series of β-lactoglobulin mutants under conditions in which they assume a partially folded state analogous to the folding intermediates. Mutants that were designed to disrupt the secondary structure units showed the gyration radii similar to that of the wild type protein, indicating that chain collapse is due to coil-globule transitions. PMID:25100622

  6. Supramolecular Interactions in Secondary Plant Cell Walls: Effect of Lignin Chemical Composition Revealed with the Molecular Theory of Solvation.

    PubMed

    Silveira, Rodrigo L; Stoyanov, Stanislav R; Gusarov, Sergey; Skaf, Munir S; Kovalenko, Andriy

    2015-01-01

    Plant biomass recalcitrance, a major obstacle to achieving sustainable production of second generation biofuels, arises mainly from the amorphous cell-wall matrix containing lignin and hemicellulose assembled into a complex supramolecular network that coats the cellulose fibrils. We employed the statistical-mechanical, 3D reference interaction site model with the Kovalenko-Hirata closure approximation (or 3D-RISM-KH molecular theory of solvation) to reveal the supramolecular interactions in this network and provide molecular-level insight into the effective lignin-lignin and lignin-hemicellulose thermodynamic interactions. We found that such interactions are hydrophobic and entropy-driven, and arise from the expelling of water from the mutual interaction surfaces. The molecular origin of these interactions is carbohydrate-π and π-π stacking forces, whose strengths are dependent on the lignin chemical composition. Methoxy substituents in the phenyl groups of lignin promote substantial entropic stabilization of the ligno-hemicellulosic matrix. Our results provide a detailed molecular view of the fundamental interactions within the secondary plant cell walls that lead to recalcitrance. PMID:26263115

  7. LytR-CpsA-Psr Enzymes as Determinants of Bacillus anthracis Secondary Cell Wall Polysaccharide Assembly

    PubMed Central

    Liszewski Zilla, Megan; Chan, Yvonne G. Y.; Lunderberg, Justin Mark; Schneewind, Olaf

    2014-01-01

    Bacillus anthracis, the causative agent of anthrax, replicates as chains of vegetative cells by regulating the separation of septal peptidoglycan. Surface (S)-layer proteins and associated proteins (BSLs) function as chain length determinants and bind to the secondary cell wall polysaccharide (SCWP). In this study, we identified the B. anthracis lcpD mutant, which displays increased chain length and S-layer assembly defects due to diminished SCWP attachment to peptidoglycan. In contrast, the B. anthracis lcpB3 variant displayed reduced cell size and chain length, which could be attributed to increased deposition of BSLs. In other bacteria, LytR-CpsA-Psr (LCP) proteins attach wall teichoic acid (WTA) and polysaccharide capsule to peptidoglycan. B. anthracis does not synthesize these polymers, yet its genome encodes six LCP homologues, which, when expressed in S. aureus, promote WTA attachment. We propose a model whereby B. anthracis LCPs promote attachment of SCWP precursors to discrete locations in the peptidoglycan, enabling BSL assembly and regulated separation of septal peptidoglycan. PMID:25384480

  8. Overexpression of SbMyb60 impacts phenylpropanoid biosynthesis and alters secondary cell wall composition in Sorghum bicolor.

    PubMed

    Scully, Erin D; Gries, Tammy; Sarath, Gautam; Palmer, Nathan A; Baird, Lisa; Serapiglia, Michelle J; Dien, Bruce S; Boateng, Akwasi A; Ge, Zhengxiang; Funnell-Harris, Deanna L; Twigg, Paul; Clemente, Thomas E; Sattler, Scott E

    2016-02-01

    The phenylpropanoid biosynthetic pathway that generates lignin subunits represents a significant target for altering the abundance and composition of lignin. The global regulators of phenylpropanoid metabolism may include MYB transcription factors, whose expression levels have been correlated with changes in secondary cell wall composition and the levels of several other aromatic compounds, including anthocyanins and flavonoids. While transcription factors correlated with downregulation of the phenylpropanoid biosynthesis pathway have been identified in several grass species, few transcription factors linked to activation of this pathway have been identified in C4 grasses, some of which are being developed as dedicated bioenergy feedstocks. In this study we investigated the role of SbMyb60 in lignin biosynthesis in sorghum (Sorghum bicolor), which is a drought-tolerant, high-yielding biomass crop. Ectopic expression of this transcription factor in sorghum was associated with higher expression levels of genes involved in monolignol biosynthesis, and led to higher abundances of syringyl lignin, significant compositional changes to the lignin polymer and increased lignin concentration in biomass. Moreover, transgenic plants constitutively overexpressing SbMyb60 also displayed ectopic lignification in leaf midribs and elevated concentrations of soluble phenolic compounds in biomass. Results indicate that overexpression of SbMyb60 is associated with activation of monolignol biosynthesis in sorghum. SbMyb60 represents a target for modification of plant cell wall composition, with the potential to improve biomass for renewable uses. PMID:26712107

  9. Polarized and persistent Ca²⁺ plumes define loci for formation of wall ingrowth papillae in transfer cells.

    PubMed

    Zhang, Hui-Ming; Imtiaz, Mohammad S; Laver, Derek R; McCurdy, David W; Offler, Christina E; van Helden, Dirk F; Patrick, John W

    2015-03-01

    Transfer cell morphology is characterized by a polarized ingrowth wall comprising a uniform wall upon which wall ingrowth papillae develop at right angles into the cytoplasm. The hypothesis that positional information directing construction of wall ingrowth papillae is mediated by Ca(2+) signals generated by spatiotemporal alterations in cytosolic Ca(2+) ([Ca(2+)]cyt) of cells trans-differentiating to a transfer cell morphology was tested. This hypothesis was examined using Vicia faba cotyledons. On transferring cotyledons to culture, their adaxial epidermal cells synchronously trans-differentiate to epidermal transfer cells. A polarized and persistent Ca(2+) signal, generated during epidermal cell trans-differentiation, was found to co-localize with the site of ingrowth wall formation. Dampening Ca(2+) signal intensity, by withdrawing extracellular Ca(2+) or blocking Ca(2+) channel activity, inhibited formation of wall ingrowth papillae. Maintenance of Ca(2+) signal polarity and persistence depended upon a rapid turnover (minutes) of cytosolic Ca(2+) by co-operative functioning of plasma membrane Ca(2+)-permeable channels and Ca(2+)-ATPases. Viewed paradermally, and proximal to the cytosol-plasma membrane interface, the Ca(2+) signal was organized into discrete patches that aligned spatially with clusters of Ca(2+)-permeable channels. Mathematical modelling demonstrated that these patches of cytosolic Ca(2+) were consistent with inward-directed plumes of elevated [Ca(2+)]cyt. Plume formation depended upon an alternating distribution of Ca(2+)-permeable channels and Ca(2+)-ATPase clusters. On further inward diffusion, the Ca(2+) plumes coalesced into a uniform Ca(2+) signal. Blocking or dispersing the Ca(2+) plumes inhibited deposition of wall ingrowth papillae, while uniform wall formation remained unaltered. A working model envisages that cytosolic Ca(2+) plumes define the loci at which wall ingrowth papillae are deposited. PMID:25504137

  10. Polarized and persistent Ca2+ plumes define loci for formation of wall ingrowth papillae in transfer cells

    PubMed Central

    Zhang, Hui-Ming; Imtiaz, Mohammad S.; Laver, Derek R.; McCurdy, David W.; Offler, Christina E.; van Helden, Dirk F.; Patrick, John W.

    2015-01-01

    Transfer cell morphology is characterized by a polarized ingrowth wall comprising a uniform wall upon which wall ingrowth papillae develop at right angles into the cytoplasm. The hypothesis that positional information directing construction of wall ingrowth papillae is mediated by Ca2+ signals generated by spatiotemporal alterations in cytosolic Ca2+ ([Ca2+]cyt) of cells trans-differentiating to a transfer cell morphology was tested. This hypothesis was examined using Vicia faba cotyledons. On transferring cotyledons to culture, their adaxial epidermal cells synchronously trans-differentiate to epidermal transfer cells. A polarized and persistent Ca2+ signal, generated during epidermal cell trans-differentiation, was found to co-localize with the site of ingrowth wall formation. Dampening Ca2+ signal intensity, by withdrawing extracellular Ca2+ or blocking Ca2+ channel activity, inhibited formation of wall ingrowth papillae. Maintenance of Ca2+ signal polarity and persistence depended upon a rapid turnover (minutes) of cytosolic Ca2+ by co-operative functioning of plasma membrane Ca2+-permeable channels and Ca2+-ATPases. Viewed paradermally, and proximal to the cytosol–plasma membrane interface, the Ca2+ signal was organized into discrete patches that aligned spatially with clusters of Ca2+-permeable channels. Mathematical modelling demonstrated that these patches of cytosolic Ca2+ were consistent with inward-directed plumes of elevated [Ca2+]cyt. Plume formation depended upon an alternating distribution of Ca2+-permeable channels and Ca2+-ATPase clusters. On further inward diffusion, the Ca2+ plumes coalesced into a uniform Ca2+ signal. Blocking or dispersing the Ca2+ plumes inhibited deposition of wall ingrowth papillae, while uniform wall formation remained unaltered. A working model envisages that cytosolic Ca2+ plumes define the loci at which wall ingrowth papillae are deposited. PMID:25504137

  11. Formation of Low Volatility Organic Compounds and Secondary Organic Aerosol from Isoprene Hydroxyhydroperoxide Low-NO Oxidation.

    PubMed

    Krechmer, Jordan E; Coggon, Matthew M; Massoli, Paola; Nguyen, Tran B; Crounse, John D; Hu, Weiwei; Day, Douglas A; Tyndall, Geoffrey S; Henze, Daven K; Rivera-Rios, Jean C; Nowak, John B; Kimmel, Joel R; Mauldin, Roy L; Stark, Harald; Jayne, John T; Sipilä, Mikko; Junninen, Heikki; Clair, Jason M St; Zhang, Xuan; Feiner, Philip A; Zhang, Li; Miller, David O; Brune, William H; Keutsch, Frank N; Wennberg, Paul O; Seinfeld, John H; Worsnop, Douglas R; Jimenez, Jose L; Canagaratna, Manjula R

    2015-09-01

    Gas-phase low volatility organic compounds (LVOC), produced from oxidation of isoprene 4-hydroxy-3-hydroperoxide (4,3-ISOPOOH) under low-NO conditions, were observed during the FIXCIT chamber study. Decreases in LVOC directly correspond to appearance and growth in secondary organic aerosol (SOA) of consistent elemental composition, indicating that LVOC condense (at OA below 1 μg m(-3)). This represents the first simultaneous measurement of condensing low volatility species from isoprene oxidation in both the gas and particle phases. The SOA formation in this study is separate from previously described isoprene epoxydiol (IEPOX) uptake. Assigning all condensing LVOC signals to 4,3-ISOPOOH oxidation in the chamber study implies a wall-loss corrected non-IEPOX SOA mass yield of ∼4%. By contrast to monoterpene oxidation, in which extremely low volatility VOC (ELVOC) constitute the organic aerosol, in the isoprene system LVOC with saturation concentrations from 10(-2) to 10 μg m(-3) are the main constituents. These LVOC may be important for the growth of nanoparticles in environments with low OA concentrations. LVOC observed in the chamber were also observed in the atmosphere during SOAS-2013 in the Southeastern United States, with the expected diurnal cycle. This previously uncharacterized aerosol formation pathway could account for ∼5.0 Tg yr(-1) of SOA production, or 3.3% of global SOA. PMID:26207427

  12. Factors determining the formation of secondary inorganic aerosol: a case study in the Po Valley (Italy)

    NASA Astrophysics Data System (ADS)

    Squizzato, S.; Masiol, M.; Brunelli, A.; Pistollato, S.; Tarabotti, E.; Rampazzo, G.; Pavoni, B.

    2013-02-01

    Physicochemical properties of aerosol were investigated by analyzing the inorganic water soluble content in PM2.5 samples collected in the eastern part of the Po Valley (Italy). In this area the EU limits for many air pollutants are frequently exceeded as a consequence of local sources and regional-scale transport of secondary inorganic aerosol precursors. Nine PM2.5-bound major inorganic ions (F-, Cl-, NO3-, SO42-, Na+, NH4+, K+, Mg2+, Ca2+) were monitored over one year in three sites categorized as semi-rural background, urban background and industrial. The acidic properties of the PM2.5 were studied by applying the recently developed E-AIM thermodynamic model 4 (Extended Aerosol Thermodynamics Model). The experimental data were also examined in relation to the levels of gaseous precursors of secondary inorganic aerosol (SO2, NOx, NO, NO2) and on the basis of some environmental conditions having an effect on the secondary aerosols generation processes. A chemometric procedure using cluster analysis on experimental [NH4+]/[SO42-] molar ratio and NO3- concentration has been applied to determine the conditions needed for ammonium nitrate formation in different chemical environments. Finally, some considerations on the secondary inorganic aerosol formation and the most relevant weather conditions concerning the sulfate-nitrate-ammonium system were also discussed. The obtained results and discussion can help in understanding the secondary aerosol formation dynamics in the Po Valley, which is one of the most critical regions for air pollution in southern Europe.

  13. Concentric Eye Walls, Secondary Wind Maxima, and The Evolution of the Hurricane vortex.

    NASA Astrophysics Data System (ADS)

    Willoughby, H. E.; Clos, J. A.; Shoreibah, M. G.

    1982-02-01

    Research aircraft observations in recent hurricanes support the model of Shapiro and Willoughby (1982) for the tropical cyclone's response to circularly symmetric, convective heat sources (convective rings). In both nature and the numerical model the tangential wind commonly increases rapidly just inside the radius of maximum wind and decreases inside the eye near the central axis of the vortex. Thus both secondary outer wind maxima and eyewall wind maxima often contract as they intensify. This response is independent of the horizontal spatial scale of the maximum. An outer maximum is frequently observed to constrict about a pre-existing eye and replace it. This chain of events often coincides with a weakening, or at least a pause in intensification, of the vortex as a whole. The concentric eye phenomenon is a common, but by no means universal, feature of tropical cyclones. It is most frequently observed in intense, highly symmetric systems.

  14. Suppression of Hydroxycinnamate Network Formation in Cell Walls of Rice Shoots Grown under Microgravity Conditions in Space.

    PubMed

    Wakabayashi, Kazuyuki; Soga, Kouichi; Hoson, Takayuki; Kotake, Toshihisa; Yamazaki, Takashi; Higashibata, Akira; Ishioka, Noriaki; Shimazu, Toru; Fukui, Keiji; Osada, Ikuko; Kasahara, Haruo; Kamada, Motoshi

    2015-01-01

    Network structures created by hydroxycinnamate cross-links within the cell wall architecture of gramineous plants make the cell wall resistant to the gravitational force of the earth. In this study, the effects of microgravity on the formation of cell wall-bound hydroxycinnamates were examined using etiolated rice shoots simultaneously grown under artificial 1 g and microgravity conditions in the Cell Biology Experiment Facility on the International Space Station. Measurement of the mechanical properties of cell walls showed that shoot cell walls became stiff during the growth period and that microgravity suppressed this stiffening. Amounts of cell wall polysaccharides, cell wall-bound phenolic acids, and lignin in rice shoots increased as the shoot grew. Microgravity did not influence changes in the amounts of cell wall polysaccharides or phenolic acid monomers such as ferulic acid (FA) and p-coumaric acid, but it suppressed increases in diferulic acid (DFA) isomers and lignin. Activities of the enzymes phenylalanine ammonia-lyase (PAL) and cell wall-bound peroxidase (CW-PRX) in shoots also increased as the shoot grew. PAL activity in microgravity-grown shoots was almost comparable to that in artificial 1 g-grown shoots, while CW-PRX activity increased less in microgravity-grown shoots than in artificial 1 g-grown shoots. Furthermore, the increases in expression levels of some class III peroxidase genes were reduced under microgravity conditions. These results suggest that a microgravity environment modifies the expression levels of certain class III peroxidase genes in rice shoots, that the resultant reduction of CW-PRX activity may be involved in suppressing DFA formation and lignin polymerization, and that this suppression may cause a decrease in cross-linkages within the cell wall architecture. The reduction in intra-network structures may contribute to keeping the cell wall loose under microgravity conditions. PMID:26378793

  15. Suppression of Hydroxycinnamate Network Formation in Cell Walls of Rice Shoots Grown under Microgravity Conditions in Space

    PubMed Central

    Wakabayashi, Kazuyuki; Soga, Kouichi; Hoson, Takayuki; Kotake, Toshihisa; Yamazaki, Takashi; Higashibata, Akira; Ishioka, Noriaki; Shimazu, Toru; Fukui, Keiji; Osada, Ikuko; Kasahara, Haruo; Kamada, Motoshi

    2015-01-01

    Network structures created by hydroxycinnamate cross-links within the cell wall architecture of gramineous plants make the cell wall resistant to the gravitational force of the earth. In this study, the effects of microgravity on the formation of cell wall-bound hydroxycinnamates were examined using etiolated rice shoots simultaneously grown under artificial 1 g and microgravity conditions in the Cell Biology Experiment Facility on the International Space Station. Measurement of the mechanical properties of cell walls showed that shoot cell walls became stiff during the growth period and that microgravity suppressed this stiffening. Amounts of cell wall polysaccharides, cell wall-bound phenolic acids, and lignin in rice shoots increased as the shoot grew. Microgravity did not influence changes in the amounts of cell wall polysaccharides or phenolic acid monomers such as ferulic acid (FA) and p-coumaric acid, but it suppressed increases in diferulic acid (DFA) isomers and lignin. Activities of the enzymes phenylalanine ammonia-lyase (PAL) and cell wall-bound peroxidase (CW-PRX) in shoots also increased as the shoot grew. PAL activity in microgravity-grown shoots was almost comparable to that in artificial 1 g-grown shoots, while CW-PRX activity increased less in microgravity-grown shoots than in artificial 1 g-grown shoots. Furthermore, the increases in expression levels of some class III peroxidase genes were reduced under microgravity conditions. These results suggest that a microgravity environment modifies the expression levels of certain class III peroxidase genes in rice shoots, that the resultant reduction of CW-PRX activity may be involved in suppressing DFA formation and lignin polymerization, and that this suppression may cause a decrease in cross-linkages within the cell wall architecture. The reduction in intra-network structures may contribute to keeping the cell wall loose under microgravity conditions. PMID:26378793

  16. Mechanisms of Formation of Secondary Organic Aerosols and Implications for Global Radiative Forcing

    SciTech Connect

    John H. Seinfeld

    2011-12-08

    Organic material constitutes about 50% of global atmospheric aerosol mass, and the dominant source of organic aerosol is the oxidation of volatile hydrocarbons, to produce secondary organic aerosol (SOA). Understanding the formation of SOA is crucial to predicting present and future climate effects of atmospheric aerosols. The goal of this program is to significantly increase our understanding of secondary organic aerosol (SOA) formation in the atmosphere. Ambient measurements indicate that the amount of SOA in the atmosphere exceeds that predicted in current models based on existing laboratory chamber data. This would suggest that either the SOA yields measured in laboratory chambers are understated or that all major organic precursors have not been identified. In this research program we are systematically exploring these possibilities.

  17. Secondary organic aerosol formation initiated from reactions between ozone and surface-sorbed squalene

    NASA Astrophysics Data System (ADS)

    Wang, Chunyi; Waring, Michael S.

    2014-02-01

    Previous research has shown that ozone reactions on surface-sorbed D-limonene can promote gas phase secondary organic aerosol (SOA) formation indoors. In this work, we conducted 13 steady state chamber experiments to measure the SOA formation entirely initiated by ozone reactions with squalene sorbed to glass, at chamber ozone of 57-500 ppb for two relative humidity (RH) conditions of 21% and 51%, in the absence of seed particles. Squalene is a nonvolatile compound that is a component of human skin oil and prevalent on indoor surfaces and in settled dust due to desquamation. The size distributions, mass and number secondary emission rates (SER), aerosol mass fractions (AMF), and aerosol number fractions (ANF) of formed SOA were quantified. The surface AMF and ANF are defined as the change in SOA mass or number formed, respectively, per ozone mass consumed by ozone-squalene reactions. All experiments but one exhibited nucleation and mass formation. Mass formation was relatively small in magnitude and increased with ozone, most notably for the RH = 51% experiments. The surface AMF was a function of the chamber aerosol concentration, and a multi-product model was fit using the 'volatility basis set' framework. Number formation was relatively strong at low ozone and low RH conditions. Though we cannot extrapolate our results because experiments were conducted at high air exchange rates, we speculate that this process may enhance particle number more than mass concentrations indoors.

  18. Substantial secondary organic aerosol formation in a coniferous forest: observations of both day and night time chemistry

    NASA Astrophysics Data System (ADS)

    Lee, A. K. Y.; Abbatt, J. P. D.; Leaitch, W. R.; Li, S.-M.; Sjostedt, S. J.; Wentzell, J. J. B.; Liggio, J.; Macdonald, A. M.

    2015-10-01

    Substantial biogenic secondary organic aerosol (BSOA) formation was investigated in a coniferous forest mountain region at Whistler, British Columbia. A largely biogenic aerosol growth episode was observed, providing a unique opportunity to investigate BSOA formation chemistry in a forested environment with limited influence from anthropogenic emissions. Positive matrix factorization of aerosol mass spectrometry (AMS) measurement identified two types of BSOA (BSOA-1 and BSOA-2), which were primarily generated by gas-phase oxidation of monoterpenes and perhaps sesquiterpenes. The temporal variations of BSOA-1 and BSOA-2 can be explained by gas-particle partitioning in response to ambient temperature and the relative importance of different oxidation mechanisms between day and night. While BSOA-1 will arise from gas-phase ozonolysis and nitrate radical chemistry at night, BSOA-2 is less volatile than BSOA-1 and consists of products formed via gas-phase oxidation by the OH radical and ozone during the day. Organic nitrates produced through nitrate radical chemistry can account for 22-33 % of BSOA-1 mass at night. The mass spectra of BSOA-1 and BSOA-2 have higher values of the mass fraction of m/z 91 (f91) compared to the background organic aerosol, and so f91 is used as an indicator of BSOA formation pathways. A comparison between laboratory studies in the literature and our field observations highlights the potential importance of gas-phase formation chemistry of BSOA-2 type materials that may not be captured in smog chamber experiments, perhaps due to the wall loss of gas-phase intermediate products.

  19. Factors determining the formation of secondary inorganic aerosol: a case study in the Po Valley (Italy)

    NASA Astrophysics Data System (ADS)

    Squizzato, S.; Masiol, M.; Brunelli, A.; Pistollato, S.; Tarabotti, E.; Rampazzo, G.; Pavoni, B.

    2012-07-01

    Physicochemical properties of aerosol were investigated by analyzing the inorganic water soluble content in PM2.5 samples collected in the eastern part of the Po Valley (Italy). In this area the EU limits for many air pollutants are frequently exceeded as a consequence of local sources and regional-scale transport of secondary inorganic aerosol precursors. Nine PM2.5-bound major inorganic ions (F-, Cl-, NO3-, SO42-, Na+, NH4+, K+, Mg2+, Ca2+) were monitored over one year in three sites categorized as semi-rural background, urban background and industrial. The acidic properties of the PM2.5 were studied by applying the recently developed E-AIM thermodynamic model 4. The experimental data were also examined in relation to the levels of gaseous precursors of SIA (SO2, NOx, NO, NO2) and on the basis of some environmental conditions having an effect on the secondary aerosols generation processes. A chemometric procedure using cluster analysis on experimental [NH4+]/[SO42-] molar ratio and NO3- concentration has been applied to determine the conditions needed for ammonium nitrate formation in different chemical environments. Finally, some considerations on the secondary inorganic aerosol formation and the most relevant weather conditions concerning the sulfate-nitrate-ammonium system were also discussed. The methods used can be easily applied to other environments to evaluate the physicochemical characteristics of aerosols and the climatic conditions necessary for the formation of ammonium sulfate and ammonium nitrate aerosols.

  20. The first biantennary bacterial secondary cell wall polymer and its influence on S-layer glycoprotein assembly.

    PubMed Central

    Steindl, Christian; Schäffer, Christina; Wugeditsch, Thomas; Graninger, Michael; Matecko, Irena; Müller, Norbert; Messner, Paul

    2002-01-01

    The cell surface of Aneurinibacillus thermoaerophilus DSM 10155 is covered with a square surface (S)-layer glycoprotein lattice. This S-layer glycoprotein, which was extracted with aqueous buffers after a freeze-thaw cycle of the bacterial cells, is the only completely water-soluble S-layer glycoprotein to be reported to date. The purified S-layer glycoprotein preparation had an overall carbohydrate content of 19%. Detailed chemical investigations indicated that the S-layer O-glycans of previously established structure accounted for 13% of total glycosylation. The remainder could be attributed to a peptidoglycan-associated secondary cell wall polymer. Structure analysis was performed using purified secondary cell wall polymer-peptidoglycan complexes. NMR spectroscopy revealed the first biantennary secondary cell wall polymer from the domain Bacteria, with the structure alpha-L-Glc p NAc-(1-->3)-beta-L-Man p NAc-(1-->4)-beta-L-Gal p NAc-(1-->3)-alpha-L-Glc p NAc-(1-->3)-beta-L-Man p NAc-(1-->4)-beta-L-Gal p NAc-(1-->3)-alpha-L-Glc p NAc-(1-->4)-[alpha-L-Glc p NAc-(1-->3)-beta-L-Man p NAc-(1-->4)-beta-L-Gal p NAc-(1-->3)-alpha-L-Glc p NAc-(1-->3)-beta-L-Man p NAc-(1-->4)-beta-L-Gal p NAc-(1-->3)-alpha-L-Glc p NAc-(1-->3)]-beta-L-Man p NAc-(1-->3)-alpha-L-Glc p NAc-(1-->3)-beta-L-Man p NAc-(1-->3)-alpha-L-Glc p NAc-(1-->3)-alpha-L-Glc p NAc-(1-->O)-PO(2)(-)-O-PO(2)(-)-(O-->6)-MurNAc- (where MurNAc is N -acetylmuramic acid). The neutral polysaccharide is linked via a pyrophosphate bond to the C-6 atom of every fourth N -acetylmuramic acid residue, in average, of the A1gamma-type peptidoglycan. In vivo, the biantennary polymer anchored the S-layer glycoprotein very effectively to the cell wall, probably due to the doubling of motifs for a proposed lectin-like binding between the polymer and the N-terminus of the S-layer protein. When the cellular support was removed during S-layer glycoprotein isolation, the co-purified polymer mediated the solubility of the S

  1. IDENTIFYING GENES CONTROLLING FERULATE CROSS-LINKING FORMATION IN GRASS CELL WALLS

    SciTech Connect

    de O Buanafina, Marcia Maria

    2013-10-16

    formation or genes encoding transcription factors that control feruloylation. So it will require further investigations to confirm if we have a mutation on the ferulloyltransferase gene(s). We have also identified severe phenotypes which showed a significant change in the level of cell wall ferulates and sugars and have not survived. As this genotype did not reach flowering stage there was no seed production and so further analysis could not be done. 3. Candidate Gene Approach: Because of the likely long time expected to generate and identify candidate with mutation(s) on the feruloyltransferase gene, from our screening, we have in addition taken a bioinformatics approach in order to try to identify candidates gene(s) involved in feruloylation. Homologues of the rice feruloyl transferase genes belonging to Pfam PF02458 family were identified in Brachypodium distachyon by blasting EST sequences of putative rice arabinoxylan feruloyl transferase genes against Brachypodium and homologous sequences identified were tested for their expression level in Brachypodium. Sequences of the two Brachypodium genes, which showed highest expression and similarity to rice sequences, were used to design primers for construction of RNAi and over-expression vectors. These were transformed into Brachypodium using Agrobacterium transformation and plants generated have been analyzed for levels of cell wall ferulates and diferulates over generations T0 to T2 or T3. Our data shows a significant reduction if ferulates monomers and dimers from plants generated from RNAi::BdAT2 over 2-3 generations indicating that this gene might be a positive candidate for feruloylation in Brachypodium. However when BdAT2 was up regulated there was not much increase in the level of ferulates as would be expected. This lack of effect on the level of cell wall ferulates could be due to the CaMV::35S promoter used to drive the expression of the putative BdAT2 gene. We have shown previously that Aspergillus FAEA

  2. CELLULOSE SYNTHASE9 Serves a Nonredundant Role in Secondary Cell Wall Synthesis in Arabidopsis Epidermal Testa Cells1[C][W][OA

    PubMed Central

    Stork, Jozsef; Harris, Darby; Griffiths, Jonathan; Williams, Brian; Beisson, Fred; Li-Beisson, Yonghua; Mendu, Venugopal; Haughn, George; DeBolt, Seth

    2010-01-01

    Herein, we sought to explore the contribution of cellulose biosynthesis to the shape and morphogenesis of hexagonal seed coat cells in Arabidopsis (Arabidopsis thaliana). Consistent with seed preferential expression of CELLULOSE SYNTHASE9 (CESA9), null mutations in CESA9 caused no change in cellulose content in leaves or stems, but caused a 25% reduction in seeds. Compositional studies of cesa9 seeds uncovered substantial proportional increases in cell wall neutral sugars and in several monomers of cell wall-associated polyesters. Despite these metabolic compensations, cesa9 seeds were permeable to tetrazolium salt, implying that cellulose biosynthesis, via CESA9, is required for correct barrier function of the seed coat. A syndrome of depleted radial wall, altered seed coat cell size, shape, and internal angle uniformity was quantified using scanning electron micrographs in cesa9 epidermal cells. By contrast, morphological defects were absent in cesa9 embryos, visually inspected from torpedo to bent cotyledon, consistent with no reduction in postgermination radical or hypocotyl elongation. These data implied that CESA9 was seed coat specific or functionally redundant in other tissues. Assessment of sections from glutaraldehyde fixed wild-type and cesa9 mature seeds supported results of scanning electron micrographs and quantitatively showed depletion of secondary cell wall synthesis in the radial cell wall. Herein, we show a nonredundant role for CESA9 in secondary cell wall biosynthesis in radial cell walls of epidermal seed coats and document its importance for cell morphogenesis and barrier function of the seed coat. PMID:20335403

  3. Bubble Formation from Wall Orifice in Liquid Cross-Flow Under Low Gravity

    NASA Technical Reports Server (NTRS)

    Nahra, Henry K.; Kamotani, Y.

    2000-01-01

    Two-phase flows present a wide variety of applications for spacecraft thermal control systems design. Bubble formation and detachment is an integral part of the two phase flow science. The objective of the present work is to experimentally investigate the effects of liquid cross-flow velocity, gas flow rate, and orifice diameter on bubble formation in a wall-bubble injection configuration. Data were taken mainly under reduced gravity conditions but some data were taken in normal gravity for comparison. The reduced gravity experiment was conducted aboard the NASA DC-9 Reduced Gravity Aircraft. The results show that the process of bubble formation and detachment depends on gravity, the orifice diameter, the gas flow rate, and the liquid cross-flow velocity. The data are analyzed based on a force balance, and two different detachment mechanisms are identified. When the gas momentum is large, the bubble detaches from the injection orifice as the gas momentum overcomes the attaching effects of liquid drag and inertia. The surface tension force is much reduced because a large part of the bubble pinning edge at the orifice is lost as the bubble axis is tilted by the liquid flow. When the gas momentum is small, the force balance in the liquid flow direction is important, and the bubble detaches when the bubble axis inclination exceeds a certain angle.

  4. Asparagus Spears as a Model to Study Heteroxylan Biosynthesis during Secondary Wall Development

    PubMed Central

    Wu, Aimin; Picard, Kelsey; Lampugnani, Edwin R.; Cheetamun, Roshan; Beahan, Cherie; Cassin, Andrew; Lonsdale, Andrew; Doblin, Monika S.; Bacic, Antony

    2015-01-01

    Garden asparagus (Asparagus officinalis L.) is a commercially important crop species utilized for its excellent source of vitamins, minerals and dietary fiber. However, after harvest the tissue hardens and its quality rapidly deteriorates because spear cell walls become rigidified due to lignification and substantial increases in heteroxylan content. This latter observation prompted us to investigate the in vitro xylan xylosyltransferase (XylT) activity in asparagus. The current model system for studying heteroxylan biosynthesis, Arabidopsis, whilst a powerful genetic system, displays relatively low xylan XylT activity in in vitro microsomal preparations compared with garden asparagus therefore hampering our ability to study the molecular mechanism(s) of heteroxylan assembly. Here, we analyzed physiological and biochemical changes of garden asparagus spears stored at 4 °C after harvest and detected a high level of xylan XylT activity that accounts for this increased heteroxylan. The xylan XylT catalytic activity is at least thirteen-fold higher than that reported for previously published species, including Arabidopsis and grasses. A biochemical assay was optimized and up to seven successive Xyl residues were incorporated to extend the xylotetraose (Xyl4) acceptor backbone. To further elucidate the xylan biosynthesis mechanism, we used RNA-seq to generate an Asparagus reference transcriptome and identified five putative xylan biosynthetic genes (AoIRX9, AoIRX9-L, AoIRX10, AoIRX14_A, AoIRX14_B) with AoIRX9 having an expression profile that is distinct from the other genes. We propose that Asparagus provides an ideal biochemical system to investigate the biochemical aspects of heteroxylan biosynthesis and also offers the additional benefit of being able to study the lignification process during plant stem maturation. PMID:25894575

  5. Asparagus Spears as a Model to Study Heteroxylan Biosynthesis during Secondary Wall Development.

    PubMed

    Song, Lili; Zeng, Wei; Wu, Aimin; Picard, Kelsey; Lampugnani, Edwin R; Cheetamun, Roshan; Beahan, Cherie; Cassin, Andrew; Lonsdale, Andrew; Doblin, Monika S; Bacic, Antony

    2015-01-01

    Garden asparagus (Asparagus officinalis L.) is a commercially important crop species utilized for its excellent source of vitamins, minerals and dietary fiber. However, after harvest the tissue hardens and its quality rapidly deteriorates because spear cell walls become rigidified due to lignification and substantial increases in heteroxylan content. This latter observation prompted us to investigate the in vitro xylan xylosyltransferase (XylT) activity in asparagus. The current model system for studying heteroxylan biosynthesis, Arabidopsis, whilst a powerful genetic system, displays relatively low xylan XylT activity in in vitro microsomal preparations compared with garden asparagus therefore hampering our ability to study the molecular mechanism(s) of heteroxylan assembly. Here, we analyzed physiological and biochemical changes of garden asparagus spears stored at 4 °C after harvest and detected a high level of xylan XylT activity that accounts for this increased heteroxylan. The xylan XylT catalytic activity is at least thirteen-fold higher than that reported for previously published species, including Arabidopsis and grasses. A biochemical assay was optimized and up to seven successive Xyl residues were incorporated to extend the xylotetraose (Xyl4) acceptor backbone. To further elucidate the xylan biosynthesis mechanism, we used RNA-seq to generate an Asparagus reference transcriptome and identified five putative xylan biosynthetic genes (AoIRX9, AoIRX9-L, AoIRX10, AoIRX14_A, AoIRX14_B) with AoIRX9 having an expression profile that is distinct from the other genes. We propose that Asparagus provides an ideal biochemical system to investigate the biochemical aspects of heteroxylan biosynthesis and also offers the additional benefit of being able to study the lignification process during plant stem maturation. PMID:25894575

  6. ABCG26-mediated polyketide trafficking and hydroxycinnamoyl spermidines contribute to pollen wall exine formation in Arabidopsis.

    PubMed

    Quilichini, Teagen D; Samuels, A Lacey; Douglas, Carl J

    2014-11-01

    Pollen grains are encased by a multilayered, multifunctional wall. The sporopollenin and pollen coat constituents of the outer pollen wall (exine) are contributed by surrounding sporophytic tapetal cells. Because the biosynthesis and development of the exine occurs in the innermost cell layers of the anther, direct observations of this process are difficult. The objective of this study was to investigate the transport and assembly of exine components from tapetal cells to microspores in the intact anthers of Arabidopsis thaliana. Intrinsically fluorescent components of developing tapetum and microspores were imaged in intact, live anthers using two-photon microscopy. Mutants of ABCG26, which encodes an ATP binding cassette transporter required for exine formation, accumulated large fluorescent vacuoles in tapetal cells, with corresponding loss of fluorescence on microspores. These vacuolar inclusions were not observed in tapetal cells of double mutants of abcg26 and genes encoding the proposed sporopollenin polyketide biosynthetic metabolon (ACYL COENZYME A SYNTHETASE5, POLYKETIDE SYNTHASE A [PKSA], PKSB, and TETRAKETIDE α-PYRONE REDUCTASE1), providing a genetic link between transport by ABCG26 and polyketide biosynthesis. Genetic analysis also showed that hydroxycinnamoyl spermidines, known components of the pollen coat, were exported from tapeta prior to programmed cell death in the absence of polyketides, raising the possibility that they are incorporated into the exine prior to pollen coat deposition. We propose a model where ABCG26-exported polyketides traffic from tapetal cells to form the sporopollenin backbone, in coordination with the trafficking of additional constituents, prior to tapetum programmed cell death. PMID:25415974

  7. Tetrahedral collapse: a rotational toy model of simultaneous dark-matter halo, filament and wall formation

    NASA Astrophysics Data System (ADS)

    Neyrinck, Mark C.

    2016-07-01

    We discuss an idealized model of halo formation, in which a collapsing halo node is tetrahedral, with a filament extruding from each of its four faces, and with a wall connecting each pair of filaments. In the model, filaments generally spin when they form, and the halo spins if and only if there is some rotation in filaments. This is the simplest possible fully three-dimensional halo collapse in the `origami approximation', in which voids are irrotational, and the dark-matter sheet out of which dark-matter structures form is allowed to fold in position-velocity phase space, but not stretch (i.e. it cannot vary in density along a stream). Up to an overall scaling, the four filament directions, and only three other quantities, such as filament spins, suffice to determine all of the collapse's properties: the shape, mass, and spin of the halo; the densities per unit length and spins of all filaments; and masses per unit area of the walls. If the filaments are arranged regular-tetrahedrally, filament properties obey simple laws, reminiscent of angular-momentum conservation. The model may be most useful in understanding spin correlations between neighbouring galaxies joined by filaments; these correlations would give intrinsic alignments between galaxies, essential to understand for accurate cosmological weak-lensing measurements.

  8. Tetrahedral collapse: a rotational toy model of simultaneous dark-matter halo, filament and wall formation

    NASA Astrophysics Data System (ADS)

    Neyrinck, Mark C.

    2016-04-01

    We discuss an idealized model of halo formation, in which a collapsing halo node is tetrahedral, with a filament extruding from each of its four faces, and with a wall connecting each pair of filaments. In the model, filaments generally spin when they form, and the halo spins if and only if there is some rotation in filaments. This is the simplest-possible fully three-dimensional halo collapse in the `origami approximation,' in which voids are irrotational, and the dark-matter sheet out of which dark-matter structures form is allowed to fold in position-velocity phase space, but not stretch (i.e., it cannot vary in density along a stream). Up to an overall scaling, the four filament directions, and only three other quantities, such as filament spins, suffice to determine all of the collapse's properties: the shape, mass, and spin of the halo; the densities per unit length and spins of all filaments; and masses per unit area of the walls. If the filaments are arranged regular-tetrahedrally, filament properties obey simple laws, reminiscent of angular-momentum conservation. The model may be most useful in understanding spin correlations between neighbouring galaxies joined by filaments; these correlations would give intrinsic alignments between galaxies, essential to understand for accurate cosmological weak-lensing measurements.

  9. Formation and structure of 360 and 540 degree domain walls in thin magnetic stripes

    NASA Astrophysics Data System (ADS)

    Mascaro, Mark; Jang, Youngman; Bowden, S. R.; Unguris, J.; Ross, C. A.

    2012-02-01

    A method is presented for forming a 360^o domain wall (DW) and more complex structures such as a 540^o DW in a wire attached to an injection pad by applying an alternating in-plane field perpendicular to the wire. SEMPA, MFM measurements and OOMMF micromagnetic simulations give a consistent picture of the magnetic structure and stray field distribution of the 360^o DW. Equilibrium 360^o DWs in wires have a well-defined structure and size, persist over a wide field range, and can be distinguished from configurations consisting of two 180^o DWs pinned near each other. The formation and stability of these complex walls has implications in memory and logic devices based on field- or current-induced DW motion, where impingement of adjacent 180^o DWs can produce composite DWs whose behavior and stray field distribution differ significantly from that of a 180^o DW, and these structures could also be used to examine intriguing resonant behavior as predicted by modeling. [Phys. Rev. B 82, 214411; Phys. Rev. B 82, 134411

  10. Formation of secondary aerosols from gasoline vehicle exhaust when mixing with SO2

    NASA Astrophysics Data System (ADS)

    Liu, T.; Wang, X.; Hu, Q.; Deng, W.; Zhang, Y.; Ding, X.; Fu, X.; Bernard, F.; Zhang, Z.; Lü, S.; He, Q.; Bi, X.; Chen, J.; Sun, Y.; Yu, J.; Peng, P.; Sheng, G.; Fu, J.

    2016-01-01

    Sulfur dioxide (SO2) can enhance the formation of secondary aerosols from biogenic volatile organic compounds (VOCs), but its influence on secondary aerosol formation from anthropogenic VOCs, particularly complex mixtures like vehicle exhaust, remains uncertain. Gasoline vehicle exhaust (GVE) and SO2, a typical pollutant from coal burning, are directly co-introduced into a smog chamber, in this study, to investigate the formation of secondary organic aerosols (SOA) and sulfate aerosols through photooxidation. New particle formation was enhanced, while substantial sulfate was formed through the oxidation of SO2 in the presence of high concentration of SO2. Homogenous oxidation by OH radicals contributed a negligible fraction to the conversion of SO2 to sulfate, and instead the oxidation by stabilized Criegee intermediates (sCIs), formed from alkenes in the exhaust reacting with ozone, dominated the conversion of SO2. After 5 h of photochemical aging, GVE's SOA production factor revealed an increase by 60-200 % in the presence of high concentration of SO2. The increase could principally be attributed to acid-catalyzed SOA formation as evidenced by the strong positive linear correlation (R2 = 0.97) between the SOA production factor and in situ particle acidity calculated by the AIM-II model. A high-resolution time-of-flight aerosol mass spectrometer (HR-TOF-AMS) resolved OA's relatively lower oxygen-to-carbon (O : C) (0.44 ± 0.02) and higher hydrogen-to-carbon (H : C) (1.40 ± 0.03) molar ratios for the GVE / SO2 mixture, with a significantly lower estimated average carbon oxidation state (OSc) of -0.51 ± 0.06 than -0.19 ± 0.08 for GVE alone. The relative higher mass loading of OA in the experiments with SO2 might be a significant explanation for the lower SOA oxidation degree.

  11. Formation of secondary aerosols from gasoline vehicle exhausts when mixing with SO2

    NASA Astrophysics Data System (ADS)

    Liu, T.; Wang, X.; Hu, Q.; Deng, W.; Zhang, Y.; Ding, X.; Fu, X.; Bernard, F.; Zhang, Z.; Lü, S.; He, Q.; Bi, X.; Chen, J.; Sun, Y.; Yu, J.; Peng, P.; Sheng, G.; Fu, J.

    2015-09-01

    Sulfur dioxide (SO2) can enhance the formation of secondary aerosols from biogenic volatile organic compounds (VOCs), but its influence on secondary aerosol formation from anthropogenic VOCs, particularly complex mixtures like vehicle exhausts, is still poorly understood. Here we directly co-introduced gasoline vehicles exhausts (GVE) and SO2, a typical pollutant from coal burning, into a smog chamber to investigate the formation of secondary organic aerosols (SOA) and sulfate aerosols through photooxidation. In the presence of high concentration of SO2, new particle formation was enhanced while substantial sulfate was formed through the oxidation of SO2. The homogenous oxidation by OH radicals contributed a negligible fraction to the conversion of SO2 to sulfate, and instead the oxidation by stabilized Criegee intermediates (sCIs), formed from alkenes in the exhaust reacting with ozone, dominated the conversion of SO2. After 5 h of photochemical aging, GVE's SOA production factor revealed an increase by 60-200 % in the presence of high concentration of SO2. This increase could largely be attributed to acid-catalyzed SOA formation, which was evidenced by the strong positive linear correlation (R2 = 0.97) between the SOA production factor and in-situ particle acidity calculated by AIM-II model. A high-resolution time-of-flight aerosol mass spectrometer (HR-TOF-AMS) resolved OA's relatively lower oxygen-to-carbon (O : C) and higher hydrogen-to-carbon (H : C) molar ratios for the GVE/SO2 mixture, with a much lower estimated average carbon oxidation state (OSc) of -0.51 ± 0.06 than that of -0.19 ± 0.08 for GVE alone. The relative higher mass loading of OA in the experiments with SO2 might be the major reason for the lower oxidation degree of SOA.

  12. Characterizing formation of interfacial domain wall and exchange coupling strength in laminated exchange coupled composites

    NASA Astrophysics Data System (ADS)

    Hou, H.-C.; Kirby, B. J.; Gao, K. Z.; Lai, C.-H.

    2013-04-01

    We have studied the N-dependent switching behavior of composite magnets, comprised of a hard CoPtCr-SiO2 (CPCS) film and a laminated soft [Pt/CPCS]N multilayer. First order reversal curve magnetometry provides evidence of interfacial domain wall (iDW) assisted reversal for N ≥ 5. The magnetic depth profiles determined from polarized neutron reflectometry (PNR) explicitly demonstrate that the composite magnets are more rigidly coupled for N = 3 than for N = 7, and suggest that for N = 7 reversal occurs via formation of iDW. By fitting the PNR profile into the energy surface calculations, we can further deduce the vertical coupling strength in the laminated soft layer.

  13. Simulation Chamber Investigations of Secondary Organic Aerosol Formation From Boreal Tree Emissions: Dependence on VOC Classes

    NASA Astrophysics Data System (ADS)

    Kiendler-Scharr, A.; Mentel, T. F.; Kleist, E.; Hohaus, T.; Mensah, A.; Spindler, C.; Tillmann, R.; Uerlings, R.; Dal Maso, M.; Rudich, Y.; Juergen, W.

    2008-12-01

    A considerable fraction of the organic aerosol component is of secondary origin, meaning it is formed through oxidation of volatile organic compounds (VOCs). Plant emissions, e.g. monoterpenes and sesquiterpenes, are a major source of VOCs in the troposphere. So far most laboratory and simulation chamber investigations on the potential to form secondary organic aerosols (SOA) from plant emissions focused on single VOCs such as a-pinene. In this study we investigated the formation and growth of SOA by ozonolysis and/or photo-oxidation of the VOCs emitted by several tree species such as spruce, pine and birch. The experiments were performed in the Plant chamber of the ICG-3 in Jülich under well defined conditions for the plant. VOC emissions were transferred to a reaction chamber which was operated as a continuously stirred tank reactor. SOA formation from the VOCs was initiated by an excess of ozone and OH radicals. The results are compared to a reference study with a-pinene as the only SOA precursor. Our results indicate that the general laboratory approach of studying the formation of SOA from single components can lead to a bias in both the mass yields and the mass spectral signatures observed. Plots of maximum SOA volumes versus the total amount of carbon fed into the reaction chamber led to approximately linear relationships. The intercepts of these plots were seen as threshold for SOA formation. It was observed that this threshold was lower for the mixture of VOCs emitted from spruce, pine, and birch than for a-pinene as single compound. We therefore conclude that the threshold for SOA formation from real plant mixtures may be much lower than the threshold obtained from laboratory experiments that were focussed on single VOCs. SOA formation from stress induced VOCs will be compared to non stress induced emissions. Possible feedbacks of climate change to VOC emissions and aerosol formation will be discussed based on our experimental observations.

  14. Secondary Organic Aerosol formation from isoprene photooxidation during cloud condensation-evaporation cycles

    NASA Astrophysics Data System (ADS)

    Brégonzio-Rozier, L.; Giorio, C.; Siekmann, F.; Pangui, E.; Morales, S. B.; Temime-Roussel, B.; Gratien, A.; Michoud, V.; Cazaunau, M.; DeWitt, H. L.; Tapparo, A.; Monod, A.; Doussin, J.-F.

    2015-07-01

    The impact of cloud events on isoprene secondary organic aerosol (SOA) formation has been studied from an isoprene/NOx/light system in an atmospheric simulation chamber. It was shown that the presence of a liquid water cloud leads to a faster and higher SOA formation than under dry conditions. When a cloud is generated early in the photooxidation reaction, before any SOA formation has occurred, a fast SOA formation is observed with mass yields ranging from 0.002 to 0.004. These yields are two and four times higher than those observed under dry conditions. When the cloud is generated at a later photooxidation stage, after isoprene SOA is stabilized at its maximum mass concentration, a rapid increase (by a factor of two or higher) of the SOA mass concentration is observed. The SOA chemical composition is influenced by cloud generation: the additional SOA formed during cloud events is composed of both organics and nitrate containing species. This SOA formation can be linked to water soluble volatile organic compounds (VOCs) dissolution in the aqueous phase and to further aqueous phase reactions. Cloud-induced SOA formation is experimentally demonstrated in this study, thus highlighting the importance of aqueous multiphase systems in atmospheric SOA formation estimations.

  15. Secondary organic aerosol formation from isoprene photooxidation during cloud condensation-evaporation cycles

    NASA Astrophysics Data System (ADS)

    Brégonzio-Rozier, L.; Giorio, C.; Siekmann, F.; Pangui, E.; Morales, S. B.; Temime-Roussel, B.; Gratien, A.; Michoud, V.; Cazaunau, M.; DeWitt, H. L.; Tapparo, A.; Monod, A.; Doussin, J.-F.

    2016-02-01

    The impact of cloud events on isoprene secondary organic aerosol (SOA) formation has been studied from an isoprene / NOx / light system in an atmospheric simulation chamber. It was shown that the presence of a liquid water cloud leads to a faster and higher SOA formation than under dry conditions. When a cloud is generated early in the photooxidation reaction, before any SOA formation has occurred, a fast SOA formation is observed with mass yields ranging from 0.002 to 0.004. These yields are 2 and 4 times higher than those observed under dry conditions. When the cloud is generated at a later photooxidation stage, after isoprene SOA is stabilized at its maximum mass concentration, a rapid increase (by a factor of 2 or higher) of the SOA mass concentration is observed. The SOA chemical composition is influenced by cloud generation: the additional SOA formed during cloud events is composed of both organics and nitrate containing species. This SOA formation can be linked to the dissolution of water soluble volatile organic compounds (VOCs) in the aqueous phase and to further aqueous phase reactions. Cloud-induced SOA formation is experimentally demonstrated in this study, thus highlighting the importance of aqueous multiphase systems in atmospheric SOA formation estimations.

  16. Instantaneous nitric oxide effect on secondary organic aerosol formation from m-xylene photooxidation

    NASA Astrophysics Data System (ADS)

    Li, Lijie; Tang, Ping; Cocker, David R.

    2015-10-01

    Secondary organic aerosol (SOA) formation from aromatic hydrocarbon photooxidation is highly sensitive to NO concentration. The instantaneous effect of NO on SOA formation from m-xylene photooxidation is investigated in this work by data mining 10 years of aromatic hydrocarbon chamber experiments conducted in the UC Riverside/CE-CERT chamber. First, the effect of sub-ppb NO concentrations on SOA formation is explored. The relationship of SOA growth rate to 1) NO2/NO ratio; 2) instantaneous HC/NO; 3) absolute NO concentration; 4) peroxy radical reaction branching ratio and 5) hydroxyl radical concentration are illustrated. Second, continuous and stepwise NO, NO2 and HONO injection are applied to m-xylene photooxidation experiments to simulate continuous NO sources in an urban area. The influence of these reaction scenarios on radical concentrations and SOA formation is explored. [HO2rad ]/[RO2rad ] shows a strong correlation with SOA yields in addition to [rad OH]/[HO2rad ], [rad OH], [HO2rad ] and [RO2rad ]. Enhanced SOA formation is observed when low NO levels (<1 ppb) are artificially maintained by continuous or step-wise injection; consistent with earlier research, SOA formation is observed to be suppressed by large initial NO injections. It is proposed that NO at sub-ppb level enhances rad OH formation increasing HO2rad and RO2rad and therefore promoting SOA formation. Further, two NO pathways (one promoting and one suppressing SOA formation) and one extremely low NO phase (NO "free") are used to demonstrate the evolution of NO impact on SOA formation during photooxidation. This study implies that SOA yields from aromatic hydrocarbon and low NOx photooxidation is previously underestimated due to differences between traditional environmental chamber experiments and atmospheric reactivity.

  17. Dynamics of protein aggregation and oligomer formation governed by secondary nucleation

    NASA Astrophysics Data System (ADS)

    Michaels, Thomas C. T.; Lazell, Hamish W.; Arosio, Paolo; Knowles, Tuomas P. J.

    2015-08-01

    The formation of aggregates in many protein systems can be significantly accelerated by secondary nucleation, a process where existing assemblies catalyse the nucleation of new species. In particular, secondary nucleation has emerged as a central process controlling the proliferation of many filamentous protein structures, including molecular species related to diseases such as sickle cell anemia and a range of neurodegenerative conditions. Increasing evidence suggests that the physical size of protein filaments plays a key role in determining their potential for deleterious interactions with living cells, with smaller aggregates of misfolded proteins, oligomers, being particularly toxic. It is thus crucial to progress towards an understanding of the factors that control the sizes of protein aggregates. However, the influence of secondary nucleation on the time evolution of aggregate size distributions has been challenging to quantify. This difficulty originates in large part from the fact that secondary nucleation couples the dynamics of species distant in size space. Here, we approach this problem by presenting an analytical treatment of the master equation describing the growth kinetics of linear protein structures proliferating through secondary nucleation and provide closed-form expressions for the temporal evolution of the resulting aggregate size distribution. We show how the availability of analytical solutions for the full filament distribution allows us to identify the key physical parameters that control the sizes of growing protein filaments. Furthermore, we use these results to probe the dynamics of the populations of small oligomeric species as they are formed through secondary nucleation and discuss the implications of our work for understanding the factors that promote or curtail the production of these species with a potentially high deleterious biological activity.

  18. Dynamics of protein aggregation and oligomer formation governed by secondary nucleation

    SciTech Connect

    Michaels, Thomas C. T. Lazell, Hamish W.; Arosio, Paolo; Knowles, Tuomas P. J.

    2015-08-07

    The formation of aggregates in many protein systems can be significantly accelerated by secondary nucleation, a process where existing assemblies catalyse the nucleation of new species. In particular, secondary nucleation has emerged as a central process controlling the proliferation of many filamentous protein structures, including molecular species related to diseases such as sickle cell anemia and a range of neurodegenerative conditions. Increasing evidence suggests that the physical size of protein filaments plays a key role in determining their potential for deleterious interactions with living cells, with smaller aggregates of misfolded proteins, oligomers, being particularly toxic. It is thus crucial to progress towards an understanding of the factors that control the sizes of protein aggregates. However, the influence of secondary nucleation on the time evolution of aggregate size distributions has been challenging to quantify. This difficulty originates in large part from the fact that secondary nucleation couples the dynamics of species distant in size space. Here, we approach this problem by presenting an analytical treatment of the master equation describing the growth kinetics of linear protein structures proliferating through secondary nucleation and provide closed-form expressions for the temporal evolution of the resulting aggregate size distribution. We show how the availability of analytical solutions for the full filament distribution allows us to identify the key physical parameters that control the sizes of growing protein filaments. Furthermore, we use these results to probe the dynamics of the populations of small oligomeric species as they are formed through secondary nucleation and discuss the implications of our work for understanding the factors that promote or curtail the production of these species with a potentially high deleterious biological activity.

  19. Cellulose synthase catalytic subunit (CesA) genes associated with primary or secondary wall biosynthesis in developing cotton fibers (Gossypium hirsutum)

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Cotton fibers are unicellular seed trichomes and consist of almost pure cellulose. During the transition from elongation growth to secondary wall thickening, the rate of cellulose biosynthesis in fibers rises nearly 100-fold. Although the first two cellulose synthase catalytic subunits (CesAs) wer...

  20. Mechanisms for Secondary Eyewall Formation in Tropical Cyclones: A Case Study of Hurricane Katrina (2005)

    NASA Astrophysics Data System (ADS)

    Garcia-Rivera, J. M.; Lin, Y.

    2013-05-01

    The Weather Research and Forecast (WRF) model is used to simulate the last eyewall replacement cycle (ERC) of Hurricane Katrina (2005) just before it's landfall in the Louisiana coastline. In this study, we pursue a complete understanding of the physics behind the secondary eyewall formation (SEF) in tropical cyclones. The simulation results show the occurrence of the early stages of an ERC in the simulated storm just before landfall. This confirms that with the appropriate set of physics parameterization schemes, grid spacing and initial conditions, the numerical model is able to reproduce ERCs on certain tropical cyclones with no data assimilation or extra data inputs. Strong updrafts are observed to converge in a ring outside the primary eyewall of Hurricane Katrina (2005) suggesting SEF during that period. The increase of divergence outside the primary eyewall with an outer-ring of convergence forming above the boundary layer can be part of the mechanisms that lead to SEF. Also, potential vorticity (PV) field is analyzed for its possible relationship with the development of the secondary eyewall. This detailed study of the pre-ERC events in the inner-core of Hurricane Katrina can build the foundations for testing some of the existing hypotheses for the development of secondary eyewalls leading to new ideas behind their formation.

  1. Formation flavonoid secondary metabolites in callus culture of Chrysanthemum cinerariefolium as alternative provision medicine

    NASA Astrophysics Data System (ADS)

    Purwianingsih, Widi; Febri, Santika; Kusdianti

    2016-02-01

    Increasing need of medicine ingredients require the discovery of other methods that can be used as an alternative. One method that can be used as an alternative is tissue culture. Quercetin is a flavonoid secondary metabolites that have been known to be useful as antiviral, anti-asthma and anti-cancer potential. The purpose of this study was to produce flavonoids, especially quercetin in callus culture Chrysanthemum cinerariefolium. Pieces of leaves of plantlets C. cinerariefolium used as explants for formation of callus tissue. To grow the callus, Murashige and Skoog (MS) medium used with addition of various concentrations of growth regulators 2.4-D, and kinetin. For multiplication, callus subcultured on similar medium. Callus that had formed, especially brown callus, further analyzed using Gas Chromatography Mass Spectrum (GCMS). Before analyzed callus was extracted in 95% ethanol. The result showed that callus potentially generate secondary metabolite are brown and friable. Based on these parameters, the best callus produced from leaf explants grown on MS medium with the addition of 4 mg / L 2,4-D and 0 mg / L kinetin. The callus contain secondary metabolites such as some of the flavonoid quercetin precursors such as acetic acid and tetrahydroxychalcone, and some other secondary metabolites.

  2. Secondary Organic Aerosol Formation from m-Xylene in the Absence of NOx

    SciTech Connect

    Song, Chen; Na, Kwangsam; Warren, Bethany; Malloy, Quentin; Cocker, David R.

    2007-11-01

    Formation of secondary organic aerosol (SOA) from m-xylene photoxidation in the absence of NOx was investigated in a series of smog chamber experiments. Experiments were performed in dry air and in the absence of seed aerosol with H2O2 photolysis providing a stable hydroxyl radical (OH radical) source. SOA formation from this study is exceptionally higher than experiments with existence of NOx. The experiments with elevated HO2 levels indicate that organic hydroperoxide compounds should contribute to SOA formation. Nitrogen oxide (NO) is shown to reduce aerosol formation; the constant aerosol formation rate obtained before addition of NO and after consumption of NO strongly suggests that aerosol formation is mainly through reactions with OH and HO2 radicals. In addition, a density of 1.40 ± 0.1 g cm-3 for the SOA from the photooxidation of m-xylene in the absence of NOx has been measured, which is significantly higher than the currently used unit density.

  3. Secondary aerosol formation from stress-induced biogenic emissions and possible climate feedbacks

    NASA Astrophysics Data System (ADS)

    Mentel, Th. F.; Kleist, E.; Andres, S.; Maso, M. D.; Hohaus, T.; Kiendler-Scharr, A.; Rudich, Y.; Springer, M.; Tillmann, R.; Uerlings, R.; Wahner, A.; Wildt, J.

    2013-03-01

    Atmospheric aerosols impact climate by scattering and absorbing solar radiation and by acting as ice and cloud condensation nuclei. Secondary organic aerosols (SOA) comprise an important component of atmospheric aerosols. Biogenic volatile organic compounds (BVOC) emitted by vegetation are a major source of SOA. Pathogens and insect attacks, heat waves and droughts can induce stress to plants that may impact their BVOC emissions, and hence the yield and type of formed SOA, and possibly their climatic effects. This raises questions whether stress-induced changes in SOA formation may attenuate or amplify effects of climate change. In this study we assess the potential impact of stress-induced BVOC emissions on SOA formation for tree species typical for mixed deciduous and Boreal Eurasian forests. We studied the photochemical SOA formation for infested plants in a laboratory setup under well-controlled conditions and applied in addition heat and drought stress. The results indicate that stress conditions substantially modify SOA formation. While sesquiterpenes, methyl salicylate, and C17-BVOC increase SOA yield, green leaf volatiles suppress SOA formation. By classifying emission types, stressors and SOA formation potential, we propose possible climatic feedbacks regarding aerosol effects. We conclude that stress situations for plants due to climate change should be considered in climate-vegetation feedback mechanisms.

  4. Effect of NOx level on secondary organic aerosol (SOA) formation from the photooxidation of terpenes

    NASA Astrophysics Data System (ADS)

    Ng, N. L.; Chhabra, P. S.; Chan, A. W. H.; Surratt, J. D.; Kroll, J. H.; Kwan, A. J.; McCabe, D. C.; Wennberg, P. O.; Sorooshian, A.; Murphy, S. M.; Dalleska, N. F.; Flagan, R. C.; Seinfeld, J. H.

    2007-10-01

    Secondary organic aerosol (SOA) formation from the photooxidation of one monoterpene (α-pinene) and two sesquiterpenes (longifolene and aromadendrene) is investigated in the Caltech environmental chambers. The effect of NOx on SOA formation for these biogenic hydrocarbons is evaluated by performing photooxidation experiments under varying NOx conditions. The NOx dependence of α-pinene SOA formation follows the same trend as that observed previously for a number of SOA precursors, including isoprene, in which SOA yield (defined as the ratio of the mass of organic aerosol formed to the mass of parent hydrocarbon reacted) decreases as NOx level increases. The NOx dependence of SOA yield for the sesquiterpenes, longifolene and aromadendrene, however, differs from that determined for isoprene and α-pinene; the aerosol yield under high-NOx conditions substantially exceeds that under low-NOx conditions. The reversal of the NOx dependence of SOA formation for the sesquiterpenes is consistent with formation of relatively low-volatility organic nitrates, and/or the isomerization of large alkoxy radicals leading to less volatile products. Analysis of the aerosol chemical composition for longifolene confirms the presence of organic nitrates under high-NOx conditions. Consequently the formation of SOA from certain biogenic hydrocarbons such as sesquiterpenes (and possibly large anthropogenic hydrocarbons as well) may be more efficient in polluted air.

  5. Secondary aerosol formation from stress-induced biogenic emissions and possible climate feedbacks

    NASA Astrophysics Data System (ADS)

    Mentel, Th. F.; Kleist, E.; Andres, S.; Dal Maso, M.; Hohaus, T.; Kiendler-Scharr, A.; Rudich, Y.; Springer, M.; Tillmann, R.; Uerlings, R.; Wahner, A.; Wildt, J.

    2013-09-01

    Atmospheric aerosols impact climate by scattering and absorbing solar radiation and by acting as ice and cloud condensation nuclei. Biogenic secondary organic aerosols (BSOAs) comprise an important component of atmospheric aerosols. Biogenic volatile organic compounds (BVOCs) emitted by vegetation are the source of BSOAs. Pathogens and insect attacks, heat waves and droughts can induce stress to plants that may impact their BVOC emissions, and hence the yield and type of formed BSOAs, and possibly their climatic effects. This raises questions of whether stress-induced changes in BSOA formation may attenuate or amplify effects of climate change. In this study we assess the potential impact of stress-induced BVOC emissions on BSOA formation for tree species typical for mixed deciduous and Boreal Eurasian forests. We studied the photochemical BSOA formation for plants infested by aphids in a laboratory setup under well-controlled conditions and applied in addition heat and drought stress. The results indicate that stress conditions substantially modify BSOA formation and yield. Stress-induced emissions of sesquiterpenes, methyl salicylate, and C17-BVOCs increase BSOA yields. Mixtures including these compounds exhibit BSOA yields between 17 and 33%, significantly higher than mixtures containing mainly monoterpenes (4-6% yield). Green leaf volatiles suppress SOA formation, presumably by scavenging OH, similar to isoprene. By classifying emission types, stressors and BSOA formation potential, we discuss possible climatic feedbacks regarding aerosol effects. We conclude that stress situations for plants due to climate change should be considered in climate-vegetation feedback mechanisms.

  6. The formation mechanism of 360° domain walls in exchange-biased polycrystalline ferromagnetic films

    NASA Astrophysics Data System (ADS)

    Dean, J.; Kohn, A.; Kovács, A.; Zeltser, A.; Carey, M. J.; Hrkac, G.; Allwood, D. A.; Schrefl, T.

    2011-10-01

    The formation mechanism of 360° domain walls (360DW) created in an exchange-biased bilayer of Co65.5Fe14.5B20/Ir22Mn78 is described. The structural and magnetic properties are experimentally characterized and incorporated into a micromagnetic model of exchange-bias for granular anti-ferromagnetic films. This model is used to study and explain the formation mechanism of 360DWs in the ferromagnetic layer, which occur due to interface coupling to the antiferromagnetic layer. The validity of the resulting calculated magnetization maps are examined by comparing simulated and experimental Fresnel-contrast images of the bilayer. Energy barrier simulations are used to explain the dependence of the areal size and spatial frequency of the 360DW on the anisotropy energy of the anti-ferromagnetic layer. These calculations also show how such structures can form at room temperature at relatively low applied magnetic fields. Calculations based on this model are in agreement with imaging using Lorentz transmission electron microscopy and the measured macro-magnetic properties.

  7. Evidence that the N-terminal part of the S-layer protein from Bacillus stearothermophilus PV72/p2 recognizes a secondary cell wall polymer.

    PubMed

    Ries, W; Hotzy, C; Schocher, I; Sleytr, U B; Sára, M

    1997-06-01

    The S-layer of Bacillus stearothermophilus PV72/p2 shows oblique lattice symmetry and is composed of identical protein subunits with a molecular weight of 97,000. The isolated S-layer subunits could bind and recrystallize into the oblique lattice on native peptidoglycan-containing sacculi which consist of peptidoglycan of the A1gamma chemotype and a secondary cell wall polymer with an estimated molecular weight of 24,000. The secondary cell wall polymer could be completely extracted from peptidoglycan-containing sacculi with 48% HF, indicating the presence of phosphodiester linkages between the polymer chains and the peptidoglycan backbone. The cell wall polymer was composed mainly of GlcNAc and ManNAc in a molar ratio of 4:1, constituted about 20% of the peptidoglycan-containing sacculus dry weight, and was also detected in the fraction of the S-layer self-assembly products. Extraction experiments and recrystallization of the whole S-layer protein and proteolytic cleavage fragments confirmed that the secondary cell wall polymer is responsible for anchoring the S-layer subunits by the N-terminal part to the peptidoglycan-containing sacculi. In addition to this binding function, the cell wall polymer was found to influence the in vitro self-assembly of the guanidinium hydrochloride-extracted S-layer protein. Chemical modification studies further showed that the secondary cell wall polymer does not contribute significant free amino or carboxylate groups to the peptidoglycan-containing sacculi. PMID:9190804

  8. Investigation of secondary formation of formic acid: urban environment vs. oil and gas producing region

    NASA Astrophysics Data System (ADS)

    Yuan, B.; Veres, P. R.; Warneke, C.; Roberts, J. M.; Gilman, J. B.; Koss, A.; Edwards, P. M.; Graus, M.; Kuster, W. C.; Li, S.-M.; Wild, R. J.; Brown, S. S.; Dubé, W. P.; Lerner, B. M.; Williams, E. J.; Johnson, J. E.; Quinn, P. K.; Bates, T. S.; Lefer, B.; Hayes, P. L.; Jimenez, J. L.; Weber, R. J.; Zamora, R.; Ervens, B.; Millet, D. B.; Rappenglück, B.; de Gouw, J. A.

    2015-02-01

    Formic acid (HCOOH) is one of the most abundant carboxylic acids in the atmosphere. However, current photochemical models cannot fully explain observed concentrations and in particular secondary formation of formic acid across various environments. In this work, formic acid measurements made at an urban receptor site (Pasadena) in June-July 2010 during CalNex (California Research at the Nexus of Air Quality and Climate Change) and a site in an oil and gas producing region (Uintah Basin) in January-February 2013 during UBWOS 2013 (Uintah Basin Winter Ozone Studies) will be discussed. Although the VOC (volatile organic compounds) compositions differed dramatically at the two sites, measured formic acid concentrations were comparable: 2.3 ± 1.3 in UBWOS 2013 and 2.0 ± 1.0 ppb in CalNex. We determine that concentrations of formic acid at both sites were dominated by secondary formation (> 99%). A constrained box model using the Master Chemical Mechanism (MCM v3.2) underestimates the measured formic acid concentrations drastically at both sites (by a factor of > 10). Compared to the original MCM model that includes only ozonolysis of unsaturated organic compounds and OH oxidation of acetylene, when we updated yields of ozonolysis of alkenes and included OH oxidation of isoprene, vinyl alcohol chemistry, reaction of formaldehyde with HO2, oxidation of aromatics, and reaction of CH3O2 with OH, the model predictions for formic acid were improved by a factor of 6.4 in UBWOS 2013 and 4.5 in CalNex, respectively. A comparison of measured and modeled HCOOH/acetone ratios is used to evaluate the model performance for formic acid. We conclude that the modified chemical mechanism can explain 19 and 45% of secondary formation of formic acid in UBWOS 2013 and CalNex, respectively. The contributions from aqueous reactions in aerosol and heterogeneous reactions on aerosol surface to formic acid are estimated to be 0-6 and 0-5% in UBWOS 2013 and CalNex, respectively. We observe that

  9. Mechanism underlying Kármán vortex street breakdown preceding secondary vortex street formation

    NASA Astrophysics Data System (ADS)

    Dynnikova, G. Ya.; Dynnikov, Ya. A.; Guvernyuk, S. V.

    2016-05-01

    The Kármán street that develops behind a bluff body transforms in the far wake into a secondary vortex street of lower frequency and stronger vortices. Before this transformation, the primary street decays. This interesting phenomenon was investigated in a number of experimental and theoretical studies. Much of that work is devoted to studying the reasons for the formation of the secondary street and its frequency characteristics. Reasons for the decay of the primary street are not well understood. In this work, the mechanism underlying the breaking of the primary vortex street is studied. A qualitative explanation of this process is presented wherein a region of heightened density of the dipole moment forms. This region moves relative to the Kármán vortices so that its distance from the body remains constant. In this region, the Kármán vortex street collapses.

  10. Formation of secondary organic aerosol in the Paris pollution plume and its impact on surrounding regions

    NASA Astrophysics Data System (ADS)

    Zhang, Q. J.; Beekmann, M.; Freney, E.; Sellegri, K.; Pichon, J. M.; Schwarzenboeck, A.; Colomb, A.; Bourrianne, T.; Michoud, V.; Borbon, A.

    2015-03-01

    Secondary pollutants such as ozone, secondary inorganic aerosol, and secondary organic aerosol formed in the plume of megacities can affect regional air quality. In the framework of the FP7/EU MEGAPOLI project, an intensive campaign was launched in the Greater Paris Region in July 2009. The major objective was to quantify different sources of organic aerosol (OA) within a megacity and in its plume. In this study, we use airborne measurements aboard the French ATR-42 aircraft to evaluate the regional chemistry-transport model CHIMERE within and downwind the Paris region. Slopes of the plume OA levels vs. Ox (= O3 + NO2) show secondary OA (SOA) formation normalized with respect to photochemical activity and are used for specific evaluation of the OA scheme in the model. Simulated and observed slopes are in good agreement, when the most realistic "high-NOx" yields are used in the Volatility-Basis-Set scheme implemented into the model. In addition, these slopes are relatively stable from one day to another, which suggest that they are characteristic for the given megacity plume environment. Since OA within the plume is mainly formed from anthropogenic precursors (VOC and primary OA, POA), this work allows a specific evaluation of anthropogenic SOA and SOA formed from primary semi-volatile and intermediate volatile VOCs (SI-SOA) formation scheme in a model. For specific plumes, this anthropogenic OA build-up can reach about 10 μg m-3. For the average of the month of July 2009, maximum increases occur close to the agglomeration for primary OA are noticed at several tens (for POA) to hundred (for SI-SOA) kilometers of distance from the Paris agglomeration.

  11. Contribution of secondary condensable organics to new particle formation: A case study in Houston, Texas

    NASA Astrophysics Data System (ADS)

    Fan, Jiwen; Zhang, Renyi; Collins, Don; Li, Guohui

    2006-08-01

    We report aerosol simulations using the EPA's Models-3 Community Multiscale Air Quality model (CMAQ) and ground-based and aircraft aerosol measurements to investigate new particle formation in Houston, Texas. The aerosol measurements reveal elevated ultrafine particles that reach the highest value in the afternoon, indicating prominent new particle formation. Simulations of the binary H2SO4-H2O nucleation predict an order of magnitude lower concentrations for aerosols near 10 nm than the measurements. A parameterized nucleation scheme that accounts for the enhanced nucleation effect of secondary condensable organics is incorporated into the Models-3/CMAQ. The organic nucleation scheme predicts the number concentrations in agreement with the measurements during the daytime. The diurnal variation is well reproduced in the simulations including the organic nucleation scheme. Comparison with the aircraft measurements also shows that the organic nucleation scheme produces good predictions of the altitude-dependent number size distributions of the ultrafine particles. The results corroborate the importance of secondary condensable organics in new particle formation when sulfate and organics are abundant.

  12. Formation mechanism of the secondary building unit in a chromium terephthalate metal-organic framework

    SciTech Connect

    Cantu Cantu, David; McGrail, B. Peter; Glezakou, Vassiliki Alexandra

    2014-09-18

    Based on density functional theory calculations and simulation, a detailed mechanism is presented on the formation of the secondary building unit (SBU) of MIL-101, a chromium terephthalate metal-organic framework (MOF). SBU formation is key to MOF nucleation, the rate-limiting step in the formation process of many MOFs. A series of reactions that lead to the formation of the SBU of MIL-101 is proposed in this work. Initial rate-limiting reactions form the metal cluster with three chromium (III) atoms linked to a central bridging oxygen. Terephthalate linkers play a key role as chromium (III) atoms are joined to linker carboxylate groups prior to the placement of the central bridging oxygen. Multiple linker addition reactions, which follow in different paths due to structural isomers, are limited by the removal of water molecules in the first chromium coordination shell. The least energy path is identified were all linkers on one face of the metal center plane are added first. A simple kinetic model based on transition state theory shows the rate of secondary building unit formation similar to the rate metal-organic framework nucleation. The authors are thankful to Dr. R. Rousseau for a critical reading of the manuscript. This research would not have been possible without the support of the Office of Fossil Energy, U.S. Department of Energy. This research was performed using EMSL, a national scientific user facility sponsored by the Department of Energy's Office of Biological and Environmental Research and the PNNL Institutional Computing (PIC) program located at Pacific Northwest National Laboratory.

  13. Secondary organic aerosol formation from biomass burning intermediates: phenol and methoxyphenols

    NASA Astrophysics Data System (ADS)

    Yee, L. D.; Kautzman, K. E.; Loza, C. L.; Schilling, K. A.; Coggon, M. M.; Chhabra, P. S.; Chan, M. N.; Chan, A. W. H.; Hersey, S. P.; Crounse, J. D.; Wennberg, P. O.; Flagan, R. C.; Seinfeld, J. H.

    2013-02-01

    The formation of secondary organic aerosol from oxidation of phenol, guaiacol (2-methoxyphenol), and syringol (2,6-dimethoxyphenol), major components of biomass burning, is described. Photooxidation experiments were conducted in the Caltech laboratory chambers under low-NOx (<10 ppb) conditions using H2O2 as the OH source. Secondary organic aerosol (SOA) yields (ratio of mass of SOA formed to mass of primary organic reacted) greater than 25% are observed. Aerosol growth is rapid and linear with the primary organic conversion, consistent with the formation of essentially non-volatile products. Gas- and aerosol-phase oxidation products from the guaiacol system provide insight into the chemical mechanisms responsible for SOA formation. Syringol SOA yields are lower than those of phenol and guaiacol, likely due to novel methoxy group chemistry that leads to early fragmentation in the gas-phase photooxidation. Atomic oxygen to carbon (O:C) ratios calculated from high-resolution-time-of-flight Aerodyne Aerosol Mass Spectrometer (HR-ToF-AMS) measurements of the SOA in all three systems are ~0.9, which represent among the highest such ratios achieved in laboratory chamber experiments and are similar to that of aged atmospheric organic aerosol. The global contribution of SOA from intermediate volatility and semivolatile organic compounds has been shown to be substantial (Pye and Seinfeld, 2010). An approach to representing SOA formation from biomass burning emissions in atmospheric models could involve one or more surrogate species for which aerosol formation under well-controlled conditions has been quantified. The present work provides data for such an approach.

  14. Secondary organic aerosol formation from biomass burning intermediates: phenol and methoxyphenols

    NASA Astrophysics Data System (ADS)

    Yee, L. D.; Kautzman, K. E.; Loza, C. L.; Schilling, K. A.; Coggon, M. M.; Chhabra, P. S.; Chan, M. N.; Chan, A. W. H.; Hersey, S. P.; Crounse, J. D.; Wennberg, P. O.; Flagan, R. C.; Seinfeld, J. H.

    2013-08-01

    The formation of secondary organic aerosol from oxidation of phenol, guaiacol (2-methoxyphenol), and syringol (2,6-dimethoxyphenol), major components of biomass burning, is described. Photooxidation experiments were conducted in the Caltech laboratory chambers under low-NOx (< 10 ppb) conditions using H2O2 as the OH source. Secondary organic aerosol (SOA) yields (ratio of mass of SOA formed to mass of primary organic reacted) greater than 25% are observed. Aerosol growth is rapid and linear with the primary organic conversion, consistent with the formation of essentially non-volatile products. Gas- and aerosol-phase oxidation products from the guaiacol system provide insight into the chemical mechanisms responsible for SOA formation. Syringol SOA yields are lower than those of phenol and guaiacol, likely due to novel methoxy group chemistry that leads to early fragmentation in the gas-phase photooxidation. Atomic oxygen to carbon (O : C) ratios calculated from high-resolution-time-of-flight Aerodyne Aerosol Mass Spectrometer (HR-ToF-AMS) measurements of the SOA in all three systems are ~ 0.9, which represent among the highest such ratios achieved in laboratory chamber experiments and are similar to that of aged atmospheric organic aerosol. The global contribution of SOA from intermediate volatility and semivolatile organic compounds has been shown to be substantial (Pye and Seinfeld, 2010). An approach to representing SOA formation from biomass burning emissions in atmospheric models could involve one or more surrogate species for which aerosol formation under well-controlled conditions has been quantified. The present work provides data for such an approach.

  15. Lithologic Control on Secondary Clay Mineral Formation in the Valles Caldera, New Mexico

    NASA Astrophysics Data System (ADS)

    Caylor, E.; Rasmussen, C.; Dhakal, P.

    2015-12-01

    Understanding the transformation of rock to soil is central to landscape evolution and ecosystem function. The objective of this study was to examine controls on secondary mineral formation in a forested catchment in the Catalina-Jemez CZO. We hypothesized landscape position controls the type of secondary minerals formed in that well-drained hillslopes favor Si-poor secondary phases such as kaolinite, whereas poorly drained portions of the landscape that collect solutes from surrounding areas favor formation of Si-rich secondary phases such as smectite. The study focused on a catchment in Valles Caldera in northern New Mexico where soils are derived from a mix of rhyolitic volcanic material, vegetation includes a mixed conifer forest, and climate is characterized by a mean annual precipitation of ~800 mm yr-1 and mean annual temperature of 4.5°C. Soils were collected at the soil-saprolite boundary from three landscape positions, classified as well drained hillslope, poorly drained convergent area, and poorly drained hill slope. Clay fractions were isolated and analyzed using a combination of quantitative and qualitative x-ray diffraction (XRD) analyses and thermal analysis. Quantitative XRD of random powder mounts indicated the presence of both primary phases such as quartz, and alkali and plagioclase feldspars, and secondary phases that include illite, Fe-oxyhydroxides including both goethite and hematite, kaolinite, and smectite. The clay fractions were dominated by smectite ranging from 36-42%, illite ranging from 21-35%, and kaolinite ranging from 1-8%. Qualitative XRD of oriented mounts confirmed the presence of smectite in all samples, with varying degrees of interlayering and interstratification. In contrast to our hypothesis, results indicated that secondary mineral assemblage was not strongly controlled by landscape position, but rather varied with underlying variation in lithology. The catchment is underlain by a combination of porphorytic rhyolite and

  16. Induction of secondary axis in hydra revisited: New insights into pattern formation

    PubMed Central

    Kadu, Vishal; S. Ghaskadbi, Saroj; Ghaskadbi, Surendra

    2012-01-01

    In 1909, several years before the famous `Organizer’ experiments of Spemann and Mangold, Ethel Browne demonstrated induction of a secondary axis in hydra by grafting a hypostome. Based on this and subsequent work, in the late sixties, Lewis Wolpert proposed the theory of morphogen gradients and positional information. We have studied secondary axis induction by hypostome and foot tissue using three species of hydra as well as transgenic, GFP-expressing lines of hydra. We have found that pieces of hypostome and complete foot of a donor hydra can induce a secondary axis all along (in upper, middle or lower parts of) the body column of a host hydra, both within and across species with comparable rates. Thus, contrary to the available literature, our results show that the host hypostome does not completely inhibit the induction of a secondary axis. The length of the induced axis though is determined by the position of the graft. By using GFP-expressing lines of hydra we have demonstrated that host ectodermal and endodermal cells actively contribute to the secondary axis. On comparison, the hypostome was found to be a stronger and dominant Organizer than the foot. Foot grafting experiments show a transient increase in the host length as well as the distance between the two Organizers. The length becomes normal once the grafted foot reaches the budding zone. Our work brings out several new aspects of the role of positional cues in pattern formation in hydra that can be now be explored at cellular and molecular levels. PMID:24551754

  17. Formation and structure of 360 and 540 degree domain walls in thin magnetic stripes

    NASA Astrophysics Data System (ADS)

    Jang, Youngman; Bowden, S. R.; Mascaro, Mark; Unguris, J.; Ross, C. A.

    2012-02-01

    360°, 540°, and other complex transverse domain walls have been created in narrow cobalt wires connected to injection pads by cycling a magnetic field perpendicular to the wire length. The composite walls, formed by impingement of 180° transverse walls of alternating chirality, are stable over a wide field range. The structure of the walls observed at remanence by scanning electron microscopy with polarization analysis and by magnetic force microscopy is in good quantitative agreement with the prediction of micromagnetic simulations.

  18. Seed Regeneration Potential of Canopy Gaps at Early Formation Stage in Temperate Secondary Forests, Northeast China

    PubMed Central

    Yan, Qiao-Ling; Zhu, Jiao-Jun; Yu, Li-Zhong

    2012-01-01

    Promoting the seed regeneration potential of secondary forests undergoing gap disturbances is an important approach for achieving forest restoration and sustainable management. Seedling recruitment from seed banks strongly determines the seed regeneration potential, but the process is poorly understood in the gaps of secondary forests. The objectives of the present study were to evaluate the effects of gap size, seed availability, and environmental conditions on the seed regeneration potential in temperate secondary forests. It was found that gap formation could favor the invasion of more varieties of species in seed banks, but it also could speed up the turnover rate of seed banks leading to lower seed densities. Seeds of the dominant species, Fraxinus rhynchophylla, were transient in soil and there was a minor and discontinuous contribution of the seed bank to its seedling emergence. For Quercus mongolica, emerging seedling number was positively correlated with seed density in gaps (R = 0.32, P<0.01), especially in medium and small gaps (<500 m2). Furthermore, under canopies, there was a positive correlation between seedling number and seed density of Acer mono (R = 0.43, P<0.01). Gap formation could promote seedling emergence of two gap-dependent species (i.e., Q. mongolica and A. mono), but the contribution of seed banks to seedlings was below 10% after gap creation. Soil moisture and temperature were the restrictive factors controlling the seedling emergence from seeds in gaps and under canopies, respectively. Thus, the regeneration potential from seed banks is limited after gap formation. PMID:22745771

  19. The pattern of secondary root formation in curving roots of Arabidopsis thaliana (L.) Heynh

    NASA Technical Reports Server (NTRS)

    Fortin, M. C.; Pierce, F. J.; Poff, K. L.

    1989-01-01

    A gravitational stimulus was used to induce the curvature of the main root of Arabidopsis thaliana. The number of secondary roots increased on the convex side and decreased on the concave side of any curved main root axes in comparison with straight roots used as the control. The same phenomenon was observed with the curved main roots of plants grown on a clinostat and of mutant plants exhibiting random root orientation. The data suggest that the pattern of lateral root formation is associated with curvature but is independent of the environmental stimuli used to induce curvature.

  20. Secondary organic aerosol formation from ozone-initiated reactions with nicotine and secondhand tobacco smoke

    NASA Astrophysics Data System (ADS)

    Sleiman, Mohamad; Destaillats, Hugo; Smith, Jared D.; Liu, Chen-Lin; Ahmed, Musahid; Wilson, Kevin R.; Gundel, Lara A.

    2010-11-01

    We used controlled laboratory experiments to evaluate the aerosol-forming potential of ozone reactions with nicotine and secondhand smoke. Special attention was devoted to real-time monitoring of the particle size distribution and chemical composition of SOA as they are believed to be key factors determining the toxicity of SOA. The experimental approach was based on using a vacuum ultraviolet photon ionization time-of-flight aerosol mass spectrometer (VUV-AMS), a scanning mobility particle sizer (SMPS) and off-line thermal desorption coupled to mass spectrometry (TD-GC-MS) for gas-phase byproducts analysis. Results showed that exposure of SHS to ozone induced the formation of ultrafine particles (<100 nm) that contained high molecular weight nitrogenated species ( m/ z 400-500), which can be due to accretion/acid-base reactions and formation of oligomers. In addition, nicotine was found to contribute significantly (with yields 4-9%) to the formation of secondary organic aerosol through reaction with ozone. The main constituents of the resulting SOA were tentatively identified and a reaction mechanism was proposed to elucidate their formation. These findings identify a new component of thirdhand smoke that is associated with the formation of ultrafine particles (UFP) through oxidative aging of secondhand smoke. The significance of this chemistry for indoor exposure and health effects is highlighted.

  1. Modelling non-equilibrium secondary organic aerosol formation and evaporation with the aerosol dynamics, gas- and particle-phase chemistry kinetic multilayer model ADCHAM

    SciTech Connect

    Roldin, P.; Eriksson, A. C.; Nordin, E. Z.; Hermansson, E.; Mogensen, Ditte; Rusanen, A.; Boy, Michael; Swietlicki, E.; Svenningsson, Birgitta; Zelenyuk, Alla; Pagels, J.

    2014-08-11

    We have developed the novel Aerosol Dynamics, gas- and particle- phase chemistry model for laboratory CHAMber studies (ADCHAM). The model combines the detailed gas phase Master Chemical Mechanism version 3.2, an aerosol dynamics and particle phase chemistry module (which considers acid catalysed oligomerization, heterogeneous oxidation reactions in the particle phase and non-ideal interactions between organic compounds, water and inorganic ions) and a kinetic multilayer module for diffusion limited transport of compounds between the gas phase, particle surface and particle bulk phase. In this article we describe and use ADCHAM to study: 1) the mass transfer limited uptake of ammonia (NH3) and formation of organic salts between ammonium (NH4+) and carboxylic acids (RCOOH), 2) the slow and almost particle size independent evaporation of α-pinene secondary organic aerosol (SOA) particles, and 3) the influence of chamber wall effects on the observed SOA formation in smog chambers.

  2. Urban stress-induced biogenic VOC emissions impact secondary aerosol formation in Beijing

    NASA Astrophysics Data System (ADS)

    Ghirardo, A.; Xie, J.; Zheng, X.; Wang, Y.; Grote, R.; Block, K.; Wildt, J.; Mentel, T.; Kiendler-Scharr, A.; Hallquist, M.; Butterbach-Bahl, K.; Schnitzler, J.-P.

    2015-08-01

    Trees can significantly impact the urban air chemistry by the uptake and emission of reactive biogenic volatile organic compounds (BVOCs), which are involved in ozone and particle formation. Here we present the emission potentials of "constitutive" (cBVOCs) and "stress-induced" BVOCs (sBVOCs) from the dominant broadleaf woody plant species in the megacity of Beijing. Based on an inventory of BVOC emissions and the tree census, we assessed the potential impact of BVOCs on secondary particulate matter formation in 2005 and 2010, i.e., before and after realizing the large tree-planting program for the 2008 Olympic Games. We found that sBVOCs, such as fatty acid derivatives, benzenoids and sesquiterpenes, constituted a significant fraction (∼ 15 %) of the total annual BVOC emissions, and we estimated that the overall annual BVOC budget may have doubled from ∼ 3.6 × 109 g C year-1 in 2005 to ∼ 7.1 × 109 g C year-1 in 2010 due to the increase in urban greens, while at the same time, the emission of anthropogenic VOCs (AVOCs) could be lowered by 24 %. Based on our BVOC emission assessment, we estimated the biological impact on SOA mass formation in Beijing. Compared to AVOCs, the contribution of biogenic precursors (2-5 %) for secondary particulate matter in Beijing was low. However, sBVOCs can significantly contribute (∼ 40 %) to the formation of total secondary organic aerosol (SOA) from biogenic sources; apparently, their annual emission increased from 1.05 μg m-3 in 2005 to 2.05 μg m-3 in 2010. This study demonstrates that biogenic and, in particular, sBVOC emissions contribute to SOA formation in megacities. However, the main problems regarding air quality in Beijing still originate from anthropogenic activities. Nevertheless, the present survey suggests that in urban plantation programs, the selection of plant species with low cBVOC and sBVOC emission potentials have some possible beneficial effects on urban air quality.

  3. Composition and secondary formation of fine particulate matter in the Salt Lake Valley: winter 2009.

    PubMed

    Kuprov, Roman; Eatough, Delbert J; Cruickshank, Tyler; Olson, Neal; Cropper, Paul M; Hansen, Jaron C

    2014-08-01

    Under the National Ambient Air Quality Standards (NAAQS), put in place as a result of the Clean Air Amendments of 1990, three regions in the state of Utah are in violation of the NAAQS for PM10 and PM2.5 (Salt Lake County, Ogden City, and Utah County). These regions are susceptible to strong inversions that can persist for days to weeks. This meteorology, coupled with the metropolitan nature of these regions, contributes to its violation of the NAAQS for PM during the winter. During January-February 2009, 1-hr averaged concentrations of PM10-2.5, PM2.5, NO(x), NO2, NO, O3, CO, and NH3 were measured. Particulate-phase nitrate, nitrite, and sulfate and gas-phase HONO, HNO3, and SO2 were also measured on a 1-hr average basis. The results indicate that ammonium nitrate averages 40% of the total PM2.5 mass in the absence of inversions and up to 69% during strong inversions. Also, the formation of ammonium nitrate is nitric acid limited. Overall, the lower boundary layer in the Salt Lake Valley appears to be oxidant and volatile organic carbon (VOC) limited with respect to ozone formation. The most effective way to reduce ammonium nitrate secondary particle formation during the inversions period is to reduce NO(x) emissions. However, a decrease in NO(x) will increase ozone concentrations. A better definition of the complete ozone isopleths would better inform this decision. Implications: Monitoring of air pollution constituents in Salt Lake City, UT, during periods in which PM2.5 concentrations exceeded the NAAQS, reveals that secondary aerosol formation for this region is NO(x) limited. Therefore, NO(x) emissions should be targeted in order to reduce secondary particle formation and PM2.5. Data also indicate that the highest concentrations of sulfur dioxide are associated with winds from the north-northwest, the location of several small refineries. PMID:25185397

  4. Secondary organic aerosol formation from the ozonolysis of 2-carene and 3-carene

    NASA Astrophysics Data System (ADS)

    Mellouki, A.; Chen, H.; Bernard, F.; Cazaunau, M.; Grosselin, B.; Daele, V.; Chen, J.

    2013-12-01

    The atmospheric degradation of terpenes in the remote areas such as those with coniferous forests is known to lead to the formation and growth of atmospheric new particles. 2-carene and 3-carene have been reported to be present in number of such areas. Hence, their oxidation may represent an important source of secondary organic aerosols in some specific regions. 2-carene and 3-carene possess a structure of endocyclic double bonds which make them reactive toward ozone under atmospheric conditions. We have conducted a study on the reactions of ozone with 2-carene and 3-carene using a flow reactor dedicated to the investigation of secondary organic aerosol (SOA) formation. The reactor is equipped with an ozone generator and a movable injector which allows the reaction to occur within a short time range (typically 17 - 48 seconds). This enables us to investigate the initial steps of the SOA formation. In a first series of experiments, we have determined the rate constant for the reaction of ozone with 3-carene under pseudo-first-order conditions. The rate constant value measured was 3.8 x 10-17 molecule-1s-1, at 298 K, in agreement with the literatures and simulation chamber experiments. We have then investigated the SOA formation from the ozonolysis of 2-carene and 3-carene. By adjusting the residence time and initial concentration of carenes and ozone, number concentration of SOA have been measured for short reactions times and low concentrations of reactants. Nucleation thresholds of 2-carene and 3-carene were extracted from the plots of log N = f(Δ[Carenes]).

  5. Formation of hydroxyl radicals from photolysis of secondary organic aerosol material

    NASA Astrophysics Data System (ADS)

    Badali, K. M.; Zhou, S.; Aljawhary, D.; Antiñolo, M.; Chen, W. J.; Lok, A.; Mungall, E.; Wong, J. P. S.; Zhao, R.; Abbatt, J. P. D.

    2015-07-01

    This paper demonstrates that OH radicals are formed by photolysis of secondary organic aerosol (SOA) material formed by terpene ozonolysis. The SOA is collected on filters, dissolved in water containing a radical trap (benzoic acid), and then exposed to ultraviolet light in a photochemical reactor. The OH formation rates, which are similar for both α-pinene and limonene SOA, are measured from the formation rate of p-hydroxybenzoic acid as measured using offline HPLC analysis. To evaluate whether the OH is formed by photolysis of H2O2 or organic hydroperoxides (ROOH), the peroxide content of the SOA was measured using the horseradish peroxidase-dichlorofluorescein (HRP-DCF) assay, which was calibrated using H2O2. The OH formation rates from SOA are 5 times faster than from the photolysis of H2O2 solutions whose concentrations correspond to the peroxide content of the SOA solutions, assuming that the HRP-DCF signal arises from H2O2 alone. The higher rates of OH formation from SOA are likely due to ROOH photolysis, but we cannot rule out a contribution from secondary processes as well. This result is substantiated by photolysis experiments conducted with t-butyl hydroperoxide and cumene hydroperoxide which produce over 3 times more OH than photolysis of equivalent concentrations of H2O2. Relative to the peroxide level in the SOA and assuming that the peroxides drive most of the ultraviolet absorption, the quantum yield for OH generation from α-pinene SOA is 0.8 ± 0.4. This is the first demonstration of an efficient photolytic source of OH in SOA, one that may affect both cloud water and aerosol chemistry.

  6. Some aspects of the problem of secondary eyewall formation in idealized three-dimensional nonlinear simulations

    NASA Astrophysics Data System (ADS)

    Menelaou, K.; Yau, M. K.; Martinez, Y.

    2014-09-01

    Some aspects of the problem of secondary eyewall formation (SEF) are investigated with the aid of an idealized model. A series of experiments are conducted, starting with a strong annular vortex embedded in a quiescent background flow and forced by the sustained heating associated with a spiral rainband (control experiment). Following this, two experiments are configured to assess the impact of vertical wind shear (VWS) in the SEF process. The importance of the boundary layer force imbalance is finally investigated in a number of simulations in which surface and boundary layer physics are included. From the control experiment, it is found that in the absence of background environmental flow, the sustained latent heating associated with a spiral rainband can form a secondary eyewall even in the absence of a frictional boundary layer. The presence of VWS acts negatively in the SEF process by disrupting the organization of the potential vorticity induced by the rainband. When boundary layer physics is included, some similarities with previous studies are seen, but there is no SEF. These results suggest that the boundary layer most likely contributes to, rather than initiate, a secondary eyewall. This article was corrected on 10 OCT 2014. See the end of the full text for details.

  7. Type VIII Collagen Mediates Vessel Wall Remodeling after Arterial Injury and Fibrous Cap Formation in Atherosclerosis

    PubMed Central

    Lopes, Joshua; Adiguzel, Eser; Gu, Steven; Liu, Shu-Lin; Hou, Guangpei; Heximer, Scott; Assoian, Richard K.; Bendeck, Michelle P.

    2014-01-01

    Collagens in the atherosclerotic plaque signal regulation of cell behavior and provide tensile strength to the fibrous cap. Type VIII collagen, a short-chain collagen, is up-regulated in atherosclerosis; however, little is known about its functions in vivo. We studied the response to arterial injury and the development of atherosclerosis in type VIII collagen knockout mice (Col8−/− mice). After wire injury of the femoral artery, Col8−/− mice had decreased vessel wall thickening and outward remodeling when compared with Col8+/+ mice. We discovered that apolipoprotein E (ApoE) is an endogenous repressor of the Col8a1 chain, and, therefore, in ApoE knockout mice, type VIII collagen was up-regulated. Deficiency of type VIII collagen in ApoE−/− mice (Col8−/−;ApoE−/−) resulted in development of plaques with thin fibrous caps because of decreased smooth muscle cell migration and proliferation and reduced accumulation of fibrillar type I collagen. In contrast, macrophage accumulation was not affected, and the plaques had large lipid-rich necrotic cores. We conclude that in atherosclerosis, type VIII collagen is up-regulated in the absence of ApoE and functions to increase smooth muscle cell proliferation and migration. This is an important mechanism for formation of a thick fibrous cap to protect the atherosclerotic plaque from rupture. PMID:23567639

  8. Modeling the influence of alkane molecular structure on secondary organic aerosol formation.

    PubMed

    Aumont, Bernard; Camredon, Marie; Mouchel-Vallon, Camille; La, Stéphanie; Ouzebidour, Farida; Valorso, Richard; Lee-Taylor, Julia; Madronich, Sasha

    2013-01-01

    Secondary Organic Aerosols (SOA) production and ageing is a multigenerational oxidation process involving the formation of successive organic compounds with higher oxidation degree and lower vapor pressure. Intermediate Volatility Organic Compounds (IVOC) emitted to the atmosphere are expected to be a substantial source of SOA. These emitted IVOC constitute a complex mixture including linear, branched and cyclic alkanes. The explicit gas-phase oxidation mechanisms are here generated for various linear and branched C10-C22 alkanes using the GECKO-A (Generator for Explicit Chemistry and Kinetics of Organics in the Atmosphere) and SOA formation is investigated for various homologous series. Simulation results show that both the size and the branching of the carbon skeleton are dominant factors driving the SOA yield. However, branching appears to be of secondary importance for the particle oxidation state and composition. The effect of alkane molecular structure on SOA yields appears to be consistent with recent laboratory observations. The simulated SOA composition shows, however, an unexpected major contribution from multifunctional organic nitrates. Most SOA contributors simulated for the oxidation of the various homologous series are far too reduced to be categorized as highly oxygenated organic aerosols (OOA). On a carbon basis, the OOA yields never exceeded 10% regardless of carbon chain length, molecular structure or ageing time. This version of the model appears clearly unable to explain a large production of OOA from alkane precursors. PMID:24600999

  9. Heterogeneous Chemistry of Carbonyls and Alcohols With Sulfuric Acid: Implications for Secondary Organic Aerosol Formation

    NASA Astrophysics Data System (ADS)

    Zhao, J.; Levitt, N.; Zhang, R.

    2006-12-01

    Recent environmental chamber studies have suggested that acid-catalyzed particle-phase reactions of organic carbonyls lead to multifold increases in secondary organic aerosol (SOA) mass and acid-catalyzed reactions between alcohols and aldehydes in the condensed phase lead to the formation of hemiacetals and acetals, also enhancing secondary organic aerosol growth. The kinetics and mechanism of the heterogeneous chemistry of carbonyls and alcohols with sulfuric acid, however, remain largely uncertain. In this talk, we present measurements of heterogeneous uptake of several carbonyls and alcohols on liquid H2SO4 in a wide range of acid concentrations and temperatures. The results indicate that uptake of larger carbonyls is explained by aldol condensation. For small dicarbonyls, heterogeneous reactions are shown to decrease with acidity and involve negligible formation of sulfate esters. Hydration and polymerization likely explain the measured uptake of such small dicarbonyls on H2SO4 and the measurements do not support an acid- catalyzed uptake. Atmospheric implications from our findings will be discussed.

  10. The effects of increasing atmospheric ozone on biogenic monoterpene profiles and the formation of secondary aerosols

    NASA Astrophysics Data System (ADS)

    Pinto, Delia M.; Tiiva, Päivi; Miettinen, Pasi; Joutsensaari, Jorma; Kokkola, Harri; Nerg, Anne-Marja; Laaksonen, Ari; Holopainen, Jarmo K.

    Monoterpenes are biogenic volatile organic compounds (BVOCs) which play an important role in plant adaptation to stresses, atmospheric chemistry, plant-plant and plant-insect interactions. In this study, we determined whether ozonolysis can influence the monoterpenes in the headspace of cabbage. The monoterpenes were mixed with an air-flow enriched with 100, 200 or 400 ppbv of ozone (O 3) in a Teflon chamber. The changes in the monoterpene and O 3 concentrations, and the formation of secondary organic aerosols (SOA) were determined during ozonolysis. Furthermore, the monoterpene reactions with O 3 and OH were modelled using reaction kinetics equations. The results showed that all of the monoterpenes were unequally affected: α-thujene, sabinene and D-limonene were affected to the greatest extend, whereas the 1,8-cineole concentration did not change. In addition, plant monoterpene emissions reduced the O 3 concentration by 12-24%. The SOA formation was dependent on O 3 concentration. At 100 ppbv of O 3, virtually no new particles were formed but clear SOA formation was observed at the higher ozone concentrations. The modelled results showed rather good agreements for α-pinene and 1,8-cineole, whereas the measured concentrations were clearly lower compared to modelled values for sabinene and limonene. In summary, O 3-quenching by monoterpenes occurs beyond the boundary layer of leaves and results in a decreased O 3 concentration, altered monoterpene profiles and SOA formation.

  11. The formation, properties and impact of secondary organic aerosol: current and emerging issues

    NASA Astrophysics Data System (ADS)

    Hallquist, M.; Wenger, J. C.; Baltensperger, U.; Rudich, Y.; Simpson, D.; Claeys, M.; Dommen, J.; Donahue, N. M.; George, C.; Goldstein, A. H.; Hamilton, J. F.; Herrmann, H.; Hoffmann, T.; Iinuma, Y.; Jang, M.; Jenkin, M.; Jimenez, J. L.; Kiendler-Scharr, A.; Maenhaut, W.; McFiggans, G.; Mentel, Th. F.; Monod, A.; Prévôt, A. S. H.; Seinfeld, J. H.; Surratt, J. D.; Szmigielski, R.; Wildt, J.

    2009-02-01

    Secondary organic aerosol (SOA) accounts for a significant fraction of ambient tropospheric aerosol and a detailed knowledge of the formation, properties and transformation of SOA is therefore required to evaluate its impact on atmospheric processes, climate and human health. The chemical and physical processes associated with SOA formation are complex and varied, and, despite considerable progress in recent years, a quantitative and predictive understanding of SOA formation does not exist and therefore represents a major research challenge in atmospheric science. This review begins with a description of the current state of knowledge on the global SOA budget and the atmospheric degradation mechanisms for SOA precursors. The topic of gas-particle partitioning theory is followed by an account of the analytical techniques used to determine the chemical composition of SOA. A survey of recent laboratory, field and modeling studies is also presented. The following topical and emerging issues are highlighted and discussed in detail; molecular characterization of biogenic SOA constituents, condensed phase reactions and oligomerization, the interaction of atmospheric organic components with sulfuric acid, the chemical and photochemical processing of organics in the atmospheric aqueous phase, aerosol formation from real plant emissions, interaction of atmospheric organic components with water, thermodynamics and mixtures in atmospheric models. Finally, the major challenges ahead in laboratory, field and modeling studies of SOA are discussed and recommendations for future research directions are proposed.

  12. The formation, properties and impact of secondary organic aerosol: current and emerging issues

    NASA Astrophysics Data System (ADS)

    Hallquist, M.; Wenger, J. C.; Baltensperger, U.; Rudich, Y.; Simpson, D.; Claeys, M.; Dommen, J.; Donahue, N. M.; George, C.; Goldstein, A. H.; Hamilton, J. F.; Herrmann, H.; Hoffmann, T.; Iinuma, Y.; Jang, M.; Jenkin, M. E.; Jimenez, J. L.; Kiendler-Scharr, A.; Maenhaut, W.; McFiggans, G.; Mentel, Th. F.; Monod, A.; Prévôt, A. S. H.; Seinfeld, J. H.; Surratt, J. D.; Szmigielski, R.; Wildt, J.

    2009-07-01

    Secondary organic aerosol (SOA) accounts for a significant fraction of ambient tropospheric aerosol and a detailed knowledge of the formation, properties and transformation of SOA is therefore required to evaluate its impact on atmospheric processes, climate and human health. The chemical and physical processes associated with SOA formation are complex and varied, and, despite considerable progress in recent years, a quantitative and predictive understanding of SOA formation does not exist and therefore represents a major research challenge in atmospheric science. This review begins with an update on the current state of knowledge on the global SOA budget and is followed by an overview of the atmospheric degradation mechanisms for SOA precursors, gas-particle partitioning theory and the analytical techniques used to determine the chemical composition of SOA. A survey of recent laboratory, field and modeling studies is also presented. The following topical and emerging issues are highlighted and discussed in detail: molecular characterization of biogenic SOA constituents, condensed phase reactions and oligomerization, the interaction of atmospheric organic components with sulfuric acid, the chemical and photochemical processing of organics in the atmospheric aqueous phase, aerosol formation from real plant emissions, interaction of atmospheric organic components with water, thermodynamics and mixtures in atmospheric models. Finally, the major challenges ahead in laboratory, field and modeling studies of SOA are discussed and recommendations for future research directions are proposed.

  13. Effective stiffness and formation of secondary structures in a protein-like model.

    PubMed

    Škrbić, Tatjana; Hoang, Trinh X; Giacometti, Achille

    2016-08-28

    We use Wang-Landau and replica exchange techniques to study the effect of an increasing stiffness on the formation of secondary structures in protein-like systems. Two possible models are considered. In both models, a polymer chain is formed by tethered beads where non-consecutive backbone beads attract each other via a square-well potential representing the tendency of the chain to fold. In addition, smaller hard spheres are attached to each non-terminal backbone bead along the direction normal to the chain to mimic the steric hindrance of side chains in real proteins. The two models, however, differ in the way bending rigidity is enforced. In the first model, partial overlap between consecutive beads is allowed. This reduces the possible bending angle between consecutive bonds thus producing an effective entropic stiffness that competes with a short-range attraction, and leads to the formation of secondary structures characteristic of proteins. We discuss the low-temperature phase diagram as a function of increasing interpenetration and find a transition from a planar, beta-like structure, to helical shape. In the second model, an energetic stiffness is explicitly introduced by imposing an infinitely large energy penalty for bending above a critical angle between consecutive bonds, and no penalty below it. The low-temperature phase of this model does not show any sign of protein-like secondary structures. At intermediate temperatures, however, where the chain is still in the coil conformation but stiffness is significant, we find the two models to predict a quite similar dependence of the persistence length as a function of the stiffness. This behaviour is rationalized in terms of a simple geometrical mapping between the two models. Finally, we discuss the effect of shrinking side chains to zero and find the above mapping to still hold true. PMID:27586943

  14. Atmospheric chemistry of nitrogenous aerosols in northeastern Asia: biological sources and secondary formation

    NASA Astrophysics Data System (ADS)

    Pavuluri, C. M.; Kawamura, K.; Fu, P. Q.

    2015-09-01

    To better understand the sources of nitrogenous aerosols, particularly water-soluble organic nitrogen (WSON) and water-insoluble organic nitrogen (WION), in northeastern Asia, we measured total nitrogen (TN) and water-soluble total nitrogen (WSTN) as well as nitrogen isotope ratios (δ15N) of TN (δ15NTN) and WSTN (δ15NWSTN) in the total suspended particulate (TSP) samples collected from Sapporo, northern Japan, for a 1-year period. In general, WION was more abundant (126 ± 117 ng m-3), whereas WSON was 89.7 ± 80.6 ng m-3, accounting for 14 ± 11 % and 9.2 ± 7.3 % of TN, respectively. WSON peaked in late autumn to winter (maximum 288 ng m-3) and WION peaked in mid-spring to early summer (454 ng m-3). δ15NTN (21.9 ± 4.1 ‰) and δ15NWSTN (25.8 ± 8.2 ‰) showed peaks in summer with relatively high ratios in late autumn. Based on the seasonal variations in WSON and WION together with organic tracers, fossil fuel combustion and biomass burning are found to be two major sources of WSON, whereas emissions of biological particles and secondary formation by reactions of biogenic secondary organic species (carbonyls) with NH3 are suggested as an important source of WION. The seasonality of δ15NTN and δ15NWSTN, together with the comparisons to literature values, implies that chemical aging (including gas-particle partitioning) and biomass burning are the causes of the enhanced values in summer and autumn, respectively. This study demonstrates that contributions of aerosol N from fossil fuel combustion and biomass burning dominate in autumn and/or winter, whereas emission of terrestrial biological particles and secondary formation from biogenic hydrocarbons and subsequent chemical aging in the atmosphere are important in spring and/or summer in northeastern Asia.

  15. Atmospheric chemistry of nitrogenous aerosols in Northeast Asia: biological sources and secondary formation

    NASA Astrophysics Data System (ADS)

    Pavuluri, C. M.; Kawamura, K.; Fu, P. Q.

    2015-04-01

    To better understand the sources of nitrogenous aerosols, particularly water-soluble organic nitrogen (WSON) and water-insoluble organic nitrogen (WION), in Northeast Asia, we measured total nitrogen (TN) and water-soluble total nitrogen (WSTN) as well as nitrogen isotope ratios (δ15N) of TN (δ15NTN) and WSTN (δ15NWSTN) in the total suspended particles (TSP) collected from Sapporo, northern Japan for one-year period. In general, WION was more abundant (126 ± 117 ng m-3) whereas WSON (89.7 ± 80.6 ng m-3), accounting for 14 ± 11% and 9.2 ± 7.3% of TN, respectively. WSON peaked in late autumn to winter (maximum 288 ng m-3) and WION peaked in mid spring to early summer (454 ng m-3). δ15NTN (21.9 ± 4.1‰) and δ15NWSTN (25.8 ± 8.2‰) showed peaks in summer with relatively high ratios in late autumn. Based on the seasonal variations of WSON and WION together with organic tracers, fossil fuel combustion and biomass burning are found to be two major sources of WSON whereas emissions of biological particles and secondary formation by reactions of biogenic secondary organic species (carbonyls) with NH3 are suggested as important source of WION. The seasonality of δ15NTN and δ15NWSTN, together with the comparisons to literature values, implies that chemical aging (including gas/particle partitioning) and biomass burning are the causes of the enhanced values in summer and autumn, respectively. This study demonstrates that contributions of aerosol N from fossil fuel combustion and biomass burning dominate in autumn/winter whereas emission of terrestrial biological particles and secondary formation from biogenic hydrocarbons and subsequent chemical aging in the atmosphere are important in spring/summer in Northeast Asia.

  16. Secondary chaotic terrain formation in the higher outflow channels of southern circum-Chryse, Mars

    NASA Astrophysics Data System (ADS)

    Rodríguez, J. Alexis P.; Kargel, Jeffrey S.; Tanaka, Kenneth L.; Crown, David A.; Berman, Daniel C.; Fairén, Alberto G.; Baker, Victor R.; Furfaro, Roberto; Candelaria, Pat; Sasaki, Sho

    2011-05-01

    Higher outflow channel dissection in the martian region of southern circum-Chryse appears to have extended from the Late Hesperian to the Middle Amazonian Epoch. These outflow channels were excavated within the upper 1 km of the cryolithosphere, where no liquid water is expected to have existed during these geologic epochs. In accordance with previous work, our examination of outflow channel floor morphologies suggests the upper crust excavated by the studied outflow channels consisted of a thin (a few tens of meters) layer of dry geologic materials overlying an indurated zone that extends to the bases of the investigated outflow channels (1 km in depth). We find that the floors of these outflow channels contain widespread secondary chaotic terrains (i.e., chaotic terrains produced by the destruction of channel-floor materials). These chaotic terrains occur within the full range of outflow channel dissection and tend to form clusters. Our examination of the geology of these chaotic terrains suggests that their formation did not result in the generation of floods. Nevertheless, despite their much smaller dimensions, these chaotic terrains are comprised of the same basic morphologic elements (e.g., mesas, knobs, and smooth deposits within scarp-bound depressions) as those located in the initiation zones of the outflow channels, which suggests that their formation must have involved the release of ground volatiles. We propose that these chaotic terrains developed not catastrophically but gradually and during multiple episodes of nested surface collapse. In order to explain the formation of secondary chaotic terrains within zones of outflow channel dissection, we propose that the regional Martian cryolithosphere contained widespread lenses of volatiles in liquid form. In this model, channel floor collapse and secondary chaotic terrain formation would have taken place as a consequence of instabilities arising during their exhumation by outflow channel dissection. Within

  17. The Arabidopsis Domain of Unknown Function 1218 (DUF1218) Containing Proteins, MODIFYING WALL LIGNIN-1 and 2 (At1g31720/MWL-1 and At4g19370/MWL-2) Function Redundantly to Alter Secondary Cell Wall Lignin Content.

    PubMed

    Mewalal, Ritesh; Mizrachi, Eshchar; Coetzee, Berdine; Mansfield, Shawn D; Myburg, Alexander A

    2016-01-01

    DUF1218 is a land plant-specific innovation and has previously been shown to be associated with cell wall biology, vasculature patterning and abiotic/biotic stress response. The Arabidopsis genome encodes 15 members, two of which (At1g31720 and At4g27435) are preferentially expressed in the secondary cell wall depositing inflorescence stems. To further our understanding of the roles of DUF1218-containing proteins in secondary cell wall biology, we functionally characterized At1g31720 (herein referred to as MODIFYING WALL LIGNIN-1 or MWL-1). Since related gene family members may contribute to functional redundancy, we also characterized At4g19370 (MWL-2), the most closely related gene to MWL-1 in the protein family. Subcellular localization revealed that both Arabidopsis proteins are targeted to the cell periphery. The single T-DNA knockout lines, mwl-1 and mwl-2, and independent overexpression lines showed no significant differences in plant growth or changes in total lignin content relative to wild-type (WT) control plants. However, the double homozygous mutant, mwl-1/mwl-2, had smaller rosettes with a significant decrease in rosette fresh weight and stem height relative to the WT control at four weeks and six weeks, respectively. Moreover, mwl-1/mwl-2 showed a significant reduction in total lignin content (by ca. 11% relative to WT) and an increase in syringyl/guaiacyl (S/G) monomer ratio relative to the control plants. Our study has identified two additional members of the DUF1218 family in Arabidopsis as novel contributors to secondary cell wall biology, specifically lignin biosynthesis, and these proteins appear to function redundantly. PMID:26930070

  18. The Arabidopsis Domain of Unknown Function 1218 (DUF1218) Containing Proteins, MODIFYING WALL LIGNIN-1 and 2 (At1g31720/MWL-1 and At4g19370/MWL-2) Function Redundantly to Alter Secondary Cell Wall Lignin Content

    PubMed Central

    Mewalal, Ritesh; Mizrachi, Eshchar; Coetzee, Berdine; Mansfield, Shawn D.; Myburg, Alexander A.

    2016-01-01

    DUF1218 is a land plant-specific innovation and has previously been shown to be associated with cell wall biology, vasculature patterning and abiotic/biotic stress response. The Arabidopsis genome encodes 15 members, two of which (At1g31720 and At4g27435) are preferentially expressed in the secondary cell wall depositing inflorescence stems. To further our understanding of the roles of DUF1218-containing proteins in secondary cell wall biology, we functionally characterized At1g31720 (herein referred to as MODIFYING WALL LIGNIN-1 or MWL-1). Since related gene family members may contribute to functional redundancy, we also characterized At4g19370 (MWL-2), the most closely related gene to MWL-1 in the protein family. Subcellular localization revealed that both Arabidopsis proteins are targeted to the cell periphery. The single T-DNA knockout lines, mwl-1 and mwl-2, and independent overexpression lines showed no significant differences in plant growth or changes in total lignin content relative to wild-type (WT) control plants. However, the double homozygous mutant, mwl-1/mwl-2, had smaller rosettes with a significant decrease in rosette fresh weight and stem height relative to the WT control at four weeks and six weeks, respectively. Moreover, mwl-1/mwl-2 showed a significant reduction in total lignin content (by ca. 11% relative to WT) and an increase in syringyl/guaiacyl (S/G) monomer ratio relative to the control plants. Our study has identified two additional members of the DUF1218 family in Arabidopsis as novel contributors to secondary cell wall biology, specifically lignin biosynthesis, and these proteins appear to function redundantly. PMID:26930070

  19. Incremental Reactivity Effects on Secondary Organic Aerosol Formation in Urban Atmospheres with and without Biogenic Influence

    NASA Astrophysics Data System (ADS)

    Kacarab, Mary; Li, Lijie; Carter, William P. L.; Cocker, David R., III

    2016-04-01

    Two different surrogate mixtures of anthropogenic and biogenic volatile organic compounds (VOCs) were developed to study secondary organic aerosol (SOA) formation at atmospheric reactivities similar to urban regions with varying biogenic influence levels. Environmental chamber simulations were designed to enable the study of the incremental aerosol formation from select anthropogenic (m‑Xylene, 1,2,4-Trimethylbenzene, and 1-Methylnaphthalene) and biogenic (α-pinene) precursors under the chemical reactivity set by the two different surrogate mixtures. The surrogate reactive organic gas (ROG) mixtures were based on that used to develop the maximum incremental reactivity (MIR) factors for evaluation of O3 forming potential. Multiple incremental aerosol formation experiments were performed in the University of California Riverside (UCR) College of Engineering Center for Environmental Research and Technology (CE-CERT) dual 90m3 environmental chambers. Incremental aerosol yields were determined for each of the VOCs studied and compared to yields found from single precursor studies. Aerosol physical properties of density, volatility, and hygroscopicity were monitored throughout experiments. Bulk elemental chemical composition from high-resolution time of flight aerosol mass spectrometer (HR-ToF-AMS) data will also be presented. Incremental yields and SOA chemical and physical characteristics will be compared with data from previous single VOC studies conducted for these aerosol precursors following traditional VOC/NOx chamber experiments. Evaluation of the incremental effects of VOCs on SOA formation and properties are paramount in evaluating how to best extrapolate environmental chamber observations to the ambient atmosphere and provides useful insights into current SOA formation models. Further, the comparison of incremental SOA from VOCs in varying surrogate urban atmospheres (with and without strong biogenic influence) allows for a unique perspective on the impacts

  20. Formation of secondary organic aerosol and oligomers from the ozonolysis of enol ethers

    NASA Astrophysics Data System (ADS)

    Sadezky, A.; Chaimbault, P.; Mellouki, A.; Römpp, A.; Winterhalter, R.; Le Bras, G.; Moortgat, G. K.

    2006-06-01

    Formation of secondary organic aerosol has been observed in the gas phase ozonolysis of a series of enol ethers, among them several alkyl vinyl ethers (AVE, ROCH=CH2), such as ethyl, propyl, n-butyl, iso-butyl, t-butyl vinyl ether, and ethyl propenyl ether (EPE, C2H5OCH=CHCH3). The ozonolysis has been studied in a 570 l spherical glass reactor at atmospheric pressure (730 Torr) and temperature (296 K). Gas phase reaction products were investigated by in-situ FTIR spectroscopy, and secondary organic aerosol (SOA) formation was monitored by a scanning mobility particle sizer (SMPS). The chemical composition of the formed SOA was analysed by a hybrid mass spectrometer using electrospray ionization (ESI). The main stable gas phase reaction product is the respective alkyl formate ROC(O)H, formed with yields of 60 to 80%, implying that similar yields of the corresponding Criegee Intermediates (CI) CH2O2 for the AVE and CH3CHO2 for EPE are generated. Measured SOA yields are between 2 to 4% for all enol ethers. Furthermore, SOA formation is strongly reduced or suppressed by the presence of an excess of formic acid, which acts as an efficient CI scavenger. Chemical analysis of the formed SOA by ESI(+)/MS-TOF allows to identify oligomeric compounds in the mass range 200 to 800 u as its major constituents. Repetitive chain units are identified as CH2O2 (mass 46) for the AVE and C2H4O2 (mass 60) for EPE and thus have the same chemical compositions as the respective major Criegee Intermediates formed during ozonolysis of these ethers. The oligomeric structure and chain unit identity are confirmed by HPLC/ESI(+)/MS-TOF and ESI(+)/MS/MS-TOF experiments, whereby successive and systematic loss of a fragment with mass 46 for the AVE (and mass 60 for EPE) is observed. It is proposed that the oligomer has the following basic structure of an oligoperoxide, -[CH(R)-O-O]n-, where R=H for the AVE and R=CH3 for the EPE. Oligoperoxide formation is thus suggested to be another, so far

  1. Formation of secondary organic aerosol and oligomers from the ozonolysis of enol ethers

    NASA Astrophysics Data System (ADS)

    Sadezky, A.; Chaimbault, P.; Mellouki, A.; Römpp, A.; Winterhalter, R.; Le Bras, G.; Moortgat, G. K.

    2006-10-01

    Formation of secondary organic aerosol has been observed in the gas phase ozonolysis of a series of enol ethers, among them several alkyl vinyl ethers (AVE, ROCH=CH2), such as ethyl, propyl, n-butyl, iso-butyl, t-butyl vinyl ether, and ethyl propenyl ether (EPE, C2H5OCH=CHCH3). The ozonolysis has been studied in a 570 l spherical glass reactor at ambient pressure (730 Torr) and room temperature (296 K). Gas phase reaction products were investigated by in-situ FTIR spectroscopy, and secondary organic aerosol (SOA) formation was monitored by a scanning mobility particle sizer (SMPS). The chemical composition of the formed SOA was analysed by a hybrid mass spectrometer using electrospray ionization (ESI). The main stable gas phase reaction product is the respective alkyl formate ROC(O)H, formed with yields of 60 to 80%, implying that similar yields of the corresponding excited Criegee Intermediates (CI) CH2O2 for the AVE and CH3CHO2 for EPE are generated. Measured SOA yields are between 2 to 4% for all enol ethers. Furthermore, SOA formation is strongly reduced or suppressed by the presence of an excess of formic acid, which acts as an efficient CI scavenger. Chemical analysis of the formed SOA by ESI(+)/MS-TOF allows to identify oligomeric compounds in the mass range 200 to 800 u as its major constituents. Repetitive chain units are identified as CH2O2 (mass 46) for the AVE and C2H4O2 (mass 60) for EPE and thus have the same chemical compositions as the respective major Criegee Intermediates formed during ozonolysis of these ethers. The oligomeric structure and chain unit identity are confirmed by HPLC/ESI(+)/MS-TOF and ESI(+)/MS/MS-TOF experiments, whereby successive and systematic loss of a fragment with mass 46 for the AVE (and mass 60 for EPE) is observed. It is proposed that the oligomer has the following basic structure of an oligoperoxide, -[CH(R)-O-O]n-, where R=H for the AVE and R=CH3 for the EPE. Oligoperoxide formation is thus suggested to be another, so

  2. Phloem parenchyma transfer cells in Arabidopsis – an experimental system to identify transcriptional regulators of wall ingrowth formation

    PubMed Central

    Arun Chinnappa, Kiruba S.; Nguyen, Thi Thu S.; Hou, Jiexi; Wu, Yuzhou; McCurdy, David W.

    2013-01-01

    In species performing apoplasmic loading, phloem cells adjacent to sieve elements often develop into transfer cells (TCs) with wall ingrowths. The highly invaginated wall ingrowths serve to amplify plasma membrane surface area to achieve increased rates of apoplasmic transport, and may also serve as physical barriers to deter pathogen invasion. Wall ingrowth formation in TCs therefore plays an important role in phloem biology, however, the transcriptional switches regulating the deposition of this unique example of highly localized wall building remain unknown. Phloem parenchyma (PP) TCs in Arabidopsis veins provide an experimental system to identify such switches. The extent of ingrowth deposition responds to various abiotic and applied stresses, enabling bioinformatics to identify candidate regulatory genes. Furthermore, simple fluorescence staining of PP TCs in leaves enables phenotypic analysis of relevant mutants. Combining these approaches resulted in the identification of GIGANTEA as a regulatory component in the pathway controlling wall ingrowth development in PP TCs. Further utilization of this approach has identified two NAC (NAM, ATAF1/2 and CUC2)-domain and two MYB-related genes as putative transcriptional switches regulating wall ingrowth deposition in these cells. PMID:23630536

  3. 3rd hand smoking; heterogeneous oxidation of nicotine and secondary aerosol formation in the indoor environment

    NASA Astrophysics Data System (ADS)

    Petrick, Lauren; Dubowski, Yael

    2010-05-01

    Tobacco smoking is well known as a significant source of primary indoor air pollutants. However, only recently has it been recognized that the impact of Tobacco smoking may continue even after the cigarette has been extinguished (i.e., third hand smoke) due to the effect of indoor surfaces. These surfaces may affect the fate of tobacco smoke in the form of secondary reactions and pollutants, including secondary organic aerosol (SOA) formation. Fourier Transform Infrared spectrometry with Attenuated Total Reflection (FTIR-ATR) in tandem with a Scanning Mobility Particle Sizing (SMPS) system was used to monitor the ozonation of cellulose sorbed nicotine and resulting SOA formation. SOA formation began at onset of ozone introduction ([O3] = 60 ± 5 ppb) with a size distribution of dp ≤ 25 nm, and was determined to be a result of heterogeneous reaction (opposed to homogeneous). SOA yield from reacted surface nicotine was on the order of 10 %. Simultaneous to SOA monitoring, FTIR-ATR spectra showed surface changes in the nicotine film as the reaction progressed, revealing a pseudo first-order surface reaction rate of 0.0026 ± 0.0008 min-1. Identified surface oxidation products included: cotinine, myosmine, methylnicotinamide and nicotyrine. Surface reaction rate was found to be partially inhibited at high relative humidity. Given the toxicity of some of the identified products (e.g., cotinine has shown potential mutagenicity and teratogenicity) and that small particles may contribute to adverse health effects, the present study indicates that exposure to 3rd hand smoke ozonation products may pose additional health risks.

  4. Primary sources and secondary formation of organic aerosols in Beijing, China.

    PubMed

    Guo, Song; Hu, Min; Guo, Qingfeng; Zhang, Xin; Zheng, Mei; Zheng, Jun; Chang, Chih Chung; Schauer, James J; Zhang, Renyi

    2012-09-18

    Ambient aerosol samples were collected at an urban site and an upwind rural site of Beijing during the CAREBEIJING-2008 (Campaigns of Air quality REsearch in BEIJING and surrounding region) summer field campaign. Contributions of primary particles and secondary organic aerosols (SOA) were estimated by chemical mass balance (CMB) modeling and tracer-yield method. The apportioned primary and secondary sources explain 73.8% ± 9.7% and 79.6% ± 10.1% of the measured OC at the urban and rural sites, respectively. Secondary organic carbon (SOC) contributes to 32.5 ± 15.9% of the organic carbon (OC) at the urban site, with 17.4 ± 7.6% from toluene, 9.7 ± 5.4% from isoprene, 5.1 ± 2.0% from α-pinene, and 2.3 ± 1.7% from β-caryophyllene. At the rural site, the secondary sources are responsible for 38.4 ± 14.4% of the OC, with the contributions of 17.3 ± 6.9%, 13.9 ± 9.1%, 5.6 ± 1.9%, and 1.7 ± 1.0% from toluene, isoprene, α-pinene, and β-caryophyllene, respectively. Compared with other regions in the world, SOA in Beijing is less aged, but the concentrations are much higher; between the sites, SOA is more aged and affected by regional transport at the urban site. The high SOA loading in Beijing is probably attributed to the high regional SOC background (~2 μg m(-3)). The toluene SOC concentration is high and comparable at the two sites, implying that some anthropogenic components, at least toluene SOA, are widespread in Beijing and represents a major factor in affecting the regional air quality. The aerosol gaseous precursor concentrations and temperature correlate well with SOA, both affecting SOA formation. The significant SOA enhancement with increasing water uptake and acidification indicates that the aqueous-phase reactions are largely responsible SOA formation in Beijing. PMID:22486583

  5. Constraints on Permeability Resulting from Secondary Porosity in the Burns Formation, Meridiani Planum, Mars

    NASA Astrophysics Data System (ADS)

    Perl, S. M.; McLennan, S. M.

    2012-12-01

    Investigations by the MER rover Opportunity of the Burns Formation on the surface and within various craters on Meridiani Planum, using the Rock Abrasion Tool (RAT) and Microscopic Imager (MI), revealed abundant void spaces within abraded sandstone outcrop targets interpreted to have formed by post-depositional mineral dissolution of primary depositional constituents. After deposition, multiple episodic events of groundwater recharge led to these constituents, primarily Mg-sulfates, chlorides, or other soluble ferrous sulfates, being dissolved - leaving behind secondary porosity. Elongate to sheet-like pores are aligned to bedding, but with vertical porous features allowing for connectivity of pore spaces, or throats, throughout much of the exposed stratigraphic section; the section itself being divided into three units in the vicinity of Endurance crater whose boundaries are controlled largely by the former presence of a fluctuating paleo-groundwater table. The boundary separating the Lower and Middle units (Wellington contact) formed as a groundwater-controlled deflation surface whereas the boundary separating the Middle and Upper units (Whatanga contact) is interpreted as a diagenetic front possibly associated with a stagnant water table. The timing, shape, volume, and quantity of secondary pore space provide important constraints on the genesis and history of diagenetic fluid-flow through these sedimentary rocks. Measurements of pore geometries indicate that three distinct pore classes can be defined with varying length/width ratios, shapes, abundances, and stratigraphic position. The infiltration history of these groundwater recharge cycles is likely related to the connectivity of secondary pores. After the original mineral dissolution, the vertical extent of the vadose zone probably decreased as the water table rose higher with each recharge cycle. Secondary pores that have been enlarged have only been found stratigraphically at the Whatanga contact exposed

  6. Cloud processing of organic compounds: Secondary organic aerosol and nitrosamine formation

    NASA Astrophysics Data System (ADS)

    Hutchings, James W., III

    Cloud processing of atmospheric organic compounds has been investigated through field studies, laboratory experiments, and numerical modeling. Observational cloud chemistry studies were performed in northern Arizona and fog studies in central Pennsylvania. At both locations, the cloud and fogs showed low acidity due to neutralization by soil dust components (Arizona) and ammonia (Pennsylvania). The field observations showed substantial concentrations (20-5500 ng•L -1) of volatile organic compounds (VOC) in the cloud droplets. The potential generation of secondary organic aerosol mass through the processing of these anthropogenic VOCs was investigated through laboratory and modeling studies. Under simulated atmospheric conditions, in idealized solutions, benzene, toluene, ethylbenzene, and xylene (BTEX) degraded quickly in the aqueous phase with half lives of approximately three hours. The degradation process yielded less volatile products which would contribute to new aerosol mass upon cloud evaporation. However, when realistic cloud solutions containing natural organic matter were used in the experiments, the reaction kinetics decreased with increasing organic carbon content, resulting in half lives of approximately 7 hours. The secondary organic aerosol (SUA) mass formation potential of cloud processing of BTEX was evaluated. SOA mass formation by cloud processing of BTEX, while strongly dependent on the atmospheric conditions, could contribute up to 9% of the ambient atmospheric aerosol mass, although typically ˜1% appears realistic. Field observations also showed the occurrence of N-nitrosodimethylamine (NDMA), a potent carcinogen, in fogs and clouds (100-340 ng•L -1). Laboratory studies were conducted to investigate the formation of NDMA from nitrous acid and dimethylamine in the homogeneous aqueous phase within cloud droplets. While NDMA was produced in the cloud droplets, the low yields (<1%) observed could not explain observational concentrations

  7. Formation of secondary organic carbon and cloud impact on carbonaceous aerosols at Mount Tai, North China

    NASA Astrophysics Data System (ADS)

    Wang, Zhe; Wang, Tao; Guo, Jia; Gao, Rui; Xue, Likun; Zhang, Jiamin; Zhou, Yang; Zhou, Xuehua; Zhang, Qingzhu; Wang, Wenxing

    2012-01-01

    Carbonaceous aerosols measured at Mount Tai in north China in 2007 were further examined to study the formation of secondary organic carbon (SOC) and the impact of clouds on carbonaceous species. A constrained EC-tracer method and a multiple regression model showed excellent agreement in estimating SOC concentration. The average concentrations of non-volatile and semi-volatile SOC (SOC NV and SOC SV) were 2.61, 5.58 μg m -3 in spring and 2.81, 10.44 μg m -3 in summer. The total SOC accounted for 57.3% and 71.2% of total organic carbon in spring and summer, respectively, indicating the presence of high loading of secondary organic aerosol (SOA) in the North China Plain. The fraction of SOC NV increased with photochemical age (as indicated by NO x/NO y ratios) of air mass, whereas SOC SV was also influenced by the dynamic equilibrium between formation and sink. Significant scavenging by clouds of non-volatile organic carbon (OC NV) and elemental carbon (EC) was observed, whereas semi-volatile organic carbon (OC SV) concentrations increased during clouds, suggesting substantial SOA formation through aqueous-phase reactions in clouds. A mass balance model was proposed to quantify the scavenging coefficients for OC NV, EC and formation rates of OC SV in clouds. The scavenging coefficient constant of EC ( KEC) varied from 0.11 to 0.90 h -1, and was higher than that of OC NV ( KNV-OC: 0.07-0.55 h -1), implying internal mixing of EC with more hygroscopic species. The formation rate constant ( JSV-OC) and sink constant ( SSV-OC) of OC SV ranged from 0.09 to 1.39 h -1 and 0.001 to 1.07 h -1, respectively. These field derived parameters could be incorporated into atmospheric models to help close the gap between predicted and observed SOA loadings in the atmosphere.

  8. Secondary Organic Aerosol (SOA) Formation from Hydroxyl Radical Oxidation and Ozonolysis of Monoterpenes

    NASA Astrophysics Data System (ADS)

    Zhao, Defeng; Kaminski, Martin; Schlag, Patrick; Fuchs, Hendrik; Acir, Ismail-Hakki; Bohn, Birger; Haeseler, Rolf; Kiendler-Scharr, Astrid; Rohrer, Franz; Tillmann, Ralf; Wang, Mingjin; Wegner, Robert; Wahner, Andreas; Mentel, Thomas

    2014-05-01

    Hydroxyl radical (OH) oxidation and ozonolysis are the two major pathways of daytime biogenic volatile organic compounds (VOCs) oxidation and secondary organic aerosol (SOA) formation. The pure OH oxidation of monoterpenes, an important biogenic VOC class, has seldom been investigated. In order to elucidate the importance of the reaction pathyways of the OH oxidation and ozonolysis and their roles in particle formation and growth, we investigated the particle formation of several common monoterpenes (alpha-pinene, beta-pinene, and limonene) in the large atmosphere simulation chamber SAPHIR in Juelich, Germany. The experiments were conducted for both OH dominant and pure ozonolysis case (in the presence of CO as OH scavenger) at ambient relevant conditions (low OA, low VOC and low NOx concentration). OH and ozone (O3) concentrations were measured so that the oxidation rates of OH and O3 with precursors were quantified. The particle formation and growth, aerosol yield, multi-generation reaction process and aerosol composition were analyzed. Pure ozonolysis generated a large amount of particles indicating ozonolysis plays an important role in particle formation as well as OH oxidation. In individual experiments, particle growth rates did not necessarily correlate with OH or O3 oxidation rates. However, comparing the growth rates at similar OH or O3 oxidation rates shows that generally, OH oxidation and ozonolysis have similar efficiency in particle growth. Multi-generation products are shown to be important in the OH oxidation experiment based on aerosol yield "growth curve" (Ng et al., 2006). The reaction process of OH oxidation experiments was analyzed as a function of OH dose to elucidate the role of functionalization and fragmentation. A novel analysis was developed to link the particle formation with the reaction with OH, which was also used to examine the role of functionalization and fragmentation in the particle formation by OH oxidation. These analyses show

  9. In situ secondary organic aerosol formation from ambient pine forest air using an oxidation flow reactor

    NASA Astrophysics Data System (ADS)

    Palm, Brett B.; Campuzano-Jost, Pedro; Ortega, Amber M.; Day, Douglas A.; Kaser, Lisa; Jud, Werner; Karl, Thomas; Hansel, Armin; Hunter, James F.; Cross, Eben S.; Kroll, Jesse H.; Peng, Zhe; Brune, William H.; Jimenez, Jose L.

    2016-03-01

    An oxidation flow reactor (OFR) is a vessel inside which the concentration of a chosen oxidant can be increased for the purpose of studying SOA formation and aging by that oxidant. During the BEACHON-RoMBAS (Bio-hydro-atmosphere interactions of Energy, Aerosols, Carbon, H2O, Organics & Nitrogen-Rocky Mountain Biogenic Aerosol Study) field campaign, ambient pine forest air was oxidized by OH radicals in an OFR to measure the amount of SOA that could be formed from the real mix of ambient SOA precursor gases, and how that amount changed with time as precursors changed. High OH concentrations and short residence times allowed for semicontinuous cycling through a large range of OH exposures ranging from hours to weeks of equivalent (eq.) atmospheric aging. A simple model is derived and used to account for the relative timescales of condensation of low-volatility organic compounds (LVOCs) onto particles; condensational loss to the walls; and further reaction to produce volatile, non-condensing fragmentation products. More SOA production was observed in the OFR at nighttime (average 3 µg m-3 when LVOC fate corrected) compared to daytime (average 0.9 µg m-3 when LVOC fate corrected), with maximum formation observed at 0.4-1.5 eq. days of photochemical aging. SOA formation followed a similar diurnal pattern to monoterpenes, sesquiterpenes, and toluene+p-cymene concentrations, including a substantial increase just after sunrise at 07:00 local time. Higher photochemical aging (> 10 eq. days) led to a decrease in new SOA formation and a loss of preexisting OA due to heterogeneous oxidation followed by fragmentation and volatilization. When comparing two different commonly used methods of OH production in OFRs (OFR185 and OFR254-70), similar amounts of SOA formation were observed. We recommend the OFR185 mode for future forest studies. Concurrent gas-phase measurements of air after OH oxidation illustrate the decay of primary VOCs, production of small oxidized organic

  10. In situ secondary organic aerosol formation from ambient pine forest air using an oxidation flow reactor

    DOE PAGESBeta

    Palm, Brett B.; Campuzano-Jost, Pedro; Ortega, Amber M.; Day, Douglas A.; Kaser, Lisa; Jud, Werner; Karl, Thomas; Hansel, Armin; Hunter, James F.; Cross, Eben S.; et al

    2016-03-08

    An oxidation flow reactor (OFR) is a vessel inside which the concentration of a chosen oxidant can be increased for the purpose of studying SOA formation and aging by that oxidant. During the BEACHON-RoMBAS (Bio-hydro-atmosphere interactions of Energy, Aerosols, Carbon, H2O, Organics & Nitrogen–Rocky Mountain Biogenic Aerosol Study) field campaign, ambient pine forest air was oxidized by OH radicals in an OFR to measure the amount of SOA that could be formed from the real mix of ambient SOA precursor gases, and how that amount changed with time as precursors changed. High OH concentrations and short residence times allowed formore » semicontinuous cycling through a large range of OH exposures ranging from hours to weeks of equivalent (eq.) atmospheric aging. A simple model is derived and used to account for the relative timescales of condensation of low-volatility organic compounds (LVOCs) onto particles; condensational loss to the walls; and further reaction to produce volatile, non-condensing fragmentation products. More SOA production was observed in the OFR at nighttime (average 3 µg m–3 when LVOC fate corrected) compared to daytime (average 0.9 µg m–3 when LVOC fate corrected), with maximum formation observed at 0.4–1.5 eq. days of photochemical aging. SOA formation followed a similar diurnal pattern to monoterpenes, sesquiterpenes, and toluene+p-cymene concentrations, including a substantial increase just after sunrise at 07:00 local time. Higher photochemical aging (>10 eq. days) led to a decrease in new SOA formation and a loss of preexisting OA due to heterogeneous oxidation followed by fragmentation and volatilization. When comparing two different commonly used methods of OH production in OFRs (OFR185 and OFR254-70), similar amounts of SOA formation were observed. We recommend the OFR185 mode for future forest studies. Concurrent gas-phase measurements of air after OH oxidation illustrate the decay of primary VOCs, production of small

  11. In situ secondary organic aerosol formation from ambient pine forest air using an oxidation flow reactor

    DOE PAGESBeta

    Palm, Brett B.; Campuzano-Jost, Pedro; Ortega, Amber M.; Day, Douglas A.; Kaser, Lisa; Jud, Werner; Karl, Thomas; Hansel, Armin; Hunter, James F.; Cross, Eben S.; et al

    2016-03-08

    An oxidation flow reactor (OFR) is a vessel inside which the concentration of a chosen oxidant can be increased for the purpose of studying SOA formation and aging by that oxidant. During the BEACHON-RoMBAS (Bio-hydro-atmosphere interactions of Energy, Aerosols, Carbon, H2O, Organics & Nitrogen–Rocky Mountain Biogenic Aerosol Study) field campaign, ambient pine forest air was oxidized by OH radicals in an OFR to measure the amount of SOA that could be formed from the real mix of ambient SOA precursor gases, and how that amount changed with time as precursors changed. High OH concentrations and short residence times allowed formore » semicontinuous cycling through a large range of OH exposures ranging from hours to weeks of equivalent (eq.) atmospheric aging. A simple model is derived and used to account for the relative timescales of condensation of low-volatility organic compounds (LVOCs) onto particles; condensational loss to the walls; and further reaction to produce volatile, non-condensing fragmentation products. More SOA production was observed in the OFR at nighttime (average 3 µg m−3 when LVOC fate corrected) compared to daytime (average 0.9 µg m−3 when LVOC fate corrected), with maximum formation observed at 0.4–1.5 eq. days of photochemical aging. SOA formation followed a similar diurnal pattern to monoterpenes, sesquiterpenes, and toluene+p-cymene concentrations, including a substantial increase just after sunrise at 07:00 local time. Higher photochemical aging (> 10 eq. days) led to a decrease in new SOA formation and a loss of preexisting OA due to heterogeneous oxidation followed by fragmentation and volatilization. When comparing two different commonly used methods of OH production in OFRs (OFR185 and OFR254-70), similar amounts of SOA formation were observed. We recommend the OFR185 mode for future forest studies. Concurrent gas-phase measurements of air after OH oxidation illustrate the decay of primary VOCs, production of

  12. In situ secondary organic aerosol formation from ambient pine forest air using an oxidation flow reactor

    SciTech Connect

    Palm, Brett B.; Campuzano-Jost, Pedro; Ortega, Amber M.; Day, Douglas A.; Kaser, Lisa; Jud, Werner; Karl, Thomas; Hansel, Armin; Hunter, James F.; Cross, Eben S.; Kroll, Jesse H.; Peng, Zhe; Brune, William H.; Jimenez, Jose L.

    2016-01-01

    An oxidation flow reactor (OFR) is a vessel inside which the concentration of a chosen oxidant can be increased for the purpose of studying SOA formation and aging by that oxidant. During the BEACHON-RoMBAS (Bio-hydro-atmosphere interactions of Energy, Aerosols, Carbon, H2O, Organics & Nitrogen–Rocky Mountain Biogenic Aerosol Study) field campaign, ambient pine forest air was oxidized by OH radicals in an OFR to measure the amount of SOA that could be formed from the real mix of ambient SOA precursor gases, and how that amount changed with time as precursors changed. High OH concentrations and short residence times allowed for semicontinuous cycling through a large range of OH exposures ranging from hours to weeks of equivalent (eq.) atmospheric aging. A simple model is derived and used to account for the relative timescales of condensation of low-volatility organic compounds (LVOCs) onto particles; condensational loss to the walls; and further reaction to produce volatile, non-condensing fragmentation products. More SOA production was observed in the OFR at nighttime (average 3 µg m−3 when LVOC fate corrected) compared to daytime (average 0.9 µg m−3 when LVOC fate corrected), with maximum formation observed at 0.4–1.5 eq. days of photochemical aging. SOA formation followed a similar diurnal pattern to monoterpenes, sesquiterpenes, and toluene+p-cymene concentrations, including a substantial increase just after sunrise at 07:00 local time. Higher photochemical aging (> 10 eq. days) led to a decrease in new SOA formation and a loss of preexisting OA due to heterogeneous oxidation followed by fragmentation and volatilization. When comparing two different commonly used methods of OH production in OFRs (OFR185 and OFR254-70), similar amounts of SOA formation were observed. We recommend the OFR185 mode for future forest studies. Concurrent gas-phase measurements of air after OH oxidation illustrate the

  13. Impact of Propene on Secondary Organic Aerosol Formation from m-Xylene

    SciTech Connect

    Song, Chen; Na, Kwangsam; Warren, Bethany; Malloy, Quentin; Cocker, David R.

    2007-10-15

    Propene is widely used in smog chamber experiments to increase the hydroxyl radical (OH) level based on the assumption that the formation of secondary organic aerosol (SOA) from parent hydrocarbon is unaffected. A series ofm-xylene/NOx photooxidation experiments were conducted in the presence of propene in the University of California CECERT atmospheric chamber facility. The experimental data are compared with previousm-xylene/NOx photooxidation work performed in the same chamber facility in the absence of propene (Song et al. Environ. Sci. Technol. 2005, 39, 3143-3149). The result shows that, for similar initial conditions, experiments with propene have lower reaction rates of m-xylene than those without propene, which indicates that propene reduces OH in the system. Furthermore, experiments with propene showed more than 15% reduction in SOA yield compared to experiments in the absence of propene. Additional experiments ofm-xylene/NOx with CO showed similar trends of suppressing OH and SOA formation. These results indicate that SOA from m-xylene/NOx photooxidation is strongly dependent on the OH level present, which provides evidence for the critical role of OH in SOA formation from aromatic hydrocarbons.

  14. Impacts of Sulfate Seed Acidity and Water Content on Isoprene Secondary Organic Aerosol Formation.

    PubMed

    Wong, Jenny P S; Lee, Alex K Y; Abbatt, Jonathan P D

    2015-11-17

    The effects of particle-phase water and the acidity of pre-existing sulfate seed particles on the formation of isoprene secondary organic aerosol (SOA) was investigated. SOA was generated from the photo-oxidation of isoprene in a flow tube reactor at 70% relative humidity (RH) and room temperature in the presence of three different sulfate seeds (effloresced and deliquesced ammonium sulfate and ammonium bisulfate) under low NOx conditions. High OH exposure conditions lead to little isoprene epoxydiol (IEPOX) SOA being generated. The primary result is that particle-phase water had the largest effect on the amount of SOA formed, with 60% more SOA formation occurring with deliquesced ammonium sulfate seeds as compared to that on effloresced ones. The additional organic material was highly oxidized. Although the amount of SOA formed did not exhibit a dependence on the range of seed particle acidity examined, perhaps because of the low amount of IEPOX SOA, the levels of high-molecular-weight material increased with acidity. While the uptake of organics was partially reversible under drying, the results nevertheless indicate that particle-phase water enhanced the amount of organic aerosol material formed and that the RH cycling of sulfate particles may mediate the extent of isoprene SOA formation in the atmosphere. PMID:26460477

  15. Direct evidence of atmospheric secondary organic aerosol formation in forest atmosphere through heteromolecular nucleation.

    PubMed

    Kavouras, Ilias G; Stephanou, Euripides G

    2002-12-01

    Atmospheric aerosols play a central role in climate and atmospheric chemistry. Organic matter frequently composes aerosol major fraction over continental areas. Reactions of natural volatile organic compounds, with atmospheric oxidants, are a key formation pathway of fine particles. The gas and particle atmospheric concentration of organic compounds directly emitted from conifer leaf epicuticular wax and of those formed through the photooxidation of alpha- and beta-pinene were simultaneously collected and measured in a conifer forest by using elaborated sampling and GC/ MS techniques. The saturation concentrations of acidic and carbonyl photooxidation products were estimated, by taking into consideration primary gas- and particle-phase organic species. Primary organic aerosol components represented an important fraction of the atmospheric gas-phase organic content Consequently, saturation concentrations of photooxidation products have been lowered facilitating new particle formation between molecules of photooxidation products and semi-volatile organic compounds. From the measured concentrations of the above-mentioned compounds, saturation concentrations (Csat,i) of alpha- and beta-pinene photooxidation products were calculated for nonideal conditions using a previously developed absorptive model. The results of these calculations indicated that primarily emitted organic species and ambient temperature play a crucial role in secondary organic aerosol formation. PMID:12523424

  16. Secondary aerosol formation from the oxidation of biogenic hydrocarbons by chlorine atoms

    NASA Astrophysics Data System (ADS)

    Cai, Xuyi; Griffin, Robert J.

    2006-07-01

    The chlorine atom (Cl) is a potential oxidant of volatile organic compounds (VOCs) in the atmosphere and is hypothesized to lead to secondary organic aerosol (SOA) formation in coastal and industrialized areas. The purpose of this paper is to test this hypothesis and to quantify the SOA formation potentials of the common monoterpenes α-pinene, β-pinene, and d-limonene when oxidized by Cl in laboratory chamber experiments. Results indicate that the oxidation of these monoterpenes generates significant amounts of aerosol. The SOA yields of α-pinene, β-pinene, and d-limonene in this study are comparable to those when they are oxidized by ozone, by nitrate radical, and in photooxidation scenarios. For aerosol mass up to 30.0 μg m-3, their yields reach approximately 0.20, 0.20, and 0.30, respectively. For d-limonene, data indicate two yield curves that depend on the initial concentration ratio of Cl precursor to d-limonene. It is argued theoretically that multiple SOA yield curves may be common for VOCs, depending on the initial concentration ratio of oxidant to VOC. SOA formation from the three typical monoterpenes when oxidized by Cl in the marine boundary layer, coastal areas, and inland industrialized areas could be a source of organic aerosol in the early morning.

  17. Impact of NOx on secondary organic aerosol (SOA) formation from β-pinene photooxidation

    NASA Astrophysics Data System (ADS)

    Sarrafzadeh, Mehrnaz; Pullinen, Iida; Springer, Monika; Kleist, Einhard; Tillmann, Ralf; Mentel, Thomas F.; Kiendler-Scharr, Astrid; Hastie, Donald R.; Wildt, Jürgen

    2016-04-01

    Secondary organic aerosols (SOA) generated from atmospheric oxidation of volatile organics contributes substantially to the global aerosol load. It has been shown that odd nitrogen (NOx) has a significant influence on the formation of this SOA. In this study, we investigated SOA formation from β-pinene photooxidation in the Jülich Plant Atmosphere Chamber (JPAC) under varying NOx conditions. At higher-NOx levels, the SOA yield was significantly suppressed by increasing the NOx concentration. However at lower-NOx levels the opposite trend, an increase in SOA with increasing NOx concentration, was observed. This increase was likely due to the increased OH concentration in the stirred flow reactor. By holding the OH concentration constant for all experiments we removed the potential effect of OH concentration on SOA mass growth. In this case increasing the NOx concentration only decreased the SOA yield. In addition, the impact of NOx on SOA formation was explored in the presence of ammonium sulfate seed aerosols. This suggested that SOA yield was only slightly suppressed under increasing NOx concentrations when seed aerosol was present.

  18. Formation and evolution of molecular products in α-pinene secondary organic aerosol.

    PubMed

    Zhang, Xuan; McVay, Renee C; Huang, Dan D; Dalleska, Nathan F; Aumont, Bernard; Flagan, Richard C; Seinfeld, John H

    2015-11-17

    Much of our understanding of atmospheric secondary organic aerosol (SOA) formation from volatile organic compounds derives from laboratory chamber measurements, including mass yield and elemental composition. These measurements alone are insufficient to identify the chemical mechanisms of SOA production. We present here a comprehensive dataset on the molecular identity, abundance, and kinetics of α-pinene SOA, a canonical system that has received much attention owing to its importance as an organic aerosol source in the pristine atmosphere. Identified organic species account for ∼58-72% of the α-pinene SOA mass, and are characterized as semivolatile/low-volatility monomers and extremely low volatility dimers, which exhibit comparable oxidation states yet different functionalities. Features of the α-pinene SOA formation process are revealed for the first time, to our knowledge, from the dynamics of individual particle-phase components. Although monomeric products dominate the overall aerosol mass, rapid production of dimers plays a key role in initiating particle growth. Continuous production of monomers is observed after the parent α-pinene is consumed, which cannot be explained solely by gas-phase photochemical production. Additionally, distinct responses of monomers and dimers to α-pinene oxidation by ozone vs. hydroxyl radicals, temperature, and relative humidity are observed. Gas-phase radical combination reactions together with condensed phase rearrangement of labile molecules potentially explain the newly characterized SOA features, thereby opening up further avenues for understanding formation and evolution mechanisms of α-pinene SOA. PMID:26578760

  19. Laboratory studies on secondary organic aerosol formation from crude oil vapors.

    PubMed

    Li, R; Palm, B B; Borbon, A; Graus, M; Warneke, C; Ortega, A M; Day, D A; Brune, W H; Jimenez, J L; de Gouw, J A

    2013-01-01

    Airborne measurements of aerosol composition and gas phase compounds over the Deepwater Horizon (DWH) oil spill in the Gulf of Mexico in June 2010 indicated the presence of high concentrations of secondary organic aerosol (SOA) formed from organic compounds of intermediate volatility. In this work, we investigated SOA formation from South Louisiana crude oil vapors reacting with OH in a Potential Aerosol Mass flow reactor. We use the dependence of evaporation time on the saturation concentration (C*) of the SOA precursors to separate the contribution of species of different C* to total SOA formation. This study shows consistent results with those at the DWH oil spill: (1) organic compounds of intermediate volatility with C* = 10(5)-10(6) μg m(-3) contribute the large majority of SOA mass formed, and have much larger SOA yields (0.37 for C* = 10(5) and 0.21 for C* = 10(6) μg m(-3)) than more volatile compounds with C*≥10(7) μg m(-3), (2) the mass spectral signature of SOA formed from oxidation of the less volatile compounds in the reactor shows good agreement with that of SOA formed at DWH oil spill. These results also support the use of flow reactors simulating atmospheric SOA formation and aging. PMID:24088179

  20. Formation of secondary structures in heat-resistant steels under sliding friction

    NASA Astrophysics Data System (ADS)

    Lad'yanov, V. I.; Goncharov, O. Yu.; Malenko, P. I.; Nikonova, R. M.; Gilmutdinov, F. Z.; Mokrushina, M. I.; Tereshkina, S. A.; Leonov, A. Yu.; Relmasira, K. J.

    2015-12-01

    The formation of secondary structures in nicotrated layers on surfaces of complex-alloy heatresistant 25Kh3M3NBTsA and 30KhN2MFA structural steels under the effect of sliding friction with resource lubrication has been studied using metallography, X-ray diffraction, X-ray photoelectron spectroscopy, and thermodynamic modeling. It has been found that, under friction, the nicotrated layer on the steels oxidizes to produce iron oxides, which is substantially less pronounced for 25Kh3M3NBTsA steel than for 30KhN2MFA steel. It has been shown using thermodynamic modeling that, under equilibrium conditions, the heating of both steels to a temperature of ~300°C leads to the formation of an internal-oxidation layer, which consists of FeO with MoO2, Cr2O3, and carbon impurities, a Fe3O4 interlayer with MoO2 and Cr2O3 impurities, and a top layer of Fe2O3 with Cr2O3 impurity. The heating of steels to a temperature of ~700°C leads to the formation of an internal-oxidation layer, which consists of FeO with MoO2 and carbon impurities, a Fe3O4 interlayer with MoO2 impurity, and a top layer of Cr2O3 with Fe2MnO4 and SiO2 impurities.

  1. Substantial secondary organic aerosol formation in a coniferous forest: observations of both day- and nighttime chemistry

    NASA Astrophysics Data System (ADS)

    Lee, Alex K. Y.; Abbatt, Jonathan P. D.; Leaitch, W. Richard; Li, Shao-Meng; Sjostedt, Steve J.; Wentzell, Jeremy J. B.; Liggio, John; Macdonald, Anne Marie

    2016-06-01

    Substantial biogenic secondary organic aerosol (BSOA) formation was investigated in a coniferous forest mountain region in Whistler, British Columbia. A largely biogenic aerosol growth episode was observed, providing a unique opportunity to investigate BSOA formation chemistry in a forested environment with limited influence from anthropogenic emissions. Positive matrix factorization of aerosol mass spectrometry (AMS) measurement identified two types of BSOA (BSOA-1 and BSOA-2), which were primarily generated by gas-phase oxidation of monoterpenes and perhaps sesquiterpenes. The temporal variations of BSOA-1 and BSOA-2 can be explained by gas-particle partitioning in response to ambient temperature and the relative importance of different oxidation mechanisms between day and night. While BSOA-1 arises from gas-phase ozonolysis and nitrate radical chemistry at night, BSOA-2 is likely less volatile than BSOA-1 and consists of products formed via gas-phase oxidation by OH radical and ozone during the day. Organic nitrates produced through nitrate radical chemistry can account for 22-33 % of BSOA-1 mass at night. The mass spectra of BSOA-1 and BSOA-2 have higher values of the mass fraction of m/z 91 (f91) compared to the background organic aerosol. Using f91 to evaluate BSOA formation pathways in this unpolluted, forested region, heterogeneous oxidation of BSOA-1 is a minor production pathway of BSOA-2.

  2. Secondary organic aerosols - formation and ageing studies in the SAPHIR chamber

    NASA Astrophysics Data System (ADS)

    Spindler, Christian; Müller, Lars; Trimborn, Achim; Mentel, Thomas; Hoffmann, Thorsten

    2010-05-01

    Secondary organic aerosol (SOA) formation from oxidation products of biogenic volatile organic compounds (BVOC) constitutes an important coupling between vegetation, atmospheric chemistry, and climate change. Such secondary organic aerosol components play an important role in particle formation in Boreal regions ((Laaksonen et al., 2008)), where biogenic secondary organic aerosols contribute to an overall negative radiative forcing, thus a negative feed back between vegetation and climate warming (Spracklen et al., 2008). Within the EUCAARI project we investigated SOA formation from mixtures of monoterpenes (and sesquiterpenes) as emitted typically from Boreal tree species in Southern Finland. The experiments were performed in the large photochemical reactor SAPHIR in Juelich at natural light and oxidant levels. Oxidation of the BVOC mixtures and SOA formation was induced by OH radicals and O3. The SOA was formed on the first day and then aged for another day. The resulting SOA was characterized by HR-ToF-AMS, APCI-MS, and filter samples with subsequent H-NMR, GC-MS and HPLC-MS analysis. The chemical evolution of the SOA is characterized by a fast increase of the O/C ratio during the formation process on the first day, stable O/C ratio during night, and a distinctive increase of O/C ratio at the second day. The increase of the O/C ratio on the second day is highly correlated to the OH dose and is accompanied by condensational growth of the particles. We will present simultaneous factor analysis of AMS times series (PMF, Ulbrich et al., 2009 ) and direct measurements of individual chemical species. We found that four factors were needed to represent the time evolution of the SOA composition (in the mass spectra) if oxidation by OH plays a mayor role. Corresponding to these factors we observed individual, representative molecules with very similar time behaviour. The correlation between tracers and AMS factors is astonishingly good as the molecular tracers

  3. Formation of secondary organic aerosol in the Paris pollution plume and its impact on surrounding regions

    NASA Astrophysics Data System (ADS)

    Zhang, Q. J.; Beekmann, M.; Freney, E.; Sellegri, K.; Pichon, J. M.; Schwarzenboeck, A.; Colomb, A.; Bourrianne, T.; Michoud, V.; Borbon, A.

    2015-12-01

    Secondary pollutants such as ozone, secondary inorganic aerosol, and secondary organic aerosol formed in the plumes of megacities can affect regional air quality. In the framework of the FP7/EU MEGAPOLI (Megacities: Emissions, urban, regional and Global Atmospheric POLlution and climate effects, and Integrated tools for assessment and mitigation) project, an intensive campaign was launched in the greater Paris region in July 2009. The major objective was to quantify different sources of organic aerosol (OA) within a megacity and in its plume. In this study, we use airborne measurements aboard the French ATR-42 aircraft to evaluate the regional chemistry-transport model CHIMERE within and downwind of the Paris region. Two mechanisms of secondary OA (SOA) formation are used, both including SOA formation from oxidation and chemical aging of primary semivolatile and intermediate volatility organic compounds (SI-SOA) in the volatility basis set (VBS) framework. As for SOA formed from traditional VOC (volatile organic compound) precursors (traditional SOA), one applies chemical aging in the VBS framework adopting different SOA yields for high- and low-NOx environments, while another applies a single-step oxidation scheme without chemical aging. Two emission inventories are used for discussion of emission uncertainties. The slopes of the airborne OA levels versus Ox (i.e., O3 + NO2) show SOA formation normalized with respect to photochemical activity and are used for specific evaluation of the OA scheme in the model. The simulated slopes were overestimated slightly by factors of 1.1, 1.7 and 1.3 with respect to those observed for the three airborne measurements, when the most realistic "high-NOx" yields for traditional SOA formation in the VBS scheme are used in the model. In addition, these slopes are relatively stable from one day to another, which suggests that they are characteristic for the given megacity plume environment. The configuration with increased primary

  4. Formation of secondary minerals in a lysimeter approach - A mineral-microbe interaction

    NASA Astrophysics Data System (ADS)

    Schäffner, F.; Merten, D.; De Giudici, G.; Beyer, A.; Akob, D. M.; Ricci, P. C.; Küsel, K.; Büchel, G.

    2012-04-01

    Heavy metal contamination of large areas due to uranium mining operations poses a serious long-term environmental problem. In the Ronneburg district (eastern Thuringia, Germany), leaching of low grade uranium bearing ores (uranium content < 300 g/t) occurred from 1972 to 1990 using acid mine drainage (AMD; pH 2.7-2.8) and diluted sulphuric acid (10 g/l). Secondary mineral phases like birnessite, todorokite and goethite occur within a natural attenuation process associated with enrichment of heavy metals, especially Cd, Ni, Co, Cu and Zn due to a residual contamination even after remediation efforts. To reveal the processes of secondary mineral precipitation in the field a laboratory lysimeter approach was set up under in situ-like conditions. Homogenized soil from the field site and pure quartz sand were used as substrates. In general, in situ measurements of redox potentials in the substrates showed highly oxidizing conditions (200-750 mV). Water was supplied to the lysimeter from below via a mariottés bottle containing contaminated groundwater from the field. Evaporation processes were allowed, providing a continuous flow of water. This led to precipitation of epsomite and probably aplowite on the top layer of substrate, similar to what is observed in field investigations. After 4 weeks, the first iron and manganese bearing secondary minerals became visible. Soil water samples were used to monitor the behaviour of metals within the lysimeter. Saturation indices (SI) for different secondary minerals were calculated with PHREEQC. The SI of goethite showed oversaturation with respect to the soil solution. SEM-EDX analyses and IR spectroscopy confirmed the formation of goethite. Geochemical data revealed that goethite formation was mainly dominated by Eh/pH processes and that heavy metals, e.g. Zn and U, could be enriched in this phase. Although Eh/pH data does not support formation of manganese minerals, Mn(II)-oxidizing bacteria (MOB) could be isolated from field

  5. Evidence of aqueous secondary organic aerosol formation from biogenic emissions in the North American Sonoran Desert

    PubMed Central

    Youn, Jong-Sang; Wang, Zhen; Wonaschütz, Anna; Arellano, Avelino; Betterton, Eric A.; Sorooshian, Armin

    2013-01-01

    This study examines the role of aqueous secondary organic aerosol formation in the North American Sonoran Desert as a result of intense solar radiation, enhanced moisture, and biogenic volatile organic compounds (BVOCs). The ratio of water-soluble organic carbon (WSOC) to organic carbon (OC) nearly doubles during the monsoon season relative to other seasons of the year. When normalized by mixing height, the WSOC enhancement during monsoon months relative to preceding dry months (May–June) exceeds that of sulfate by nearly a factor of 10. WSOC:OC and WSOC are most strongly correlated with moisture parameters, temperature, and concentrations of O3 and BVOCs. No positive relationship was identified between WSOC or WSOC:OC and anthropogenic tracers such as CO over a full year. This study points at the need for further work to understand the effect of BVOCs and moisture in altering aerosol properties in understudied desert regions. PMID:24115805

  6. Secondary Organic Aerosol (SOA) formation from hydroxyl radical oxidation and ozonolysis of monoterpenes

    NASA Astrophysics Data System (ADS)

    Zhao, D. F.; Kaminski, M.; Schlag, P.; Fuchs, H.; Acir, I.-H.; Bohn, B.; Häseler, R.; Kiendler-Scharr, A.; Rohrer, F.; Tillmann, R.; Wang, M. J.; Wegener, R.; Wildt, J.; Wahner, A.; Mentel, T. F.

    2014-05-01

    Oxidation by hydroxyl radical (OH) and ozonolysis are the two major pathways of daytime biogenic volatile organic compounds (VOCs) oxidation and secondary organic aerosol (SOA) formation. In this study, we investigated the particle formation of several common monoterpenes (α-pinene, β-pinene, and limonene) by OH dominated oxidation, which has seldom been investigated. OH oxidation experiments were carried out in the SAPHIR chamber in Jülich, Germany, at low NOx (0.01-1 ppbV) and low ozone (O3) concentration. OH concentration and OH reactivity were measured directly so that the overall reaction rates of organic compounds with OH were quantified. Multi-generation reaction process, particle growth, new particle formation, particle yield, and chemical composition were analyzed and compared with that of monoterpene ozonolysis. Multi-generation products were found to be important in OH dominated SOA formation. The relative role of functionalization and fragmentation in the reaction process of OH oxidation was analyzed by examining the particle mass and the particle size as a function of OH dose. We developed a novel method which quantitatively links particle growth to the reaction of OH with organics in a reaction system. This method was also used to analyze the evolution of functionalization and fragmentation of organics in the particle formation by OH oxidation. It shows that functionalization of organics was dominant in the beginning of the reaction (within two lifetimes of the monoterpene) and fragmentation started to be dominant after that. We compared particle formation from OH oxidation with that from pure ozonolysis. In individual experiments, growth rates of the particle size did not necessarily correlate with the reaction rate of monoterpene with OH and O3. Comparing the size growth rates at the similar reaction rates of monoterpene with OH or O3 indicates that generally, OH oxidation and ozonolysis had similar efficiency in particle growth. The SOA yield of

  7. Secondary organic aerosol formation from hydroxyl radical oxidation and ozonolysis of monoterpenes

    NASA Astrophysics Data System (ADS)

    Zhao, D. F.; Kaminski, M.; Schlag, P.; Fuchs, H.; Acir, I.-H.; Bohn, B.; Häseler, R.; Kiendler-Scharr, A.; Rohrer, F.; Tillmann, R.; Wang, M. J.; Wegener, R.; Wildt, J.; Wahner, A.; Mentel, Th. F.

    2015-01-01

    Oxidation by hydroxyl radical (OH) and ozonolysis are the two major pathways of daytime biogenic volatile organic compound (BVOC) oxidation and secondary organic aerosol (SOA) formation. In this study, we investigated the particle formation of several common monoterpenes (α-pinene, β-pinene and limonene) by OH-dominated oxidation, which has seldom been investigated. OH oxidation experiments were carried out in the SAPHIR (Simulation of Atmospheric PHotochemistry In a large Reaction) chamber in Jülich, Germany, at low NOx (0.01 ~ 1 ppbV) and low ozone (O3) concentration (< 20 ppbV). OH concentration and total OH reactivity (kOH) were measured directly, and through this the overall reaction rate of total organics with OH in each reaction system was quantified. Multi-generation reaction process, particle growth, new particle formation (NPF), particle yield and chemical composition were analyzed and compared with that of monoterpene ozonolysis. Multi-generation products were found to be important in OH-dominated SOA formation. The relative role of functionalization and fragmentation in the reaction process of OH oxidation was analyzed by examining the particle mass and the particle size as a function of OH dose. We developed a novel method which quantitatively links particle growth to the reaction rate of OH with total organics in a reaction system. This method was also used to analyze the evolution of functionalization and fragmentation of organics in the particle formation by OH oxidation. It shows that functionalization of organics was dominant in the beginning of the reaction (within two lifetimes of the monoterpene) and fragmentation started to play an important role after that. We compared particle formation from OH oxidation with that from pure ozonolysis. In individual experiments, growth rates of the particle size did not necessarily correlate with the reaction rate of monoterpene with OH and O3. Comparing the size growth rates at the similar reaction rates

  8. The Role of Dicentric Chromosome Formation and Secondary Centromere Deletion in the Evolution of Myeloid Malignancy

    PubMed Central

    MacKinnon, Ruth N.; Campbell, Lynda J.

    2011-01-01

    Dicentric chromosomes have been identified as instigators of the genome instability associated with cancer, but this instability is often resolved by one of a number of different secondary events. These include centromere inactivation, inversion, and intercentromeric deletion. Deletion or excision of one of the centromeres may be a significant occurrence in myeloid malignancy and other malignancies but has not previously been widely recognized, and our reports are the first describing centromere deletion in cancer cells. We review what is known about dicentric chromosomes and the mechanisms by which they can undergo stabilization in both constitutional and cancer genomes. The failure to identify centromere deletion in cancer cells until recently can be partly explained by the standard approaches to routine diagnostic cancer genome analysis, which do not identify centromeres in the context of chromosome organization. This hitherto hidden group of primary dicentric, secondary monocentric chromosomes, together with other unrecognized dicentric chromosomes, points to a greater role for dicentric chromosomes in cancer initiation and progression than is generally acknowledged. We present a model that predicts and explains a significant role for dicentric chromosomes in the formation of unbalanced translocations in malignancy. PMID:22567363

  9. Formation of Secondary Lherzolite and Refertilization of the Subcontinental Lithospheric Mantle: The Record of Orogenic Peridotites

    NASA Astrophysics Data System (ADS)

    Garrido, Carlos J.; Varas-Reus, María Isabel; Bodinier, Jean-Louis; Marchesi, Claudio; Bosch, Delphine; Hidas, Károly

    2016-04-01

    Correlations observed between major and minor transition elements in tectonically-emplaced orogenic peridotites have classically been ascribed to variable degrees of melt extraction. There is a growing body of evidence indicating that these chemical variations mostly reflect melt redistribution and near solidus reactions superimposed onto previous melting depletion events. Here we will assess this hypothesis using a large database of peridotites from orogenic peridotites in the westernmost Mediterranean (Ronda and Beni Bousera peridotites). We show that lherzolite samples show some trends in major elements and modal variations that are inconsistent with their interpretation as depleted MORB mantle (DMM). These trends are more consistent with the secondary formation of lherzolites by refertilization processes involving a least two different near-solidus, melt-processes: refertilization by pyroxenite-derived melts and by hydrous melts leading, respectively, to secondary lherzolites with Ol/Opx and Cpx/Opx ratios greater than those expected from residues from a primitive upper mantle source. Together with their N-MORB, LREE-depleted pattern, their fertile lherzolitic composition may have been acquired as a result of melt-rock interaction processes associated with the thermomechanical erosion of lithospheric mantle by asthenosphere. Major refertilization of depleted subcontinental mantle is an alternative to the small degrees of melt extraction to account for LREE depletion in otherwise fertile orogenic lherzolites.

  10. Formation and aging of secondary organic aerosol from toluene: changes in chemical composition, volatility, and hygroscopicity

    DOE PAGESBeta

    Hildebrandt Ruiz, L.; Paciga, A. L.; Cerully, K. M.; Nenes, A.; Donahue, N. M.; Pandis, S. N.

    2015-07-24

    Secondary organic aerosol (SOA) is transformed after its initial formation, but this chemical aging of SOA is poorly understood. Experiments were conducted in the Carnegie Mellon environmental chamber to form secondary organic aerosol (SOA) from the photo-oxidation of toluene and other small aromatic volatile organic compounds (VOCs) in the presence of NOx under different oxidizing conditions. The effects of the oxidizing condition on organic aerosol (OA) composition, mass yield, volatility, and hygroscopicity were explored. Higher exposure to the hydroxyl radical resulted in different OA composition, average carbon oxidation state (OSc), and mass yield. The OA oxidation state generally increased duringmore » photo-oxidation, and the final OA OSc ranged from -0.29 to 0.16 in the performed experiments. The volatility of OA formed in these different experiments varied by as much as a factor of 30, demonstrating that the OA formed under different oxidizing conditions can have a significantly different saturation concentration. There was no clear correlation between hygroscopicity and oxidation state for this relatively hygroscopic SOA.« less

  11. Significant formation of water-insoluble secondary organic aerosols in semi-arid urban environment

    NASA Astrophysics Data System (ADS)

    Favez, Olivier; Sciare, Jean; Cachier, Hélène; Alfaro, Stéphane C.; Abdelwahab, Magdy M.

    2008-08-01

    Diurnal variations of submicron elemental carbon (EC), water-soluble organic carbon (WSOC) and water-insoluble organic carbon (WIOC) were investigated at an urban background site in Cairo (Egypt) from 23 March to 14 April 2005. Well-marked diurnal patterns, with minima during the traffic-influenced morning period (6:00-9:00) and maxima during the intense photochemical period (12:00-15:00), were observed for the WSOC/EC ratio and, more surprisingly, for the WIOC/EC ratio. Such diurnal variations suggest significant formation of both water-soluble and water-insoluble secondary organic aerosols during the afternoon. Applying the EC-tracer method, freshly-formed secondary organic carbon (fresh SOC) was found to possibly account for more than 50% of OC concentrations measured during the 12:00-15:00 period, and this fresh SOC was calculated to be mainly (~60%) composed of water-insoluble species. The latter (unexpected) result could be due to low ambient relative humidity as well as to the importance of anthropogenic volatile organic compounds in Cairo.

  12. Role of pH controlled DNA secondary structures in the reversible dispersion/precipitation and separation of metallic and semiconducting single-walled carbon nanotubes.

    PubMed

    Maji, Basudeb; Samanta, Suman K; Bhattacharya, Santanu

    2014-04-01

    Single-stranded DNA (ss-DNA) oligomers (dA20, d[(C3TA2)3C3] or dT20) are able to disperse single-walled carbon nanotubes (SWNTs) in water at pH 7 through non-covalent wrapping on the nanotube surface. At lower pH, an alteration of the DNA secondary structure leads to precipitation of the SWNTs from the dispersion. The structural change of dA20 takes place from the single-stranded to the A-motif form at pH 3.5 while in case of d[(C3TA2)3C3] the change occurs from the single-stranded to the i-motif form at pH 5. Due to this structural change, the DNA is no longer able to bind the nanotube and hence the SWNT precipitates from its well-dispersed state. However, this could be reversed on restoring the pH to 7, where the DNA again relaxes in the single-stranded form. In this way the dispersion and precipitation process could be repeated over and over again. Variable temperature UV-Vis-NIR and CD spectroscopy studies showed that the DNA-SWNT complexes were thermally stable even at ∼90 °C at pH 7. Broadband NIR laser (1064 nm) irradiation also demonstrated the stability of the DNA-SWNT complex against local heating introduced through excitation of the carbon nanotubes. Electrophoretic mobility shift assay confirmed the formation of a stable DNA-SWNT complex at pH 7 and also the generation of DNA secondary structures (A/i-motif) upon acidification. The interactions of ss-DNA with SWNTs cause debundling of the nanotubes from its assembly. Selective affinity of the semiconducting SWNTs towards DNA than the metallic ones enables separation of the two as evident from spectroscopic as well as electrical conductivity studies. PMID:24569668

  13. Ozonolysis of a series of biogenic organic volatile compounds and secondary organic aerosol formation

    NASA Astrophysics Data System (ADS)

    Bernard, François; Quilgars, Alain; Cazaunau, Mathieu; Grosselin, Benoît.; Daele, Véronique; Mellouki, Abdelwahid; Winterhalter, Richard; Moortgat, Geert K.

    2010-05-01

    Secondary organic aerosols are formed via nucleation of atmospheric organic vapours on pre-existing particles observed in various rural environments where the organic fraction represents the major part of the observed nano-particle (Kavouras and Stephanou, 2002; Kulmala et al., 2004a). However, nucleation of organic vapors appears to be unlikely thermodynamically in relevant atmospheric conditions (Kulmala et al., 2004b). In this work, a systematic study has been conducted to investigate the aerosol formation through the ozonolysis of a series of monotepenes using a newly developed aerosol flow reactor and the ICARE indoor simulation chamber. The nucleation thresholds have been determined for SOA formed through the reaction of ozone with a-Pinene, sabinene, myrcene and limonene in absence of any observable existing particles. The measurements were performed using the flow reactor combined to a particle counter (CPC 3022). Number concentrations of SOA have been measured for different concentration of consumed monoterpenes. The data obtained allow us to estimate the nucleation threshold for a range of 0.2 - 45 ppb of consumed monoterpenes. The nucleation threshold values obtained here (≤ 1 ppb of the consumed monoterpenes) have been found to be lower than the previously reported ones (Berndt et al., 2003; Bonn and Moortgat, 2003; Koch et al., 2000; Lee and Kamens, 2005). The ICARE simulation chamber has been used to study the mechanism of the reaction of ozone with various acyclic terpenes (myrcene, ocimene, linalool and a-farnesene) and to derive the SOA mass formation yield. The time-concentration profiles of reactants and products in gas-phase were obtained using in-situ Fourier Transform Infrared Spectroscopy. In addition, the number and mass concentrations of SOA have been monitored with a Scanning Mobility Particle Sizer. The chemical composition of the SOA formed has been tentatively characterised using Liquid Chromatography - Mass Spectrometry. The results

  14. Secondary Organic Aerosol Formation by Reactive Condensation of Glyoxal and Water Vapor

    NASA Astrophysics Data System (ADS)

    Hastings, W. P.; Koehler, C. A.; de Haan, D. O.

    2004-05-01

    The formation of secondary organic aerosol particles by particle-phase reactions is currently of great interest. Glyoxal has been identified as a significant component in the particle phase in recent smog chamber aromatic oxidation studies. This is surprising because glyoxal has a high vapor pressure and phase partitioning theory would predict that it remain almost entirely in the gas phase. Growth of inorganic seed aerosol in a particle chamber was monitored by scanning mobility particle sizing during addition of gas-phase glyoxal and small amounts of water vapor. Glyoxal was observed to condense on inorganic seed aerosol at concentrations that are at least 100 times below its vapor pressure. This behavior can be explained by a chemical reaction: glyoxal is known to polymerize when exposed to water vapor. This polymerization may be a general mechanism for secondary aerosol formation by alpha-dicarbonyl compounds. The reactivity of hydrated and polymerized forms of glyoxal during analysis by gas chromatography was assessed. Hydrated glyoxal was found to convert to glyoxal at even slightly elevated temperatures in GC injection ports. We then showed that breakdown of solid-phase glyoxal trimer dihydrate, forming gas phase glyoxal and water vapor, occurs at temperatures just above 50 *C, the boiling point of glyoxal. These observations suggest that reports of particle-phase glyoxal are likely caused by GC sampling artifacts, and that the actual particulate species are instead polymerized forms of glyoxal. It does not appear that chemical derivatization protects glyoxal polymers from thermal breakdown during GC analysis. The existence in the particle phase of glyoxal polymers with negligable vapor pressures, rather than volatile glyoxal, is consistent with phase partitioning theory.

  15. Oligomerization as a potential mechanism for Secondary Organic Aerosol (SOA) formation in clouds

    NASA Astrophysics Data System (ADS)

    Yasmeen, F.; Sauret, N.; Claeys, M.; Maria, P. C.; Massi, L.

    2009-04-01

    Electrospray ionization - mass spectrometry (ESI-MS) has been used to investigate oligomer formation in dark chamber experiments designed to study the polymerization conditions of common atmospheric photooxidation products without photochemical action. Methylglyoxal has been selected as the monomer considering, it is a gas-phase product from the atmospheric oxidation of isoprene and terpenes (biogenic sources) as well as of aromatic compounds (anthropogenic sources). Aqueous-phase oligomer formation of methylglyoxal has been investigated in a simulated cloud matrix, under dark conditions in view of its short life time (~1.6 hrs). A mechanistic pathway for the growth of oligomers via aldol condensation under cloud conditions and in the absence of UV-light and the OH radical is proposed here for the first time. Soluble oligomers (n=1-12) formed in the course of acid-catalyzed aldol condensation have been detected and identified by positive and negative ion ESI-MS, while their relative abundance is estimated from the full-scan mass spectra. In particular, oligomer abundances and their adduct formation was considered with special emphasis on the structural elucidation of these oligomers and their corresponding adduct products. The oligomer series starts with a β-hydroxy ketone via aldol condensation and oligomers are formed by multiple addition of C3H4O2 units (72 Da) to the parent β-hydroxy ketone. MS2 ion trap experiments have been performed to structurally characterize the oligomers. Oligomers could form under conditions encountered in clouds even at micromolar concentrations and thus could significantly result in secondary organic aerosol (SOA) after cloud droplet evaporation. Therefore, it is proposed that oligomer formation does not only occur during droplet evaporation when the concentrations of products increase but could as well be an in-cloud process and substantially enhance in-cloud SOA yields.

  16. Formation of hydroxyl radicals from photolysis of secondary organic aerosol material

    NASA Astrophysics Data System (ADS)

    Badali, K. M.; Zhou, S.; Aljawhary, D.; Antiñolo, M.; Chen, W. J.; Lok, A.; Mungall, E.; Wong, J. P. S.; Zhao, R.; Abbatt, J. P. D.

    2015-02-01

    This paper demonstrates that OH radicals are formed by photolysis of secondary organic aerosol (SOA) material formed by terpene ozonolysis. The SOA aerosol is collected on filters, dissolved in water containing a radical trap (benzoic acid), and then exposed to ultraviolet light in a photochemical reactor. The OH formation rates, which are similar for both α-pinene and limonene SOA, are measured from the formation rate of p-hydroxybenzoic acid as measured using offline HPLC analysis. To evaluate whether the OH is formed by photolysis of H2O2 or organic hydroperoxides (ROOH), the peroxide content of the SOA was measured using the horseradish peroxidase-dichlorofluorescein (HRP-DCF) assay, which was calibrated using H2O2. The OH formation rates from SOA are five times faster than from the photolysis of H2O2 solutions whose concentrations correspond to the peroxide content of the SOA solutions assuming that the HRP-DCF signal arises from H2O2 alone. The higher rates of OH formation from SOA are likely due to ROOH photolysis. This result is substantiated by photolysis experiments conducted with t-butyl hydroperoxide and cumene hydroperoxide which produce over three times more OH than photolysis of equivalent concentrations of H2O2. Relative to the peroxide level in the SOA, the quantum yield for OH generation from α-pinene SOA is 0.8 ± 0.4. This is the first demonstration of an efficient photolytic source of OH in SOA, one that may affect both cloudwater and aerosol chemistry.

  17. Identifying new lignin bioengineering targets: 1. Monolignol-substitute impacts on lignin formation and cell wall fermentability

    PubMed Central

    2010-01-01

    Background Recent discoveries highlighting the metabolic malleability of plant lignification indicate that lignin can be engineered to dramatically alter its composition and properties. Current plant biotechnology efforts are primarily aimed at manipulating the biosynthesis of normal monolignols, but in the future apoplastic targeting of phenolics from other metabolic pathways may provide new approaches for designing lignins that are less inhibitory toward the enzymatic hydrolysis of structural polysaccharides, both with and without biomass pretreatment. To identify promising new avenues for lignin bioengineering, we artificially lignified cell walls from maize cell suspensions with various combinations of normal monolignols (coniferyl and sinapyl alcohols) plus a variety of phenolic monolignol substitutes. Cell walls were then incubated in vitro with anaerobic rumen microflora to assess the potential impact of lignin modifications on the enzymatic degradability of fibrous crops used for ruminant livestock or biofuel production. Results In the absence of anatomical constraints to digestion, lignification with normal monolignols hindered both the rate and extent of cell wall hydrolysis by rumen microflora. Inclusion of methyl caffeate, caffeoylquinic acid, or feruloylquinic acid with monolignols considerably depressed lignin formation and strikingly improved the degradability of cell walls. In contrast, dihydroconiferyl alcohol, guaiacyl glycerol, epicatechin, epigallocatechin, and epigallocatechin gallate readily formed copolymer-lignins with normal monolignols; cell wall degradability was moderately enhanced by greater hydroxylation or 1,2,3-triol functionality. Mono- or diferuloyl esters with various aliphatic or polyol groups readily copolymerized with monolignols, but in some cases they accelerated inactivation of wall-bound peroxidase and reduced lignification; cell wall degradability was influenced by lignin content and the degree of ester group hydroxylation

  18. Formation of secondary aerosols from biomass burning plumes: chamber simulation study

    NASA Astrophysics Data System (ADS)

    Wang, X.; Hu, Q.; Fang, Z.; Deng, W.

    2015-12-01

    Biomass burning contributed substantially to carbonaceous aerosols in China's ambient air, even in its highly industrialized megacities, based on recent source attributions by receptor modeling or by molecular and isotopic tracers. Although chemical evolution of biomass burning plumes in the ambient is a vital issue for the study of climatic and health effects, the understanding of secondary pollutants formation during the aging of biomass burning plumes is far from complete. Here we collected typical agriculture residues and forest plant branches in the Pearl River Delta in south China, and got them burned in laboratory-controlled conditions and introduced the plumes from burning these biomass directly into the GIGCAS indoor smog chamber with a reactor of 30 m3 to investigate the photochemical aging of the plumes. The inorganic trace gases, including SO2, NOx, NH3 and O3, were monitored online with chemiluminescence gas analyzers, precursor volatile organic compounds (VOCs) were monitor online with a PTR-ToF-MS and offline by a preconcentrator coupled with a gas chromatography-mass selective detector/flame ionization detector/electron capture detector (GC-MSD/FID/ECD), particle number concentrations and size distributions were obtained using a scanning mobility particle sizer (SMPS), and a high-resolution time-of-flight aerosol mass spectrometer (HR-TOF-AMS) was used to measure the chemical compositions and evolutions of submicron aerosols and to trace the change in the average element ratios of organics, like H/C, O/C, and N/C. The results from the study were summarized in the following aspects: 1) primary emission factors of gaseous and particulate pollutants from burning of typical biomass including agricultural remains and forest wood plants; 2) yields of secondary pollutants, including secondary inorganic and organic aerosols and gaseous products (like O3) during photochemical aging of biomass burning plumes; 3) relationship between the formed secondary

  19. Gas-phase products and secondary organic aerosol formation from the ozonolysis and photooxidation of myrcene

    NASA Astrophysics Data System (ADS)

    Böge, Olaf; Mutzel, Anke; Iinuma, Yoshiteru; Yli-Pirilä, Pasi; Kahnt, Ariane; Joutsensaari, Jorma; Herrmann, Hartmut

    2013-04-01

    Terrestrial vegetation releases a great variety of volatile organic compounds (VOC) into the atmosphere. Monoterpenes, like myrcene, contribute significantly to this global biogenic VOC emission. In the atmosphere, monoterpenes rapidly undergo oxidation reactions by OH radicals (mainly during the daytime), NO3 radicals (mainly during the nighttime) and O3 to form multifunctional oxidation products. The products of these reactions are likely to be of low volatility and hence might lead to secondary organic aerosol (SOA) formation. In the present study, we report results from a series of chamber experiments performed in the LEAK chamber at TROPOS in which the gas-phase products and SOA yields obtained from myrcene O3 reactions with and without an OH radical scavenger as well as from the myrcene OH radical reaction in the presence of NOx have been measured. During the experiments the consumption of myrcene as well as the formation of gas-phase products was monitored using a proton transfer reaction mass spectrometer (PTR-MS). Ozone concentration was measured by an O3 monitor and the mixing ratios of nitrogen oxides were measured by a NOx monitor. Particle size distributions between 3-900 nm were monitored every 11 min using a differential mobility particle sizer (DMPS) system. In addition to the products observed by means of the PTR-MS by their m/z values, an identification of carbonylic compounds by their DNPH derivatives was performed. Beside low molecular mass products the formation of 4-vinyl-4-pentenal with a yield of 55 % in myrcene ozonolysis has been observed. The further oxidation of this major first generation product lead to the formation of two dicarbonylic products with m/z 113 and to SOA formation. The influence of the continuing oxidation of 4-vinyl-4-pentenal on SOA formation will be discussed in detail. The emergence of the gas-phase product hydroxyacetone as direct result of the myrcene ozone reaction will be mooted, because hydroxyacetone seems to

  20. AUXIN RESPONSE FACTOR17 Is Essential for Pollen Wall Pattern Formation in Arabidopsis1[C][W][OA

    PubMed Central

    Yang, Jun; Tian, Lei; Sun, Ming-Xi; Huang, Xue-Yong; Zhu, Jun; Guan, Yue-Feng; Jia, Qi-Shi; Yang, Zhong-Nan

    2013-01-01

    In angiosperms, pollen wall pattern formation is determined by primexine deposition on the microspores. Here, we show that AUXIN RESPONSE FACTOR17 (ARF17) is essential for primexine formation and pollen development in Arabidopsis (Arabidopsis thaliana). The arf17 mutant exhibited a male-sterile phenotype with normal vegetative growth. ARF17 was expressed in microsporocytes and microgametophytes from meiosis to the bicellular microspore stage. Transmission electron microscopy analysis showed that primexine was absent in the arf17 mutant, which leads to pollen wall-patterning defects and pollen degradation. Callose deposition was also significantly reduced in the arf17 mutant, and the expression of CALLOSE SYNTHASE5 (CalS5), the major gene for callose biosynthesis, was approximately 10% that of the wild type. Chromatin immunoprecipitation and electrophoretic mobility shift assays showed that ARF17 can directly bind to the CalS5 promoter. As indicated by the expression of DR5-driven green fluorescent protein, which is an synthetic auxin response reporter, auxin signaling appeared to be specifically impaired in arf17 anthers. Taken together, our results suggest that ARF17 is essential for pollen wall patterning in Arabidopsis by modulating primexine formation at least partially through direct regulation of CalS5 gene expression. PMID:23580594

  1. Secondary organic aerosol formation in cloud and fog droplets: a literature evaluation of plausibility

    NASA Astrophysics Data System (ADS)

    Blando, James D.; Turpin, Barbara J.

    This paper investigates the hypothesis that cloud and fog processes produce fine organic particulate matter in the atmosphere. The evidence provided suggests that cloud and fog processes could be important contributors to secondary organic aerosol formation, and the contribution of this formation pathway should be further investigated. This conclusion is based on the following observations: (1) many organic vapors present in the atmosphere are sorbed by suspended droplets and have been measured in cloud and fog water, (2) organics participate in aqueous-phase reactions, and (3) organic particulate matter is sometimes found in the size mode attributed to cloud processing (i.e. the droplet mode). Specific compounds identified as potential precursors include aldehydes (e.g. formaldehyde, acetaldehyde, and propionaldehyde), acetone, alcohols (e.g. methanol, ethanol, 2-propanol, and phenol), monocarboxylic acids, and organic peroxides. Carboxylic acids (e.g. diacids and oxo-acids), glyoxal, esters, organosulfur compounds, polyols, amines and amino acids are potential products of cloud and fog processing.

  2. Secondary organic aerosol formation from m-xylene photooxidation: The role of the phenolic product

    NASA Astrophysics Data System (ADS)

    Nakao, S.; Qi, L.; Clark, C.; Sato, K.; Tang, P.; Cocker, D.

    2009-12-01

    Aromatic hydrocarbons comprise a significant fraction of volatile organic compounds in the urban atmosphere and their importance as precursors to secondary organic aerosols (SOA) has been widely recognized. However, SOA formation from aromatics is one of the least understood processes among all the classes of volatile organic compounds (VOCs) due to its complex multi-generation reactions. Phenolic compounds have been identified as one of the significant products from OH-initiated reaction of aromatic hydrocarbons and are suggested to have a very high potential of SOA formation (e.g., cresol isomers having SOA yield 9~42%, Henry et al., Atmos. Environ., 2008). We examined the effect of extent of oxidation of m-xylene on chemical composition and physical properties using m-xylene and xylenol as reactants in environmental chamber experiments. Chemical composition of SOA was investigated by Liquid Chromatography / Time of Flight Mass Spectrometer (LC/ToF-MS), and Aerodyne High Resolution Time-of-Flight Aerosol Mass Spectrometer (HR-ToF-AMS). Physical properties of SOA such as density, volatility, and hygroscopicity were investigated by Aerosol Particle Mass Analyzer - Scanning Mobility Particle Sizer (APM-SMPS), Hygroscopicity/Volatility - Tandem Differential Mobility Analyzer (H/V-TDMA), respectively. Also SOA yields were obtained to evaluate the importance of xylenol as an intermediate product.

  3. Interpretation of Secondary Organic Aerosol Formation from Diesel Exhaust Photooxidation in an Environmental Chamber

    SciTech Connect

    Nakao, Shunsuke; Shrivastava, ManishKumar B.; Nguyen, Anh; Jung, Hee-Jung; Cocker, David R.

    2011-04-14

    Secondary organic aerosol (SOA) formation from diesel exhaust in a smog chamber was investigated. Particle volume measurement based on mobility diameter is shown to underestimate SOA formation from diesel exhaust due to the external void space of agglomerate particles, in which case mass-based measurement technique is necessary. Rapid determination of particle effective density as a function of particle mass was performed by an Aerosol Particle Mass analyzer – Scanning Mobility Particle Sizer (APM-SMPS) to obtain particle mass concentration and fractal dimension. Continuous aging of aerosol was observed in terms of atomic ratio (O/C), from 0.05 to 0.25 in 12 hours, underscoring the importance of multi-generational oxidation of low-volatile organic vapors emitted from diesel engine as the significant source of oxygenated SOA. Experimental conditions possibly have strong impacts on physical evolution of diesel particulates in a smog chamber. Higher particle effective densities were observed when raw exhaust was injected into a full bag as opposed to filling a bag with diluted exhaust using an ejector diluter. When longer transfer line was used for injecting diesel exhaust into the smog chamber, rapid particle coagulation was observed, leading to increasing particle volume concentration in dark while its mass concentration is decreasing.

  4. Enhancement in Secondary Organic Aerosol Formation in the Presence of Preexisting Organic Particle.

    PubMed

    Ye, Jianhuai; Gordon, Catherine A; Chan, Arthur W H

    2016-04-01

    Atmospheric models of secondary organic aerosol (SOA) typically assume organic species form a well-mixed phase. As a result, partitioning of semivolatile oxidation products into the particle phase to form SOA is thought to be enhanced by preexisting organic particles. In this work, the physicochemical properties that govern such enhancement in SOA yield were examined. SOA yields from α-pinene ozonolysis were measured in the presence of a variety of organic seeds which were chosen based on polarity and phase state at room temperature. Yield enhancement was only observed with seeds of medium polarities (tetraethylene glycol and citric acid). Solid hexadecanol seed was observed to enhance SOA yields only in chamber experiments with longer mixing time scales, suggesting that the mixing process for SOA and hexadecanol may be kinetically limited at shorter time scales. Our observations indicate that, in addition to kinetic limitations, intermolecular interactions also play a significant role in determining SOA yields. Here we propose for the first time to use the Hansen solubility framework to determine aerosol miscibility and predict SOA yield enhancement. These results highlight that current models may overestimate SOA formation, and parametrization of intermolecular forces is needed for accurate predictions of SOA formation. PMID:26963686

  5. Effects of meteorology and secondary particle formation on visibility during heavy haze events in Beijing, China.

    PubMed

    Zhang, Qiang; Quan, Jiannong; Tie, Xuexi; Li, Xia; Liu, Quan; Gao, Yang; Zhao, Delong

    2015-01-01

    The causes of haze formation in Beijing, China were analyzed based on a comprehensive measurement, including PBL (planetary boundary layer), aerosol composition and concentrations, and several important meteorological parameters such as visibility, RH (relative humidity), and wind speed/direction. The measurement was conducted in an urban location from Nov. 16, 2012 to Jan. 15, 2013. During the period, the visibility varied from >20 km to less than a kilometer, with a minimum visibility of 667 m, causing 16 haze occurrences. During the haze occurrences, the wind speeds were less than 1m/s, and the concentrations of PM2.5 (particle matter with radius less than 2.5 μm) were often exceeded 200 μg/m(3). The correlation between PM2.5 concentration and visibility under different RH values shows that visibility was exponentially decreased with the increase of PM2.5 concentrations when RH was less than 80%. However, when RH was higher than 80%, the relationship was no longer to follow the exponentially decreasing trend, and the visibility maintained in very low values, even with low PM2.5 concentrations. Under this condition, the hygroscopic growth of particles played important roles, and a large amount of water vapor acted as particle matter (PM) for the reduction of visibility. The variations of meteorological parameters (RH, PBL heights, and WS (wind speed)), chemical species in gas-phase (CO, O3, SO2, and NOx), and gas-phase to particle-phase conversions under different visibility ranges were analyzed. The results show that from high visibility (>20 km) to low visibility (<2 km), the averaged PBL decreased from 1.24 km to 0.53 km; wind speeds reduced from 1m/s to 0.5m/s; and CO increased from 0.5 ppmv to 4.0 ppmv, suggesting that weaker transport/diffusion caused the haze occurrences. This study also found that the formation of SPM (secondary particle matter) was accelerated in the haze events. The conversions between SO2 and SO4 as well as NOx to NO3(-) increased

  6. Root growth, secondary root formation and root gravitropism in carotenoid-deficient seedlings of Zea mays L

    NASA Technical Reports Server (NTRS)

    Ng, Y. K.; Moore, R.

    1985-01-01

    The effect of ABA on root growth, secondary-root formation and root gravitropism in seedlings of Zea mays was investigated by using Fluridone-treated seedlings and a viviparous mutant, both of which lack carotenoids and ABA. Primary roots of seedlings grown in the presence of Fluridone grew significantly slower than those of control (i.e. untreated) roots. Elongation of Fluridone-treated roots was inhibited significantly by the exogenous application of 1 mM ABA. Exogenous application of 1 micromole and 1 nmole ABA had either no effect or only a slight stimulatory effect on root elongation, depending on the method of application. The absence of ABA in Fluridone-treated plants was not an important factor in secondary-root formation in seedlings less than 9-10 d old. However, ABA may suppress secondary-root formation in older seedlings, since 11-d-old control seedlings had significantly fewer secondary roots than Fluridone-treated seedlings. Roots of Fluridone-treated and control seedlings were graviresponsive. Similar data were obtained for vp-9 mutants of Z. mays, which are phenotypically identical to Fluridone-treated seedlings. These results indicate that ABA is necessary for neither secondary-root formation nor for positive gravitropism by primary roots.

  7. Time-resolved characterization of primary particle emissions and secondary particle formation from a modern gasoline passenger car

    NASA Astrophysics Data System (ADS)

    Karjalainen, Panu; Timonen, Hilkka; Saukko, Erkka; Kuuluvainen, Heino; Saarikoski, Sanna; Aakko-Saksa, Päivi; Murtonen, Timo; Bloss, Matthew; Dal Maso, Miikka; Simonen, Pauli; Ahlberg, Erik; Svenningsson, Birgitta; Brune, William Henry; Hillamo, Risto; Keskinen, Jorma; Rönkkö, Topi

    2016-07-01

    Changes in vehicle emission reduction technologies significantly affect traffic-related emissions in urban areas. In many densely populated areas the amount of traffic is increasing, keeping the emission level high or even increasing. To understand the health effects of traffic-related emissions, both primary (direct) particulate emission and secondary particle formation (from gaseous precursors in the exhaust emissions) need to be characterized. In this study, we used a comprehensive set of measurements to characterize both primary and secondary particulate emissions of a Euro 5 level gasoline passenger car. Our aerosol particle study covers the whole process chain in emission formation, from the tailpipe to the atmosphere, and also takes into account differences in driving patterns. We observed that, in mass terms, the amount of secondary particles was 13 times higher than the amount of primary particles. The formation, composition, number and mass of secondary particles was significantly affected by driving patterns and engine conditions. The highest gaseous and particulate emissions were observed at the beginning of the test cycle when the performance of the engine and the catalyst was below optimal. The key parameter for secondary particle formation was the amount of gaseous hydrocarbons in primary emissions; however, also the primary particle population had an influence.

  8. Subfunctionalization of Cellulose Synthases in Seed Coat Epidermal Cells Mediates Secondary Radial Wall Synthesis and Mucilage Attachment1[C][W][OA

    PubMed Central

    Mendu, Venugopal; Griffiths, Jonathan S.; Persson, Staffan; Stork, Jozsef; Downie, A. Bruce; Voiniciuc, Cătălin; Haughn, George W.; DeBolt, Seth

    2011-01-01

    Arabidopsis (Arabidopsis thaliana) epidermal seed coat cells follow a complex developmental program where, following fertilization, cells of the ovule outer integument differentiate into a unique cell type. Two hallmarks of these cells are the production of a doughnut-shaped apoplastic pocket filled with pectinaceous mucilage and the columella, a thick secondary cell wall. Cellulose is thought to be a key component of both these secondary cell wall processes. Here, we investigated the role of cellulose synthase (CESA) subunits CESA2, CESA5, and CESA9 in the seed coat epidermis. We characterized the roles of these CESA proteins in the seed coat by analyzing cell wall composition and morphology in cesa mutant lines. Mutations in any one of these three genes resulted in lower cellulose content, a loss of cell shape uniformity, and reduced radial wall integrity. In addition, we found that attachment of the mucilage halo to the parent seed following extrusion is maintained by cellulose-based connections requiring CESA5. Hence, we show that cellulose fulfills an adhesion role between the extracellular mucilage matrix and the parent cell in seed coat epidermal cells. We propose that mucilage remains attached to the seed coat through interactions between components in the seed mucilage and cellulose. Our data suggest that CESA2 and CESA9 serve in radial wall reinforcement, as does CESA5, but CESA5 also functions in mucilage biosynthesis. These data suggest unique roles for different CESA subunits in one cell type and illustrate a complex role for cellulose biosynthesis in plant developmental biology. PMID:21750228

  9. Reactive uptake of ammonia to secondary organic aerosols: kinetics of organonitrogen formation

    NASA Astrophysics Data System (ADS)

    Liu, Y.; Liggio, J.; Staebler, R.; Li, S.-M.

    2015-06-01

    As a class of brown carbon, organonitrogen compounds originating from the heterogeneous uptake of NH3 by secondary organic aerosol (SOA) have received significant attention recently. In the current work, particulate organonitrogen formation during the ozonolysis of α-pinene and the OH oxidation of m-xylene in the presence of ammonia (34-125 ppb) is studied in a smog chamber equipped with a High Resolution Time-of-Flight Aerosol Mass Spectrometer and a Quantum Cascade Laser instrument. A large diversity of nitrogen containing organic (NOC) fragments was observed which were consistent with the reaction of ammonia with carbonyl containing SOA. The uptake coefficients of NH3 to SOA leading to organonitrogen compounds are reported for the first time and were in the range of ∼ 10-3-10-2, decreasing significantly to < 10-5 after 6 h of reaction. At the end of experiments (∼ 6 h) the NOC mass contributed 8.9 ± 1.7 and 31.5 ± 4.4 wt% to the total α-pinene and m-xylene derived SOA, and 4-15 wt% of the total nitrogen in the system. Uptake coefficients were also found to be positively correlated with particle acidity and negatively correlated with NH3 concentration, indicating that heterogeneous reactions were responsible for the observed NOC mass, possibly limited by liquid phase diffusion. Under these conditions, the data also indicate that the formation of NOC can compete kinetically with inorganic acid neutralization. The formation of NOC in this study suggests that a significant portion of the ambient particle associated N may be derived from NH3 heterogeneous reactions with SOA. NOC from such a mechanism may be an important and unaccounted for source of PM associated nitrogen, and a mechanism for medium or long-range transport and dry/wet deposition of atmospheric nitrogen.

  10. Reactive uptake of ammonia to secondary organic aerosols: kinetics of organonitrogen formation

    NASA Astrophysics Data System (ADS)

    Liu, Y.; Liggio, J.; Staebler, R.; Li, S.-M.

    2015-12-01

    As a class of brown carbon, organonitrogen compounds originating from the heterogeneous uptake of NH3 by secondary organic aerosol (SOA) have received significant attention recently. In the current work, particulate organonitrogen formation during the ozonolysis of α-pinene and the OH oxidation of m-xylene in the presence of ammonia (34-125 ppb) was studied in a smog chamber equipped with a high resolution time-of-flight aerosol mass spectrometer and a quantum cascade laser instrument. A large diversity of nitrogen-containing organic (NOC) fragments was observed which were consistent with the reactions between ammonia and carbonyl-containing SOA. Ammonia uptake coefficients onto SOA which led to organonitrogen compounds were reported for the first time, and were in the range of ∼ 10-3-10-2, decreasing significantly to < 10-5 after 6 h of reaction. At the end of experiments (~ 6 h) the NOC mass contributed 8.9 ± 1.7 and 31.5 ± 4.4 wt % to the total α-pinene- and m-xylene-derived SOA, respectively, and 4-15 wt % of the total nitrogen in the system. Uptake coefficients were also found to be positively correlated with particle acidity and negatively correlated with NH3 concentration, indicating that heterogeneous reactions were responsible for the observed NOC mass, possibly limited by liquid phase diffusion. Under these conditions, the data also indicate that the formation of NOC can compete kinetically with inorganic acid neutralization. The formation of NOC in this study suggests that a significant portion of the ambient particle associated N may be derived from NH3 heterogeneous reactions with SOA. NOC from such a mechanism may be an important and unaccounted for source of PM associated nitrogen. This mechanism may also contribute to the medium or long-range transport and wet/dry deposition of atmospheric nitrogen.

  11. Secondary organic aerosol formation from the photo-oxidation of benzene

    NASA Astrophysics Data System (ADS)

    Borrás, Esther; Tortajada-Genaro, Luis Antonio

    2012-02-01

    The production of condensate compounds from the degradation of benzene by OH radical chemistry was studied. Secondary organic aerosol (SOA) formation was investigated in the EUPHORE ( European Photoreactor) simulation chambers. Experiments were performed under different OH-production conditions - addition of H 2O 2, NO or HONO -, in a high-volume reactor, with natural light and in the absence of seed aerosols. The consumption of precursor/reagents, the formation of gas-phase and particulate-phase products and the temporal evolution of aerosol were monitored. Several aerosol physical properties - mass concentration, overall aerosol yield, particle size distribution and density - were determined and found to be clearly dependent on OH radical production and NO x concentrations. Furthermore, the use of one and/or two products gas-particle partitioning absorption models allowed us to determine the aerosol yield curves. The SOA yield ranged from 1.6 to 9.7 %, with higher SOA formation under low-NO x conditions. Chemical characterization of the SOA was carried out, determining multi-oxygenated condensed organic compounds by a method based on the gas chromatography-mass spectrometry technique. Several ring-retaining and ring-cleavage products were identified and quantified. The compounds with the highest percentage contribution to the total aerosol mass were 4-nitrobenzene-1,2-diol, butenedioic acid, succinic acid and trans-trans-muconic. In addition, a multigenerational study was performed comparing with the photo-oxidations of phenol and catechol. The results showed that although the mass concentration of SOA produced was different, the physical and chemical properties were quite similar. Finally, we suggest a general mechanism to describe how changes in benzene degradation pathways - rate of OH generation and concentration of NO x - could justify the variation in SOA production and properties.

  12. Secondary organic aerosol formation from ozone reactions with single terpenoids and terpenoid mixtures

    NASA Astrophysics Data System (ADS)

    Waring, Michael S.; Wells, J. Raymond; Siegel, Jeffrey A.

    2011-08-01

    Ozone reacts with indoor-emitted terpenoids to form secondary organic aerosol (SOA). Most SOA research has focused on ozone reactions with single terpenoids or with consumer products, and this paper reports the results from an investigation of SOA formation from ozone reactions with both single terpenoids and mixtures of D-limonene, α-pinene, and α-terpineol. Transient experiments were conducted at low (25 ppb) and high (100 ppb) initial concentrations of ozone. The three terpenoids were tested singly and in combinations in a manner that controlled for their different reaction rates with ozone. The SOA formation was assessed by examining the evolution in time of the resulting number size-distributions and estimates of the mass concentrations. The results suggest that at higher ozone and terpenoid concentrations, SOA number formation follows a linear trend as a function of the initial rate of reaction. This finding was valid for both single terpenoids and mixtures. Generally speaking, higher ozone and terpenoid concentrations also led to larger geometric mean diameters and smaller geometric standard deviations of fitted lognormal distributions of the formed SOA. By assuming a density, mass concentrations were also assessed and did not follow as consistent of a trend. At low ozone concentration conditions, reactions with only D-limonene yielded the largest number concentrations of any experiment, even more than experiments with mixtures containing D-limonene and much higher overall terpenoid concentrations. This finding was not seen for high ozone concentrations. These experiments demonstrate quantifiable trends for SOA forming reactions of ozone and mixtures, and this work provides a framework for expanding these results to more complex mixtures and consumer products.

  13. Limited Effect of Anthropogenic Nitrogen Oxides on Secondary Organic Aerosol Formation

    NASA Astrophysics Data System (ADS)

    Zheng, Y.; Unger, N.; Hodzic, A.; Knote, C. J.; Tilmes, S.; Emmons, L. K.; Lamarque, J. F.; Yu, P.

    2014-12-01

    Globally secondary organic aerosol (SOA) is mostly formed from biogenic vegetation emissions and as such is regarded as natural aerosol that cannot be reduced by emission control legislation. However, recent research implies that human activities facilitate SOA formation by affecting the amount of precursor emission, the chemical processing and the partitioning into the aerosol phase. Among the multiple human influences, nitrogen oxides (NO + NO2 = NOx) have been assumed to play a critical role in the chemical formation of low volatile compounds. The goal of this study is to improve the SOA scheme in the global NCAR Community Atmospheric Model version 4 with chemistry (CAM4-Chem) by implementing an updated 4-product Volatility Basis Set (VBS) scheme, and apply it to investigate the impact of anthropogenic NOx on SOA. We first compare three different SOA parameterizations: a 2-product model and the updated VBS model both with and without a SOA aging parameterization. Secondly we evaluate predicted organic aerosol amounts against surface measurement from the Interagency Monitoring of Protected Visual Environments (IMPROVE) network and Aerosol Mass Spectrometer (AMS) measurements from 13 aircraft-based field campaigns. We then perform sensitivity experiments to examine how the SOA loading responds to a 50% reduction in anthropogenic NOx in different regions. We find limited SOA reductions of -2.3%, -5.6% and -4.0% for global, southeastern U.S. and Amazon NOx perturbations, respectively. To investigate the chemical processes in more detail, we also use a simplified box model with the same gas-phase chemistry and gas-aerosol partitioning mechanism as in CAM4-Chem to examine the SOA yields dependence on initial precursor emissions and background NOx level. The fact that SOA formation is almost unaffected by changes in NOx can be largely attributed to buffering in chemical pathways (low- versus high-NOx pathways, OH versus NO3-initiated oxidation) and to offsetting

  14. Aqueous photooxidation of ambient Po Valley Italy air samples: Insights into secondary organic aerosol formation

    NASA Astrophysics Data System (ADS)

    Kirkland, J. R.; Lim, Y. B.; Sullivan, A. P.; Decesari, S.; Facchini, C.; Collett, J. L.; Keutsch, F. N.; Turpin, B. J.

    2012-12-01

    In this work, we conducted aqueous photooxidation experiments with ambient samples in order to develop insights concerning the formation of secondary organic aerosol through gas followed by aqueous chemistry (SOAaq). Water-soluble organics (e.g., glyoxal, methylglyoxal, glycolaldehyde, acetic acid, acetone) are formed through gas phase oxidation of alkene and aromatic emissions of anthropogenic and biogenic origin. Their further oxidation in clouds, fogs and wet aerosols can form lower volatility products (e.g., oligomers, organic acids) that remain in the particle phase after water evaporation, thus producing SOA. The aqueous OH radical oxidation of several individual potentially important precursors has been studied in the laboratory. In this work, we used a mist-chamber apparatus to collect atmospheric mixtures of water-soluble gases from the ambient air at San Pietro Capofiume, Italy during the PEGASOS field campaign. We measured the concentration dynamics after addition of OH radicals, in order to develop new insights regarding formation of SOA through aqueous chemistry. Specifically, batch aqueous reactions were conducted with 33 ml mist-chamber samples (TOC ~ 50-100μM) and OH radicals (~10-12M) in a new low-volume aqueous reaction vessel. OH radicals were formed in-situ, continuously by H2O2 photolysis. Products were analyzed by ion chromatography (IC), electrospray ionization mass spectrometry (ESI-MS +/-), and ESI-MS with IC pre-separation (IC/ESI-MS-). Reproducible formation of pyruvate and oxalate were observed both by IC and ESI-MS. These compounds are known to form from aldehyde oxidation in the aqueous phase. New insights regarding the aqueous chemistry of these "more atmospherically-realistic" experiments will be discussed.

  15. Quantifying the ionic reaction channels in the Secondary Organic Aerosol formation from glyoxal

    NASA Astrophysics Data System (ADS)

    Maxut, Aurelia; Nozière, Barbara; Rossignol, Stéphanie; George, Christian; Waxman, Eleanor Marie; Laskin, Alexander; Slowik, Jay; Dommen, Josef; Prévôt, André; Baltensperger, Urs; Volkamer, Rainer

    2014-05-01

    Glyoxal, a common organic gas in the atmosphere, has been identified in recent years as an important Secondary Organic Aerosol (SOA) precursor (Volkamer et al., 2007). But, unlike with other precursors, the SOA is largely produced by particle-phase reactions (Volkamer et al., 2009) and equilibria (Kampf et al. 2013) that are still not entirely characterized. Since 2009 series of smog chamber experiments have been performed within the Eurochamp program at the Paul Scherrer Institute, Switzerland, to investigate SOA formation from glyoxal. In these experiments, glyoxal was produced by the gas-phase oxidation of acetylene in the presence of seeds, the seed composition and other conditions being varied. The 2011 campaign resulted in the identification of salting processes controlling the glyoxal partitioning in the seeds (Kampf et al. 2013). This presentation will report results of the 2013 campaign focusing on the identification of the various reactions (ionic or photo-induced) contributing to the SOA mass. In particular, the contribution of the ionic reactions, i.e. mediated by NH4+, were investigated by quantifying the formation of imidazoles (imidazole, imidazole-2-carboxaldehyde, 2,2'-biimidazole) from the small condensation channel of glyoxal with ammonia. For this, the SOA produced were collected on quartz filters and analyzed by Orbitrap LC/MS (Q-Exactive Thermo Fisher). The formation of other products such as organic acids was also investigated to determine potential competing reactions. Time-resolved MOUDI sampling coupled with nano-DESY/ESI-MS/MS analysis was also used to identify nitrogen- and sulphur-containing products from all the reactions. The results obtained for a range of conditions will be presented and compared with recent mechanistic information on the ionic reaction channels (Nozière et al., in preparation, 2013). The implementation of all this new information into a glyoxal-SOA model will be discussed.

  16. Secondary Organic Aerosol (SOA) Formation From the NO3 Radical Oxidation of Alpha- pinene

    NASA Astrophysics Data System (ADS)

    Perraud, V.; Yu, Y.; Bruns, E.; Ezell, M. J.; Johnson, S. N.; Alexander, M.; Zelenyuk, A.; Imre, D.; Finlayson-Pitts, B. J.

    2008-12-01

    Terpenes such as alpha-pinene, emitted in large quantities from vegetation into the troposphere, are well known to react with O3, OH and NO3 radicals leading to the formation of secondary organic aerosol, SOA. While particle formation and growth from the NO3 reaction with alpha-pinene have been reported by a number of groups, as have the gas phase products of this reaction, little is known about the chemical composition of the particles. We report studies of the composition of particles formed in the NO3 - alpha- pinene reaction using two reactors, a flow tube and a static chamber. Nitrate radicals were generated in the flow tube by the reaction of NO2 with O3 and in the static chamber by the thermal decomposition of N2O5. Particle formation and growth was monitored using SMPS and APS. A variety of analytical techniques were applied to measure the chemical composition, including FTIR of particles collected on ZnSe impactor discs, and GC-MS, ESI-MS, APCI-MS, HPLC-MS and HPLC-UV of samples collected on quartz fiber filters. In addition, particle mass spectrometer techniques including AMS and SPLAT provided real-time analysis. A number of organic nitrates were observed in the particles, along with carbonyl compounds and organic acids. Gas phase products measured using DNPH coated-cartridges included pinonaldehyde, formaldehyde, acetaldehyde and acetone. Results of studies in which concentrations of the reactants were varied will be presented and possible mechanisms and the atmospheric implications will be discussed.

  17. Initial formation and secondary condensation of nerve pathways in the medicinal leech.

    PubMed

    Jellies, J; Kopp, D M; Johansen, K M; Johansen, J

    1996-09-01

    Invertebrates have proved to be important experimental systems for examining questions related to growth cone navigation and nerve formation, in large part because of their simpler nervous systems. However, such apparent simplicity can be deceiving because the final stereotyped patterns may be the result of multiple developmental mechanisms and not necessarily the sole consequence of the pathway choices of individual growth cones. We have examined the normal sequence of events that are involved in the formation of the major peripheral nerves in leech embryos by employing (1) an antibody directed against acetylated tubulin to label neurons growing out from the central nervous system, (2) the Lan3-2 antibody to label a specific population of peripheral neurons growing into the central nervous system, and (3) intracellular dye filling of single cells. We found that the mature pattern of nerves was characterized by a pair of large nerve roots, each of which branched into two major tracts. The earliest axonal projections did not, however, establish this pattern definitively. Rather, each of the four nerves initially formed as discrete, roughly parallel tracts without bifurcation, with the final branching pattern of the nerve roots being generated by a secondary condensation. In addition, we found that some of the nerves were pioneered in different ways and by different groups of neurons. One of the nerves was established by central neurons growing peripherally, another by peripheral neurons growing centrally. These results suggest that the formation of common nerves and neuronal pathfinding in the leech involves multiple sets of growth cone guidance strategies and morphogenetic mechanisms that belie its apparent simplicity. PMID:8876458

  18. High-Aluminum-Affinity Silica Is a Nanoparticle That Seeds Secondary Aluminosilicate Formation

    PubMed Central

    Jugdaohsingh, Ravin; Brown, Andy; Dietzel, Martin; Powell, Jonathan J.

    2013-01-01

    Despite the importance and abundance of aluminosilicates throughout our natural surroundings, their formation at neutral pH is, surprisingly, a matter of considerable debate. From our experiments in dilute aluminum and silica containing solutions (pH ~ 7) we previously identified a silica polymer with an extraordinarily high affinity for aluminium ions (high-aluminum-affinity silica polymer, HSP). Here, further characterization shows that HSP is a colloid of approximately 2.4 nm in diameter with a mean specific surface area of about 1,000 m2 g-1 and it competes effectively with transferrin for Al(III) binding. Aluminum binding to HSP strongly inhibited its decomposition whilst the reaction rate constant for the formation of the β-silicomolybdic acid complex indicated a diameter between 3.6 and 4.1 nm for these aluminum-containing nanoparticles. Similarly, high resolution microscopic analysis of the air dried aluminum-containing silica colloid solution revealed 3.9 ± 1.3 nm sized crystalline Al-rich silica nanoparticles (ASP) with an estimated Al:Si ratio of between 2 and 3 which is close to the range of secondary aluminosilicates such as imogolite. Thus the high-aluminum-affinity silica polymer is a nanoparticle that seeds early aluminosilicate formation through highly competitive binding of Al(III) ions. In niche environments, especially in vivo, this may serve as an alternative mechanism to polyhydroxy Al(III) species binding monomeric silica to form early phase, non-toxic aluminosilicates. PMID:24349573

  19. Secondary organic aerosol formation and composition from the photo-oxidation of methyl chavicol (estragole)

    NASA Astrophysics Data System (ADS)

    Pereira, K. L.; Hamilton, J. F.; Rickard, A. R.; Bloss, W. J.; Alam, M. S.; Camredon, M.; Muñoz, A.; Vásquez, M.; Borrás, E.; Ródenas, M.

    2013-12-01

    The increasing demand for palm oil for uses in biofuel and food products is leading to rapid expansion of oil palm agriculture. Methyl chavicol (also known as estragole and 1-allyl-4-methoxybenzene) is an oxygenated biogenic volatile organic compound that was recently identified as the main floral emission from an oil palm plantation in Malaysian Borneo. The emissions of methyl chavicol observed may impact regional atmospheric chemistry, but little is known of its ability to form secondary organic aerosol (SOA). The photo-oxidation of methyl chavicol was investigated at the European Photoreactor chamber as a part of the atmospheric chemistry of methyl chavicol (ATMECH) project. Aerosol samples were collected using a particle into liquid sampler (PILS) and analysed offline using an extensive range of instruments including; high performance liquid chromatography mass spectrometry (HPLC-ITMS), high performance liquid chromatography quadrupole time-of-flight mass spectrometry (HPLC-QTOFMS) and Fourier transform ion cyclotron resonance mass spectrometry (FTICR-MS). The SOA yield was determined as 18-29% depending on initial precursor (VOC : NOx) mixing ratios. In total, 59 SOA compounds were observed and the structures of 10 compounds have been identified using high resolution tandem mass spectrometry. The addition of hydroxyl and/or nitro functional groups to the aromatic ring appears to be an important mechanistic pathway for aerosol formation. This results in the formation of compounds with both low volatility and high O : C ratios, where functionalisation rather than fragmentation is mainly observed as a~result of the stability of the ring. The SOA species observed can be characterized as semi-volatile to low volatile oxygenated organic aerosol (SVOOA and LVOOA) components and therefore may be important in aerosol formation and growth.

  20. Secondary organic aerosol formation and composition from the photo-oxidation of methyl chavicol (estragole)

    NASA Astrophysics Data System (ADS)

    Pereira, K. L.; Hamilton, J. F.; Rickard, A. R.; Bloss, W. J.; Alam, M. S.; Camredon, M.; Muñoz, A.; Vázquez, M.; Borrás, E.; Ródenas, M.

    2014-06-01

    The increasing demand for palm oil for uses in biofuel and food products is leading to rapid expansion of oil palm agriculture. Methyl chavicol (also known as estragole and 1-allyl-4-methoxybenzene) is an oxygenated biogenic volatile organic compound (VOC) that was recently identified as the main floral emission from an oil palm plantation in Malaysian Borneo. The emissions of methyl chavicol observed may impact regional atmospheric chemistry, but little is known of its ability to form secondary organic aerosol (SOA). The photo-oxidation of methyl chavicol was investigated at the European Photoreactor chamber as a part of the atmospheric chemistry of methyl chavicol (ATMECH) project. Aerosol samples were collected using a particle into liquid sampler (PILS) and analysed offline using an extensive range of instruments including; high-performance liquid chromatography mass spectrometry (HPLC-ITMS), high-performance liquid chromatography quadrupole time-of-flight mass spectrometry (HPLC-QTOFMS) and Fourier transform ion cyclotron resonance mass spectrometry (FTICR-MS). The SOA yield was determined as 18 and 29% for an initial VOC mixing ratio of 212 and 460 ppbv (parts per billion by volume) respectively; using a VOC:NOx ratio of ~5:1. In total, 59 SOA compounds were observed and the structures of 10 compounds have been identified using high-resolution tandem mass spectrometry. The addition of hydroxyl and/or nitro-functional groups to the aromatic ring appears to be an important mechanistic pathway for aerosol formation. This results in the formation of compounds with both low volatility and high O:C ratios, where functionalisation rather than fragmentation is mainly observed as a result of the stability of the ring. The SOA species observed can be characterised as semi-volatile to low-volatility oxygenated organic aerosol (SVOOA and LVOOA) components and therefore may be important in aerosol formation and growth.

  1. Secondary organic aerosol formation of relevance to the marine boundary layer

    NASA Astrophysics Data System (ADS)

    Cai, Xuyi

    The chlorine atom (Cl) is a potential oxidant of volatile organic compounds (VOCs) in the atmosphere and is hypothesized to lead to secondary organic aerosol (SOA) formation in coastal areas. The purpose of this dissertation is to test this hypothesis and quantify the SOA formation potentials of some representative biogenic and anthropogenic hydrocarbons when oxidized by Cl in laboratory chamber experiments. The chosen model compounds for biogenic and anthropogenic hydrocarbons in this study are three monoterpenes (alpha-pinene, beta-pinene, and d-limonene) and two aromatics (m-xylene and toluene), respectively. Results indicate that the oxidation of these monoterpenes and aromatics generates significant amounts of aerosol. The SOA yields of alpha-pinene, beta-pinene, and d-limonene obtained in this study are comparable to those when they are oxidized by ozone, by nitrate radical, and in photooxidation scenarios. For aerosol mass up to 30.0 mug m-3, their yields reach approximately 0.20, 0.20, and 0.30, respectively. The SOA yields for m-xylene and toluene are found to be in the range of 0.035 to 0.12 for aerosol concentrations up to 19 mug m-3. For d-limonene and toluene, data indicate two yield curves that depend on the initial concentration ratios of Cl precursor to hydrocarbon hydrocarbon. Zero-dimensional calculations based on these yields show that SOA formation from the five model compounds when oxidized by Cl in the marine boundary layer could be a significant source of SOA in the early morning. In addition, the mechanistic reaction pathways for Cl oxidation of alpha-pinene, beta-pinene, d-limonene, and toluene with Cl have been developed within the framework of the Caltech Atmospheric Chemistry Mechanisms (CACM). Output from the developed mechanisms is combined with an absorptive partitioning model to predict precursor decay curves and time-dependent SOA concentrations in experiments. Model calculations are able to match (in general within general +/- 50

  2. Role of pH controlled DNA secondary structures in the reversible dispersion/precipitation and separation of metallic and semiconducting single-walled carbon nanotubes

    NASA Astrophysics Data System (ADS)

    Maji, Basudeb; Samanta, Suman K.; Bhattacharya, Santanu

    2014-03-01

    Single-stranded DNA (ss-DNA) oligomers (dA20, d[(C3TA2)3C3] or dT20) are able to disperse single-walled carbon nanotubes (SWNTs) in water at pH 7 through non-covalent wrapping on the nanotube surface. At lower pH, an alteration of the DNA secondary structure leads to precipitation of the SWNTs from the dispersion. The structural change of dA20 takes place from the single-stranded to the A-motif form at pH 3.5 while in case of d[(C3TA2)3C3] the change occurs from the single-stranded to the i-motif form at pH 5. Due to this structural change, the DNA is no longer able to bind the nanotube and hence the SWNT precipitates from its well-dispersed state. However, this could be reversed on restoring the pH to 7, where the DNA again relaxes in the single-stranded form. In this way the dispersion and precipitation process could be repeated over and over again. Variable temperature UV-Vis-NIR and CD spectroscopy studies showed that the DNA-SWNT complexes were thermally stable even at ~90 °C at pH 7. Broadband NIR laser (1064 nm) irradiation also demonstrated the stability of the DNA-SWNT complex against local heating introduced through excitation of the carbon nanotubes. Electrophoretic mobility shift assay confirmed the formation of a stable DNA-SWNT complex at pH 7 and also the generation of DNA secondary structures (A/i-motif) upon acidification. The interactions of ss-DNA with SWNTs cause debundling of the nanotubes from its assembly. Selective affinity of the semiconducting SWNTs towards DNA than the metallic ones enables separation of the two as evident from spectroscopic as well as electrical conductivity studies.Single-stranded DNA (ss-DNA) oligomers (dA20, d[(C3TA2)3C3] or dT20) are able to disperse single-walled carbon nanotubes (SWNTs) in water at pH 7 through non-covalent wrapping on the nanotube surface. At lower pH, an alteration of the DNA secondary structure leads to precipitation of the SWNTs from the dispersion. The structural change of dA20 takes place

  3. Modeling the formation and aging of secondary organic aerosols in Los Angeles during CalNex 2010

    NASA Astrophysics Data System (ADS)

    Hayes, P. L.; Carlton, A. G.; Baker, K. R.; Ahmadov, R.; Washenfelder, R. A.; Alvarez, S.; Rappenglück, B.; Gilman, J. B.; Kuster, W. C.; de Gouw, J. A.; Zotter, P.; Prévôt, A. S. H.; Szidat, S.; Kleindienst, T. E.; Offenberg, J. H.; Jimenez, J. L.

    2014-12-01

    Four different parameterizations for the formation and evolution of secondary organic aerosol (SOA) are evaluated using a 0-D box model representing the Los Angeles Metropolitan Region during the CalNex 2010 field campaign. We constrain the model predictions with measurements from several platforms and compare predictions with particle and gas-phase observations from the CalNex Pasadena ground site. That site provides a unique opportunity to study aerosol formation close to anthropogenic emission sources with limited recirculation. The model SOA formed only from the oxidation of VOCs (V-SOA) is insufficient to explain the observed SOA concentrations, even when using SOA parameterizations with multi-generation oxidation that produce much higher yields than have been observed in chamber experiments, or when increasing yields to their upper limit estimates accounting for recently reported losses of vapors to chamber walls. The Community Multiscale Air Quality (WRF-CMAQ) model (version 5.0.1) provides excellent predictions of secondary inorganic particle species but underestimates the observed SOA mass by a factor of 25 when an older VOC-only parameterization is used, which is consistent with many previous model-measurement comparisons for pre-2007 anthropogenic SOA modules in urban areas. Including SOA from primary semi-volatile and intermediate volatility organic compounds (P-S/IVOCs) following the parameterizations of Robinson et al. (2007), Grieshop et al. (2009), or Pye and Seinfeld (2010) improves model/measurement agreement for mass concentration. When comparing the three parameterizations, the Grieshop et al. (2009) parameterization more accurately reproduces both the SOA mass concentration and oxygen-to-carbon ratio inside the urban area. Our results strongly suggest that other precursors besides VOCs, such as P-S/IVOCs, are needed to explain the observed SOA concentrations in Pasadena. All the parameterizations over-predict urban SOA formation at long

  4. Modeling the formation and aging of secondary organic aerosols in Los Angeles during CalNex 2010

    DOE PAGESBeta

    Hayes, P. L.; Carlton, A. G.; Baker, K. R.; Ahmadov, R.; Washenfelder, R. A.; Alvarez, S.; Rappenglück, B.; Gilman, J. B.; Kuster, W. C.; de Gouw, J. A.; et al

    2014-12-20

    Four different parameterizations for the formation and evolution of secondary organic aerosol (SOA) are evaluated using a 0-D box model representing the Los Angeles Metropolitan Region during the CalNex 2010 field campaign. We constrain the model predictions with measurements from several platforms and compare predictions with particle and gas-phase observations from the CalNex Pasadena ground site. That site provides a unique opportunity to study aerosol formation close to anthropogenic emission sources with limited recirculation. The model SOA formed only from the oxidation of VOCs (V-SOA) is insufficient to explain the observed SOA concentrations, even when using SOA parameterizations with multi-generationmore » oxidation that produce much higher yields than have been observed in chamber experiments, or when increasing yields to their upper limit estimates accounting for recently reported losses of vapors to chamber walls. The Community Multiscale Air Quality (WRF-CMAQ) model (version 5.0.1) provides excellent predictions of secondary inorganic particle species but underestimates the observed SOA mass by a factor of 25 when an older VOC-only parameterization is used, which is consistent with many previous model-measurement comparisons for pre-2007 anthropogenic SOA modules in urban areas. Including SOA from primary semi-volatile and intermediate volatility organic compounds (P-S/IVOCs) following the parameterizations of Robinson et al. (2007), Grieshop et al. (2009), or Pye and Seinfeld (2010) improves model/measurement agreement for mass concentration. When comparing the three parameterizations, the Grieshop et al. (2009) parameterization more accurately reproduces both the SOA mass concentration and oxygen-to-carbon ratio inside the urban area. Our results strongly suggest that other precursors besides VOCs, such as P-S/IVOCs, are needed to explain the observed SOA concentrations in Pasadena. All the parameterizations over-predict urban SOA formation at long

  5. Airborne Measurements of Secondary Organic Aerosol Formation in the Oil Sands Region of Alberta

    NASA Astrophysics Data System (ADS)

    Liggio, J.; Hayden, K.; Liu, P.; Leithead, A.; Moussa, S. G.; Staebler, R. M.; Gordon, M.; O'brien, J.; Li, S. M.

    2014-12-01

    The Alberta oil sands (OS) region represents a strategic natural resource and is a key driver of economic development. Its rapid expansion has led to a need for a more comprehensive understanding of the associated potential cumulative environmental impacts. In summer 2013, airborne measurements of various gaseous and particulate substances were made in the Athabasca oil sands region between August 13 and Sept 7, 2013. In particular, organic aerosol mass and composition measurements were performed with a High Resolution Time of flight Aerosol Mass Spectrometer (HR-ToF-AMS) supported by gaseous measurements of organic aerosol precursors with Proton Transfer Reaction (PTR) and Chemical Ionization (CI) mass spectrometers. These measurement data on selected flights were used to estimate the potential for local anthropogenic OS emissions to form secondary organic aerosol (SOA) downwind of precursor sources, and to investigate the importance of the surrounding biogenic emissions to the overall SOA burden in the region. The results of several flights conducted to investigate these transformations demonstrate that multiple distinct plumes were present downwind of OS industrial sources, each with differing abilities to form SOA depending upon factors such as NOx level, precursor VOC composition, and oxidant concentration. The results indicate that approximately 100 km downwind of an OS industrial source most of the measured organic aerosol (OA) was secondary in nature, forming at rates of ~6.4 to 13.6 μgm-3hr-1. Positive matrix factor (PMF) analysis of the HR-ToF-AMS data suggests that the SOA was highly oxidized (O/C~0.6) resulting in a measured ΔOA (difference above regional background OA) of approximately 2.5 - 3 despite being 100 km away from sources. The relative contribution of biogenic SOA to the total SOA and the factors affecting SOA formation during a number of flights in the OS region will be described.

  6. Formation and emission of brominated dioxins and furans during secondary aluminum smelting processes.

    PubMed

    Wang, Mei; Liu, Guorui; Jiang, Xiaoxu; Li, Sumei; Liu, Wenbin; Zheng, Minghui

    2016-03-01

    Secondary aluminum smelting (SAl) processes have previously been found to be important sources of polybrominated dibenzo-p-dioxins and dibenzofurans (PBDD/Fs). It is crucial that the key factors that influence the formation and emission of PBDD/Fs are identified to allow techniques for decreasing PBDD/F emissions during SAl processes to be developed. In this study, stack gas samples were collected from four typical secondary aluminum smelters that used different raw materials, and the samples were analyzed to allow differences between PBDD/F emissions from different SAl plants to be assessed. The composition of the raw materials was found to be one of the key factors influencing the amounts of PBDD/Fs emitted. The PBDD/F emission factors (per tonne of aluminum produced) for the plants using 100% (Plant1), 80% (Plant2), and 50% (Plant3) dirty aluminum scrap in the raw material feed were 180, 86, and 14 μg t(-1), respectively. The amounts of PBDD/Fs emitted at different stages of the smelting process (feeding-fusion, refining, and casting) were compared, and the feeding-fusion stage was found to be the main stage in which PBDD/Fs were formed and emitted. Effective aluminum scrap pretreatments could significantly decrease PBDD/F emissions. Much higher polybrominated dibenzofuran concentrations than polybrominated dibenzo-p-dioxin concentrations were found throughout the SAl process. The more-brominated congeners (including octabromodibenzo-p-dioxin, octabromodibenzofuran, heptabromodibenzo-p-dioxins, and heptabromodibenzofurans) were the dominant contributors to the total PBDD/F concentrations. The results could help in the development of techniques and strategies for controlling PBDD/F emissions during metallurgical processes. PMID:26706932

  7. Formation of secondary porosity in 4D Synchrotron X-ray tomography experiments

    NASA Astrophysics Data System (ADS)

    Fusseis, Florian; Liu, Jie; de Carlo, Francesco; Regenauer-Lieb, Klaus; Schrank, Christoph; Hough, Robert; Gessner, Klaus; Llana-Fúnez, Sergio; Faulkner, Dan; Wheeler, John

    2010-05-01

    Synchrotron X-ray tomography at the Advanced Photon Source (APS) allows to investigate secondary porosity in three dimensions on the nano- to microscale. We utilised the key advantage of the technique, the rapid data acquisition time (seconds to about half an hour/data set), to study the formation of porosity in natural rock samples in real time (4D). The spacious instrument setup in the experimental hutch allowed us to install an X-ray transparent furnace to heat millimetre-sized samples up to 230 °C (>400 °C in the next generation) in the X-ray beam. We focused on two porosity-generating mechanisms: thermal expansion cracking in Westerly granite and dehydration (volume loss/hydraulic fracturing) of Volterra gypsum. The spatial resolution was 1.3 micron in both experiments. We heated a 2mm diameter cylinder of Westerly Granite stepwise from 50 °C to 230 °C and then quenched it to investigate the effects of thermal expansion cracking on the three-dimensional porosity architecture. The sample was scanned after increasing the temperature in 10 °C steps to record the cracks formed during each heating interval. Preliminary analysis of the heterogeneous 4D displacement fields proved that the approach works well. We documented the opening and closing as well as interconnection of grain boundary- and intragranular cracks. A full quantification is currently under way. This experiment also serves to benchmark numerical simulations of thermal cracking that will be used to upscale the permeability evolution during heating (see abstract of Schrank et al.). A second heating experiment aimed at documenting the fluid escape pathways during the dehydration of gypsum to bassanite. We heated a gypsum sample to 115 °C for increasing periods of time. The reaction progress was directly observed in two-dimensional tomographic projections, 3D tomographic datasets were collected during cooling at 50 °C in between the heating intervals. The experiment demonstrated how a permeable

  8. How Sweet it is! Cell Wall Biogenesis and Polysaccharide Capsule Formation in Cryptococcus neoformans

    PubMed Central

    Doering, Tamara Lea

    2010-01-01

    Cryptococcus neoformans is a pathogenic fungus responsible for severe opportunistic infections. The most prominent feature of this yeast is its elaborate polysaccharide capsule, a complex structure that is required for virulence. The capsule is intimately associated with the cell wall, which underlies the capsule and offers the organism strength and flexibility in potentially hostile environments. Both structures are primarily composed of polysaccharides, offering a glimpse of the tremendous variation inherent in natural carbohydrate structures and their multiple biological functions. The steps in cell wall and capsule biosynthesis and assembly pose fascinating questions of metabolism, enzymology, cell biology, and regulation; the answers have potential application to treatment of a deadly infection. This article reviews current knowledge of cryptococcal cell wall and capsule biosynthesis and outstanding questions for the future. PMID:19575556

  9. Investigation of formation and ageing of biogenic secondary aerosols by soft ionization aerosol mass spectrometry

    NASA Astrophysics Data System (ADS)

    Müller, Lars; Reinnig, Marc-Christopher; Vogel, Alexander; Mentel, Thomas; Tillmann, Ralf; Schlosser, E.; Wahner, Andreas; Donahue, Neil; Saathoff, Harald; Hoffmann, Thorsten

    2010-05-01

    The knowledge of the chemical composition of secondary organic aerosol is one essential key to understand the significance and fate of SOA in the atmosphere. However, the chemical evolution of SOA, from the very first condensing/nucleating molecules to the final oxidation products is still insufficiently understood and object of current research [1-3]. Consequently, the formation and photochemical ageing of secondary organic aerosol (SOA) was investigated in a series of reaction chamber experiments by applying on-line aerosol mass spectrometry (atmospheric pressure chemical ionization mass spectrometry (APCI/MS)) as well as off-line high performance liquid chromatography mass spectrometry (HPLC-MS). In a set of experiments, performed in the large outdoor reaction chamber SAPHIR (Jülich, Germany), SOA was generated from a boreal mixture of biogenic VOCs. During a two-day experiment the generated biogenic SOA was exposed to OH-radicals and the temporal evolution of the chemical composition was characterized. The applied on-line MS method not only provides highly time resolved chemical information (such as an AMS) but also allows molecular identification/quantification of specific marker compounds. Several first and higher generation BSOA products were identified. Among the higher generation products, especially a tricarboxylic acid (3-methyl-1,2,3-butanetricarboxylic acid) [2] was observed as an eye-catching oxidative processing marker. A more detailed investigation of hydroxyl radical induced SOA aging at the AIDA chamber facility in Karlsruhe, again using terpenes as SOA precursors, clearly showed that the formation of the tricarboxylic acid takes place in the gas phase by the reaction of semivolatile first generation products and hydroxyl radicals. Actually, there were no indications for OH induced oxidation of compounds in the condensed phase. The consequences of these results will be discussed in the contribution. 1. Rudich, Y., N.M. Donahue, and T.F. Mentel

  10. Effect of heterogeneous aqueous reactions on the secondary formation of inorganic aerosols during haze events

    SciTech Connect

    Quan, Jiannong; Liu, Yangang; Liu, Quan; Li, Xia; Gao, Yang; Jia, Xingcan; Sheng, Jiujiang

    2015-09-30

    In this study, the effect of heterogeneous aqueous reactions on the secondary formation of inorganic aerosols during haze events was investigated by analysis of comprehensive measurements of aerosol composition and concentrations [e.g., particular matters (PM2.5), nitrate (NO3), sulfate (SO4), ammonium (NH4)], gas-phase precursors [e.g., nitrogen oxides (NOx), sulfur dioxide (SO2), and ozone (O3)], and relevant meteorological parameters [e.g., visibility and relative humidity (RH)]. The measurements were conducted in Beijing, China from Sep. 07, 2012 to Jan. 16, 2013. The results show that the conversion ratios of N from NOx to nitrate (Nratio) and S from SO2 to sulfate (Sratio) both significantly increased in haze events, suggesting enhanced conversions from NOx and SO2 to their corresponding particle phases in the late haze period. Further analysis shows that Nratio and Sratio increased with increasing RH, with Nratio and Sratio being only 0.04 and 0.03, respectively, when RH < 40%, and increasing up to 0.16 and 0.12 when RH reached 60–80%, respectively. The enhanced conversion ratios of N and S in the late haze period is likely due to heterogeneous aqueous reactions, because solar radiation and thus the photochemical capacity are reduced by the increases in aerosols and RH. This point was further affirmed by the relationships of Nratio and Sratio to O3: the conversion ratios increase with decreasing O3 concentration when O3 concentration is lower than <15 ppb but increased with increasing O3 when O3 concentration is higher than 15 ppb. The results suggest that heterogeneous aqueous reactions likely changed aerosols and their precursors during the haze events: in the beginning of haze events, the precursor gases accumulated quickly

  11. Effect of heterogeneous aqueous reactions on the secondary formation of inorganic aerosols during haze events

    DOE PAGESBeta

    Quan, Jiannong; Liu, Yangang; Liu, Quan; Li, Xia; Gao, Yang; Jia, Xingcan; Sheng, Jiujiang

    2015-09-30

    In this study, the effect of heterogeneous aqueous reactions on the secondary formation of inorganic aerosols during haze events was investigated by analysis of comprehensive measurements of aerosol composition and concentrations [e.g., particular matters (PM2.5), nitrate (NO3), sulfate (SO4), ammonium (NH4)], gas-phase precursors [e.g., nitrogen oxides (NOx), sulfur dioxide (SO2), and ozone (O3)], and relevant meteorological parameters [e.g., visibility and relative humidity (RH)]. The measurements were conducted in Beijing, China from Sep. 07, 2012 to Jan. 16, 2013. The results show that the conversion ratios of N from NOx to nitrate (Nratio) and S from SO2 to sulfate (Sratio) bothmore » significantly increased in haze events, suggesting enhanced conversions from NOx and SO2 to their corresponding particle phases in the late haze period. Further analysis shows that Nratio and Sratio increased with increasing RH, with Nratio and Sratio being only 0.04 and 0.03, respectively, when RH < 40%, and increasing up to 0.16 and 0.12 when RH reached 60–80%, respectively. The enhanced conversion ratios of N and S in the late haze period is likely due to heterogeneous aqueous reactions, because solar radiation and thus the photochemical capacity are reduced by the increases in aerosols and RH. This point was further affirmed by the relationships of Nratio and Sratio to O3: the conversion ratios increase with decreasing O3 concentration when O3 concentration is lower than <15 ppb but increased with increasing O3 when O3 concentration is higher than 15 ppb. The results suggest that heterogeneous aqueous reactions likely changed aerosols and their precursors during the haze events: in the beginning of haze events, the precursor gases accumulated quickly due to high emission and low reaction rate; the occurrence of heterogeneous aqueous reactions in the late haze period, together with the accumulated high concentrations of precursor gases such as SO2 and NOx, accelerated the

  12. Secondary Organic Aerosol Formation from Glyoxal: Effects of Seed Aerosol on Particle Composition

    NASA Astrophysics Data System (ADS)

    Slowik, Jay; Waxman, Eleanor; Coburn, Sean; Klein, Felix; Koenig, Theodore; Krapf, Manuel; Kumar, Nivedita; Wang, Siyuan; Baltensperger, Urs; Dommen, Josef; Prévôt, Andre; Volkamer, Rainer

    2014-05-01

    Conventional models of secondary organic aerosol (SOA) production neglect aqueous-phase processing mechanisms, thereby excluding potentially important SOA formation pathways. These missing pathways may be an important factor in the inability of current models to fully explain SOA yields and oxidation states. Molecules identified as important precursors to SOA generated through aqueous-phase include glyoxal, which is an oxidation product of numerous organic gases. Glyoxal SOA formation experiments were conducted in the PSI smog chamber as a function of seed composition, relative humidity (RH, 60 to 85%), and the presence/absence of gaseous ammonia, affecting particle acidity. In a typical experiment, the chamber was filled with the selected seed aerosol (NaCl, (NH4)2SO4, NaNO3, or K2SO4), after which glyoxal was generated by the brief (i.e. a few minutes) exposure of acetylene to UV light. The experiment was then allowed to proceed undisturbed for several hours. Each experiment consisted of several UV exposures, followed by a dilution phase at constant RH to investigate the gas/particle partitioning behavior of the generated SOA. Gas-phase glyoxal was monitored by an LED-CE-DOAS system, while the particle composition was measured using online aerosol mass spectrometry (Aerodyne HR-ToF-AMS) and offline analysis of collected filter samples. SOA composition was observed to depend strongly on seed type, with increased imidazole formation evident during experiments with (NH4)2SO¬4 and K2SO4 seeds relative to those with NaCl and NaNO3. Additionally, experiments conducted in the presence of ammonia showed large enhancements in both imidazole content and total SOA yield. Analysis of mass spectral markers indicates reversible uptake of glyoxal but irreversible particle-phase production of the imidazole-containing SOA. Positive matrix factorization (PMF) using the Multilinear Engine (ME-2) was applied to the AMS mass spectral time series to quantify factors related to

  13. The formation of the wall region - Consequences in the near earth magnetotail

    NASA Technical Reports Server (NTRS)

    Ashour-Abdalla, Maha; Zelenyi, Lev M.; Bosqued, Jean-Michel; Peroomian, Vahe; Wang, Zhi; Schriver, David; Richard, Robert L.

    1992-01-01

    This paper discusses important new findings obtained from global kinetic simulations of magnetotail plasma. A region of strongly nonadiabatic ion acceleration (known as the wall region) exists in the near earth tail and demarcates two very different regimes of ion motion: adiabatic and quasi-adiabatic. A strong enhancement of the cross-tail current occurs on the tailward side of the wall. A comparison of numerical and adiabatic pressure profiles indicates that nonadiabatic processes operating in this region may contribute significantly to a pressure balance relief in the course of quasi-steady magnetospheric convection.

  14. Formation of secondary organic aerosols from biogenic precursors: A case study over an Isoprene emitting forest.

    NASA Astrophysics Data System (ADS)

    Freney, Evelyn; Sellegri, Karine; Borbon, Agnès; Colomb, Aurelie; Delon, Claire; Jambert, Corinne; Durand, Pierre; Bourianne, Thierry; Gaimoz, Cecile; Feron, Anais; Triquette, Sylvain; Beekmann, Matthias; Sartelet, Karine; Dulcac, Francois

    2015-04-01

    Characterising the sources and formation patterns of atmospheric aerosols is fundamental to understanding the impact of anthropogenic emissions on the composition and physical properties of the atmosphere. Although, the contribution of urban anthropogenic aerosol particles is important (10 Tg C yr-1), the contribution of biogenic aerosols has been estimated to be as much as 90 Tg C yr-1 (Hallquist et al., 2009.). This large difference highlights the importance of understanding the formation mechanisms and sources of the biogenic aerosol in the atmosphere. An increasing number of studies have shown that the submicron aerosol mass concentration is dominated by organic aerosols in both rural and urban environments. In addition, there have been several studies showing that the combined emissions of both biogenic and anthropogenic VOC emissions can result in a higher yield of secondary organic aerosol (SOA) formation. Biogenic SOA is formed from the oxidation of biogenic volatile organic compounds that are emitted naturally from terrestrial vegetation. The most commonly emitted BVOCs include isoprene and monoterpenes (Kesslmeier and Staudt, 1999, Arneth et al., 2008). Despite their importance, the characterisation of BSOA from laboratory and field experiments is still poor and it is only recently that advances in measurement techniques providing more detailed analysis of these species is being provided. One of the reasons for the difficulty in characterising the abundance of these species, is their high temporal and spatial scales. As part of the ChArMEx (the Chemistry-Aerosol Mediterranean Experiment, http://charmex.lsce.ipsl.fr) experiment (SOP2a/SAFMED+) in July 2014, a number of research flights were performed over two forested areas in the south of France. These forested areas had different characteristics where one has mainly isoprene emitting vegetation, and the other is known to have more monoterpene emitting vegetation. The aims of these research flights were

  15. Investigation of a Particle into Liquid Sampler to Study the Formation & Ageing of Secondary Organic Aerosol

    NASA Astrophysics Data System (ADS)

    Pereira, K. L.; Hamilton, J. F.; Rickard, A. R.; Bloss, W. J.; Alam, M. S.; Camredon, M.; Munoz, A.; Vazquez, M.; Rodenas, M.; Vera, T.; Borrás, E.

    2012-12-01

    The atmospheric oxidation of Volatile Organic Compounds (VOCs) in the presence of NOx results in the formation of tropospheric ozone and Secondary Organic Aerosol (SOA) [Hallquist et al., 2009]. Whilst SOA is known to affect both climate and human health, the VOC oxidation pathways leading to SOA formation are poorly understood [Solomon et al., 2007]. This is in part due to the vast number and the low concentration of SOA species present in the ambient atmosphere. It has been estimated as many as 10,000 to 100,000 VOCs have been detected in the atmosphere, all of which can undergo photo-chemical oxidation and contribute to SOA formation [Goldstein and Galbally, 2007]. Atmospheric simulation chambers such as the EUropean PHOtoREactor (EUPHORE) in Valencia, Spain, are often used to study SOA formation from a single VOC precursor under controlled conditions. SOA composition and formation can be studied using online techniques such as Aerosol Mass Spectrometry (AMS), which provide high time resolution but limited structural information [Zhang et al., 2007]. Offline techniques, such as collection onto filters, extraction and subsequent analysis, provide detailed SOA composition but only usually one or two samples per experiment. In this work we report time resolved SOA composition analysis using a Particle into Liquid Sampler (PILS) followed by Liquid Chromatography Ion-Trap Mass Spectrometry (LC-IT-MS/MS) and Fourier Transform Ion Cyclotron Resonance Mass Spectrometry (FTICR-MS/MS). Experiments were performed at EUPHORE investigating the formation and composition of Methyl Chavicol SOA. Methyl Chavicol (also known as Estragole) was identified as the highest floral emission from an oil palm plantation in Malaysian Borneo and has also been observed in US pine forests [Bouvier-Brown et al., 2009; Misztal et al., 2010]. Previous studies indicate a high SOA yield from Methyl Chavicol at around 40 % [Lee et al., 2006], however currently there have been very few literature

  16. Limited effect of anthropogenic nitrogen oxides on secondary organic aerosol formation

    NASA Astrophysics Data System (ADS)

    Zheng, Y.; Unger, N.; Hodzic, A.; Emmons, L.; Knote, C.; Tilmes, S.; Lamarque, J.-F.; Yu, P.

    2015-12-01

    Globally, secondary organic aerosol (SOA) is mostly formed from emissions of biogenic volatile organic compounds (VOCs) by vegetation, but it can be modified by human activities as demonstrated in recent research. Specifically, nitrogen oxides (NOx = NO + NO2) have been shown to play a critical role in the chemical formation of low volatility compounds. We have updated the SOA scheme in the global NCAR (National Center for Atmospheric Research) Community Atmospheric Model version 4 with chemistry (CAM4-chem) by implementing a 4-product volatility basis set (VBS) scheme, including NOx-dependent SOA yields and aging parameterizations. Small differences are found for the no-aging VBS and 2-product schemes; large increases in SOA production and the SOA-to-OA ratio are found for the aging scheme. The predicted organic aerosol amounts capture both the magnitude and distribution of US surface annual mean measurements from the Interagency Monitoring of Protected Visual Environments (IMPROVE) network by 50 %, and the simulated vertical profiles are within a factor of 2 compared to aerosol mass spectrometer (AMS) measurements from 13 aircraft-based field campaigns across different regions and seasons. We then perform sensitivity experiments to examine how the SOA loading responds to a 50 % reduction in anthropogenic nitric oxide (NO) emissions in different regions. We find limited SOA reductions of 0.9-5.6, 6.4-12.0 and 0.9-2.8 % for global, southeast US and Amazon NOx perturbations, respectively. The fact that SOA formation is almost unaffected by changes in NOx can be largely attributed to a limited shift in chemical regime, to buffering in chemical pathways (low- and high-NOx pathways, O3 versus NO3-initiated oxidation) and to offsetting tendencies in the biogenic versus anthropogenic SOA responses.

  17. Limited effect of anthropogenic nitrogen oxides on secondary organic aerosol formation

    DOE PAGESBeta

    Zheng, Y.; Unger, N.; Hodzic, A.; Emmons, L.; Knote, C.; Tilmes, S.; Lamarque, J.-F.; Yu, P.

    2015-12-08

    Globally, secondary organic aerosol (SOA) is mostly formed from emissions of biogenic volatile organic compounds (VOCs) by vegetation, but it can be modified by human activities as demonstrated in recent research. Specifically, nitrogen oxides (NOx = NO + NO2) have been shown to play a critical role in the chemical formation of low volatility compounds. We have updated the SOA scheme in the global NCAR (National Center for Atmospheric Research) Community Atmospheric Model version 4 with chemistry (CAM4-chem) by implementing a 4-product volatility basis set (VBS) scheme, including NOx-dependent SOA yields and aging parameterizations. Small differences are found for themore » no-aging VBS and 2-product schemes; large increases in SOA production and the SOA-to-OA ratio are found for the aging scheme. The predicted organic aerosol amounts capture both the magnitude and distribution of US surface annual mean measurements from the Interagency Monitoring of Protected Visual Environments (IMPROVE) network by 50 %, and the simulated vertical profiles are within a factor of 2 compared to aerosol mass spectrometer (AMS) measurements from 13 aircraft-based field campaigns across different regions and seasons. We then perform sensitivity experiments to examine how the SOA loading responds to a 50 % reduction in anthropogenic nitric oxide (NO) emissions in different regions. We find limited SOA reductions of 0.9–5.6, 6.4–12.0 and 0.9–2.8 % for global, southeast US and Amazon NOx perturbations, respectively. The fact that SOA formation is almost unaffected by changes in NOx can be largely attributed to a limited shift in chemical regime, to buffering in chemical pathways (low- and high-NOx pathways, O3 versus NO3-initiated oxidation) and to offsetting tendencies in the biogenic versus anthropogenic SOA responses.« less

  18. Limited effect of anthropogenic nitrogen oxides on Secondary Organic Aerosol formation

    DOE PAGESBeta

    Zheng, Y.; Unger, N.; Hodzic, A.; Emmons, L.; Knote, C.; Tilmes, S.; Lamarque, J.-F.; Yu, P.

    2015-08-28

    Globally, secondary organic aerosol (SOA) is mostly formed from emissions of biogenic volatile organic compounds (VOCs) by vegetation, but can be modified by human activities as demonstrated in recent research. Specifically, nitrogen oxides (NOx = NO + NO2) have been shown to play a critical role in the chemical formation of low volatility compounds. We have updated the SOA scheme in the global NCAR Community Atmospheric Model version 4 with chemistry (CAM4-chem) by implementing a 4-product Volatility Basis Set (VBS) scheme, including NOx-dependent SOA yields and aging parameterizations. The predicted organic aerosol amounts capture both the magnitude and distribution ofmore » US surface annual mean measurements from the Interagency Monitoring of Protected Visual Environments (IMPROVE) network by 50 %, and the simulated vertical profiles are within a factor of two compared to Aerosol Mass Spectrometer (AMS) measurements from 13 aircraft-based field campaigns across different region and seasons. We then perform sensitivity experiments to examine how the SOA loading responds to a 50 % reduction in anthropogenic nitric oxide (NO) emissions in different regions. We find limited SOA reductions of 0.9 to 5.6, 6.4 to 12.0 and 0.9 to 2.8 % for global, the southeast US and the Amazon NOx perturbations, respectively. The fact that SOA formation is almost unaffected by changes in NOx can be largely attributed to buffering in chemical pathways (low- and high-NOx pathways, O3 versus NO3-initiated oxidation) and to offsetting tendencies in the biogenic versus anthropogenic SOA responses.« less

  19. Limited effect of anthropogenic nitrogen oxides on Secondary Organic Aerosol formation

    NASA Astrophysics Data System (ADS)

    Zheng, Y.; Unger, N.; Hodzic, A.; Emmons, L.; Knote, C.; Tilmes, S.; Lamarque, J.-F.; Yu, P.

    2015-08-01

    Globally, secondary organic aerosol (SOA) is mostly formed from emissions of biogenic volatile organic compounds (VOCs) by vegetation, but can be modified by human activities as demonstrated in recent research. Specifically, nitrogen oxides (NOx = NO + NO2) have been shown to play a critical role in the chemical formation of low volatility compounds. We have updated the SOA scheme in the global NCAR Community Atmospheric Model version 4 with chemistry (CAM4-chem) by implementing a 4-product Volatility Basis Set (VBS) scheme, including NOx-dependent SOA yields and aging parameterizations. The predicted organic aerosol amounts capture both the magnitude and distribution of US surface annual mean measurements from the Interagency Monitoring of Protected Visual Environments (IMPROVE) network by 50 %, and the simulated vertical profiles are within a factor of two compared to Aerosol Mass Spectrometer (AMS) measurements from 13 aircraft-based field campaigns across different region and seasons. We then perform sensitivity experiments to examine how the SOA loading responds to a 50 % reduction in anthropogenic nitric oxide (NO) emissions in different regions. We find limited SOA reductions of 0.9 to 5.6, 6.4 to 12.0 and 0.9 to 2.8 % for global, the southeast US and the Amazon NOx perturbations, respectively. The fact that SOA formation is almost unaffected by changes in NOx can be largely attributed to buffering in chemical pathways (low- and high-NOx pathways, O3 versus NO3-initiated oxidation) and to offsetting tendencies in the biogenic versus anthropogenic SOA responses.

  20. SECONDARY ORGANIC AEROSOL FORMATION FROM THE OXIDATION OF AROMATIC HYDROCARBONS IN THE PRESENCE OF DRY SUBMICRON AMMONIUM SULFATE AEROSOL

    EPA Science Inventory

    A laboratory study was conducted to examine formation of secondary organic aerosols. A smog chamber system was developed for studying gas-aerosol interactions in a dynamic flow reactor. These experiments were conducted to investigate the fate of gas and aerosol phase compounds ...

  1. Preferred Social Organization of Learning Formats among Pupils Experiencing Different Kinds of Internalizing Problems in Secondary School

    ERIC Educational Resources Information Center

    Paulsen, Erik; Bru, Edvin

    2008-01-01

    The aims of this study were to investigate the dimensionality of internalizing problems among secondary high school pupils and to find out about their preferences for the social organization of learning formats. We wanted to see if preferences varied for pupils reporting different kinds of internalizing problems. Five hundred and one pupils in…

  2. Several characteristics of the formation of secondary porosity in Mesozoic sand-siltstones of the western Precaucasus

    SciTech Connect

    Petrova, R.N.; Dement'eva, O.F.; Kornev, A.G.

    1986-11-01

    The lithological characteristics of Mesozoic sand-siltstones of the Western Precaucasus are examined. The zonal nature of the distribution of authigenic minerals and reservoir properties in the sand-silt layers is described, along with the dependence of the zonality on layer thickness. The secondary nature of the pore space in terrigenous rocks and possible means of its formation are determined.

  3. Secondary eyewall formation in WRF simulations of Hurricanes Rita and Katrina (2005)

    NASA Astrophysics Data System (ADS)

    Abarca, Sergio F.; Corbosiero, Kristen L.

    2011-04-01

    An analysis is presented of two high-resolution hurricane simulations of Katrina and Rita (2005) that exhibited secondary eyewall formation (SEF). The results support the notion of vortex Rossby waves (VRWs) having an important role in SEF and suggest that VRW activity is a defining aspect of the moat. SEF occurs at a radius of ˜65 (80) km in Katrina (Rita), close to the hypothesized stagnation radius of VRWs. VRW activity appears to be the result of eye-eyewall mixing events, themselves a product of the release of barotropic instability. The convection in the radial region that becomes the moat is mainly in the form of VRWs propagating radially outward from the primary eyewall until the negative radial gradient of potential vorticity is no longer conducive for their propagation. These convectively coupled waves, originating and being expelled from the eyewall, are rotation dominated and have the coherency necessary to survive their passage through the strain-dominated region outside the eyewall.

  4. Resolving detailed molecular structures in complex organic mixtures and modeling their secondary organic aerosol formation

    NASA Astrophysics Data System (ADS)

    Goodman-Rendall, Kevin A. S.; Zhuang, Yang R.; Amirav, Aviv; Chan, Arthur W. H.

    2016-03-01

    Characterization of unresolved complex mixtures (UCMs) remains an ongoing challenge towards developing detailed and accurate inputs for modeling secondary organic aerosol (SOA) formation. Traditional techniques based on gas chromatography/electron impact-mass spectrometry induce excessive fragmentation, making it difficult to speciate and quantify isomers precisely. The goal of this study is to identify individual organic isomers by gas chromatography/mass spectrometry with supersonic molecular beam (SMB-GC/MS, also known as GC/MS with Cold EI) and to incorporate speciated isomers into an SOA model that accounts for the specific structures elucidated. Two samples containing atmospherically relevant UCMs are analyzed. The relative isomer distributions exhibit remarkably consistent trends across a wide range of carbon numbers. Constitutional isomers of different alkanes are speciated and individually quantified as linear, branched - for the first time by position of branching - multiply branched, or unsaturated - by degree of ring substitution and number of rings. Relative amounts of exact molecular structures are used as input parameters in an SOA box model to study the effects of molecular structures on SOA yields and volatility evolution. Highly substituted cyclic, mono-substituted cyclic, and linear species have the highest SOA yields while branched alkanes formed the least SOA. The rate of functionalization of a representative UCM is found to be in agreement with current volatility basis set (VBS) parameterizations based on detailed knowledge of composition and known oxidation mechanisms, confirming the validity of VBS parameters currently used in air quality models.

  5. Mechanism Underlying the Spatial Pattern Formation of Dominant Tree Species in a Natural Secondary Forest

    PubMed Central

    Jia, Guodong; Yu, Xinxiao; Fan, Dengxing; Jia, Jianbo

    2016-01-01

    Studying the spatial pattern of plant species may provide significant insights into processes and mechanisms that maintain stand stability. To better understand the dynamics of naturally regenerated secondary forests, univariate and bivariate Ripley’s L(r) functions were employed to evaluate intra-/interspecific relationships of four dominant tree species (Populus davidiana, Betula platyphylla, Larix gmelinii and Acer mono) and to distinguish the underlying mechanism of spatial distribution. The results showed that the distribution of soil, water and nutrients was not fragmented but presented clear gradients. An overall aggregated distribution existed at most distances. No correlation was found between the spatial pattern of soil conditions and that of trees. Both positive and negative intra- and interspecific relationships were found between different DBH classes at various distances. Large trees did not show systematic inhibition of the saplings. By contrast, the inhibition intensified as the height differences increased between the compared pairs. Except for Larix, universal inhibition of saplings by upper layer trees occurred among other species, and this reflected the vertical competition for light. Therefore, we believe that competition for light rather than soil nutrients underlies the mechanism driving the formation of stand spatial pattern in the rocky mountainous areas examined. PMID:27028757

  6. Mechanism Underlying the Spatial Pattern Formation of Dominant Tree Species in a Natural Secondary Forest.

    PubMed

    Jia, Guodong; Yu, Xinxiao; Fan, Dengxing; Jia, Jianbo

    2016-01-01

    Studying the spatial pattern of plant species may provide significant insights into processes and mechanisms that maintain stand stability. To better understand the dynamics of naturally regenerated secondary forests, univariate and bivariate Ripley's L(r) functions were employed to evaluate intra-/interspecific relationships of four dominant tree species (Populus davidiana, Betula platyphylla, Larix gmelinii and Acer mono) and to distinguish the underlying mechanism of spatial distribution. The results showed that the distribution of soil, water and nutrients was not fragmented but presented clear gradients. An overall aggregated distribution existed at most distances. No correlation was found between the spatial pattern of soil conditions and that of trees. Both positive and negative intra- and interspecific relationships were found between different DBH classes at various distances. Large trees did not show systematic inhibition of the saplings. By contrast, the inhibition intensified as the height differences increased between the compared pairs. Except for Larix, universal inhibition of saplings by upper layer trees occurred among other species, and this reflected the vertical competition for light. Therefore, we believe that competition for light rather than soil nutrients underlies the mechanism driving the formation of stand spatial pattern in the rocky mountainous areas examined. PMID:27028757

  7. The influence of tetrad shape and intersporal callose wall formation on pollen aperture pattern ontogeny in two eudicot species

    PubMed Central

    Albert, Béatrice; Nadot, Sophie; Dreyer, Leanne; Ressayre, Adrienne

    2010-01-01

    Background and Aims In flowering plants, microsporogenesis is accompanied by various types of cytoplasmic partitioning (cytokinesis). Patterns of male cytokinesis are suspected to play a role in the diversity of aperture patterns found in pollen grains of angiosperms. The relationships between intersporal wall formation, tetrad shape and pollen aperture pattern ontogeny are studied. Methods A comparative analysis of meiosis and aperture distribution was performed within tetrads in two triporate eudicot species with contrasting aperture arrangements within their tetrads [Epilobium roseum (Onagraceae) and Paranomus reflexus (Proteaceae)]. Key Results and Conclusions Intersporal wall formation is a two-step process in both species. Cytokinesis is first achieved by the formation of naked centripetal cell plates. These naked cell plates are then covered by additional thick, localized callose deposits that differ in location between the two species. Apertures are finally formed in areas in which additional callose is deposited on the cell plates. The recorded variation in tetrad shape is correlated with variations in aperture pattern, demonstrating the role of cell partitioning in aperture pattern ontogeny. PMID:20685726

  8. HIGH RESOLUTION IMMUNOGOLD LOCALIZATION OF GIARDIA CYST WALL ANTIGENS USING FIELD EMISSION SEM WITH SECONDARY AND BACKSCATTER ELECTRON IMAGING

    EPA Science Inventory

    In this report we described the ultrastructural localization of Giardia cyst antigens in the filaments associated with the outer portion of intact cysts and on developing cyst wall filaments in encysting trophozoites. ostembedding immunogold labeling of thin sections of intact Gi...

  9. Metabolomic and transcriptomic insights into how cotton fiber transitions to secondary wall sythesis, represses lignification, and prolongs elongation

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Cotton fiber morphogenesis reflects extreme elongation and staged cell wall differentiation in an easily isolated single cell. Uncovering the cellular control mechanisms can lead to strategies for producing improved cotton fiber for textiles and other uses. To identify potential controls of the high...

  10. Mechanisms for secondary eyewall formation, and cold-air damming: Tropical cyclone interactions

    NASA Astrophysics Data System (ADS)

    Garcia-Rivera, Jose Manuel

    This dissertation consists of two topics, the mechanisms leading to secondary eyewall formation in tropical cyclones, and effects of tropical cyclone---cold-air interactions on heavy precipitation. The first research topic involves a proposed coupled mechanism for secondary eyewall formation (SEF; initiation of an eyewall replacement cycle), using a WRF-ARW simulation of Hurricane Katrina (2005). The storm underwent a series of structural changes that were deemed necessary for the cycle to begin. These included a significant increase of rainband activity in the SEF region and the eventual vertical coupling of azimuthal-mean updrafts that led to cycle initiation. Increased rainband activity outside the primary eyewall in the hours before was mostly related to an intensifying main feeder band. Close to initiation, an updraft (explained by a pre-existing hypothesis) emerged outside the primary eyewall near the top of the boundary layer (BL). This updraft then intensified and extended both upward and outward, while the storm intensified and approached SEF. Eventually, the updraft coupled with the upward motion associated with rainband-related convection near the SEF radius. Once the alignment occurred, the deep updraft quickly organized to support deep convection that led to SEF within hours of initiation. The coupling of updrafts emanating from the BL with the environmental upward motion associated with the pre-existing rainband activity is proposed to be the key for SEF initiation in this case. The second topic investigates the interactions between an Appalachian cold-air damming event and the near-passage of Tropical Storm Kyle (2002) along the coastal Carolinas, as assessed by using a numerical weather prediction model. While the storm moved along the coastline, it began extra-tropical transition, bringing heavy rains to both the coastal region and inland towards the Piedmont of North Carolina. Our goal is to quantify the effects of both interacting weather systems

  11. Functional characterization of secondary wall deposition regulating transcription factors MusaVND2 and MusaVND3 in transgenic banana plants.

    PubMed

    Negi, Sanjana; Tak, Himanshu; Ganapathi, T R

    2016-03-01

    NAM, ATAF, and CUC (NAC) domain-containing proteins are plant-specific transcription factors involved in stress responses and developmental regulation. MusaVND2 and MusaVND3 are vascular-related NAC domain-containing genes encoding for nuclear-localized proteins. The transcript level of MusaVND2 and MusaVND3 are gradually induced after induction of lignification conditions in banana embryogenic cells. Banana embryogenic cells differentiated to tracheary element-like cells after overexpression of MusaVND2 and MusaVND3 with a differentiation frequency of 63.5 and 23.4 %, respectively, after ninth day. Transgenic banana plants overexpressing either of MusaVND2 or MusaVND3 showed ectopic secondary wall deposition as well as transdifferentiation of cells into tracheary elements. Transdifferentiation to tracheary element-like cells was observed in cortical cells of corm and in epidermal and mesophyll cells of leaves of transgenic plants. Elevated levels of lignin and crystalline cellulose were detected in the transgenic banana lines than control plants. The results obtained are useful for understanding the molecular regulation of secondary wall development in banana. PMID:25952082

  12. Extracellular hydrogen peroxide, produced through a respiratory burst oxidase/superoxide dismutase pathway, directs ingrowth wall formation in epidermal transfer cells of Vicia faba cotyledons.

    PubMed

    Xia, Xue; Zhang, Hui-Ming; Andriunas, Felicity A; Offler, Christina E; Patrick, John W

    2012-09-01

    The intricate, and often polarized, ingrowth walls of transfer cells (TCs) amplify their plasma membrane surface areas to confer a transport function of supporting high rates of nutrient exchange across apo-/symplasmic interfaces. The TC ingrowth wall comprises a uniform wall layer on which wall ingrowths are deposited. Signals and signal cascades inducing trans-differentiation events leading to formation of TC ingrowth walls are poorly understood. Vicia faba cotyledons offer a robust experimental model to examine TC induction as, when placed into culture, their adaxial epidermal cells rapidly (h) and synchronously form polarized ingrowth walls accessible for experimental observations. Using this model, we recently reported findings consistent with extracellular hydrogen peroxide, produced through a respiratory burst oxidase homolog/superoxide dismutase pathway, initiating cell wall biosynthetic activity and providing directional information guiding deposition of the polarized uniform wall. Our conclusions rested on observations derived from pharmacological manipulations of hydrogen peroxide production and correlative gene expression data sets. A series of additional studies were undertaken, the results of which verify that extracellular hydrogen peroxide contributes to regulating ingrowth wall formation and is generated by a respiratory burst oxidase homolog/superoxide dismutase pathway. PMID:22899058

  13. Secondary organic aerosol formation from gasoline vehicle emissions in a new mobile environmental reaction chamber

    NASA Astrophysics Data System (ADS)

    Platt, S. M.; El Haddad, I.; Zardini, A. A.; Clairotte, M.; Astorga, C.; Wolf, R.; Slowik, J. G.; Temime-Roussel, B.; Marchand, N.; Ježek, I.; Drinovec, L.; Močnik, G.; Möhler, O.; Richter, R.; Barmet, P.; Bianchi, F.; Baltensperger, U.; Prévôt, A. S. H.

    2012-10-01

    We present a new mobile environmental reaction chamber for the simulation of the atmospheric aging of aerosols from different emissions sources without limitation from the instruments or facilities available at any single site. The chamber can be mounted on a trailer for transport to host facilities or for mobile measurements. Photochemistry is simulated using a set of 40 UV lights (total power 4 KW). Characterisation of the emission spectrum of these lights shows that atmospheric photochemistry can be accurately simulated over a range of temperatures from -7-25 °C. A photolysis rate of NO2, JNO2, of (8.0 ± 0.7) × 10-3 molecules cm-3 s-1 was determined at 25 °C. Further, we present the first application of the mobile chamber and demonstrate its utility by quantifying primary organic aerosol (POA) emission and secondary organic aerosol (SOA) production from a Euro 5 light duty gasoline vehicle. Exhaust emissions were sampled during the New European Driving Cycle (NEDC), the standard driving cycle for European regulatory purposes, and injected into the chamber. The relative concentrations of oxides of nitrogen (NOx) and total hydrocarbon (THC) during the aging of emissions inside the chamber were controlled using an injection system developed as a part of the new mobile chamber set up. Total OA (POA + SOA) emission factors of (370 ± 18) × 10-3 g kg-1 fuel, or (14.6 ± 0.8) × 10-3 g km-1, after aging, were calculated from concentrations measured inside the smog chamber during two experiments. The average SOA/POA ratio for the two experiments was 15.1, a much larger increase than has previously been seen for diesel vehicles, where smog chamber studies have found SOA/POA ratios of 1.3-1.7. Due to this SOA formation, carbonaceous particulate matter (PM) emissions from a gasoline vehicle may approach those of a diesel vehicle of the same class. Furthermore, with the advent of emission controls requiring the use of diesel particle filters, gasoline vehicle emissions

  14. Novel methods for predicting gas-particle partitioning during the formation of secondary organic aerosol

    NASA Astrophysics Data System (ADS)

    Wania, F.; Lei, Y. D.; Wang, C.; Abbatt, J. P. D.; Goss, K.-U.

    2014-08-01

    Several methods have been presented in the literature to predict an organic chemical's equilibrium partitioning between the water insoluble organic matter (WIOM) component of aerosol and the gas phase, Ki, WIOM as a function of temperature. They include (i) polyparameter linear free energy relationships calibrated with empirical aerosol sorption data, as well as (ii) the solvation models implemented in SPARC and (iii) the quantum-chemical software Cosmotherm, which predict solvation equilibria from molecular structure alone. We demonstrate that these methods can be used to predict Ki, WIOM for large numbers of individual molecules implicated in secondary organic aerosol (SOA) formation, including those with multiple functional groups. Although very different in their theoretical foundations, these methods give remarkably consistent results for the products of the reaction of normal alkanes with OH, i.e. their partition coefficients Ki, WIOM generally agree within one order of magnitude over a range of more than ten orders of magnitude. This level of agreement is much better than that achieved by different vapour pressure estimation methods that are more commonly used in the SOA community. Also, in contrast to the agreement between vapour pressure estimates, that between the Ki, WIOM estimates does not deteriorate with increasing number of functional groups. Furthermore, these partitioning coefficients Ki, WIOM are found to predict the SOA mass yield in chamber experiments of the oxidation of normal alkanes as good or better than a vapour pressure based method. If a Ki, WIOM prediction method was based on one or more surrogate molecules representing the solvation properties of the mixed OM phase of SOA, the choice of those molecule(s) was found to have a relatively minor effect on the predicted Ki, WIOM, as long as the molecule(s) are not very polar. This suggests that a single surrogate molecule, such as 1-octanol or a hypothetical SOA structure proposed by

  15. Novel methods for predicting gas-particle partitioning during the formation of secondary organic aerosol

    NASA Astrophysics Data System (ADS)

    Wania, F.; Lei, Y. D.; Wang, C.; Abbatt, J. P. D.; Goss, K.-U.

    2014-12-01

    Several methods have been presented in the literature to predict an organic chemical's equilibrium partitioning between the water insoluble organic matter (WIOM) component of aerosol and the gas phase, Ki,WIOM, as a function of temperature. They include (i) polyparameter linear free energy relationships calibrated with empirical aerosol sorption data, as well as (ii) the solvation models implemented in SPARC and (iii) the quantum-chemical software COSMOtherm, which predict solvation equilibria from molecular structure alone. We demonstrate that these methods can be used to predict Ki,WIOM for large numbers of individual molecules implicated in secondary organic aerosol (SOA) formation, including those with multiple functional groups. Although very different in their theoretical foundations, these methods give remarkably consistent results for the products of the reaction of normal alkanes with OH, i.e. their partition coefficients Ki,WIOM generally agree within one order of magnitude over a range of more than ten orders of magnitude. This level of agreement is much better than that achieved by different vapour pressure estimation methods that are more commonly used in the SOA community. Also, in contrast to the agreement between vapour pressure estimates, the agreement between the Ki,WIOM estimates does not deteriorate with increasing number of functional groups. Furthermore, these partitioning coefficients Ki,WIOM predicted SOA mass yields in agreement with those measured in chamber experiments of the oxidation of normal alkanes. If a Ki,WIOM prediction method was based on one or more surrogate molecules representing the solvation properties of the mixed OM phase of SOA, the choice of those molecule(s) was found to have a relatively minor effect on the predicted Ki,WIOM, as long as the molecule(s) are not very polar. This suggests that a single surrogate molecule, such as 1-octanol or a hypothetical SOA structure proposed by Kalberer et al. (2004), may often be

  16. Public health impacts of secondary particulate formation from aromatic hydrocarbons in gasoline

    PubMed Central

    2013-01-01

    Background Aromatic hydrocarbons emitted from gasoline-powered vehicles contribute to the formation of secondary organic aerosol (SOA), which increases the atmospheric mass concentration of fine particles (PM2.5). Here we estimate the public health burden associated with exposures to the subset of PM2.5 that originates from vehicle emissions of aromatics under business as usual conditions. Methods The PM2.5 contribution from gasoline aromatics is estimated using the Community Multiscale Air Quality (CMAQ) modeling system and the results are compared to ambient measurements from the literature. Marginal PM2.5 annualized concentration changes are used to calculate premature mortalities using concentration-response functions, with a value of mortality reduction approach used to monetize the social cost of mortality impacts. Morbidity impacts are qualitatively discussed. Results Modeled aromatic SOA concentrations from CMAQ fall short of ambient measurements by approximately a factor of two nationwide, with strong regional differences. After accounting for this model bias, the estimated public health impacts from exposure to PM2.5 originating from aromatic hydrocarbons in gasoline lead to a central estimate of approximately 3800 predicted premature mortalities nationwide, with estimates ranging from 1800 to over 4700 depending on the specific concentration-response function used. These impacts are associated with total social costs of $28.2B, and range from $13.6B to $34.9B in 2006$. Conclusions These preliminary quantitative estimates indicate particulates from vehicular emissions of aromatic hydrocarbons demonstrate a nontrivial public health burden. The results provide a baseline from which to evaluate potential public health impacts of changes in gasoline composition. PMID:23425393

  17. Aerosol Size Distribution Response to Anthropogenically Driven Historical Changes in Biogenic Secondary Organic Aerosol Formation

    NASA Astrophysics Data System (ADS)

    Pierce, J. R.; D'Andrea, S.; Acosta Navarro, J. C.; Farina, S.; Scott, C.; Farmer, D. K.; Spracklen, D. V.; Riipinen, I.

    2014-12-01

    Emissions of biological volatile organic compounds (BVOC) have changed in the past millennium due to changes in land use, temperature and CO2 concentrations. A recent model reconstruction of BVOC emissions over the past millennium predicted the changes in the three dominant secondary organic aerosol (SOA) producing BVOC classes (isoprene, monoterpenes and sesquiterpenes). The reconstruction predicted that in global averages isoprene emissions have decreased (land-use changes to crop/grazing land dominate the reduction), while monoterpene and sesquiterpene emissions have increased (temperature increases dominate the increases); however, all three show both increases and decreases in certain regions due to competition between the various influencing factors. These BVOC changes have largely been anthropogenic in nature, and land-use change was shown to have the most dramatic effect by decreasing isoprene emissions. We use these modeled estimates of these three dominant BVOC classes' emissions from the years 1000 to 2000 to test the effect of anthropogenic changes to BVOC emissions on SOA formation and global aerosol size distributions using the GEOS-Chem-TOMAS global aerosol microphysics model. With anthropogenic emissions (e.g. SO2, NOx, primary aerosols) held at present day values and BVOC emissions changed from year 1000 to year 2000 values, decreases in the number concentration of particles of size Dp > 80 nm (N80) of >25% in year 2000 relative to year 1000 were predicted in regions with extensive land-use changes since year 1000. This change in N80 was predominantly driven by a shift towards crop/grazing land that produces less BVOC than the natural vegetation. Similar sensitivities to year 1000 vs. year 2000 BVOC emissions exist when anthropogenic emissions are turned off. This large decrease in N80 could be a largely overlooked and important anthropogenic aerosol effect on regional climates.

  18. Role of secondary aerosols in haze formation in summer in the Megacity Beijing.

    PubMed

    Han, Tingting; Liu, Xingang; Zhang, Yuanhang; Qu, Yu; Zeng, Limin; Hu, Min; Zhu, Tong

    2015-05-01

    A field experiment from 18 August to 8 September 2006 in Beijing, China, was carried out. A hazy day was defined as visibilitysecondary organic aerosol) concentrations. The average values with standard deviation of SO4(2-), NO3-, NH4+ and SOA were 49.8 (±31.6), 31.4 (±22.3), 25.8 (±16.6) and 8.9 (±4.1)μg/m3, respectively, during the haze episodes, which were 4.3, 3.4, 4.1, and 1.7 times those in the non-haze days. The SO4(2-), NO3-, NH4+, and SOA accounted for 15.8%, 8.8%, 7.3%, and 6.0% of the total mass concentration of PM10 during the non-haze days. The respective contributions of SNA species to PM10 rose to about 27.2%, 15.9%, and 13.9% during the haze days, while the contributions of SOA maintained the same level with a slight decrease to about 4.9%. The observed mass concentrations of SNA and SOA increased with the increase of PM10 mass concentration, however, the rate of increase of SNA was much faster than that of the SOA. The SOR (sulfur oxidation ratio) and NOR (nitrogen oxidation ratio) increased from non-haze days to hazy days, and increased with the increase of RH. High concentrations of aerosols and water vapor favored the conversion of SO2 to SO4(2-) and NO2 to NO3-, which accelerated the accumulation of the aerosols and resulted in the formation of haze in Beijing. PMID:25968258

  19. Impacts of crystal metal on secondary aliphatic amine aerosol formation during dust storm episodes in Beijing

    NASA Astrophysics Data System (ADS)

    Liu, Qingyang; Bei, Yiling

    2016-03-01

    Trimethylamine (TMA) enters the atmosphere from a variety of sources and is a ubiquitous atmospheric organic base. The atmospheric reaction mechanism of TMA with key atmospheric oxidants is important to predict its distribution and environmental behavior in the particle phase. While previous studies have extensively focused on the production of particle amine salts (i.e. trimethylamine-N-oxide (TMAO)) using chamber experiments, the atmospheric behavior of TMAO in the environment is still poorly understood. Ambient fine particulate matter (PM2.5) was collected at two sampling sites in Beijing from March 10 to May 10, 2012. We analyzed the samples for water-soluble ions, crystal metals, TMA, and TMAO. Water-soluble ions (e.g. SO42-, NO3-, NH4+), TMA, and TMAO were measured using ion chromatography, while crystal metal (e.g. Al, Fe, Mn) in PM2.5 was quantified by inductively coupled plasma mass spectrometry (ICP-MS). Two dust storms (DS) occurred during the sampling period on March 28 and April 28. Mineral dust impacted PM2.5 mass and composition greatly during dust storm days, as it contributed approximately 1.2-4.0 times greater on dust storm days versus non-dust storm days. We found TMAO concentrations were highly associated with aluminum in PM2.5. Further, we applied the density functional theory (DFT) method to confirm that aluminum plays a catalytic effect in the reaction of TMA with ozone (O3). Our work improves understanding of the effect of crystal metals on secondary aliphatic amine aerosol formation in the atmosphere.

  20. New tracer compounds for secondary organic aerosol formation from β-caryophyllene oxidation

    NASA Astrophysics Data System (ADS)

    van Eijck, Anna; Opatz, Till; Taraborrelli, Domenico; Sander, Rolf; Hoffmann, Thorsten

    2013-12-01

    Five products from β-caryophyllene oxidation (β-caryophyllonic acid (I), 3,3-dimethyl-2-(3-oxobutyl)cyclobutanecarboxylic acid (βCA198) (II), β-nocaryophyllonic acid (III), β-caryophyllinic acid (IV), and 2-(2-carboxyethyl)-3,3-dimethylcyclobutanecarboxylic acid (βCA200) (V)) were synthesized and their structures confirmed by nuclear magnetic resonance spectroscopy. Reaction chamber experiments with β-caryophyllene at two different ozone mixing ratios were performed and the carboxylic acid oxidation products in the particle phase were characterized by APCI-MS and HPLC-ESI-MS. All five synthesized acids were found as β-caryophyllene oxidation products in the reaction chamber aerosol. The main oxidation products of the reaction chamber experiments were β-14-hydroxynocaryophyllonic acid, β-nocaryophyllonic acid (III) and βCA198 (II). Product yields of the acids were estimated based on the chamber experiments and the application of the atmospheric chemistry box model CAABA/MECCA. Finally, ambient aerosol samples taken during the HUMPPA campaign in Hyytiälä, Finland in summer 2010 were analysed for the carboxylic acid β-caryophyllene oxidation products. All five synthesized compounds were detected and were quantified in the ambient aerosol samples. The major β-caryophyllene carboxylic acid oxidation products in the ambient air samples were β-nocaryophyllonic acid (III) and βCA198 (II) with concentrations in the range of about 0.2-14 ng m-3 and 0.8-6.8 ng m-3. The fact that the concentrations of these two acids in ambient aerosol are generally higher than the concentration of β-caryophyllinic acid (IV) (often used in previous studies as oxidation tracer) with a concentration of about 0.16 ng m-3 leads to the conclusion that these two acids are better suited as tracer compounds for β-caryophyllene secondary organic aerosol formation.

  1. Calculating Equilibrium Phase Distribution during the Formation of Secondary Organic Aerosol Using COSMOtherm.

    PubMed

    Wang, Chen; Goss, Kai-Uwe; Lei, Ying Duan; Abbatt, Jonathan P D; Wania, Frank

    2015-07-21

    Challenges in the parametrization of compound distribution between the gas and particle phase contribute significantly to the uncertainty in the prediction of secondary organic aerosol (SOA) formation and are rooted in the complexity and variability of atmospheric condensed matter, which includes water, salts, and a multitude of organic oxidation products, often in two separated phases. Here, we explore the use of the commercial quantum-chemistry-based software COSMOtherm to predict equilibrium partitioning and Setchenow coefficients of a suite of oxidation products of α-pinene ozonolysis in an aerosol that is assumed to separate into an organic-enriched phase and an electrolyte-enriched aqueous phase. The predicted coefficients are used to estimate the phase distribution of the organic compounds, water and ammonium sulfate, the resulting phase composition, and the SOA yield. Four scenarios that differ in terms of organic loading, liquid water content, and chemical aging are compared. The organic compounds partition preferentially to the organic phase rather than the aqueous phase for the studied aerosol scenarios, partially due to the salting-out effect. Extremely low volatile organic compounds are predicted to be the dominant species in the organic aerosols at low loadings and an important component at higher loadings. The highest concentration of oxidation products in the condensed phase is predicted for a scenario assuming the presence of non-phase-separated cloud droplets. Partitioning into an organic aerosol phase composed of the oxidation products is predicted to be similar to partitioning into a phase composed of a single organic surrogate molecule, suggesting that the calculation procedure can be simplified without major loss of accuracy. COSMOtherm is shown to produce results that are comparable to those obtained using group contribution methods. COSMOtherm is likely to have a much larger application domain than those group contribution methods because

  2. Inhibitory Effects of a Pectin-Enriched Tomato Cell Wall Fraction on Agrobacterium tumefaciens Binding and Tumor Formation 1

    PubMed Central

    Neff, Nicola T.; Binns, Andrew N.; Brandt, Christine

    1987-01-01

    A pectin-enriched soluble cell wall fraction (CWF) prepared from suspension cultured tomato cells inhibits binding of Agrobacterium tumefaciens to these cells. It was hypothesized that the CWF contains the plant surface binding site for A. tumefaciens (NT Neff, AN Binns 1985 Plant Physiol 77: 35-42). Experiments described here demonstrate that tomato CWF inhibited tumor formation on potato slices and Agrobacterium binding to intact tomato cells in a dose-dependent fashion. Boiling the fraction reduced both its binding and tumor inhibitory activities. Tumor inhibitory activity was titrated out by increased concentrations of bacterial inocula with no inhibition apparent at 1 × 108 bacteria per milliliter. These results indicate that a tomato CWF is enriched for a putative A. tumefaciens binding site which may also be involved in tumor formation in potato. Images Fig. 2 PMID:16665282

  3. Effect of ammonia on ozone-initiated formation of indoor secondary products with emissions from cleaning products

    NASA Astrophysics Data System (ADS)

    Huang, Yu; Lee, Shun Cheng; Ho, Kin Fai; Ho, Steven Sai Hang; Cao, Nanying; Cheng, Yan; Gao, Yuan

    2012-11-01

    Biogenic volatile organic compounds (BVOCs) emitted from cleaning products and air fresheners indoors are prone to oxidation resulting in the formation of secondary pollutants that can pose health risks on residents. Ammonia (NH3) is ubiquitous in ambient and indoor environments. In this study, we investigated the effect of ammonia (NH3) on secondary pollutants formation from the ozonolysis of BVOCs emitted from cleaning products including floor cleaner (FC), kitchen cleaner (KC) and dishwashing detergent (DD) in a large environmental chamber. Our results demonstrated that the presence of NH3 (maximum concentration is 240 ppb) could significantly enhance secondary organic aerosols (SOAs) formation from the ozonolysis of all the three categories of cleaning products. For example, for the FC sample, the maximum total particle concentration was up to 2.0 × 104 # cm-3 in the presence of NH3, while it was 1.3 × 104 # cm-3 which was 35% lower without NH3. However, it was found that the extent of NH3 effect on SOAs formation from the ozonolysis of BVOCs emissions was component-dependent. The presence of NH3 in the reaction systems could increase the consumptions of d-limonene that is the dominant BVOC species as identified in cleaning products. The percent yields (%) of secondary carbonyl compounds generated from the ozonolysis of BVOCs emitted from three categories of cleaning products were identified in the presence and absence of NH3, respectively. The increase in SOAs particle number concentration can be attributed to the formation of condensable salts from reactions between NH3 and organic compounds generated from the BVOCs ozonolysis processes. By investigating the NH3 effect on the ozonolysis of BVOCs mixtures in contrast to the chemistry of individual compounds, a better assessment can be made of the overall impact cleaning products have on real indoor environments.

  4. BdCESA7, BdCESA8, and BdPMT Utility Promoter Constructs for Targeted Expression to Secondary Cell-Wall-Forming Cells of Grasses

    PubMed Central

    Petrik, Deborah L.; Cass, Cynthia L.; Padmakshan, Dharshana; Foster, Cliff E.; Vogel, John P.; Karlen, Steven D.; Ralph, John; Sedbrook, John C.

    2016-01-01

    Utility vectors with promoters that confer desired spatial and temporal expression patterns are useful tools for studying gene and cellular function and for industrial applications. To target the expression of DNA sequences of interest to cells forming plant secondary cell walls, which generate most of the vegetative biomass, upstream regulatory sequences of the Brachypodium distachyon lignin biosynthetic gene BdPMT and the cellulose synthase genes BdCESA7 and BdCESA8 were isolated and cloned into binary vectors designed for Agrobacterium-mediated transformation of monocots. Expression patterns were assessed using the β-glucuronidase gene GUSPlus and X-glucuronide staining. All three promoters showed strong expression levels in stem tissue at the base of internodes where cell wall deposition is most active, in both vascular bundle xylem vessels and tracheids, and in interfascicular tissues, with expression less pronounced in developmentally older tissues. In leaves, BdCESA7 and BdCESA8 promoter-driven expression was strongest in leaf veins, leaf margins, and trichomes; relatively weaker and patchy expression was observed in the epidermis. BdPMT promoter-driven expression was similar to the BdCESA promoters expression patterns, including strong expression in trichomes. The intensity and extent of GUS staining varied considerably between transgenic lines, suggesting that positional effects influenced promoter activity. Introducing the BdPMT and BdCESA8 Open Reading Frames into BdPMT and BdCESA8 utility promoter binary vectors, respectively, and transforming those constructs into Brachypodium pmt and cesa8 loss-of-function mutants resulted in rescue of the corresponding mutant phenotypes. This work therefore validates the functionality of these utility promoter binary vectors for use in Brachypodium and likely other grass species. The identification, in Bdcesa8-1 T-DNA mutant stems, of an 80% reduction in crystalline cellulose levels confirms that the BdCESA8 gene is

  5. Formation of Roll-Waves on Thin Laminar Flow down an Inclined Plane Wall

    NASA Astrophysics Data System (ADS)

    Tougou, Hirohumi

    1980-02-01

    The linear stability of periodic permanent roll-wave trains on thin laminar flow of a viscous fluid down an inclined plane wall has been investigated analytically on the basis of a hydraulic model. The analytical result is here confirmed by following numerically the time development of a periodic initial disturbance superimposed upon a basic steady parallel flow into a stable or unstable permanent roll-wave train. Furthermore, it is shown that roll-waves can be generated successively from a localized initial disturbance.

  6. A novel cell wall lipopeptide is important for biofilm formation and pathogenicity of Mycobacterium avium subspecies paratuberculosis.

    PubMed

    Wu, Chia-wei; Schmoller, Shelly K; Bannantine, John P; Eckstein, Torsten M; Inamine, Julia M; Livesey, Michael; Albrecht, Ralph; Talaat, Adel M

    2009-04-01

    Biofilm formation by pathogenic bacteria plays a key role in their pathogenesis. Previously, the pstA gene was shown to be involved in the virulence of Mycobacterium avium subspecies paratuberculosis (M. ap), the causative agent of Johne's disease in cattle and a potential risk factor for Crohn's disease. Scanning electron microscopy and colonization levels of the M. ap mutant indicated that the pstA gene significantly contributes to the ability of M. ap to form biofilms. Digital measurements taken during electron microscopy identified a unique morphology for the DeltapstA mutant, which consisted of significantly shorter bacilli than the wild type. Analysis of the lipid profiles of the mycobacterial strains identified a novel lipopeptide that was present in the cell wall extracts of wild-type M. ap, but missing from the DeltapstA mutant. Interestingly, the calf infection model suggested that pstA contributes to intestinal invasion of M. ap. Furthermore, immunoblot analysis of peptides encoded by pstA identified a specific and significant level of immunogenicity. Taken together, our analysis revealed a novel cell wall component that could contribute to biofilm formation and to the virulence and immunogenicity of M. ap. Molecular tools to better control M. ap infections could be developed utilizing the presented findings. PMID:19490829

  7. Secondary Organic Aerosol Formation in Aerosol Water by Photochemical Reactions of Gaseous Mixture of Monoterpene and Hydrogen Peroxide

    NASA Astrophysics Data System (ADS)

    Lim, H.; Yi, S.; Park, J.; Cho, H.; Jung, K.

    2011-12-01

    There exist large uncertainties in model predictions for climate change and regional air quality. It could be caused by incomplete integration of secondary organic aerosol (SOA) formation in atmospheric chemical models. Recent laboratory studies have found SOA formation through chemical reactions on aerosol surface and in aerosol water. Water soluble organics formed by photochemical degradation of biogenic organics including isoprene and anthropogenic aromatics are predicted to form substantial amount of SOA through the newly found pathways. Although SOA formation in bulk aqueous solution was reported for laboratory experiments of various precursors (e.g., water soluble carbonyls and phenols), little is known for SOA formation in real aerosol water. In this study, photochemical reactions of the gaseous mixture of monoterpene and hydrogen peroxide were examined to investigate SOA formation through reactions in real aerosol phase water. SOA formation was conducted using a flow tube reactor (ID 30 cm x L 150 cm, FEP) and a smog chamber using FEP film in the presence of dry and wet seed particles. Acidity and chemical composition of seed aerosol were also controlled as important parameters influencing SOA formation. Particle size distribution and aerosol composition were analyzed to account for differences in SOA formation mechanisms and yields for dry and wet particles. The differences might be mainly associated with SOA formation in aerosol phase water. This work was supported by the National Research Foundation of Korea (NRF) grant funded by the Korea government (MEST) (No. 2011-0000221).

  8. Study on Cluster Formation of Poly 2-HYDROXYETHYL Methacrylate Functionalized Single-Walled Carbon Nanotubes

    NASA Astrophysics Data System (ADS)

    Ashok Kumar, Nanjundan; Kim, Sung Hun; Kim, Jong Tae; Lim, Kwon Taek; Jeong, Yeon Tae

    Cluster-like network structures of single-walled carbon nanotubes (SWNTs) were synthesized by chemical grafting poly 2-hydroxyethyl methacrylate (polyHEMA) to the sidewalls of SWNTs. Acid chloride-functionalized tubes were coupled with commercially available HEMA monomer, which was in turn polymerized using a radical initiator. Fourier transform infrared spectroscopy and X-ray photoelectron spectroscopy were used to identify the surface changes on the nanocomposites. Microscopic observations of the nanotube complexes by field emission scanning electron microscopy (FE-SEM) show that the tubes were dispersed and formed cluster-like network, branched structures with less bundling, thus, strongly suggesting a firm coating of the polymer on nanotube walls. The coating was further confirmed by transmission electron microscopy. The thermal properties of the nanotube complex as studied by thermal gravimetric analysis (TGA) revealed that coating enhanced stability of the complex, when compared to that of bulk polyHEMA and pristine SWNTs. The nanotube complexes showed excellent suspension stability when dispersed in organic solvent.

  9. Formation of secondary phase at grain boundary of flash-sintered BaTiO3.

    PubMed

    Uehashi, Akinori; Sasaki, Katsuhiro; Tokunaga, Tomoharu; Yoshida, Hidehiro; Yamamoto, Takahisa

    2014-11-01

    decrease with an increase in electric fields, which is very different from the case of ZrO2-3mol%Y2O3 and Y2O3 ceramics. This fact means that application of high electric fields does not effectively operate for enhancement of shrinkage rates in the case of BaTiO3. In contrast, only gradual current increment was observed at 25V/cm, which is categorized in field-assisted sintering (FAST) process. The density of the green compact at 25V/cm was more than 95%.To investigate the mechanism of the decrease in a total shrinkage with electric fields, the microstructure of flash-sintered compact was observed. As a result, it was found that discharge occurs during flash-sintering process, indicating that the input power due to high electric fields does not work effectively. A typical example of the microstructure near the discharge area is shown in Fig. 1. Fig. 1 is a TEM bright field image taken from BaTiO3 flash-sintered at 100V/cm. As seen in the image, the formation of a secondary phase along the grain boundary can be clearly seen. Diffractometric and EDS analysis have revealed that the secondary phase is BaTi4O9, one of compounds between BaO and TiO2 system. By discharging, grain boundaries partially melt and a part of Ba vaporizes to form BaTi4O9 with cooling. To investigate flash-sintering behaviors, it was concluded that FAST process play an important role to enhance the shrinklage rate in the case of BaTiO3.jmicro;63/suppl_1/i19/DFU048F1F1DFU048F1Fig. 1.TEM bright field image of a secondary phase and the electron diffraction pattern taken from the secondary phase. PMID:25359812

  10. The secondary formation of inorganic aerosols in the droplet mode through heterogeneous aqueous reactions under haze conditions

    NASA Astrophysics Data System (ADS)

    Wang, Xinfeng; Wang, Wenxing; Yang, Lingxiao; Gao, Xiaomei; Nie, Wei; Yu, Yangchun; Xu, Pengju; Zhou, Yang; Wang, Zhe

    2012-12-01

    Secondary inorganic aerosols play important roles in visibility reduction and in regional haze pollution. To investigate the characteristics of size distributions of secondary sulfates and nitrates as well as their formation mechanisms under hazes, size-resolved aerosols were collected using a Micro-Orifice Uniform Deposit Impactor (MOUDI) at an urban site in Jinan, China, in all four seasons (December 2007-October 2008). In haze episodes, the secondary sulfates and nitrates primarily formed in fine particles, with elevated concentration peaks in the droplet mode (0.56-1.8 μm). The fine sulfates and nitrates were completely neutralized by ammonia and existed in the forms of (NH4)2SO4 and NH4NO3, respectively. The secondary formation of sulfates, nitrates and ammonium (SNA) was found to be related to heterogeneous aqueous reactions and was largely dependent on the ambient humidity. With rising relative humidity, the droplet-mode SNA concentration, the ratio of droplet-mode SNA to the total SNA, the fraction of SNA in droplet-mode particles and the mass median aerodynamic diameter of SNA presented an exponential, logarithmic or linear increase. Two heavily polluted multi-day haze episodes in winter and summer were analyzed in detail. The secondary sulfates were linked to heterogeneous uptake of SO2 followed by the subsequent catalytic oxidation by oxygen together with iron and manganese in winter. The fine nitrate formation was strongly associated with the thermodynamic equilibrium among NH4NO3, gaseous HNO3 and NH3, and showed different temperature-dependences in winter and summer.

  11. Enzymatic formation of carbohydrate rings catalyzed by single-walled carbon nanotubes.

    PubMed

    Hyun, Moon Seop; Park, Jong Pil; Seo, Dongkyun; Chang, Sung-Jin; Lee, Seok Jae; Lee, Sang Yup; Kwak, Kyungwon; Park, Tae Jung

    2016-05-01

    Macrocyclic carbohydrate rings were formed via enzymatic reactions around single-walled carbon nanotubes (SWNTs) as a catalyst. Cyclodextrin glucanotransferase, starch substrate and SWNTs were reacted in buffer solution to yield cyclodextrin (CD) rings wrapped around individual SWNTs. Atomic force microscopy showed the resulting complexes to be rings of 12-50 nm in diameter, which were highly soluble and dispersed in aqueous solution. They were further characterized by Raman and Fourier transform infrared spectroscopy and molecular simulation using density functional theory calculation. In the absence of SWNT, hydrogen bonding between glucose units determines the structure of maltose (the precursor of CD) and produces the curvature along the glucose chain. Wrapping SWNT along the short axis was preferred with curvature in the presence of SWNTs and with the hydrophobic interactions between the SWNTs and CD molecules. This synthetic approach may be useful for the functionalization of carbon nanotubes for development of nanostructures. PMID:26946491

  12. Secondary organic aerosol (trans)formation through aqueous phase guaiacol photonitration: chemical characterization of the products

    NASA Astrophysics Data System (ADS)

    Grgić, Irena; Kitanovski, Zoran; Kroflič, Ana; Čusak, Alen

    2014-05-01

    One of the largest primary sources of organic aerosol in the atmosphere is biomass burning (BB) (Laskin et al. 2009); in Europe its contribution to annual mean of PM10 is between 3 and 14 % (Maenhaut et al. 2012). During the process of wood burning many different products are formed via thermal degradation of wood lignin. Hardwood burning produces mainly syringol (2,6-dimetoxyphenol) derivatives, while softwood burning exclusively guaiacol (2-methoxyphenol) and its derivatives. Taking into account physical properties of methoxyphenols only, their concentrations in atmospheric waters might be underestimated. So, their aqueous phase reactions can be an additional source of SOA, especially in regions under significant influence of wood combustion. An important class of compounds formed during physical and chemical aging of the primary BBA in the atmosphere is nitrocatechols, known as strong absorbers of UV and Vis light (Claeys et al. 2012). Very recently, methyl-nitrocatechols were proposed as suitable markers for highly oxidized secondary BBA (Iinuma et al. 2010, Kitanovski et al. 2012). In the present work, the formation of SOA through aqueous phase photooxidation and nitration of guaiacol was examined. The key objective was to chemically characterize the main low-volatility products and further to check their possible presence in the urban atmospheric aerosols. The aqueous phase reactions were performed in a thermostated reactor under simulated sunlight in the presence of H2O2 and nitrite. Guaiacol reaction products were first concentrated by solid-phase extraction (SPE) and then subjected to semi-preparative liquid chromatography.The main product compounds were fractionated and isolated as pure solids and their structure was further elucidated by using nuclear magnetic resonance spectroscopy (1H, 13C and 2D NMR) and direct infusion negative ion electro-spray ionization tandem mass spectrometry (( )ESI-MS/MS). The main photonitration products of guaiacol (4

  13. Secondary organic aerosol formation from fossil fuel sources contribute majority of summertime organic mass at Bakersfield

    EPA Science Inventory

    Secondary organic aerosols (SOA), known to form in the atmosphere from oxidation of volatile organic compounds (VOCs) emitted by anthropogenic and biogenic sources, are a poorly understood but substantial component of atmospheric particles. In this study, we examined the chemic...

  14. Modeling the Role of Alkanes, Polycyclic Aromatic Hydrocarbons, and Their Oligomers in Secondary Organic Aerosol Formation

    EPA Science Inventory

    A computationally efficient method to treat secondary organic aerosol (SOA) from various length and structure alkanes as well as SOA from polycyclic aromatic hydrocarbons (PAHs) is implemented in the Community Multiscale Air Quality (CMAQ) model to predict aerosol concentrations ...

  15. ASSESSING ANTHROPOGENIC IMPACT ON SECONDARY POLLUTANT FORMATION IN THE SOUTH EASTERN US VIA AIRBORNE FORMALDEHYDE MEASUREMENTS

    EPA Science Inventory

    This project will provide a critical, publically available formaldehyde dataset during the SOAS campaign. The major expected result will be an improved understanding of the influence of anthropogenic VOC and NOx emissions on secondary pollutant concentrations and properties...

  16. Organic photolysis reactions in tropospheric aerosols: effect on secondary organic aerosol formation and lifetime

    NASA Astrophysics Data System (ADS)

    Hodzic, A.; Madronich, S.; Kasibhatla, P. S.; Tyndall, G.; Aumont, B.; Jimenez, J. L.; Lee-Taylor, J.; Orlando, J.

    2015-08-01

    This study presents the first modeling estimates of the potential effect of gas- and particle-phase organic photolysis reactions on the formation and lifetime of secondary organic aerosols (SOAs). Typically only photolysis of smaller organic molecules (e.g., formaldehyde) for which explicit data exist is included in chemistry-climate models. Here, we specifically examine the photolysis of larger molecules that actively partition between the gas and particle phases. The chemical mechanism generator GECKO-A is used to explicitly model SOA formation from α-pinene, toluene, and C12 and C16 n-alkane reactions with OH at low and high NOx. Simulations are conducted for typical mid-latitude conditions and a solar zenith angle of 45° (permanent daylight). The results show that after 4 days of chemical aging under those conditions (equivalent to 8 days in the summer mid-latitudes), gas-phase photolysis leads to a moderate decrease in SOA yields, i.e., ~15 % (low NOx) to ~45 % (high NOx) for α-pinene, ~15 % for toluene, ~25 % for C12 n-alkane, and ~10 % for C16 n-alkane. The small effect of gas-phase photolysis on low-volatility n-alkanes such as C16 n-alkane is due to the rapid partitioning of early-generation products to the particle phase, where they are protected from gas-phase photolysis. Minor changes are found in the volatility distribution of organic products and in oxygen to carbon ratios. The decrease in SOA mass is increasingly more important after a day of chemical processing, suggesting that most laboratory experiments are likely too short to quantify the effect of gas-phase photolysis on SOA yields. Our results also suggest that many molecules containing chromophores are preferentially partitioned into the particle phase before they can be photolyzed in the gas phase. Given the growing experimental evidence that these molecules can undergo in-particle photolysis, we performed sensitivity simulations using an empirically estimated SOA photolysis rate of JSOA

  17. Organic photolysis reactions in tropospheric aerosols: effect on secondary organic aerosol formation and lifetime

    NASA Astrophysics Data System (ADS)

    Hodzic, A.; Madronich, S.; Kasibhatla, P. S.; Tyndall, G.; Aumont, B.; Jimenez, J. L.; Lee-Taylor, J.; Orlando, J.

    2015-03-01

    This study presents the first modeling estimates of the potential effect of gas- and particle-phase organic photolysis reactions on the formation and lifetime of secondary organic aerosols (SOA). Typically only photolysis of smaller organic molecules (e.g. formaldehyde) for which explicit data exist is included in chemistry-climate models. Here, we specifically examine the photolysis of larger molecules that actively partition between the gas and particle phases. The chemical mechanism generator GECKO-A is used to explicitly model SOA formation from α-pinene, toluene, and C12 and C16 n-alkane reactions with OH at low- and high-NOx. Simulations are conducted for typical mid-latitude conditions and a solar zenith angle of 45° (permanent daylight). The results show that after four days of chemical aging under those conditions (equivalent to eight days in the summer mid-latitudes), gas-phase photolysis leads to a moderate decrease in SOA yields i.e ~15% (low-NOx) to ~45% (high-NOx) for α-pinene, ~15% for toluene, ~25% for C12-alkane, and ~10% for C16-alkane. The small effect on low volatility n-alkanes such as C16-alkane is due to the rapid partitioning of early-generation products to the particle phase where they are assumed to be protected from gas-phase photolysis. Minor changes are found in the volatility distribution of organic products and in oxygen to carbon ratios. The decrease in SOA mass seems increasingly more important after a day of chemical processing, suggesting that most laboratory experiments are likely too short to quantify the effect of gas-phase photolysis on SOA yields. Our results also suggest that many molecules containing chromophores are preferentially partitioned into the particle phase before they can be photolyzed in the gas-phase. Given the growing experimental evidence that these molecules can undergo in-particle photolysis, we performed sensitivity simulations using an estimated SOA photolysis rate of JSOA=4 x 10-4JNO2. Modeling

  18. Secondary organic aerosol (trans)formation through aqueous phase guaiacol photonitration: a kinetic study

    NASA Astrophysics Data System (ADS)

    Kroflič, Ana; Grgić, Irena

    2014-05-01

    It is well known that atmospheric aerosols play a crucial role in the Earth's climate and public health (Pöschl 2005). Despite a great effort invested in the studies of secondary organic aerosol (SOA) budget, composition, and its formation mechanisms, there is still a gap between field observations and atmospheric model predictions (Heald et al. 2005, Hallquist et al. 2009, and Lim et al. 2010). The insisting uncertainties surrounding SOA formation and aging thus gained an increasing interest in atmospheric aqueous phase chemistry; they call for more complex and time consuming studies at the environmentally relevant conditions allowing confident extrapolation to desired ambient conditions. In addition to the adverse health effects of atmospheric particulate matter (PM) as such, toxicity is also attributed to nitro-aromatic and other organic compounds which have already been detected in real aerosol samples (Traversi et al. 2009). Moreover, low-volatility aromatic derivatives are believed to form at least partly in the aerosol aqueous phase and not only in the gas phase from where they partition into water droplets (Ervens et al. 2011). Two nitro derivatives of biomass burning tracer guaiacol have recently been found in winter PM10 samples from the city of Ljubljana, Slovenia, and aqueous photonitration reaction was proposed as their possible production pathway (Kitanovski et al. 2012). In this study the kinetics of guaiacol nitration in aqueous solution was investigated in the presence of H2O2 and NO2¯ upon simulated solar irradiation (Xenon lamp, 300 W). During the experiment the DURAN® flask with the reaction mixture was held in the thermostated bath and thoroughly mixed. The reaction was monitored for 44 hours at different temperatures. Guaiacol and its main nitro-products (4-nitroguaiacol, 4-NG; 6-nitroguaiacol, 6-NG; and 4,6-dinitroguaiacol, 4,6-DNG) were quantified in every aliquot, taken from the reaction mixture, by use of high pressure liquid

  19. Drought-induced increase in water-use efficiency reduces secondary tree growth and tracheid wall thickness in a Mediterranean conifer.

    PubMed

    Olano, José Miguel; Linares, Juan Carlos; García-Cervigón, Ana I; Arzac, Alberto; Delgado, Antonio; Rozas, Vicente

    2014-09-01

    In order to understand the impact of drought and intrinsic water-use efficiency (iWUE) on tree growth, we evaluated the relative importance of direct and indirect effects of water availability on secondary growth and xylem anatomy of Juniperus thurifera, a Mediterranean anisohydric conifer. Dendrochronological techniques, quantitative xylem anatomy, and (13)C/(12)C isotopic ratio were combined to develop standardized chronologies for iWUE, BAI (basal area increment), and anatomical variables on a 40-year-long annually resolved series for 20 trees. We tested the relationship between iWUE and secondary growth at short-term (annual) and long-term (decadal) temporal scales to evaluate whether gains in iWUE may lead to increases in secondary growth. We obtained a positive long-term correlation between iWUE and BAI, simultaneously with a negative short-term correlation between them. Furthermore, BAI and iWUE were correlated with anatomical traits related to carbon sink or storage (tracheid wall thickness and ray parenchyma amount), but no significant correlation with conductive traits (tracheid lumen) was found. Water availability during the growing season significantly modulated tree growth at the xylem level, where growth rates and wood anatomical traits were affected by June precipitation. Our results are consistent with a drought-induced limitation of tree growth response to rising CO2, despite the trend of rising iWUE being maintained. We also remark the usefulness of exploring this relationship at different temporal scales to fully understand the actual links between iWUE and secondary growth dynamics. PMID:24958369

  20. Myxospore formation in Myxococcus xanthus: chemical changes in the cell wall during cellular morphogenesis.

    PubMed

    Johnson, R Y; White, D

    1972-11-01

    Vegetative cells of Myxococcus xanthus (strain FB) were induced to form myxospores by the glycerol induction technique. Several structural changes took place in the peptidoglycan during myxospore formation. The percent of the peptidoglycan comprised of monomer (disaccharide peptide) decreased from about 20% to approximately 7%. The proportion of the total diaminopimelic acid possessing a free amino group decreased about 11%. A carbohydrate containing only glucose was found to be bound, possibly covalently, to the vegetative cell and myxospore peptidoglycan. The amount of carbohydrate relative to peptidoglycan decreased by two-thirds during myxospore formation. None of the above changes in the peptidoglycan were observed in a mutant (strain GNI) of M. xanthus which was unable to convert to myxospores when incubated in the glycerol induction medium, or in the parental wild type (FB) when it was incubated in induction medium lacking the myxospore inducer, glycerol. PMID:5086662

  1. Modeling the formation and aging of secondary organic aerosols in Los Angeles during CalNex 2010

    DOE PAGESBeta

    Hayes, P. L.; Carlton, A. G.; Baker, K. R.; Ahmadov, R.; Washenfelder, R. A.; Alvarez, S.; Rappenglück, B.; Gilman, J. B.; Kuster, W. C.; de Gouw, J. A.; et al

    2015-05-26

    Four different literature parameterizations for the formation and evolution of urban secondary organic aerosol (SOA) frequently used in 3-D models are evaluated using a 0-D box model representing the Los Angeles metropolitan region during the California Research at the Nexus of Air Quality and Climate Change (CalNex) 2010 campaign. We constrain the model predictions with measurements from several platforms and compare predictions with particle- and gas-phase observations from the CalNex Pasadena ground site. That site provides a unique opportunity to study aerosol formation close to anthropogenic emission sources with limited recirculation. The model SOA that formed only from the oxidationmore » of VOCs (V-SOA) is insufficient to explain the observed SOA concentrations, even when using SOA parameterizations with multi-generation oxidation that produce much higher yields than have been observed in chamber experiments, or when increasing yields to their upper limit estimates accounting for recently reported losses of vapors to chamber walls. The Community Multiscale Air Quality (WRF-CMAQ) model (version 5.0.1) provides excellent predictions of secondary inorganic particle species but underestimates the observed SOA mass by a factor of 25 when an older VOC-only parameterization is used, which is consistent with many previous model–measurement comparisons for pre-2007 anthropogenic SOA modules in urban areas. Including SOA from primary semi-volatile and intermediate-volatility organic compounds (P-S/IVOCs) following the parameterizations of Robinson et al. (2007), Grieshop et al. (2009), or Pye and Seinfeld (2010) improves model–measurement agreement for mass concentration. The results from the three parameterizations show large differences (e.g., a factor of 3 in SOA mass) and are not well constrained, underscoring the current uncertainties in this area. Our results strongly suggest that other precursors besides VOCs, such as P-S/IVOCs, are needed to explain the

  2. Modeling the formation and aging of secondary organic aerosols in Los Angeles during CalNex 2010

    NASA Astrophysics Data System (ADS)

    Hayes, P. L.; Carlton, A. G.; Baker, K. R.; Ahmadov, R.; Washenfelder, R. A.; Alvarez, S.; Rappengluck, B.; Gilman, J. B.; Kuster, W. C.; de Gouw, J. A.; Zotter, P.; Prevot, A. S. H.; Szidat, S.; Kleindienst, T. E.; Offenberg, J. H.; Ma, P. K.; Jimenez, J. L.

    2015-05-01

    Four different literature parameterizations for the formation and evolution of urban secondary organic aerosol (SOA) frequently used in 3-D models are evaluated using a 0-D box model representing the Los Angeles metropolitan region during the California Research at the Nexus of Air Quality and Climate Change (CalNex) 2010 campaign. We constrain the model predictions with measurements from several platforms and compare predictions with particle- and gas-phase observations from the CalNex Pasadena ground site. That site provides a unique opportunity to study aerosol formation close to anthropogenic emission sources with limited recirculation. The model SOA that formed only from the oxidation of VOCs (V-SOA) is insufficient to explain the observed SOA concentrations, even when using SOA parameterizations with multi-generation oxidation that produce much higher yields than have been observed in chamber experiments, or when increasing yields to their upper limit estimates accounting for recently reported losses of vapors to chamber walls. The Community Multiscale Air Quality (WRF-CMAQ) model (version 5.0.1) provides excellent predictions of secondary inorganic particle species but underestimates the observed SOA mass by a factor of 25 when an older VOC-only parameterization is used, which is consistent with many previous model-measurement comparisons for pre-2007 anthropogenic SOA modules in urban areas. Including SOA from primary semi-volatile and intermediate-volatility organic compounds (P-S/IVOCs) following the parameterizations of Robinson et al. (2007), Grieshop et al. (2009), or Pye and Seinfeld (2010) improves model-measurement agreement for mass concentration. The results from the three parameterizations show large differences (e.g., a factor of 3 in SOA mass) and are not well constrained, underscoring the current uncertainties in this area. Our results strongly suggest that other precursors besides VOCs, such as P-S/IVOCs, are needed to explain the observed

  3. Ultrastructure of the oocyst wall formation in Eimeria? beauchampi Leger and Duboscq, 1917, a coccidian parasite of Glossobalanus minutus (Kow.) (Enteropneusta, Hemichordata).

    PubMed

    Fernandez, I; Benito, J; Pardos, F

    1988-01-01

    The ultrastructure of the developing oocyst of Eimeria? beauchampi Leger and Duboscq, 1917 was studied from the ventral digestive epithelium of the hepatic region of Glossobalanus minutus (Enteropneusta). A possible building mechanism of the oocyst wall is deduced and discussed from the present data and the available literature. During oocyst wall formation a total of 5 membranes were observed at or near the surface of the parasite among which some wall-forming materials will be stored. The origin and fate of such wall-forming materials are discussed and compared with data from other coccidians. The apparently full-formed wall is made up of an outer, dense layer, a median layer showing a labyrinthic-tubular lattice substructure, and an inner, homogeneous and osmiophilic layer. A micropyle measuring 0.35 micron in diameter is also described. PMID:3059952

  4. ABCG26-Mediated Polyketide Trafficking and Hydroxycinnamoyl Spermidines Contribute to Pollen Wall Exine Formation in Arabidopsis[W

    PubMed Central

    Quilichini, Teagen D.; Samuels, A. Lacey; Douglas, Carl J.

    2014-01-01

    Pollen grains are encased by a multilayered, multifunctional wall. The sporopollenin and pollen coat constituents of the outer pollen wall (exine) are contributed by surrounding sporophytic tapetal cells. Because the biosynthesis and development of the exine occurs in the innermost cell layers of the anther, direct observations of this process are difficult. The objective of this study was to investigate the transport and assembly of exine components from tapetal cells to microspores in the intact anthers of Arabidopsis thaliana. Intrinsically fluorescent components of developing tapetum and microspores were imaged in intact, live anthers using two-photon microscopy. Mutants of ABCG26, which encodes an ATP binding cassette transporter required for exine formation, accumulated large fluorescent vacuoles in tapetal cells, with corresponding loss of fluorescence on microspores. These vacuolar inclusions were not observed in tapetal cells of double mutants of abcg26 and genes encoding the proposed sporopollenin polyketide biosynthetic metabolon (ACYL COENZYME A SYNTHETASE5, POLYKETIDE SYNTHASE A [PKSA], PKSB, and TETRAKETIDE α-PYRONE REDUCTASE1), providing a genetic link between transport by ABCG26 and polyketide biosynthesis. Genetic analysis also showed that hydroxycinnamoyl spermidines, known components of the pollen coat, were exported from tapeta prior to programmed cell death in the absence of polyketides, raising the possibility that they are incorporated into the exine prior to pollen coat deposition. We propose a model where ABCG26-exported polyketides traffic from tapetal cells to form the sporopollenin backbone, in coordination with the trafficking of additional constituents, prior to tapetum programmed cell death. PMID:25415974

  5. The Aspergillus fumigatus sitA Phosphatase Homologue Is Important for Adhesion, Cell Wall Integrity, Biofilm Formation, and Virulence

    PubMed Central

    Bom, Vinícius Leite Pedro; de Castro, Patrícia Alves; Winkelströter, Lizziane K.; Marine, Marçal; Hori, Juliana I.; Ramalho, Leandra Naira Zambelli; dos Reis, Thaila Fernanda; Goldman, Maria Helena S.; Brown, Neil Andrew; Rajendran, Ranjith; Ramage, Gordon; Walker, Louise A.; Munro, Carol A.; Rocha, Marina Campos; Malavazi, Iran; Hagiwara, Daisuke

    2015-01-01

    Aspergillus fumigatus is an opportunistic pathogenic fungus able to infect immunocompromised patients, eventually causing disseminated infections that are difficult to control and lead to high mortality rates. It is important to understand how the signaling pathways that regulate these factors involved in virulence are orchestrated. Protein phosphatases are central to numerous signal transduction pathways. Here, we characterize the A. fumigatus protein phosphatase 2A SitA, the Saccharomyces cerevisiae Sit4p homologue. The sitA gene is not an essential gene, and we were able to construct an A. fumigatus null mutant. The ΔsitA strain had decreased MpkA phosphorylation levels, was more sensitive to cell wall-damaging agents, had increased β-(1,3)-glucan and chitin, was impaired in biofilm formation, and had decreased protein kinase C activity. The ΔsitA strain is more sensitive to several metals and ions, such as MnCl2, CaCl2, and LiCl, but it is more resistant to ZnSO4. The ΔsitA strain was avirulent in a murine model of invasive pulmonary aspergillosis and induces an augmented tumor necrosis factor alpha (TNF-α) response in mouse macrophages. These results stress the importance of A. fumigatus SitA as a possible modulator of PkcA/MpkA activity and its involvement in the cell wall integrity pathway. PMID:25911225

  6. Formation of Polychlorinated Biphenyls on Secondary Copper Production Fly Ash: Mechanistic Aspects and Correlation to Other Persistent Organic Pollutants

    NASA Astrophysics Data System (ADS)

    Jiang, Xiaoxu; Liu, Guorui; Wang, Mei; Zheng, Minghui

    2015-09-01

    Emission of unintentionally formed polychlorinated biphenyls (PCBs) from industrial thermal processes is a global issue. Because the production and use of technical PCB mixtures has been banned, industrial thermal processes have become increasingly important sources of PCBs. Among these processes, secondary copper smelting is an important PCB source in China. In the present study, the potential for fly ash-mediated formation of PCBs in the secondary copper industry, and the mechanisms involved, were studied in laboratory thermochemical experiments. The total PCB concentrations were 37-70 times higher than the initial concentrations. Thermochemical reactions on the fly ash amplified the potential toxic equivalents of PCBs. The formation of PCBs over time and the effect of temperature were investigated. Based on analyses of PCB homologue profiles with different reaction conditions, a chlorination mechanism was proposed for forming PCBs in addition to a de novo synthesis mechanism. The chlorination pathway was supported by close correlations between each pair of adjacent homologue groups. Formation of PCBs and multiple persistent organic pollutants, including polychlorinated dibenzo-p-dioxins, polychlorinated dibenzofurans and polychlorinated naphthalenes, occurred during the tests, indicating that these compounds may share similar formation mechanisms.

  7. Organic Nitrate Contribution to New Particle Formation and Growth in Secondary Organic Aerosols from α-Pinene Ozonolysis.

    PubMed

    Berkemeier, Thomas; Ammann, Markus; Mentel, Thomas F; Pöschl, Ulrich; Shiraiwa, Manabu

    2016-06-21

    The chemical kinetics of organic nitrate production during new particle formation and growth of secondary organic aerosols (SOA) were investigated using the short-lived radioactive tracer (13)N in flow-reactor studies of α-pinene oxidation with ozone. Direct and quantitative measurements of the nitrogen content indicate that organic nitrates accounted for ∼40% of SOA mass during initial particle formation, decreasing to ∼15% upon particle growth to the accumulation-mode size range (>100 nm). Experiments with OH scavengers and kinetic model results suggest that organic peroxy radicals formed by α-pinene reacting with secondary OH from ozonolysis are key intermediates in the organic nitrate formation process. The direct reaction of α-pinene with NO3 was found to be less important for particle-phase organic nitrate formation. The nitrogen content of SOA particles decreased slightly upon increase of relative humidity up to 80%. The experiments show a tight correlation between organic nitrate content and SOA particle-number concentrations, implying that the condensing organic nitrates are among the extremely low volatility organic compounds (ELVOC) that may play an important role in the nucleation and growth of atmospheric nanoparticles. PMID:27219077

  8. Formation of Polychlorinated Biphenyls on Secondary Copper Production Fly Ash: Mechanistic Aspects and Correlation to Other Persistent Organic Pollutants

    PubMed Central

    Jiang, Xiaoxu; Liu, Guorui; Wang, Mei; Zheng, Minghui

    2015-01-01

    Emission of unintentionally formed polychlorinated biphenyls (PCBs) from industrial thermal processes is a global issue. Because the production and use of technical PCB mixtures has been banned, industrial thermal processes have become increasingly important sources of PCBs. Among these processes, secondary copper smelting is an important PCB source in China. In the present study, the potential for fly ash-mediated formation of PCBs in the secondary copper industry, and the mechanisms involved, were studied in laboratory thermochemical experiments. The total PCB concentrations were 37–70 times higher than the initial concentrations. Thermochemical reactions on the fly ash amplified the potential toxic equivalents of PCBs. The formation of PCBs over time and the effect of temperature were investigated. Based on analyses of PCB homologue profiles with different reaction conditions, a chlorination mechanism was proposed for forming PCBs in addition to a de novo synthesis mechanism. The chlorination pathway was supported by close correlations between each pair of adjacent homologue groups. Formation of PCBs and multiple persistent organic pollutants, including polychlorinated dibenzo-p-dioxins, polychlorinated dibenzofurans and polychlorinated naphthalenes, occurred during the tests, indicating that these compounds may share similar formation mechanisms. PMID:26374495

  9. Kinetics of carbide formation in the molybdenum-tungsten coatings used in the ITER-like Wall

    NASA Astrophysics Data System (ADS)

    Maier, H.; Rasinski, M.; von Toussaint, U.; Greuner, H.; Böswirth, B.; Balden, M.; Elgeti, S.; Ruset, C.; Matthews, G. F.

    2016-02-01

    The kinetics of tungsten carbide formation was investigated for tungsten coatings on carbon fibre composite with a molybdenum interlayer as they are used in the ITER-like Wall in JET. The coatings were produced by combined magnetron sputtering and ion implantation. The investigation was performed by preparing focused ion beam cross sections from samples after heat treatment in argon atmosphere. Baking of the samples was done at temperatures of 1100 °C, 1200 °C, and 1350 °C for hold times between 30 min and 20 h. It was found that the data can be well described by a diffusional random walk with a thermally activated diffusion process. The activation energy was determined to be (3.34 ± 0.11) eV. Predictions for the isothermal lifetime of this coating system were computed from this information.

  10. Simultaneous shunt protection and back contact formation for CdTe solar cells with single wall carbon nanotube layers

    NASA Astrophysics Data System (ADS)

    Phillips, Adam B.; Khanal, Rajendra R.; Song, Zhaoning; Watthage, Suneth C.; Kormanyos, Kenneth R.; Heben, Michael J.

    2015-12-01

    Thin film photovoltaic (PV) devices and modules prepared by commercial processes can be severely compromised by through-device low resistance electrical pathways. The defects can be due to thin or missing semiconductor material, metal diffusion along grain boundaries, or areas containing diodes with low turn-on potentials. We report the use of single wall carbon nanotube (SWCNT) layers to enable both protection against these defects and back contact formation for CdTe PV devices. Samples prepared with a SWCNT back contact exhibited good efficiency and did not require shunt protection, while devices prepared without shunt protection using a standard metal back contact performed poorly. We describe the mechanism by which the SWCNT layer functions. In addition to avoiding the need for shunt protection by other means, the SWCNT film also provides a route to higher short circuit currents.

  11. Distribution of XTH, expansin, and secondary-wall-related CesA in floral and fruit abscission zones during fruit development in tomato (Solanum lycopersicum)

    PubMed Central

    Tsuchiya, Mutsumi; Satoh, Shinobu; Iwai, Hiroaki

    2015-01-01

    After fruit development is triggered by pollination, the abscission zone (AZ) in the fruit pedicel strengthens its adhesion to keep the fruit attached. We previously reported that xyloglucan and arabinan accumulation in the AZ accompanies the shedding of unpollinated flowers. After the fruit has developed and is fully ripened, shedding occurs easily in the AZ due to lignin accumulation. Regulation of cell wall metabolism may play an important role in these processes, but it is not well understood. In the present report, we used immunohistochemistry to visualize changes in the distributions of xyloglucan and arabinan metabolism-related enzymes in the AZs of pollinated and unpollinated flowers, and in ripened fruits. During floral abscission, we observed a gradual increase in polyclonal antibody labeling of expansin in the AZ. The intensities of LM6 and LM15 labeling of arabinan and xyloglucan, respectively, also increased. However, during floral abscission, we observed a large 1 day post anthesis (DPA) peak in the polyclonal antibody labeling of XTH in the AZ, which then decreased. These results suggest that expansin and XTH play important, but different roles in the floral abscission process. During fruit abscission, unlike during floral abscission, no AZ-specific expansin and XTH were observed. Although lignification was seen in the AZ of over-ripe fruit pedicels, secondary cell wall-specific cellulose synthase signals were not observed. This suggests that cellulose metabolism-related enzymes do not play important roles in the AZ prior to fruit abscission. PMID:26029225

  12. TOPOISOMERASE 6B is involved in chromatin remodelling associated with control of carbon partitioning into secondary metabolites and cell walls, and epidermal morphogenesis in Arabidopsis.

    PubMed

    Mittal, Amandeep; Balasubramanian, Rajagopal; Cao, Jin; Singh, Prabhjeet; Subramanian, Senthil; Hicks, Glenn; Nothnagel, Eugene A; Abidi, Noureddine; Janda, Jaroslav; Galbraith, David W; Rock, Christopher D

    2014-08-01

    Plant growth is continuous and modular, a combination that allows morphogenesis by cell division and elongation and serves to facilitate adaptation to changing environments. The pleiotropic phenotypes of the harlequin (hlq) mutant, isolated on the basis of ectopic expression of the abscisic acid (ABA)- and auxin-inducible proDc3:GUS reporter gene, were previously characterized. Mutants are skotomorphogenic, have deformed and collapsed epidermal cells which accumulate callose and starch, cell walls abundant in pectins and cell wall proteins, and abnormal and reduced root hairs and leaf trichomes. hlq and two additional alleles that vary in their phenotypic severity of starch accumulation in the light and dark have been isolated, and it is shown that they are alleles of bin3/hyp6/rhl3/Topoisomerase6B. Mutants and inhibitors affecting the cell wall phenocopy several of the traits displayed in hlq. A microarray analysis was performed, and coordinated expression of physically adjacent pairs/sets of genes was observed in hlq, suggesting a direct effect on chromatin. Histones, WRKY and IAA/AUX transcription factors, aquaporins, and components of ubiquitin-E3-ligase-mediated proteolysis, and ABA or biotic stress response markers as well as proteins involved in cellular processes affecting carbon partitioning into secondary metabolites were also identified. A comparative analysis was performed of the hlq transcriptome with other previously published TopoVI mutant transcriptomes, namely bin3, bin5, and caa39 mutants, and limited concordance between data sets was found, suggesting indirect or genotype-specific effects. The results shed light on the molecular mechanisms underlying the det/cop/fus-like pleiotropic phenotypes of hlq and support a broader role for TopoVI regulation of chromatin remodelling to mediate development in response to environmental and hormonal signals. PMID:24821950

  13. TOPOISOMERASE 6B is involved in chromatin remodelling associated with control of carbon partitioning into secondary metabolites and cell walls, and epidermal morphogenesis in Arabidopsis

    PubMed Central

    Mittal, Amandeep; Balasubramanian, Rajagopal; Cao, Jin; Singh, Prabhjeet; Subramanian, Senthil; Hicks, Glenn; Nothnagel, Eugene A.; Abidi, Noureddine; Janda, Jaroslav; Galbraith, David W.; Rock, Christopher D.

    2014-01-01

    Plant growth is continuous and modular, a combination that allows morphogenesis by cell division and elongation and serves to facilitate adaptation to changing environments. The pleiotropic phenotypes of the harlequin (hlq) mutant, isolated on the basis of ectopic expression of the abscisic acid (ABA)- and auxin-inducible proDc3:GUS reporter gene, were previously characterized. Mutants are skotomorphogenic, have deformed and collapsed epidermal cells which accumulate callose and starch, cell walls abundant in pectins and cell wall proteins, and abnormal and reduced root hairs and leaf trichomes. hlq and two additional alleles that vary in their phenotypic severity of starch accumulation in the light and dark have been isolated, and it is shown that they are alleles of bin3/hyp6/rhl3/Topoisomerase6B. Mutants and inhibitors affecting the cell wall phenocopy several of the traits displayed in hlq. A microarray analysis was performed, and coordinated expression of physically adjacent pairs/sets of genes was observed in hlq, suggesting a direct effect on chromatin. Histones, WRKY and IAA/AUX transcription factors, aquaporins, and components of ubiquitin-E3-ligase-mediated proteolysis, and ABA or biotic stress response markers as well as proteins involved in cellular processes affecting carbon partitioning into secondary metabolites were also identified. A comparative analysis was performed of the hlq transcriptome with other previously published TopoVI mutant transcriptomes, namely bin3, bin5, and caa39 mutants, and limited concordance between data sets was found, suggesting indirect or genotype-specific effects. The results shed light on the molecular mechanisms underlying the det/cop/fus-like pleiotropic phenotypes of hlq and support a broader role for TopoVI regulation of chromatin remodelling to mediate development in response to environmental and hormonal signals. PMID:24821950

  14. The pattern of xylan acetylation suggests xylan may interact with cellulose microfibrils as a twofold helical screw in the secondary plant cell wall of Arabidopsis thaliana

    PubMed Central

    Busse-Wicher, Marta; Gomes, Thiago C F; Tryfona, Theodora; Nikolovski, Nino; Stott, Katherine; Grantham, Nicholas J; Bolam, David N; Skaf, Munir S; Dupree, Paul

    2014-01-01

    The interaction between xylan and cellulose microfibrils is important for secondary cell wall properties in vascular plants; however, the molecular arrangement of xylan in the cell wall and the nature of the molecular bonding between the polysaccharides are unknown. In dicots, the xylan backbone of β-(1,4)-linked xylosyl residues is decorated by occasional glucuronic acid, and approximately one-half of the xylosyl residues are O-acetylated at C-2 or C-3. We recently proposed that the even, periodic spacing of GlcA residues in the major domain of dicot xylan might allow the xylan backbone to fold as a twofold helical screw to facilitate alignment along, and stable interaction with, cellulose fibrils; however, such an interaction might be adversely impacted by random acetylation of the xylan backbone. Here, we investigated the arrangement of acetyl residues in Arabidopsis xylan using mass spectrometry and NMR. Alternate xylosyl residues along the backbone are acetylated. Using molecular dynamics simulation, we found that a twofold helical screw conformation of xylan is stable in interactions with both hydrophilic and hydrophobic cellulose faces. Tight docking of xylan on the hydrophilic faces is feasible only for xylan decorated on alternate residues and folded as a twofold helical screw. The findings suggest an explanation for the importance of acetylation for xylan–cellulose interactions, and also have implications for our understanding of cell wall molecular architecture and properties, and biological degradation by pathogens and fungi. They will also impact strategies to improve lignocellulose processing for biorefining and bioenergy. PMID:24889696

  15. Formation of anthropogenic secondary organic aerosol (SOA) and its influence on biogenic SOA properties

    NASA Astrophysics Data System (ADS)

    Emanuelsson, E. U.; Hallquist, M.; Kristensen, K.; Glasius, M.; Bohn, B.; Fuchs, H.; Kammer, B.; Kiendler-Scharr, A.; Nehr, S.; Rubach, F.; Tillmann, R.; Wahner, A.; Wu, H.-C.; Mentel, Th. F.

    2013-03-01

    Secondary organic aerosol (SOA) formation from mixed anthropogenic and biogenic precursors has been studied exposing reaction mixtures to natural sunlight in the SAPHIR chamber in Jülich, Germany. In this study aromatic compounds served as examples of anthropogenic volatile organic compound (VOC) and a mixture of α-pinene and limonene as an example for biogenic VOC. Several experiments with exclusively aromatic precursors were performed to establish a relationship between yield and organic aerosol mass loading for the atmospheric relevant range of aerosol loads of 0.01 to 10 μg m-3. The yields (0.5 to 9%) were comparable to previous data and further used for the detailed evaluation of the mixed biogenic and anthropogenic experiments. For the mixed experiments a number of different oxidation schemes were addressed. The reactivity, the sequence of addition, and the amount of the precursors influenced the SOA properties. Monoterpene oxidation products, including carboxylic acids and dimer esters were identified in the aged aerosol at levels comparable to ambient air. OH radicals were measured by Laser Induced Fluorescence, which allowed for establishing relations of aerosol properties and composition to the experimental OH dose. Furthermore, the OH measurements in combination with the derived yields for aromatic SOA enabled application of a simplified model to calculate the chemical turnover of the aromatic precursor and corresponding anthropogenic contribution to the mixed aerosol. The estimated anthropogenic contributions were ranging from small (≈8%) up to significant fraction (>50%) providing a suitable range to study the effect of aerosol composition on the aerosol volatility (volume fraction remaining (VFR) at 343 K: 0.86-0.94). The aromatic aerosol had higher oxygen to carbon ratio O/C and was less volatile than the biogenic fraction. However, in order to produce significant amount of aromatic SOA the reaction mixtures needed a higher OH dose that also

  16. Enhanced N-nitrosamine formation in pool water by UV irradiation of chlorinated secondary amines in the presence of monochloramine.

    PubMed

    Soltermann, Fabian; Lee, Minju; Canonica, Silvio; von Gunten, Urs

    2013-01-01

    N-Nitrosamines, in particular N-nitrosodimethylamine (NDMA), are carcinogens, which occur as chlorine disinfection by-products (DBPs) in swimming pools and hot tubs. UV treatment is a commonly used technique in swimming pools for disinfection and DBP attenuation. UV irradiation is known to efficiently degrade N-nitrosamines. However, UV irradiation (at λ = 254 nm) of chlorinated dimethylamine (CDMA) and monochloramine, two NDMA precursors present in swimming pool water, resulted in a substantial UV-induced NDMA formation (~1-2% molar yield based on initial CDMA concentration) simultaneously to NDMA photolysis. Maximum NDMA concentrations were found at UV doses in the range used for advanced oxidation (350-850 mJ cm(-2)). Very similar behaviour was found for other chlorinated secondary amines, namely diethylamine and morpholine. Effectiveness of UV irradiation for N-nitrosamine abatement depends on initial N-nitrosamine and precursor concentrations and the applied UV dose. N-Nitrosamine formation is hypothesized to occur via the reaction of nitric oxide or peroxynitrite with the secondary aminyl radical, which are products from the photolysis of monochloramine and chlorinated secondary amines, respectively. Experiments with pool water showed that similar trends were observed under pool water conditions. UV treatment (UV dose: ~360 mJ cm(-2)) slightly increased NDMA concentration in pool water instead of the anticipated 50% abatement in the absence of NDMA precursors. PMID:23098367

  17. Modeling the relative contributions of secondary ice formation processes to ice crystal number concentrations within mixed-phase clouds

    NASA Astrophysics Data System (ADS)

    Sullivan, Sylvia; Hoose, Corinna; Nenes, Athanasios

    2016-04-01

    Measurements of in-cloud ice crystal number concentrations can be three or four orders of magnitude greater than the in-cloud ice nuclei number concentrations. This discrepancy can be explained by various secondary ice formation processes, which occur after initial ice nucleation, but the relative importance of these processes, and even the exact physics of each, is still unclear. A simple bin microphysics model (2IM) is constructed to investigate these knowledge gaps. 2IM extends the time-lag collision parameterization of Yano and Phillips, 2011 to include rime splintering, ice-ice aggregation, and droplet shattering and to incorporate the aspect ratio evolution as in Jensen and Harrington, 2015. The relative contribution of the secondary processes under various conditions are shown. In particular, temperature-dependent efficiencies are adjusted for ice-ice aggregation versus collision around -15°C, when rime splintering is no longer active, and the effect of aspect ratio on the process weighting is explored. The resulting simulations are intended to guide secondary ice formation parameterizations in larger-scale mixed-phase cloud schemes.

  18. Gamma globulin and antibody formation in vitro. III. Induction of secondary response at different intervals after the primary; the role of secondary nodules in the preparation for the secondary response.

    PubMed

    THORBECKE, G J; ASOFSKY, R M; HOCHWALD, G M; SISKIND, G W

    1962-09-01

    Antibody formation in vitro by red and white pulp of the spleen and by bone marrow tissue was studied at various days after an intravenous booster injection of soluble antigens such as ovalbumin and bovine gamma globulin (BGG). When the booster injection of antigen was given early (10 days) after an intravenous primary injection, high antibody formation could be demonstrated in the spleen primarily 2 to 3 days after the injection, but much less afterwards. When the booster injection was given later (1 month) after the primary, the antibody production by the spleen lasted longer and higher serum titers were obtained. The bone marrow formed antibody in both cases but, particularly with the short interval between injections, its response was delayed as compared to the spleen. It was also shown that during antibody formation the production of gamma globulin in vitro was enhanced. Histologically the antibody production was always correlated to immature plasma cell proliferation, located at the border of red and white pulp and in the red pulp of the spleen. When endotoxin had been injected at the time of a primary BGG injection, and a second antigen injection was given 5 to 10 days later, a booster response could be elicited which was sometimes limited to the white pulp on day 1, and on day 2 was divided between "red" and "white" pulp. The response induced at day 10, at the peak of secondary nodule proliferation, lasted very long and was accompanied by an enormous plasma cellular proliferation in and around the periarteriolar lymphoid areas of the spleen. The possible importance of the secondary nodules of the white pulp in the preparation for a secondary response is discussed. PMID:13920994

  19. Effect of single-walled carbon nanotubes on tumor cells viability and formation of multicellular tumor spheroids

    NASA Astrophysics Data System (ADS)

    Yakymchuk, Olena M.; Perepelytsina, Olena M.; Dobrydnev, Alexey V.; Sydorenko, Mychailo V.

    2015-03-01

    This paper describes the impact of different concentrations of single-walled carbon nanotubes (SWCNTs) on cell viability of breast adenocarcinoma, MCF-7 line, and formation of multicellular tumor spheroids (MTS). Chemical composition and purity of nanotubes is controlled by Fourier transform infrared spectroscopy. The strength and direction of the influence of SWCNTs on the tumor cell population was assessed by cell counting and measurement of the volume of multicellular tumor spheroids. Effect of SWCNTs on the formation of multicellular spheroids was compared with the results obtained by culturing tumor cells with ultra dispersed diamonds (UDDs). Our results demonstrated that SWCNTs at concentrations ranging from 12.5 to 50 μg/ml did not have cytotoxic influence on tumor cells; instead, they had weak cytostatic effect. The increasing of SWCNTs concentration to 100 to 200 μg/ml stimulated proliferation of tumor cells, especially in suspension fractions. The result of this influence was in formation of more MTS in cell culture with SWCNTs compared with UDDs and control samples. In result, the median volume of MTS after cultivation with SWCNTs at 100 to 200 μg/ml concentrations is 3 to 5 times greater than that in samples which were incubated with the UDDs and is 2.5 times greater than that in control cultures. So, if SWCNTs reduced cell adhesion to substrate and stimulated formation of tumor cell aggregates volume near 7 · 10-3 mm3, at the same time, UDDs reduced adhesion and cohesive ability of cells and stimulated generation of cell spheroids volume no more than 4 · 10-3 mm3. Our results could be useful for the control of cell growth in three-dimensional culture.

  20. The Formation of Secondary Organic Aerosol from the Isoprene + OH Reaction in the Absence of NOx

    EPA Science Inventory

    The reaction of isoprene (C5H8) with hydroxyl radicals has been studied in the absence of nitrogen oxides (NOx) to determine physical and chemical characteristics of the secondary organic aerosol formed. Experiments were conducted using a smog ch...

  1. Professional Identity Formation as a Framework in Working with Preservice Secondary Teacher Candidates

    ERIC Educational Resources Information Center

    Hsieh, Betina

    2016-01-01

    In this article, using the context of a secondary literacy course, the author argues that personal experiences, praxis-based reflective opportunities, and pedagogically-minded assessments are important in shaping an emergent professional identity that effectively integrates literate practices with content instruction. This article examines…

  2. OZONE-ISOPRENE REACTION: RE-EXAMINATION OF THE FORMATION OF SECONDARY ORGANIC AEROSOL

    EPA Science Inventory

    The reaction of ozone and isoprene has been studied to examine physical and chemical characteristics of the secondary organic aerosol formed. Using a scanning mobility particle sizer, the volume distribution of the aerosol was found in the range 0.05 - 0.2 µm. The aerosol yield w...

  3. Using Challenging Tasks for Formative Assessment on Quadratic Functions with Senior Secondary Students

    ERIC Educational Resources Information Center

    Wilkie, Karina J.

    2016-01-01

    Senior secondary mathematics students who develop conceptual understanding that moves them beyond "rules without reasons" to connections between related concepts are in a strong place to tackle the more difficult mathematics application problems. Current research is examining how the use of challenging tasks at different levels of…

  4. The Occupational Identity of In-Service Secondary Music Educators: Formative Interpersonal Interactions and Activities

    ERIC Educational Resources Information Center

    Russell, Joshua A.

    2012-01-01

    In order to explore the factors that inform the occupational identity development of in-service music educators and to compare the identities of in-service teachers with those of preservice music educators as examined in previous research, the purposes of this study were to examine the reported occupational identity of in-service secondary music…

  5. Coeducation and Gender Identity Formation: A Comparative Analysis of Secondary Schools in Belgium.

    ERIC Educational Resources Information Center

    Brutsaert, Herman

    1999-01-01

    Examines how male and female students perceive their gender identity in 25 mixed and 43 single-sex secondary schools in Belgium. Finds that girls in coeducational schools more than girls in single-sex schools identified with both feminine and masculine traits, while their classroom behavior was more inhibited. (CMK)

  6. Formative Conceptions of Assessment: Trainee Teachers' Thinking about Assessment Issues in English Secondary Schools

    ERIC Educational Resources Information Center

    Taber, Keith S.; Riga, Fran; Brindley, Sue; Winterbottom, Mark; Finney, John; Fisher, Linda G.

    2011-01-01

    This paper explores the developing thinking about assessment of graduate trainees preparing for secondary teaching in England. For some years teachers in English schools have worked in a context where the outcomes of formal testing have been used to judge school and teacher performance as well as student achievement. Research evidence that…

  7. BdCESA7, BdCESA8, and BdPMT utility promoter constructs for targeted expression to secondary cell-wall-forming cells of grasses

    DOE PAGESBeta

    Petrik, Deborah L.; Cass, Cynthia L.; Padmakshan, Dharshana; Foster, Cliff E.; Vogel, John P.; Karlen, Steven D.; Ralph, John; Sedbrook, John C.

    2016-02-04

    Utility vectors with promoters that confer desired spatial and temporal expression patterns are useful tools for studying gene and cellular function and for industrial applications. To target the expression of DNA sequences of interest to cells forming plant secondary cell walls, which generate most of the vegetative biomass, upstream regulatory sequences of the Brachypodium distachyon lignin biosynthetic gene BdPMT and the cellulose synthase genes BdCESA7 and BdCESA8 were isolated and cloned into binary vectors designed for Agrobacterium-mediated transformation of monocots. Expression patterns were assessed using the β-glucuronidase gene GUSPlus and X-glucuronide staining. All three promoters showed strong expression levels inmore » stem tissue at the base of internodes where cell wall deposition is most active, in both vascular bundle xylem vessels and tracheids, and in interfascicular tissues, with expression less pronounced in developmentally older tissues. In leaves, BdCESA7 and BdCESA8 promoter-driven expression was strongest in leaf veins, leaf margins, and trichomes; relatively weaker and patchy expression was observed in the epidermis. BdPMT promoter-driven expression was similar to the BdCESA promoters expression patterns, including strong expression in trichomes. The intensity and extent of GUS staining varied considerably between transgenic lines, suggesting that positional effects influenced promoter activity. Introducing the BdPMT and BdCESA8 Open Reading Frames into BdPMT and BdCESA8 utility promoter binary vectors, respectively, and transforming those constructs into Brachypodium pmt and cesa8 loss-of-function mutants resulted in rescue of the corresponding mutant phenotypes. This work therefore validates the functionality of these utility promoter binary vectors for use in Brachypodium and likely other grass species. Lastly, the identification, in Bdcesa8-1 T-DNA mutant stems, of an 80% reduction in crystalline cellulose levels confirms that the

  8. Human Airway Epithelial Cell Responses to Single Walled Carbon Nanotube Exposure: Nanorope-Residual Body Formation

    SciTech Connect

    Panessa-Warren, Barbara J.; Warren, John B.; Kisslinger, Kim; Crosson, Kenya; Maye, Mathew M.

    2012-11-01

    This investigation examines the 'first contact responses' of in vitro human epithelial airway cells exposed to unrefined single walled carbon nanotubes (SWCNTs) [containing metal catalyst, carbon black, amorphous carbon, graphitic shells, and SWCNTs], and refined acid/peroxide cleaned and cut SWCNTs at low and high dose exposures (0.16 ug/L and 1.60 ug/L) for 2, 3 and 3.5 hours. FTIR, X-ray compositional analysis, morphological TEM analysis and UV-Vis were used to physicochemically characterize the SWCNTs in this study. Following SWCNT exposure to human lung NCI-H292 epithelial monolayers, the airway cells were prepared for light microscopy vital staining, or fixed in glutaraldehyde for SEM/TEM imaging to determine SWCNT binding, uptake, intracellular processing and organellar/SWCNT fate within the exposure period. At 2 hr exposures to both unrefined Carbolex, and refined SWCNTs (at both high and low doses), there were no increases in lung cell necrosis compared to controls. However high dose, 3 hr exposures to unrefined Carbolex material produced severe cell damage (apical and basal plasma membrane holes, decreased mitochondria, numerous intracellular vesicles containing nanomaterial and membrane fragments) and increased cell necrosis. The refined SWCNTs exposed for 3 hr at low dose produced no increase in cell death, although high dose exposure produced significant cell death. By TEM, Acid/peroxide cleaned SWCNT 3 hr exposures at high and low doses, revealed SWCNTs attachment to cell surface mucin, and SWCNT uptake into the cells during membrane recycling. Membranes and SWCNTs were seen within cytoplasmic lamellar body-type vesicles, where vesicular contents were bio-degraded, eventually forming long SWCNT-nanoropes, which were subsequently released into the cytoplasm as clusters of attached nanoropes, as the vesicle membranes fragmented. These Nanorope-Residual Bodies did not cause damage to the surrounding organelles or cytoplasm, and seemed very stabile in the

  9. Optimization of Multi-Walled Carbon Nanotube based CFx electrodes for improved primary and secondary battery performances

    NASA Astrophysics Data System (ADS)

    Jayasinghe, Ruwantha; Thapa, Arjun Kumar; Dharmasena, Ruchira R.; Nguyen, Tu Quang; Pradhan, Bhabendra K.; Paudel, Hem Sharma; Jasinski, Jacek B.; Sherehiy, Andriy; Yoshio, Masaki; Sumanasekera, G. U.

    2014-05-01

    Multi-walled carbon nanotubes synthesized using fluidized bed chemical vapor deposition technique were fluorinated sequentially to prepare a series of CFx battery electrodes. Primary battery performance was tested using CFx as a cathode against Li. Fully fluorinated MWNTs showed capacity exceeding 815 mAh g-1 while partially fluorinated samples showed systematically lowered capacity with decreasing x (in CFx). However, fully fluorinated MWCNTs showed distinctly low rechargeable capacity compared to the subfluorinated samples when used as an anode against Li. Mildly fluorinated MWNTs show high capacity and better stability during charge-discharge cycles. High concentrations of fluorine seem to affect capacity retention due to the increased defect densities and reduced electronic conduction. These defects of nanotubes will provide additional pathways for lithium ions to diffuse within the core of the fluorinated structure and to access the electrochemically active C-F sites. XRD, XPS, and Raman spectroscopy were utilized to characterize the samples. Finally the electrochemical performance of fluorinated MWNTs was compared with that of Natural Chinese Graphite (NCG).

  10. Are Grid-In Response Format Items Usable in Secondary Classrooms?

    ERIC Educational Resources Information Center

    Hombo, Catherine M.; Pashley, Katharine; Jenkins, Frank

    The use of grid-in formats, such as those requiring students to solve problems and fill in bubbles, is common on large-scale standardized assessments, but little is known about the use of this format with a more general population of students than high school students taking college entrance examinations, including those attending public schools…

  11. In vitro platelet activation, aggregation and platelet-granulocyte complex formation induced by surface modified single-walled carbon nanotubes.

    PubMed

    Fent, János; Bihari, Péter; Vippola, Minnamari; Sarlin, Essi; Lakatos, Susan

    2015-08-01

    Surface modification of single-walled carbon nanotubes (SWCNTs) such as carboxylation, amidation, hydroxylation and pegylation is used to reduce the nanotube toxicity and render them more suitable for biomedical applications than their pristine counterparts. Toxicity can be manifested in platelet activation as it has been shown for SWCNTs. However, the effect of various surface modifications on the platelet activating potential of SWCNTs has not been tested yet. In vitro platelet activation (CD62P) as well as the platelet-granulocyte complex formation (CD15/CD41 double positivity) in human whole blood were measured by flow cytometry in the presence of 0.1mg/ml of pristine or various surface modified SWCNTs. The effect of various SWCNTs was tested by whole blood impedance aggregometry, too. All tested SWCNTs but the hydroxylated ones activate platelets and promote platelet-granulocyte complex formation in vitro. Carboxylated, pegylated and pristine SWCNTs induce whole blood aggregation as well. Although pegylation is preferred from biomedical point of view, among the samples tested by us pegylated SWCNTs induced far the most prominent activation and a well detectable aggregation of platelets in whole blood. PMID:25956790

  12. Formation of single-wall carbon nanotubes in Ar and nitrogen gas atmosphere by using laser furnace technique

    NASA Astrophysics Data System (ADS)

    Suzuki, S.; Asai, N.; Kataura, H.; Achiba, Y.

    2007-07-01

    The formation of single-wall carbon nanotubes (SWNTs) by using laser vaporization technique in different ambient gas atmosphere was investigated. SWNTs were prepared with Rh/Pd (1.2/1.2 atom%)-carbon composite rod in Ar and nitrogen gas atmosphere, respectively. Raman spectra of raw carbon materials including SWNTs and photoluminescence mapping of dispersed SWNTs in a surfactant solution demonstrate that the diameter distribution of SWNTs prepared in Ar atmosphere is narrower than those obtained by using CVD technique (e.g. HiPco nanotube), even when the ambient temperature is as high as 1150 ?C. It was also found that nitrogen atmosphere gives wider diameter distribution of SWNTs than that obtained with Ar atmosphere. Furthermore, the relative yield of fullerenes (obtained as byproducts) is investigated by using HPLC (high-performance liquid chromatography) technique. It was found that the relative yield of higher fullerenes becomes lower, when nitrogen is used as an ambient gas atmosphere. Based on these experimental findings, a plausible formation mechanism of SWNTs is discussed.

  13. Extensin network formation in Vitis vinifera callus cells is an essential and causal event in rapid and H2O2-induced reduction in primary cell wall hydration

    PubMed Central

    2011-01-01

    Background Extensin deposition is considered important for the correct assembly and biophysical properties of primary cell walls, with consequences to plant resistance to pathogens, tissue morphology, cell adhesion and extension growth. However, evidence for a direct and causal role for the extensin network formation in changes to cell wall properties has been lacking. Results Hydrogen peroxide treatment of grapevine (Vitis vinifera cv. Touriga) callus cell walls was seen to induce a marked reduction in their hydration and thickness. An analysis of matrix proteins demonstrated this occurs with the insolubilisation of an abundant protein, GvP1, which displays a primary structure and post-translational modifications typical of dicotyledon extensins. The hydration of callus cell walls free from saline-soluble proteins did not change in response to H2O2, but fully regained this capacity after addition of extensin-rich saline extracts. To assay the specific contribution of GvP1 cross-linking and other wall matrix proteins to the reduction in hydration, GvP1 levels in cell walls were manipulated in vitro by binding selected fractions of extracellular proteins and their effect on wall hydration during H2O2 incubation assayed. Conclusions This approach allowed us to conclude that a peroxidase-mediated formation of a covalently linked network of GvP1 is essential and causal in the reduction of grapevine callus wall hydration in response to H2O2. Importantly, this approach also indicated that extensin network effects on hydration was only partially irreversible and remained sensitive to changes in matrix charge. We discuss this mechanism and the importance of these changes to primary wall properties in the light of extensin distribution in dicotyledons. PMID:21672244

  14. Key parameters controlling OH-initiated formation of secondary organic aerosol in the aqueous phase (aqSOA)

    NASA Astrophysics Data System (ADS)

    Ervens, Barbara; Sorooshian, Armin; Lim, Yong B.; Turpin, Barbara J.

    2014-04-01

    Secondary organic aerosol formation in the aqueous phase of cloud droplets and aerosol particles (aqSOA) might contribute substantially to the total SOA burden and help to explain discrepancies between observed and predicted SOA properties. In order to implement aqSOA formation in models, key processes controlling formation within the multiphase system have to be identified. We explore parameters affecting phase transfer and OH(aq)-initiated aqSOA formation as a function of OH(aq) availability. Box model results suggest OH(aq)-limited photochemical aqSOA formation in cloud water even if aqueous OH(aq) sources are present. This limitation manifests itself as an apparent surface dependence of aqSOA formation. We estimate chemical OH(aq) production fluxes, necessary to establish thermodynamic equilibrium between the phases (based on Henry's law constants) for both cloud and aqueous particles. Estimates show that no (currently known) OH(aq) source in cloud water can remove this limitation, whereas in aerosol water, it might be feasible. Ambient organic mass (oxalate) measurements in stratocumulus clouds as a function of cloud drop surface area and liquid water content exhibit trends similar to model results. These findings support the use of parameterizations of cloud-aqSOA using effective droplet radius rather than liquid water volume or drop surface area. Sensitivity studies suggest that future laboratory studies should explore aqSOA yields in multiphase systems as a function of these parameters and at atmospherically relevant OH(aq) levels. Since aerosol-aqSOA formation significantly depends on OH(aq) availability, parameterizations might be less straightforward, and oxidant (OH) sources within aerosol water emerge as one of the major uncertainties in aerosol-aqSOA formation.

  15. Secondary Vortex Formation in Bifurcated Submerged Entry Nozzles: Numerical Simulation of Gas Bubble Entrapment

    NASA Astrophysics Data System (ADS)

    Pirker, Stefan; Kahrimanovic, Damir; Schneiderbauer, Simon

    2015-04-01

    The submerged entry nozzle (SEN) flow behavior is crucial for continuous casting of slab steel since it controls the mold flow pattern. In this study, we focus on the bottom zone of a bifurcated SEN where the flow deflection determines the port outflow. By applying a hybrid finite volume and lattice Boltzmann-based turbulence model, the dynamic behavior of horizontally orientated secondary vortices is investigated. In addition to the pure liquid metal flow, gas bubbles are traced in both discrete and continuous way. Simulation results indicate the existence of highly turbulent secondary vortices in the deflection zone of a bifurcated SEN, which attract gas bubbles in form of bubble threads or continuous gas volumes at their rotational axes. In addition, cyclically detaching gas volumes are formed at the upper port region at higher gas flow rates. Numerical predictions agree well with observations from physical water-air models.

  16. Carbon in southeastern U.S. aerosol particles: Empirical estimates of secondary organic aerosol formation

    NASA Astrophysics Data System (ADS)

    Blanchard, Charles L.; Hidy, George M.; Tanenbaum, Shelley; Edgerton, Eric; Hartsell, Benjamin; Jansen, John

    Fine particles in the southeastern United States are rich in carbon: Southeastern Aerosol Research and Characterization (SEARCH) network measurements from 2001 through 2004 indicate that fine particles less than 2.5 μm aerodynamic diameter (PM 2.5) at two inland urban sites, Atlanta, GA and Birmingham, AL, contain 9 and 11% black carbon (BC) by mass, respectively, on average. For neighboring rural or urban Gulf Coast sites, the range is 4-7% BC. Organic carbon (OC) ranges from 25 to 27% in the inland cities, and 19-24% at the rural or Gulf Coast locations. Evidence in the literature suggests that a substantial fraction of the OC found in the Southeast is produced by atmospheric chemical reactions of volatile organic compounds (VOCs). Estimation of the fraction of OC from primary and secondary sources is difficult from first principles, because the chemistry is complex and incompletely understood, and the emission sources are both anthropogenic and natural. As an alternative, measurement-based models can be used to estimate empirically the primary and secondary source contributions. Three complementary empirical models are described and applied using the SEARCH database. The methods include (a) a multiple regression model employing markers for primary and secondary carbon using gas and particle data, (b) a carbon mass balance using carbon and CO data, along with certain assumptions about the OC/CO ratios in primary emissions for different urban and rural conditions, and (c) exploitation of isotopic measurements of carbon along with the BC and OC data. Secondary organic carbon (SOC) represents ˜20-60% of mean OC, depending upon location and season. The results are sensitive to estimates of emissions of primary OC and BC.

  17. Visualizing the formation of an RNA folding intermediate through a fast highly modular secondary structure switch

    PubMed Central

    Xue, Yi; Gracia, Brant; Herschlag, Daniel; Russell, Rick; Al-Hashimi, Hashim M.

    2016-01-01

    Intermediates play important roles in RNA folding but can be difficult to characterize when short-lived or not significantly populated. By combining 15N relaxation dispersion NMR with chemical probing, we visualized a fast (kex=k1+k−1≈423 s−1) secondary structural switch directed towards a low-populated (∼3%) partially folded intermediate in tertiary folding of the P5abc subdomain of the ‘Tetrahymena' group I intron ribozyme. The secondary structure switch changes the base-pairing register across the P5c hairpin, creating a native-like structure, and occurs at rates of more than two orders of magnitude faster than tertiary folding. The switch occurs robustly in the absence of tertiary interactions, Mg2+ or even when the hairpin is excised from the three-way junction. Fast, highly modular secondary structural switches may be quite common during RNA tertiary folding where they may help smoothen the folding landscape by allowing folding to proceed efficiently via additional pathways. PMID:27292179

  18. Photosensitized Formation of Secondary Organic Aerosols above the Air/Water Interface.

    PubMed

    Bernard, F; Ciuraru, R; Boréave, A; George, C

    2016-08-16

    In this study, we evaluated photosensitized chemistry at the air-sea interface as a source of secondary organic aerosols (SOA). Our results show that, in addition to biogenic emissions, abiotic processes could also be important in the marine boundary layer. Photosensitized production of marine secondary organic aerosol was studied in a custom-built multiphase atmospheric simulation chamber. The experimental chamber contained water, humic acid (1-10 mg L(-1)) as a proxy for dissolved organic matter, and nonanoic acid (0.1-10 mM), a fatty acid proxy which formed an organic film at the air-water interface. Dark secondary reaction with ozone after illumination resulted in SOA particle concentrations in excess of 1000 cm(-3), illustrating the production of unsaturated compounds by chemical reactions at the air-water interface. SOA numbers via photosensitization alone and in the absence of ozone did not exceed background levels. From these results, we derived a dependence of SOA numbers on nonanoic acid surface coverage and dissolved organic matter concentration. We present a discussion on the potential role of the air-sea interface in the production of atmospheric organic aerosol from photosensitized origins. PMID:27434860

  19. Modeling secondary organic aerosol formation from oxidation of α-pinene, β-pinene, and d-limonene

    NASA Astrophysics Data System (ADS)

    Chen, Jianjun; Griffin, Robert J.

    The biogenic species α-pinene, β-pinene, and d-limonene are among the most abundant monoterpenes emitted globally. They are also important precursors to secondary organic aerosol (SOA) formation in the atmosphere. This study involves the development of proposed oxidation mechanisms for these three species. Semi- and non-volatile oxidation products with the potential to lead to SOA formation are predicted explicitly. Simulation code that describes the gas-phase oxidation mechanisms including reactions that lead to ozone (O 3) formation is coupled to an equilibrium absorptive partitioning code. The coupled model is used to simulate both gas-phase chemistry and SOA formation associated with oxidation of these three species in chamber experiments involving single as well as multiple oxidants. For the partitioning model, required molecular properties of the oxidation products are taken from the literature or estimated based on structural characteristics. The predicted O 3 and SOA concentrations are typically within ±50% of measured values for most of the experiments except for the experiments with low initial hydrocarbon concentrations and the nitrate radical experiments with α-pinene. The developed model will be used to update a gas-phase chemical mechanism and a SOA formation module used in a three-dimensional air quality model.

  20. Inhibition of bacterial cell wall-induced leukocyte recruitment and hepatic granuloma formation by TGF-beta gene transfer.

    PubMed

    Song, X; Zeng, L; Pilo, C M; Zagorski, J; Wahl, S M

    1999-10-01

    Intraperitoneal injection of streptococcal cell walls (SCW) into Lewis rats results in dissemination of SCW to the liver, spleen, bone marrow, and peripheral joints. The uptake of SCW by Kupffer cells in the liver initiates a chain of events largely mediated by T lymphocytes and macrophages. Local synthesis and secretion of cytokines and growth factors in response to the persistent SCW lead to the evolution and maintenance of a chronic T cell-dependent granulomatous response and result in granuloma formation and irreversible hepatic fibrosis. In an attempt to impede the development of the chronic granulomatous lesions in the liver, we injected a plasmid DNA encoding TGF-beta 1 i.m. to the SCW animals to determine the effect of TGF-beta 1 gene transfer on the course of liver inflammation and fibrosis. A single injection of plasmid DNA encoding TGF-beta 1 resulted in virtual abolition of the development of the SCW-induced hepatic granuloma formation and matrix expansion. TGF-beta 1 DNA not only reduced key proinflammatory cytokines including TNF-alpha, IL-1 beta, IFN-gamma, and IL-18, but also inhibited both CXC and CC chemokine production, thereby blocking inflammatory cell recruitment and accumulation in the liver. Moreover, TGF-beta 1 gene delivery inhibited its own expression in the liver tissue, which is otherwise up-regulated in SCW-injected animals. Our study suggests that TGF-beta 1 gene transfer suppresses hepatic granuloma formation by blocking the recruitment of inflammatory cells to the liver, and thus may provide a new approach to the control of hepatic granulomatous and fibrotic diseases. PMID:10491005

  1. Distribution of cell wall components in Sphagnum hyaline cells and in liverwort and hornwort elaters.

    PubMed

    Kremer, Celeste; Pettolino, Filomena; Bacic, Antony; Drinnan, Andrew

    2004-10-01

    Spiral secondary walls are found in hyaline cells of Sphagnum, in the elaters of most liverworts, and in elaters of the hornwort Megaceros. Recent studies on these cells suggest that cytoskeletal and ultrastructural processes involved in cell differentiation and secondary wall formation are similar in bryophytes and vascular plant tracheary elements. To examine differences in wall structure, primary and secondary wall constituents of the hyaline cells of Sphagnum novo-zelandicum and elaters of the liverwort Radula buccinifera and the hornwort Megaceros gracilis were analyzed by immunohistochemical and chemical methods. Anti-arabinogalactan-protein antibodies, JIM8 and JIM13, labeled the central fibrillar secondary wall layer of Megaceros elaters and the walls of Sphagnum leaf cells, but did not label the walls of Radula elaters. The CCRC-M7 antibody, which detects an arabinosylated (1-->6)-linked beta-galactan epitope, exclusively labeled hyaline cells in Sphagnum leaves and the secondary walls of Radula elaters. Anti-pectin antibodies, LM5 and JIM5, labeled the primary wall in Megaceros elaters. LM5 also labeled the central layer of the secondary wall but only during formation. In Radula elaters, JIM5 and another anti-pectin antibody, JIM7, labeled the primary wall. The distribution of arabinogalactan-proteins and pectic polysaccharides restricted to specific wall types and stages of development provides evidence for the developmental and functional regulation of cell wall composition in bryophytes. Monosaccharide-linkage analysis of Sphagnum leaf cell walls suggests they contain polysaccharides similar to those of higher plants. The most abundant linkage was 4-Glc, typical of cellulose, but there was also evidence for xyloglucans, 4-linked mannans, 4-linked xylans and rhamnogalacturonan-type polysaccharides. PMID:15290291

  2. Secondary school pupils' food choices around schools in a London borough: Fast food and walls of crisps.

    PubMed

    Caraher, M; Lloyd, S; Mansfield, M; Alp, C; Brewster, Z; Gresham, J

    2016-08-01

    The objective was to observe and document food behaviours of secondary school pupils from schools in a London borough. The research design combined a number of methods which included geographic information system (GIS) mapping of food outlets around three schools, systemised observations of food purchasing in those outlets before, during and after school, and focus groups conducted with pupils of those schools to gather their views in respect to those food choices. Results are summarised under the five 'A's of Access, Availability, Affordability and Acceptability & Attitudes: Access in that there were concentrations of food outlets around the schools. The majority of pupil food purchases were from newsagents, small local shops and supermarkets of chocolate, crisps (potato chips), fizzy drinks and energy drinks. Availability of fast food and unhealthy options were a feature of the streets surrounding the schools, with 200 m the optimal distance pupils were prepared to walk from and back to school at lunchtime. Affordability was ensured by the use of a consumer mentality and pupils sought out value for money offers; group purchasing of 'two for one' type offers encouraged this trend. Pupils reported healthy items on sale in school as expensive, and also that food was often sold in smaller portion sizes than that available from external food outlets. Acceptability and Attitudes, in that school food was not seen as 'cool', queuing for school food was not acceptable but queuing for food from takeaways was not viewed negatively; for younger pupils energy drinks were 'cool'. In conclusion, pupils recognised that school food was healthier but provided several reasons for not eating in school related to the five 'A's above. PMID:27105582

  3. Atom formation processes in the presence of ammonium thiocyanate in a thin-wall tungsten tube atomizer for atomic absorption spectrometry

    NASA Astrophysics Data System (ADS)

    Ohta, Kiyohisa; Mizuno, Takayuki

    Processes of atom formation of Ag, Al, As, Bi, Cd, Cr, Fe, Mn, Ni, Pb, Sb, Se, Sn, Sr and Te in the presence of ammonium thiocyanate in a thin-wall tungsten tube atomizer are described. It was found from a thermodynamic approach that AI, Bi, Cd, Cr, Fe, Ni and Te formed complexes with ammonium thiocyanate and are atomized through the sulfides in argon-hydrogen atmosphere. Atom formation processess for the other elements are different.

  4. Secondary instabilities and vortex formation in collisionless-fluid magnetic reconnection.

    PubMed

    Del Sarto, D; Califano, F; Pegoraro, F

    2003-12-01

    It is shown that the pattern of current layers formed within a magnetic island in the nonlinear phase of magnetic field line reconnection in a collisionless two-dimensional fluid plasma is subject to the onset of a secondary instability, the effect of which increases with decreasing electron temperature. In the cold electron limit the saturation of the island growth is accompanied by a turbulent redistribution of the current layers and by the development of long lived fluid vortices while, in the opposite limit, the current layer structure remains regular. PMID:14683188

  5. Effects of Grape Xylem Sap and Cell-Wall Constituents on In Vitro Growth, Biofilm Formation and Cellular Aggregation of Xylella fastidiosa

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Purified cell-wall constituents or grape xylem sap added to media affected in vitro growth, biofilm formation, cell aggregation and gene expression of Xylella fastidiosa. Media containing xylem sap from Pierce’s disease (PD)-susceptible plants provided better support for bacterial growth and biofil...

  6. Elastic properties and secondary structure formation of single-stranded DNA at monovalent and divalent salt conditions

    PubMed Central

    Bosco, Alessandro; Camunas-Soler, Joan; Ritort, Felix

    2014-01-01

    Single-stranded DNA (ssDNA) plays a major role in several biological processes. It is therefore of fundamental interest to understand how the elastic response and the formation of secondary structures are modulated by the interplay between base pairing and electrostatic interactions. Here we measure force-extension curves (FECs) of ssDNA molecules in optical tweezers set up over two orders of magnitude of monovalent and divalent salt conditions, and obtain its elastic parameters by fitting the FECs to semiflexible models of polymers. For both monovalent and divalent salts, we find that the electrostatic contribution to the persistence length is proportional to the Debye screening length, varying as the inverse of the square root of cation concentration. The intrinsic persistence length is equal to 0.7 nm for both types of salts, and the effectivity of divalent cations in screening electrostatic interactions appears to be 100-fold as compared with monovalent salt, in line with what has been recently reported for single-stranded RNA. Finally, we propose an analysis of the FECs using a model that accounts for the effective thickness of the filament at low salt condition and a simple phenomenological description that quantifies the formation of non-specific secondary structure at low forces. PMID:24225314

  7. Investigating the Relative Contributions of Secondary Ice Formation Processes to Ice Crystal Number Concentrations Within Mixed-Phase Clouds

    NASA Astrophysics Data System (ADS)

    Sullivan, S.; Nenes, A.

    2015-12-01

    Measurements of the in-cloud ice nuclei concentration can be three or four orders of magnitude less than those of the in-cloud ice crystal number concentration. Different secondary formation processes, active after initial ice nucleation, have been proposed to explain this discrepancy, but their relative importance, and even the exact physics of each mechanism, are still unclear. We construct a simple bin microphysics model (2IM) including depositional growth, the Hallett-Mossop process, ice-ice collisions, and ice-ice aggregation, with temperature- and supersaturation-dependent efficiencies for each process. 2IM extends the time-lag collision model of Yano and Phillips to additional bins and incorporates the aspect ratio evolution of Jensen and Harrington. Model output and measured ice crystal size distributions are compared to answer three questions: (1) how important is ice-ice aggregation relative to ice-ice collision around -15°C, where the Hallett-Mossop process is no longer active; (2) what process efficiencies lead to the best reproduction of observed ice crystal size distributions; and (3) does ice crystal aspect ratio affect the dominant secondary formation process. The resulting parameterization is intended for eventual use in larger-scale mixed-phase cloud schemes.

  8. PETROPHYSICAL INVESTIGATION OF THE SECONDARY RECOVERY POTENTIAL IN THE CHERRY CANYON FORMATION NE LEA FIELD LEA COUNTY, NEW MEXICO

    SciTech Connect

    T. Scott Hickman

    2002-06-01

    Read and Stevens has proposed the evaluation of the waterflood potential from the Cherry Canyon formation in the NE Lea Field in lea County, New Mexico. Much of the development in this area is approaching primary recovery limitations; additional recovery of remaining oil reserves by waterflood needs to be evaluated. The Cherry Canyon formation is composed of fine grained sandstone, containing clay material which results in high water saturation, and also has the tendency to swell and reduce reservoir permeability--the ability of fluid to flow through the rock pores and fractures. There are also abundant organic materials that interfere with obtaining reliable well logs. These complications have limited oil in place calculations and identification of net pay zones, presenting a challenge to the planned waterflood. Core analysis of the Cherry Canyon should improve the understanding of existing well logs and possibly indicate secondary recovery measures, such as waterflood, to enhance field recovery. Lacking truly representative core to provide accurate analyses, Read and Stevens will obtain and preserve fresh core. The consulting firm of T. Scott Hickman and Associates will then collaborate on special core analyses and obtain additional well logs for a more detailed analysis of reservoir properties. The log interpretation will be compared to the core analysis results, and the entire collected data set will be used to assess the potential and economic viability of successfully waterflooding the identified oil zones. Successful results from the project will improve accuracy of log interpretation and establish a methodology for evaluating secondary recovery by waterflood.

  9. Novel Approach for Evaluating Secondary Organic Aerosol from Aromatic Hydrocarbons: Unified Method for Predicting Aerosol Composition and Formation.

    PubMed

    Li, Lijie; Tang, Ping; Nakao, Shunsuke; Kacarab, Mary; Cocker, David R

    2016-06-21

    Innovative secondary organic aerosol (SOA) composition analysis methods normalizing aerosol yield and chemical composition on an aromatic ring basis are developed and utilized to explore aerosol formation from oxidation of aromatic hydrocarbons. SOA yield and chemical composition are revisited using 15 years of University of California, Riverside/CE-CERT environmental chamber data on 17 aromatic hydrocarbons with HC:NO ranging from 11.1 to 171 ppbC:ppb. SOA yield is redefined in this work by normalizing the molecular weight of all aromatic precursors to the molecular weight of the aromatic ring [Formula: see text], where i is the aromatic hydrocarbon precursor. The yield normalization process demonstrates that the amount of aromatic rings present is a more significant driver of aerosol formation than the vapor pressure of the precursor aromatic. Yield normalization also provided a basis to evaluate isomer impacts on SOA formation. Further, SOA elemental composition is explored relative to the aromatic ring rather than on a classical mole basis. Generally, four oxygens per aromatic ring are observed in SOA, regardless of the alkyl substitutes attached to the ring. Besides the observed SOA oxygen to ring ratio (O/R ∼ 4), a hydrogen to ring ratio (H/R) of 6 + 2n is observed, where n is the number of nonaromatic carbons. Normalization of yield and composition to the aromatic ring clearly demonstrates the greater significance of aromatic ring carbons compared with alkyl carbon substituents in determining SOA formation and composition. PMID:27177154

  10. Effects of secondary electrons emitted from surroundings on defect formation in silica glass under γ-ray irradiation

    NASA Astrophysics Data System (ADS)

    Obata, S.; Yoshida, T.; Tanabe, T.; Allen, C.; Okada, M.; Xu, Qiu

    2006-09-01

    We have investigated the effects of secondary electrons and photons emitted from surrounding materials on defect formation in silica glass under γ-ray irradiation. SiO 2 (silica) glass plates and those sandwiched in a pair of various material disks (carbon, stainless steel or lead) were irradiated by γ-ray, and the optical absorption spectra (UV-vis spectra) of the silica glass plates before and after the irradiation were examined. UV-vis spectra of the glass plates after the irradiation showed three absorption bands peaked around 2 eV, 4 eV and 5.8 eV being assigned to color centers relate metal impurities (Al and Ge) and oxygen-deficient centers like E' center, respectively. All three bands were found to grow with γ-ray irradiation dose and saturated at higher doses, and absorbance of the bands at the saturation for the sandwiched glass plates was higher than that for the bare glass plate. Moreover, the saturated absorbance was higher for the glass plate sandwiched with heavier materials. Employing Monte Carlo N-Particle (MCNP) code for the simulation of the photon-electron transport process, enhanced energy deposition and numbers of secondary electrons and photons emitted from sandwiching material disks to a silica glass plate were calculated. The higher deposition energy correlates well to the higher saturated absorbance, indicating that the secondary electrons and photons emitted from the disks clearly enhanced the defect formation in the sandwiched silica glass plates. This suggests the existence of the dose effect above a critical does, i.e. the irradiation with higher dose will result in higher saturated absorbance.

  11. Influences of different PBL schemes on secondary eyewall formation and eyewall replacement cycle in simulated Typhoon Sinlaku (2008)

    NASA Astrophysics Data System (ADS)

    Zhang, Yutao; Jiang, Yuxin; Tan, Benkui

    2013-06-01

    The effects of different planetary boundary layer (PBL) processes on the secondary eyewall formation (SEF) and eyewall replacement cycle (ERC) in Typhoon Sinlaku (2008) are investigated by using the Weather Research and Forecasting (WRF) model with six different PBL schemes. The SEF and ERC have been successfully simulated with all the six PBL schemes and the mechanism for the SEF and ERC proposed in our previous study has been reconfirmed. It is demonstrated that both the intensification of the storm and the inward-moving outer spiral rainband contribute to the SEF. After the SEF, the associated diabatic heating enhances the secondary eyewall further, and the transfer of moist air from outer region to the primary eyewall is cut off by the secondary eyewall. In such a way, the primary eyewall dies and an ERC completes. It is found that some simulated features of the SEF and ERC, such as the time and location of the SEF and duration of the ERC, do vary from one simulation to another. In order to describe the features of the SEF and ERC quantitatively, a concentric eyewall index (CEI) is defined and a threshold of the CEI is suggested to determine the onset of the secondary eyewall. The differences in the simulated SEF and ERC are discussed and some possible causes are suggested. In addition, based on the CEI threshold and the conservation law of angular momentum, a formula to predict the location of SEF is also proposed and applied to all the six simulations. The success and failure of the formula are then discussed.

  12. Comparative genomic analysis of the R2R3 MYB secondary cell wall regulators of Arabidopsis, poplar, rice, maize, and switchgrass

    PubMed Central

    2014-01-01

    Background R2R3 MYB proteins constitute one of the largest plant transcription factor clades and regulate diverse plant-specific processes. Several R2R3 MYB proteins act as regulators of secondary cell wall (SCW) biosynthesis in Arabidopsis thaliana (At), a dicotyledenous plant. Relatively few studies have examined SCW R2R3 MYB function in grasses, which may have diverged from dicots in terms of SCW regulatory mechanisms, as they have in cell wall composition and patterning. Understanding cell wall regulation is especially important for improving lignocellulosic bioenergy crops, such as switchgrass. Results Here, we describe the results of applying phylogenic, OrthoMCL, and sequence identity analyses to classify the R2R3 MYB family proteins from the annotated proteomes of Arabidposis, poplar, rice, maize and the initial genome (v0.0) and translated transcriptome of switchgrass (Panicum virgatum). We find that the R2R3 MYB proteins of the five species fall into 48 subgroups, including three dicot-specific, six grass-specific, and two panicoid grass-expanded subgroups. We observe four classes of phylogenetic relationships within the subgroups of known SCW-regulating MYB proteins between Arabidopsis and rice, ranging from likely one-to-one orthology (for AtMYB26, AtMYB103, AtMYB69) to no homologs identifiable (for AtMYB75). Microarray data for putative switchgrass SCW MYBs indicate that many maintain similar expression patterns with the Arabidopsis SCW regulators. However, some of the switchgrass-expanded candidate SCW MYBs exhibit differences in gene expression patterns among paralogs, consistent with subfunctionalization. Furthermore, some switchgrass representatives of grass-expanded clades have gene expression patterns consistent with regulating SCW development. Conclusions Our analysis suggests that no single comparative genomics tool is able to provide a complete picture of the R2R3 MYB protein family without leaving ambiguities, and establishing likely false

  13. Scottish Secondary School Students' Preferences for Location, Format of Counselling and Sex of Counsellor

    ERIC Educational Resources Information Center

    Cooper, Mick

    2006-01-01

    Within the United Kingdom there is a significant revival of therapeutic counselling services in schools. This study looks at three factors which may affect students' willingness to attend such a service: location of the service (school-based or external); format (individual or group); and sex of counsellor. The views of 584 students from four…

  14. Formation of Brown Aqueous Secondary Organic Aerosol during Multiphase Cloud Simulations using the CESAM Chamber Facility

    NASA Astrophysics Data System (ADS)

    Hawkins, L. N.; Welsh, H.; De Haan, D. O.; Doussin, J. F.; Pednekar, R.; Caponi, L.; Pangui, E.; Gratien, A.; Cazaunau, M.; Formenti, P.; Pajunoja, A.

    2015-12-01

    We investigated the formation of aqueous brown carbon (aqBrC) from methylglyoxal and methylamine in multiphase reactions using the CESAM chamber facility at the University Paris-Est Creteil. Following reaction in the chamber, droplets and particles were sampled with a Particle-Into-Liquid-Sampler (PILS), a capillary waveguide cell for UV/visible spectroscopy, and a total organic carbon analyzer (TOC). Particle size distributions were measured with a scanning mobility particle sizer and used to determine the mass absorption coefficient (a normalized absorbance measurement). Absorption spectra were recorded while aerosol or gas phase aqBrC precursors were introduced into the humid chamber. Sampling was continuous during and after cloud events. The events lasted 5-10 minutes and produced measurable brown carbon signal at 365 nm. When lights were used, absorbance at 365 nm decreased steadily indicating photobleaching of aqBrC products or preferential formation of different, non-absorbing products. Although absorptivity increases prior to cloud formation, cloud events produce sharp increased in aqBrC absorptivity. While measurable absorbance at 365 nm indicates aqBrC formation, very little absorbance was recorded beyond 450 nm indicating that the products were not as oligomerized as products observed in prior work in multi-day, bulk phase simulations.

  15. Effects of temperature on the formation of secondary organic aerosol from amine precursors

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Aerosol formation is directly influenced by meteorological properties such as temperature and relative humidity. Temperature, for example, directly affects the gas-to-particle partitioning of amine salts and semi-volatile organic amine products. These salts are formed in areas with high agricultur...

  16. Investigating secondary aerosol formation from agricultural amines and reduced sulfur compounds

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Gas phase amines and reduced sulfur compounds are often co-emitted from agricultural processes. Amines have been recently recognized as potentially major sources of agricultural aerosol formation, while the reduced sulfur compounds are largely ignored. There is a severe lack of knowledge and under...

  17. Modeling Gas-phase Glyoxal and Associated Secondary Organic Aerosol Formation in a Megacity using WRF/Chem

    NASA Astrophysics Data System (ADS)

    Wang, K.; Hodzic, A.; Barth, M. C.; Jimenez, J. L.; Volkamer, R.; Ervens, B.; Zhang, Y.

    2011-12-01

    Organic aerosol (OA) as one of a major fine particulate matter in the atmosphere plays an important role in air pollution, human health, and climate forcing. OA is composed of directly emitted primary organic aerosol and chemically produced secondary organic aerosols (SOA). Despite much recent progress in understanding SOA formation, current air quality models cannot explain the magnitude and growth of atmospheric SOA, due to high uncertainties in sources, properties, and chemical reactions of precursors and formation pathways of SOA. Recent laboratory and modeling studies showed that glyoxal may serve as an important SOA precursor in the condensed solution of inorganic or organic aerosol particles (e.g., ammonium sulfate, fulvic acid, and amino acids). In this study, the Weather Research and Forecasting model with chemistry (WRF/Chem) is modified to account for the latest observed gas-phase yields of glyoxal from various volatile organic compounds (VOCs) and the associated SOA formation in the aqueous aerosol phase. The SOA formation in the aqueous aerosol phase is implemented using two approaches. In the first approach, two simplified parameterizations are used to represent the lumped particle-phase chemical processes under dark conditions and photochemical surface uptake. In the second approach, more detailed kinetic glyoxal reactions such as reversible glyoxal uptake, dimer formation of glyoxal, and oligomerization are treated and resolved explicitly. The updated WRF/Chem is assessed over the Mexico City and the surrounding region during March 2006 using the MILAGRO campaign data. Various observations such as organic matter from Aerodyne Aerosol Mass Spectrometer and VOCs from Proton-transfer Ion Trap Mass Spectrometry were compared. The preliminary results showed that the addition of the SOA formation from glyoxal in aqueous particles brings SOA predictions into a better agreement with field observations, in particular in presence of high relative humidity

  18. Role of stabilized Criegee Intermediate in secondary organic aerosol formation from the ozonolysis of α-cedrene

    NASA Astrophysics Data System (ADS)

    Yao, Lei; Ma, Yan; Wang, Lin; Zheng, Jun; Khalizov, Alexei; Chen, Mindong; Zhou, Yaoyao; Qi, Lu; Cui, Fenping

    2014-09-01

    Atmospheric ozonolysis of sesquiterpenes is an important source of secondary organic aerosols (SOA). The mechanisms by which Criegee Intermediates (CIs) react to form SOA precursors and the influence of environmental conditions, however, remain unclear. On the basis of environmental chamber experiments coupled with detailed characterization of gas-phase and particle-phase products, we present evidence that a significant fraction of CIs from ozonolysis of α-cedrene are stabilized and bimolecular reactions of these stabilized CIs (SCIs) play a key role in the formation of SOA precursors. Ozonolysis experiments were conducted in a 4.5 m3 collapsible fluoropolymer chamber under various conditions in the presence of the OH radical and SCI scavengers. The size and mass of SOA particles produced during ozonolysis were measured directly and used for calculation of particle effective density and mass yield. Gaseous and particulate products were analyzed by several mass spectrometry methods. A total of 14 compounds in gas phase and 17 compounds in particle phase were tentatively identified. The major gas-phase products are secondary ozonides (SOZ) from intramolecular reactions of SCIs. Multifunctional organic acids are dominant particle-phase products. The measured density of aerosol particles is 1.04 ± 0.03 to 1.38 ± 0.03 g/cm3, and the aerosol mass yield is (23.7 ± 0.4)% to (46.4 ± 6.5)%, depending on reaction conditions. The presence of acetic acid, an SCI scavenger, inhibits new particle formation, but leads to increased aerosol mass yield. In contrast, the addition of SO2 dramatically enhances new particle formation and total aerosol yield. The calculated OH formation yield decreases from (62.4 ± 4.9)% to (9.0 ± 1.6)% upon addition of SCI scavengers CH3COOH and SO2, indicating that a large fraction of excited CIs are collisionally stabilized and unimolecular decomposition of SCIs via the hydroperoxide channel can be suppressed by bimolecular reactions. The

  19. Modeling the role of alkanes, polycyclic aromatic hydrocarbons, and their oligomers in secondary organic aerosol formation.

    PubMed

    Pye, Havala O T; Pouliot, George A

    2012-06-01

    A computationally efficient method to treat secondary organic aerosol (SOA) from various length and structure alkanes as well as SOA from polycyclic aromatic hydrocarbons (PAHs) is implemented in the Community Multiscale Air Quality (CMAQ) model to predict aerosol concentrations over the United States. Oxidation of alkanes is predicted to produce more aerosol than oxidation of PAHs driven by relatively higher alkane emissions. SOA from alkanes and PAHs, although small in magnitude, can be a substantial fraction of the SOA from anthropogenic hydrocarbons, particularly in winter, and could contribute more if emission inventories lack intermediate volatility alkanes (>C(13)) or if the vehicle fleet shifts toward diesel-powered vehicles. The SOA produced from oxidation of alkanes correlates well with ozone and odd oxygen in many locations, but the lower correlation of anthropogenic oligomers with odd oxygen indicates that models may need additional photochemically dependent pathways to low-volatility SOA. PMID:22568386

  20. Formation of secondary messengers by blood-formed elements in low-power laser irradiation

    NASA Astrophysics Data System (ADS)

    Brill, Gregory E.; Proshina, Olga V.; Zhigalina, Valentina N.; Filimonovskaya, Lyudmila S.; Romanova, Tatyana P.; Petrisheva, Svetlana G.; Zolotarjova, Tamara M.

    1995-05-01

    Irradiation of heparinized rat blood by He-Ne laser light ((lambda) - 632.8 nm, power density - 5 mW/cm2) during 15 or 30 min was performed in vitro experiments. The complex of biochemical parameters of erythrocytes, plasma and cytochemical parameters of polymorphonuclear leucocytes was studied. Laser irradiation was stated to cause different metabolic changes in red blood cells and neutrophils depending on the dose. In both doses of irradiation glucose-6-phosphate dehydrogenase activity lowers in erythrocytes, succinate dehydrogenase activity and lysosomal cationic proteins content increase in neutrophils. Stimulation of oxygen active forms production in cellular membranes of blood formed elements results in plasma malonic dialdehyde level increase and in the change of the balance between primary and secondary lipid peroxidation products. Cooperative interaction between different blood cells in the process of realization of system response to laser exposure is supposed to exist.

  1. Secondary natural gas recovery in mature fluvial sandstone reservoirs, Frio Formation, Agua Dulce Field, South Texas

    SciTech Connect

    Ambrose, W.A.; Levey, R.A. ); Vidal, J.M. ); Sippel, M.A. ); Ballard, J.R. ); Coover, D.M. Jr. ); Bloxsom, W.E. )

    1993-09-01

    An approach that integrates detailed geologic, engineering, and petrophysical analyses combined with improved well-log analytical techniques can be used by independent oil and gas companies of successful infield exploration in mature Gulf Coast fields that larger companies may consider uneconomic. In a secondary gas recovery project conducted by the Bureau of Economic Geology and funded by the Gas Research Institute and the U.S. Department of Energy, a potential incremental natural gas resource of 7.7 bcf, of which 4.0 bcf may be technically recoverable, was identified in a 490-ac lease in Agua Dulce field. Five wells in this lease had previously produced 13.7 bcf from Frio reservoirs at depths of 4600-6200 ft. The pay zones occur in heterogeneous fluvial sandstones offset by faults associated with the Vicksburg fault zone. The compartments may each contain up to 1.0 bcf of gas resources with estimates based on previous completions and the recent infield drilling experience of Pintas Creek Oil Company. Uncontacted gas resources occur in thin (typically less than 10 ft) bypassed zones that can be identified through a computed log evaluation that integrates open-hole logs, wireline pressure tests, fluid samples, and cores. At Agua Dulce field, such analysis identified at 4-ft bypassed zone uphole from previously produced reservoirs. This reservoir contained original reservoir pressure and flowed at rates exceeding 1 mmcf/d. The expected ultimate recovery is 0.4 bcf. Methodologies developed in the evaluation of Agua Dulce field can be successfully applied to other mature gas fields in the south Texas Gulf Coast. For example, Stratton and McFaddin are two fields in which the secondary gas recovery project has demonstrated the existence of thin, potentially bypassed zones that can yield significant incremental gas resources, extending the economic life of these fields.

  2. Experimental investigation of cesium mobility in the course of secondary mineral formations in Hanford sediment columns at 50 degrees C.

    PubMed

    Mashal, Kholoud Y; Cetiner, Ziya S

    2010-10-01

    Formation of secondary minerals and Cs mobility in Hanford sediments were investigated under conditions similar to the Hanford tank leak in a dynamic flow system at 50 degrees C. The objectives were to (1) examine the nature and locations of secondary mineral phases precipitated in the sediments and (2) quantify the amount of Cs retained by the sediment matrix at 50 degrees C. To this end, Hanford sediments were packed into 10-cm long columns and leached with simulated tank waste consisting of 1.4 M NaOH, 0.125 M NaAlO(2), 3.7 M NaNO(3), and 1.3 x 10(-4) M Cs at 50 degrees C. Compositions of outflow solution were monitored with time for up to 25 days, and the columns were then segmented into four 2.5-cm long layers. The colloidal fraction in these segments was characterized in terms of mineralogy, particle morphology, Cs content, and short-range Al and Si structure. It was observed that cancrinite and sodalite precipitated at 50 degrees C. Approximately 53% Cs was retained in the column treated by the simulated tank waste at this temperature. Cesium retention in the column was lowered in the high ionic strength solution due to competition from Na for the exchange sites. This can be explained by alteration of distribution and number of sorption sites which reduces the selectivity of Cs for Na, and through the formation of cancrinite and sodalite. The formation of hydroxide complexes in highly alkaline solutions could also contribute to relatively poor retention of Cs by hindering ion exchange mechanism. PMID:19757110

  3. Size-resolved aerosol water-soluble ionic compositions in the summer of Beijing: implication of regional secondary formation

    NASA Astrophysics Data System (ADS)

    Guo, S.; Hu, M.; Wang, Z. B.; Slanina, J.; Zhao, Y. L.

    2010-02-01

    To characterize aerosol pollution in Beijing, size-resolved aerosols were collected by MOUDIs during CAREBEIJING-2006 field campaign at Peking University (urban site) and Yufa (upwind rural site). Fine particle concentrations (PM1.8 by MOUDI) were 99.8±77.4 μg/m3 and 78.2±58.4 μg/m3, with PM1.8/PM10 ratios of 0.64±0.08 and 0.76±0.08 at PKU and Yufa, respectively, and secondary compounds accounted for more than 50% in fine particles. PMF model analysis was used to resolve the particle modes. Three modes were resolved at Yufa, representing condensation, droplet and coarse mode. However, one more droplet mode with bigger size was resolved, which was considered probably from regional transport. Condensation mode accounted for 10%-60% of the total mass at both sites, indicating that the gas-to-particle condensation process was important in summer. The formation of sulfate was mainly attributed to in-cloud or aerosol droplet process (PKU 80%, Yufa 70%) and gas condensation process (PKU 14%, Yufa 22%). According to the thermodynamic instability of NH4NO3, size distributions of nitrate were classified as three categories by RH. The existence of Ca(NO3)2 in droplet mode indicated the reaction of HNO3 with crustal particles was also important in fine particles. A rough estimation was given that 69% of the PM10 and 87% of the PM1.8 in Beijing urban were regional contributions. Sulfate, ammonium and oxalate were formed regionally, with the regional contributions of 90%, 87% and 95% to PM1.8. Nitrate formation was local dominant. In summary regional secondary formation led to aerosol pollution in the summer of Beijing.

  4. Size-resolved aerosol water-soluble ionic compositions in the summer of Beijing: implication of regional secondary formation

    NASA Astrophysics Data System (ADS)

    Guo, S.; Hu, M.; Wang, Z. B.; Slanina, J.; Zhao, Y. L.

    2009-11-01

    To characterize aerosol pollution in Beijing, size-resolved aerosols were collected by MOUDIs during CAREBEIJING-2006 field campaign at Peking University (urban site) and Yufa (upwind rural site). Fine particle concentrations (PM1.8 by MOUDI) were 99.8±77.4 μg/m3 and 78.2±58.4 μg/m3, with PM1.8/PM10 ratios of 0.64±0.08 and 0.76±0.08 at PKU and Yufa, respectively, and secondary compounds accounted for more than 50% in fine particles. PMF model was used to resolve the particle modes. Three modes were resolved at Yufa, representing condensation, droplet and coarse mode. However, one more droplet mode with bigger size was resolved, which was considered probably from regional transport. Condensation mode accounted for 10%-60% of the total mass at both sites, indicating it must be taken into account in summer. The formation of sulfate was mainly attributed to in-cloud or aerosol droplet process (PKU 80%, Yufa 70%) and gas condensation process (PKU 14%, Yufa 22%). According to the thermodynamic instability of NH4NO3, size distributions of nitrate were classified as three categories by RH. The existence of Ca(NO3)2 in droplet mode indicated the reaction of HNO3 with crustal particles was also important in fine particles. Linear regression gave a rough estimation that 69% of the PM10 and 87% of the PM1.8 at PKU were regional contributions. Sulfate, ammonium and oxalate were formed regionally, with the regional contributions of 90%, 87% and 95% to PM1.8. Nitrate formation was local dominant. In summary regional secondary formation led to aerosol pollution in the summer of Beijing.

  5. Secondary organic aerosol formation by self-reactions of methylglyoxal and glyoxal in evaporating droplets.

    PubMed

    De Haan, David O; Corrigan, Ashley L; Tolbert, Margaret A; Jimenez, Jose L; Wood, Stephanie E; Turley, Jacob J

    2009-11-01

    Glyoxal and methylglyoxal are scavenged by clouds, where a fraction of these compounds are oxidized during the lifetime of the droplet. As a cloud droplet evaporates, the remaining glyoxal and methylglyoxal must either form low-volatility compounds such as oligomers and remain in the aerosol phase, or transfer back to the gas phase. A series of experiments on evaporating aqueous aerosol droplets indicates that over the atmospherically relevant concentration range for clouds and fog (4-1000 microM), 33 +/- 11% of glyoxal and 19 +/- 13% of methylglyoxal remains in the aerosol phase while the remainder evaporates. Measurements of aerosol density and time-dependent AMS signal changes are consistent with the formation of oligomers by each compound during the drying process. Unlike glyoxal, which forms acetal oligomers, exact mass AMS data indicates that the majority of methylglyoxal oligomers are formed by aldol condensation reactions, likely catalyzed by pyruvic acid, formed from methylglyoxal disproportionation. Our measurements of evaporation fractions can be used to estimate the global aerosol formation potential of glyoxal and methylglyoxal via self-reactions at 1 and 1.6 Tg C yr(-1), respectively. This is a factor of 4 less than the SOA formed by these compounds if their uptake is assumed to