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https://www.readbyqxmd.com/read/29793031/cloning-overexpression-and-purification-of-a-gene-of-unknown-function-of-prophage-loci-from-candidatus-liberibacter-asiaticus-the-destructive-bacterial-pathogen-of-huanglongbing-disease-in-citrus-plants
#1
Duangtip Sudhan, Thamrongjet Puttamuk, Supachai Vuttipongchaikij, Pitak Chuawong
Citrus Huanglongbing (HLB) or citrus greening is one of the most destructive diseases affecting citrus industry worldwide. The causal agent in Asia is a phloem-limited, Gram-negative bacterium, 'Candidatus Liberibacter asiaticus' (CLas). Within the genome of CLas lies prophage regions, classified as Type-A, B, C, and D. In particular, Type-D has been indicated to correlate with the blotchy-mottle symptoms of citrus trees. Here we reported the cloning, overexpression, and purification of the ORF1, an open reading frame from the partial Type-D region of CLas obtained from an infected lime tree (Citrus aurantifolia Swingle)...
May 21, 2018: Protein Expression and Purification
https://www.readbyqxmd.com/read/29785641/in-silico-analysis-of-natural-resistance-associated-macrophage-protein-nramp-family-of-transporters-in-rice
#2
Anitha Mani, Kavitha Sankaranarayanan
In Oryza sativa (rice) there are seven members in the NRAMP (natural resistance- associated macrophage protein) family of transporter proteins. They have been identified as OsNRAMP1, OsNRAMP2, OsNRAMP3, OsNRAMP4, OsNRAMP5, OsNRAMP6 and OsNRAMP7. Several metal ions like Zn2+ , Mn2+ , Fe2+ , Cd2+ etc. have been studied to be transported via NRAMP transporter proteins in rice plant. In spite of this, very little information is available regarding these transporters. Hence it is important to computationally predict and characterize the OsNRAMP family of transporters for studying and understanding their molecular insights in future studies...
May 21, 2018: Protein Journal
https://www.readbyqxmd.com/read/29784955/integration-of-large-scale-data-for-extraction-of-integrated-arabidopsis-root-cell-type-specific-models
#3
Michael Scheunemann, Siobhan M Brady, Zoran Nikoloski
Plant organs consist of multiple cell types that do not operate in isolation, but communicate with each other to maintain proper functions. Here, we extract models specific to three developmental stages of eight root cell types or tissue layers in Arabidopsis thaliana based on a state-of-the-art constraint-based modeling approach with all publicly available transcriptomics and metabolomics data from this system to date. We integrate these models into a multi-cell root model which we investigate with respect to network structure, distribution of fluxes, and concordance to transcriptomics and proteomics data...
May 21, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29784884/the-effector-gene-xopae-of-xanthomonas-euvesicatoria-85-10-is-part-of-an-operon-and-encodes-an-e3-ubiquitin-ligase
#4
Georgy Popov, Bharat Bhusan Majhi, Guido Sessa
The type III effector XopAE from the Xanthomonas euvesicatoria strain 85-10 ( Xe 85-10) was previously shown to inhibit plant immunity and enhance pathogen-induced disease symptoms. Evolutionary analysis of 60 xopAE alleles ( AEal ) revealed that the xopAE locus is conserved in multiple Xanthomonas species. The majority of xopAE alleles (55 out of 60) encodes a single ORF ( xopAE ), while in 5 alleles, including AEal 37 of the Xe 85-10 strain, a frame-shift splits the locus into two ORFs ( hpaF and a truncated xopAE )...
May 21, 2018: Journal of Bacteriology
https://www.readbyqxmd.com/read/29775612/crystal-structure-of-wa352-provides-insight-into-cytoplasmic-male-sterility-in-rice
#5
Xiang Wang, Zeyuan Guan, Zhou Gong, Junjie Yan, Guangsheng Yang, Yao-Guang Liu, Ping Yin
Plant cytoplasmic male sterility (CMS) is an important phenomenon and is widely utilized in hybrid crop breeding. The Wild Abortive CMS (CMS-WA), a well-known CMS type, has been successfully applied in the commercial production of hybrid rice seeds for more than 40 years. The CMS-WA causal gene WA352 encodes a novel transmenbrane protein and the interacts with the mitochondrial copper chaperone COX11, triggering reactive oxygen species production and resulting in male sterility in CMS-WA lines. However, the structure of WA352 is currently unknown, and the structural mechanism whereby WA352 perturbs COX11 function to cause CMS remains largely unknown...
May 15, 2018: Biochemical and Biophysical Research Communications
https://www.readbyqxmd.com/read/29775103/shoot-litter-breakdown-and-zinc-dynamics-of-an-aquatic-plant-schoenoplectus-californicus
#6
Silvana Arreghini, Laura de Cabo, Roberto José María Serafini, Alicia Fabrizio de Iorio
Decomposition of plant debris is an important process in determining the structure and function of aquatic ecosystems. The aims were to find a mathematic model fitting the decomposition process of Schoenoplectus californicus shoots containing different Zn concentrations; compare the decomposition rates; and assess metal accumulation/mobilization during decomposition. A litterbag technique was applied with shoots containing three levels of Zn: collected from an unpolluted river (RIV) and from experimental populations at low (LoZn) and high (HiZn) Zn supply...
July 3, 2018: International Journal of Phytoremediation
https://www.readbyqxmd.com/read/29774211/3d-printed-e-tongue
#7
Gabriel Gaál, Tatiana A da Silva, Vladimir Gaál, Rafael C Hensel, Lucas R Amaral, Varlei Rodrigues, Antonio Riul
Nowadays, one of the biggest issues addressed to electronic sensor fabrication is the build-up of efficient electrodes as an alternative way to the expensive, complex and multistage processes required by traditional techniques. Printed electronics arises as an interesting alternative to fulfill this task due to the simplicity and speed to stamp electrodes on various surfaces. Within this context, the Fused Deposition Modeling 3D printing is an emerging, cost-effective and alternative technology to fabricate complex structures that potentiates several fields with more creative ideas and new materials for a rapid prototyping of devices...
2018: Frontiers in Chemistry
https://www.readbyqxmd.com/read/29772751/what-we-do-not-know-about-fungal-cell-adhesion-molecules
#8
REVIEW
Peter N Lipke
There has been extensive research on structure and function of fungal cell adhesion molecules, but the most of the work has been about adhesins in Candida albicans and Saccharomyces cerevisiae. These yeasts are members of a single ascomycete order, and adhesion molecules from the six other fungal phyla are only sparsely described in the literature. In these other phyla, most of the research is at the cellular level, rather than at the molecular level, so there has been little characterization of the adhesion molecules themselves...
May 17, 2018: Journal of Fungi (Basel, Switzerland)
https://www.readbyqxmd.com/read/29765666/straightforward-and-precise-approach-to-replicate-complex-hierarchical-structures-from-plant-surfaces-onto-soft-matter-polymer
#9
Charchit Kumar, Vincent Le Houérou, Thomas Speck, Holger F Bohn
The surfaces of plant leaves are rarely smooth and often possess a species-specific micro- and/or nano-structuring. These structures usually influence the surface functionality of the leaves such as wettability, optical properties, friction and adhesion in insect-plant interactions. This work presents a simple, convenient, inexpensive and precise two-step micro-replication technique to transfer surface microstructures of plant leaves onto highly transparent soft polymer material. Leaves of three different plants with variable size (0...
April 2018: Royal Society Open Science
https://www.readbyqxmd.com/read/29765070/ecosystem-functions-including-soil-organic-carbon-total-nitrogen-and-available-potassium-are-crucial-for-vegetation-recovery
#10
Kaiyang Qiu, Yingzhong Xie, Dongmei Xu, Richard Pott
The effects of biodiversity on ecosystem functions have been extensively studied, but little is known about the effects of ecosystem functions on biodiversity. This knowledge is important for understanding biodiversity-ecosystem functioning relationships. Desertification reversal is a significant global challenge, but the factors that play key roles in this process remain unclear. Here, using data sampled from areas undergoing desertification reversal, we identify the dominant soil factors that play a role in vegetation recovery with ordinary least squares and structural equation modelling...
May 15, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29750074/the-taxlist-package-managing-plant-taxonomic-lists-in-r
#11
Miguel Alvarez, Federico Luebert
Taxonomic lists are crucial elements of vegetation-plot databases and provide the links between original entries, reference taxon views and different taxon concepts. We introduce the R package taxlist in the context of object-oriented modelling for taxonomic lists. This package provides a data structure based on species lists in Turboveg, which is a software broadly used for the storage of vegetation-plot databases and implements functions for importing and handling them prior to statistical analysis. We also present a schema for relational databases, compatible with taxlist objects and recommend its use for handling diversity records...
2018: Biodiversity Data Journal
https://www.readbyqxmd.com/read/29748478/a-functional-study-identifying-critical-residues-involving-metal-transport-activity-and-selectivity-in-natural-resistance-associated-macrophage-protein-3-in-arabidopsis-thaliana
#12
Jiyu Li, Lihua Wang, Lu Zheng, Yuerong Wang, Xi Chen, Wei Zhang
Arabidopsis thaliana natural resistance-associated macrophage protein 3 (AtNRAMP3) is involved in the transport of cadmium (Cd), iron (Fe), and manganese (Mn). Here, we present a structure-function analysis of AtNRAMP3 based on site-directed mutagenesis and metal toxicity growth assays involving yeast mutants, combined with three-dimensional (3D) structure modeling based on the crystal structure of the Eremococcus coleocola NRAMP family transporter, EcoDMT. We demonstrated that two conservative sites, D72 and N75, are essential for the transport activity...
May 10, 2018: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/29746894/sphingolipid-hydroxylation-in-mammals-yeast-and-plants-an-integrated-view
#13
REVIEW
Joaquim Trigo Marquês, H Susana Marinho, Rodrigo Freire Martins de Almeida
This review is focused on sphingolipid backbone hydroxylation, a small but widespread structural feature, with profound impact on membrane biophysical properties. We start by summarizing sphingolipid metabolism in mammalian cells, yeast and plants, focusing on how distinct hydroxylation patterns emerge in different eukaryotic kingdoms. Then, a comparison of the biophysical properties in membrane model systems and cellular membranes from diverse organisms is made. From an integrative perspective, these results can be rationalized considering that superficial hydroxyl groups in the backbone of sphingolipids (by intervening in the H-bond network) alter the balance of favorable interactions between membrane lipids...
May 7, 2018: Progress in Lipid Research
https://www.readbyqxmd.com/read/29746516/examining-the-patterns-and-dynamics-of-species-abundance-distributions-in-succession-of-forest-communities-by-model-selection
#14
Zuo-Yun Yin, Lu Zeng, Shao-Ming Luo, Ping Chen, Xiao He, Wei Guo, Bailian Li
There are a few common species and many rare species in a biological community or a multi-species collection in given space and time. This hollow distribution curve is called species abundance distribution (SAD). Few studies have examined the patterns and dynamics of SADs during the succession of forest communities by model selection. This study explored whether the communities in different successional stages followed different SAD models and whether there existed a best SAD model to reveal their intrinsic quantitative features of structure and dynamics in succession...
2018: PloS One
https://www.readbyqxmd.com/read/29740459/3d-structures-of-plant-phytochrome-a-as-pr-and-pfr-from-solid-state-nmr-implications-for-molecular-function
#15
Chen Song, Maria Andrea Mroginski, Christina Lang, Jakub Kopycki, Wolfgang Gärtner, Jörg Matysik, Jon Hughes
We present structural information for oat phyA3 in the far-red-light-absorbing (Pfr) signaling state, to our knowledge the first three-dimensional (3D) information for a plant phytochrome as Pfr. Solid-state magic-angle spinning (MAS) NMR was used to detect interatomic contacts in the complete photosensory module [residues 1-595, including the NTE (N-terminal extension), PAS ( P er/ A rnt/ S im), GAF (c G MP phosphodiesterase/ a denylyl cyclase/ F hlA) and PHY ( phy tochrome-specific) domains but with the C-terminal PAS repeat and transmitter-like module deleted] auto-assembled in vitro with 13 C- and 15 N-labeled phycocyanobilin (PCB) chromophore...
2018: Frontiers in Plant Science
https://www.readbyqxmd.com/read/29736250/mikc-c-type-mads-box-genes-in-rosa-chinensis-the-remarkable-expansion-of-abcde-model-genes-and-their-roles-in-floral-organogenesis
#16
Jinyi Liu, Xiaodong Fu, Yuwei Dong, Jun Lu, Min Ren, Ningning Zhou, Changquan Wang
MIKCC -type MADS-box (MIKCC ) genes encode transcription factors that have crucial roles in controlling floral organogenesis and flowering time in plants. Although this gene family has been well characterized in many plant species, its evolutionary and comprehensive functional analysis in rose is lacking. In this study, 58 non-redundant MIKCC uni-transcripts were extensively identified from rose transcriptomes. Phylogenetic analysis placed these genes into 12 clades with their Arabidopsis and strawberry counterparts, and revealed that ABCDE model (including AP1/FUL, AP3/PI, AG, and SEP clades), and SOC1 and AGL6 clade genes have remarkably expanded in Rosa chinensis , whereas genes from the FLC and AGL17 clades were undetectable...
2018: Horticulture Research
https://www.readbyqxmd.com/read/29735177/remote-sensing-of-plant-water-relations-an-overview-and-future-perspectives
#17
A Damm, E Paul-Limoges, E Haghighi, C Simmer, F Morsdorf, F D Schneider, C van der Tol, M Migliavacca, U Rascher
Vegetation is a highly dynamic component of the Earth surface and substantially alters the water cycle. Particularly the process of oxygenic plant photosynthesis determines vegetation connecting the water and carbon cycle and causing various interactions and feedbacks across Earth spheres. While vegetation impacts the water cycle, it reacts to changing water availability via functional, biochemical and structural responses. Unravelling the resulting complex feedbacks and interactions between the plant-water system and environmental change is essential for any modelling approaches and predictions, but still insufficiently understood due to currently missing observations...
April 25, 2018: Journal of Plant Physiology
https://www.readbyqxmd.com/read/29734588/the-influence-of-vegetation-and-soil-properties-on-springtail-communities-in-a-diesel-contaminated-soil
#18
Ingrid Errington, Catherine K King, Sarah Houlahan, Simon C George, Alexander Michie, Grant C Hose
Soil health is important for the functioning of all terrestrial ecosystems, but may be impacted by contamination. Soil contamination may in turn necessitate rehabilitation and remediation works, but many of the techniques currently used cause physical disturbance to the soil structure, which may in itself affect soil assemblages. An understanding of the relative influence of these two types of disturbance on soil biota is needed to inform in situ remediation activities. Subantarctic Macquarie Island provides an ideal location to study these interactions because soil biodiversity is naturally low and a number of diesel spills have undergone active in situ remediation in recent years...
April 1, 2018: Science of the Total Environment
https://www.readbyqxmd.com/read/29734496/impacts-of-biomass-production-at-civil-airports-on-grassland-bird-conservation-and-aviation-strike-risk
#19
Tara J Conkling, Jerrold L Belant, Travis L DeVault, James A Martin
Growing concerns about climate change, foreign oil dependency, and environmental quality have fostered interest in perennial native grasses (e.g., switchgrass [Panicum virgatum]) for bioenergy production while also maintaining biodiversity and ecosystem function. However, biomass cultivation in marginal landscapes such as airport grasslands may have detrimental effects on aviation safety as well as conservation efforts for grassland birds. In 2011-2013, we investigated effects of vegetation composition and harvest frequency on seasonal species richness and habitat use of grassland birds and modeled relative abundance, aviation risk, and conservation value of birds associated with biomass crops...
March 8, 2018: Ecological Applications: a Publication of the Ecological Society of America
https://www.readbyqxmd.com/read/29730807/religiosity-spirituality-matters-on-plant-based-local-medical-system
#20
Ulysses Paulino Albuquerque, Washington Soares Ferreira Júnior, Daniel Carvalho Pires Sousa, Rafael Corrêa Prota Santos Reinaldo, André Luiz Borba do Nascimento, Paulo Henrique Santos Gonçalves
Religiosity/spirituality can affect health and quality of life in myriad ways. Religion has been present since the first moments of our evolutionary history, whether it is understood as a byproduct or as an adaptation of our cognitive evolution. We investigated how religion influences medicinal plant-based local medical systems (LMSs) and focuses on how individual variation in the degree of religiosity/spirituality affects the structure of LMSs. The knowledge of people about their medical systems was obtained through the free-listing technique, and level of religiosity/spirituality was calculated using the Brazilian version of the Brief Multidimensional Measure of Religiousness/Spirituality...
May 5, 2018: Journal of Religion and Health
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