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https://www.readbyqxmd.com/read/28533787/genome-wide-analysis-of-gene-expression-provides-new-insights-into-cold-responses-in-thellungiella-salsuginea
#1
Jiangshan Wang, Quan Zhang, Feng Cui, Lei Hou, Shuzhen Zhao, Han Xia, Jingjing Qiu, Tingting Li, Ye Zhang, Xingjun Wang, Chuanzhi Zhao
Low temperature is one of the major environmental stresses that affects plant growth and development, and leads to decrease in crop yield and quality. Thellungiella salsuginea (salt cress) exhibits high tolerance to chilling, is an appropriate model to investigate the molecular mechanisms of cold tolerance. Here, we compared transcription changes in the roots and leaves of T. salsuginea under cold stress using RNA-seq. We identified 2,782 and 1,430 differentially expressed genes (DEGs) in leaves and roots upon cold treatment, respectively...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28532591/modeling-stability-analysis-and-computational-aspects-of-some-simplest-nonlinear-fuzzy-two-term-controllers-derived-via-center-of-area-gravity-defuzzification
#2
N K Arun, B M Mohan
The mathematical models reported in the literature so far have been found using Center of Sums (CoS) defuzzification method only. It appears that no one has found models using Center of Area (CoA) or Center of Gravity (CoG) defuzzification method. Although there have been some works reported to deal with modeling of fuzzy controllers via Centroid method, all of them have in fact used CoS method only. In this paper, for the first time mathematical models of the simplest Mamdani type fuzzy Proportional Integral (PI)/Proportional Derivative (PD) controllers via CoG defuzzification are presented...
May 19, 2017: ISA Transactions
https://www.readbyqxmd.com/read/28532230/hsp90-stabilizes-auxin-receptor-tir1-and-ensures-plasticity-of-auxin-responses
#3
Etsuko Watanabe, Shoji Mano, Ikuko Hara-Nishimura, Mikio Nishimura, Kenji Yamada
Heat shock protein 90 (HSP90) is a highly conserved molecular chaperone that facilitates the maturation of target proteins. Here, we report that the auxin receptor TIR1 is a target of cytosolic HSP90 and that HSP90 and TIR1 form a complex. Inhibition of HSP90 compromised the nuclear localization of TIR1, and abrogated plant responses to the hormone auxin. Our findings suggest that HSP90 positively regulates auxin receptor function. We also propose that HSP90 buffers or hides phenotypic variations in animals and plants by masking mutations in some of its target proteins...
May 22, 2017: Plant Signaling & Behavior
https://www.readbyqxmd.com/read/28530603/modelling-of-the-effect-of-selenium-fertilization-on-the-content-of-bioactive-compounds-in-broccoli-heads
#4
Andrea Mahn
Selenium (Se) exerts many effects beneficial to health. Broccoli is a Se-hyperaccumulator plant, with Se-fertilization increasing its potential as a functional food. We studied the effect of dose, and the developmental stage at the beginning of Se-fortification, on antioxidant capacity, phenolics, glucosinolates, sulphoraphane, Se-methyl selenocysteine and myrosinase in broccoli. Se-fortification decreased the antioxidant properties and sulphur-containing compounds, but increased Se-methyl-selenocysteine content...
October 15, 2017: Food Chemistry
https://www.readbyqxmd.com/read/28529514/two-rab5-homologs-are-essential-for-the-development-and-pathogenicity-of-the-rice-blast-fungus-magnaporthe-oryzae
#5
Cheng D Yang, Xie Dang, Hua W Zheng, Xiao F Chen, Xiao L Lin, Dong M Zhang, Yakubu S Abubakar, Xin Chen, Guodong Lu, Zonghua Wang, Guangpu Li, Jie Zhou
The rice blast fungus, Magnaporthe oryzae, infects many economically important cereal crops, particularly rice. It has emerged as an important model organism for studying the growth, development, and pathogenesis of filamentous fungi. RabGTPases are important molecular switches in regulation of intracellular membrane trafficking in all eukaryotes. MoRab5A and MoRab5B are Rab5 homologs in M. oryzae, but their functions in the fungal development and pathogenicity are unknown. In this study, we have employed a genetic approach and demonstrated that both MoRab5A and MoRab5B are crucial for vegetative growth and development, conidiogenesis, melanin synthesis, vacuole fusion, endocytosis, sexual reproduction, and plant pathogenesis in M...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28529082/rice-expression-database-red-an-integrated-rna-seq-derived-gene-expression-database-for-rice
#6
Lin Xia, Dong Zou, Jian Sang, Xingjian Xu, Hongyan Yin, Mengwei Li, Shuangyang Wu, Songnian Hu, Lili Hao, Zhang Zhang
Rice is one of the most important stable food as well as a monocotyledonous model organism for the plant research community. Here, we present RED (Rice Expression Database; http://expression.ic4r.org), an integrated database of rice gene expression profiles derived entirely from RNA-Seq data. RED features a comprehensive collection of 284 high-quality RNA-Seq experiments, integrates a large number of gene expression profiles and covers a wide range of rice growth stages as well as various treatments. Based on massive expression profiles, RED provides a list of housekeeping and tissue-specific genes and dynamically constructs co-expression networks for gene(s) of interest...
May 4, 2017: Journal of Genetics and Genomics, Yi Chuan Xue Bao
https://www.readbyqxmd.com/read/28526713/co-evolution-of-domain-interactions-in-the-chloroplast-tgd1-2-3-lipid-transfer-complex-specific-to-brassicaceae-and-poaceae-plants
#7
Yang Yang, Agnieszka Zienkiewicz, Anastasiya Lavell, Christoph Benning
The import of lipids into the chloroplast is essential for photosynthetic membrane biogenesis. This process requires an ABC transporter in the inner envelope membrane with three subunits, TRIGALACTOSYLDIACYLGLYCEROL (TGD) 1, 2, and 3 named after the oligogalactolipids that accumulate in the respective Arabidopsis thaliana mutants. Unlike Arabidopsis, in the model grass Brachypodium distachyon, chloroplast lipid biosynthesis is largely dependent on imported precursors, resulting in a characteristic difference in chloroplast lipid acyl composition between plants...
May 19, 2017: Plant Cell
https://www.readbyqxmd.com/read/28525308/toxin-antitoxin-systems-implications-for-plant-disease
#8
T Shidore, L R Triplett
Toxin-antitoxin (TA) systems are gene modules that are ubiquitous in freeliving prokaryotes. Diverse in structure, cellular function, and fitness roles, TA systems are defined by the presence of a toxin gene that suppresses bacterial growth and a toxin-neutralizing antitoxin gene, usually encoded in a single operon. Originally viewed as DNA maintenance modules, TA systems are now thought to function in many roles, including bacterial stress tolerance, virulence, phage defense, and biofilm formation. However, very few studies have investigated the significance of TA systems in the context of plant-microbe interactions...
May 19, 2017: Annual Review of Phytopathology
https://www.readbyqxmd.com/read/28525299/early-diverging-fungi-diversity-and-impact-at-the-dawn-of-terrestrial-life
#9
Mary L Berbee, Timothy Y James, Christine Strullu-Derrien
As decomposers or plant pathogens, fungi deploy invasive growth and powerful carbohydrate active enzymes to reduce multicellular plant tissues to humus and simple sugars. Fungi are perhaps also the most important mutualistic symbionts in modern ecosystems, transporting poorly soluble mineral nutrients to plants and thus enhancing the growth of vegetation. However, at their origin over a billion years ago, fungus-like plants and animals were unicellular marine microbes. Like the other multicellular kingdoms, Fungi evolved increased size, complexity, and metabolic functioning...
May 19, 2017: Annual Review of Microbiology
https://www.readbyqxmd.com/read/28524697/emerging-functions-of-multi-protein-complex-mediator-with-special-emphasis-on-plants
#10
Naveen Malik, Pinky Agarwal, Akhilesh Tyagi
Mediator is a multi-subunit protein complex which is involved in transcriptional regulation in yeast and other eukaryotes. As a co-activator, it connects information from transcriptional activators/repressors to transcriptional machinery including RNA polymerase II and general transcription factors. It is not only involved in transcription initiation but also has important roles to play in transcription elongation and termination. Functional attributes of different Mediator subunits have been largely defined in yeast and mammalian systems earlier, while such studies in plants have gained momentum recently...
May 19, 2017: Critical Reviews in Biochemistry and Molecular Biology
https://www.readbyqxmd.com/read/28524540/antineoplastic-effects-of-clove-buds-syzygium-aromaticum-l-in-the-model-of-breast-carcinoma
#11
Peter Kubatka, Sona Uramova, Martin Kello, Karol Kajo, Peter Kruzliak, Jan Mojzis, Desanka Vybohova, Marian Adamkov, Karina Jasek, Zora Lasabova, Pavol Zubor, Silvia Fialova, Svetlana Dokupilova, Peter Solar, Martin Pec, Katarina Adamicova, Jan Danko, Mariusz Adamek, Dietrich Busselberg
It is supposed that plant functional foods, rich in phytochemicals, may potentially have preventive effects in carcinogenesis. In this study, the anticancer effects of cloves in the in vivo and in vitro mammary carcinoma model were assessed. Dried flower buds of cloves (CLOs) were used at two concentrations of 0.1% and 1% through diet during 13 weeks after the application of chemocarcinogen. After autopsy, histopathological and immunohistochemical analyses of rat mammary carcinomas were performed. Moreover, in vitro evaluation using MCF-7 cells was carried out...
May 19, 2017: Journal of Cellular and Molecular Medicine
https://www.readbyqxmd.com/read/28523006/virtual-plant-tissue-building-blocks-for-next-generation-plant-growth-simulation
#12
Dirk De Vos, Abdiravuf Dzhurakhalov, Sean Stijven, Przemyslaw Klosiewicz, Gerrit T S Beemster, Jan Broeckhove
Motivation: Computational modeling of plant developmental processes is becoming increasingly important. Cellular resolution plant tissue simulators have been developed, yet they are typically describing physiological processes in an isolated way, strongly delimited in space and time. Results: With plant systems biology moving toward an integrative perspective on development we have built the Virtual Plant Tissue (VPTissue) package to couple functional modules or models in the same framework and across different frameworks...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28522547/a-regulatory-hierarchy-of-the-arabidopsis-branched-chain-amino-acid-metabolic-network
#13
Anqi Xing, Robert L Last
The branched-chain amino acids (BCAAs) Ile, Val and Leu are essential nutrients that humans and other animals obtain from plants. However, total and relative amounts of plant BCAAs rarely match animal nutritional needs, and improvement requires a better understanding of the mechanistic basis for BCAA homeostasis. We present an in vivo regulatory model of BCAA homeostasis derived from analysis of feedback-resistant Arabidopsis thaliana mutants for the three allosteric committed enzymes in the biosynthetic network: threonine deaminase (also named L-O-methylthreonine resistant 1, OMR1), acetohydroxyacid synthase small subunit 2 (AHASS2) and isopropylmalate synthase 1 (IPMS1)...
May 18, 2017: Plant Cell
https://www.readbyqxmd.com/read/28522457/structure-of-eif4e-in-transcriptional-complex-with-an-eif4g-peptide-supports-a-universal-bipartite-binding-mode-for-protein-translation
#14
Manuel Miras, Veronica Truniger, Cristina Silva, Nuria Verdaguer, Miguel A Aranda, Jordi Querol
The association-dissociation of the cap-binding protein eIF4E with eIF4G is a key control step in eukaryotic translation. The paradigm on the eIF4E-eIF4G interaction states that eIF4G binds to the dorsal surface of eIF4E through a single canonical alpha-helical motif, while metazoan 4E-BPs (m4E-BPs) advantageously compete against eIF4G thanks to a bi-modal binding onto the canonical but additionally to a non-canonical motif in the lateral eIF4E surface thus inhibiting translation. Very recently, it has been shown that metazoan eIF4Gs share this extended binding interface with m4E-BPs, with significant implications on the understanding of translation regulation and the design of therapeutic molecules...
May 18, 2017: Plant Physiology
https://www.readbyqxmd.com/read/28522357/the-analysis-of-an-effect-of-seed-propagation-on-defense-strategy-against-pathogen-transmission-within-clonal-plant-population-using-lattice-model
#15
Yuma Sakai, Takenori Takada
Many clonal plants have two breeding systems, vegetative and seed propagation. In vegetative propagation, plants reproduce genetically identical offspring that have lower mortality rates. By contrast, the seed propagated offspring has higher mortality rate, however, the seed propagation "acts an important role in maintaining the genetic diversity and reproduce widely. According to the experimental studies, the balance between the breeding systems, vegetative and seed propagation, is determined by several functions, such as resource allocation...
May 15, 2017: Journal of Theoretical Biology
https://www.readbyqxmd.com/read/28522117/characterization-of-cu-ii-reconstituted-acc-oxidase-using-experimental-and-theoretical-approaches
#16
Nadia El Bakkali-Tahéri, Sybille Tachon, Maylis Orio, Sylvain Bertaina, Marlène Martinho, Viviane Robert, Marius Réglier, Thierry Tron, Pierre Dorlet, A Jalila Simaan
1-Aminocyclopropane-1-carboxylic acid oxidase (ACCO) is a non heme iron(II) containing enzyme that catalyzes the final step of the ethylene biosynthesis in plants. The iron(II) ion is bound in a facial triad composed of two histidines and one aspartate (H177, D179 and H234). Several active site variants were generated to provide alternate binding motifs and the enzymes were reconstituted with copper(II). Continuous wave (cw) and pulsed Electron Paramagnetic Resonance (EPR) spectroscopies as well as Density Functional Theory (DFT) calculations were performed and models for the copper(II) binding sites were deduced...
May 15, 2017: Archives of Biochemistry and Biophysics
https://www.readbyqxmd.com/read/28516445/role-of-the-endocannabinoid-system-in-vertebrates-emphasis-on-the-zebrafish-model
#17
REVIEW
Francesca Oltrabella, Adam Melgoza, Brian Nguyen, Su Guo
The endocannabinoid system (eCBs), named after the plant Cannabis sativa, comprises cannabinoid receptors, endogenous ligands known as "endocannabinoids", and enzymes involved in the biosynthesis and degradation of these ligands, as well as putative transporters for these ligands. ECBs proteins and small molecules have been detected in early embryonic stages of many vertebrate models. As a result, cannabinoid receptors and endogenous as well as exogenous cannabinoids influence development and behavior in many vertebrate species...
May 17, 2017: Development, Growth & Differentiation
https://www.readbyqxmd.com/read/28515730/analysis-of-mads-box-gene-family-reveals-conservation-in-floral-organ-abcde-model-of-moso-bamboo-phyllostachys-edulis
#18
Zhanchao Cheng, Wei Ge, Long Li, Dan Hou, Yanjun Ma, Jun Liu, Qingsong Bai, Xueping Li, Shaohua Mu, Jian Gao
Mini chromosome maintenance 1, agamous, deficiens, and serum response factor (MADS)-box genes are transcription factors which play fundamental roles in flower development and regulation of floral organ identity. However, till date, identification and functions of MADS-box genes remain largely unclear in Phyllostachys edulis. In view of this, we performed a whole-genome survey and identified 34 MADS-box genes in P. edulis, and based on phylogeny, they were classified as MIKC(C), MIKC(∗), Mα, and Mβ. The detailed analysis about gene structure and motifs, phylogenetic classification, comparison of gene divergence and duplication are provided...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28515146/transcriptome-of-wheat-inflorescence-development-from-spikelet-initiation-to-floral-patterning
#19
Nan Feng, Gaoyuan Song, Jiantao Guan, Kai Chen, Meiling Jia, Dehua Huang, Jiajie Wu, Lichao Zhang, Xiuying Kong, Shuaifeng Geng, Jun Liu, Aili Li, Long Mao
Early reproductive development in cereals is crucial for final grain number per spike, and hence the yield potential of the crop. To date, however, no systematic analyses of gene expression profiles during this important process have been conducted for common wheat (Triticum aestivum). Here, we studied the transcriptome profiles at four stages of early wheat reproductive development, from spikelet initiation to floral organ differentiation. K-means clustering and stage-specific transcript identification detected dynamically expressed homoeologs of important transcription regulators in spikelet and floral meristems that may be involved in spikelet initiation, floret meristem specification, and floral organ patterning, as inferred from their homologs in model plants...
May 17, 2017: Plant Physiology
https://www.readbyqxmd.com/read/28514432/the-perception-of-strigolactones-in-vascular-plants
#20
REVIEW
Shelley Lumba, Duncan Holbrook-Smith, Peter McCourt
Small-molecule hormones play central roles in plant development, ranging from cellular differentiation and organ formation to developmental response instruction in changing environments. A recently discovered collection of related small molecules collectively called strigolactones are of particular interest, as these hormones also function as ecological communicators between plants and fungi and between parasitic plants and their hosts. Advances from model plant systems have begun to unravel how, as a hormone, strigolactone is perceived and transduced...
May 17, 2017: Nature Chemical Biology
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