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https://www.readbyqxmd.com/read/29789435/molecular-mechanisms-preventing-senescence-in-response-to-prolonged-darkness-in-a-desiccation-tolerant-plant
#1
Meriem Durgud, Saurabh Gupta, Ivan Ivanov, Amin Omidbakhshfard, Maria Benina, Saleh Alseekh, Nikola Staykov, Mareike Hauenstein, Paul Dijkwel, Stefan Hörtensteiner, Valentina Toneva, Yariv Brotman, Alisdair R Fernie, Bernd Mueller-Roeber, Tsanko Gechev
The desiccation-tolerant plant Haberlea rhodopensis can withstand months of darkness without any visible senescence. Here, we investigated the molecular mechanisms of this adaptation to prolonged (30 days) darkness and subsequent return to light. H. rhodopensis plants remained green and viable throughout the dark treatment. Transcriptomic analysis revealed that darkness regulated several transcription factor (TF) genes. Stress- and autophagy-related TFs such as ERF8, HSFA2b, RD26, TGA1, and WRKY33 were upregulated, while chloroplast- and flowering-related TFs such as ATH1, COL2, COL4, RL1, and PTAC7 were repressed...
May 22, 2018: Plant Physiology
https://www.readbyqxmd.com/read/29788925/de-novo-transcriptome-assembly-of-the-eight-major-organs-of-sacha-inchi-plukenetia-volubilis-and-the-identification-of-genes-involved-in-%C3%AE-linolenic-acid-metabolism
#2
Xiao-Di Hu, Bang-Zhen Pan, Qiantang Fu, Longjian Niu, Mao-Sheng Chen, Zeng-Fu Xu
BACKGROUND: Sacha Inchi (Plukenetia volubilis L.), which belongs to the Euphorbiaceae, has been considered a new potential oil crop because of its high content of polyunsaturated fatty acids in its seed oil. The seed oil especially contains high amounts of α-linolenic acid (ALA), which is useful for the prevention of various diseases. However, little is known about the genetic information and genome sequence of Sacha Inchi, which has largely hindered functional genomics and molecular breeding studies...
May 22, 2018: BMC Genomics
https://www.readbyqxmd.com/read/29788052/fast-evolution-and-lineage-specific-gene-family-expansions-of-aphid-salivary-effectors-driven-by-interactions-with-host-plants
#3
Hélène Boulain, Fabrice Legeai, Endrick Guy, Stéphanie Morlière, Nadine E Douglas, Jonghee Oh, Marimuthu Murugan, Michael Smith, Julie Jaquiéry, Jean Peccoud, Frank F White, James C Carolan, Jean-Christophe Simon, Akiko Sugio
Effector proteins play crucial roles in plant-parasite interactions by suppressing plant defenses and hijacking plant physiological responses to facilitate parasite invasion and propagation. Although effector proteins have been characterized in many microbial plant pathogens, their nature and role in adaptation to host plants are largely unknown in insect herbivores. Aphids rely on salivary effector proteins injected into the host plants to promote phloem sap uptake. Therefore, gaining insight into the repertoire and evolution of aphid effectors is key to unveiling the mechanisms responsible for aphid virulence and host plant specialization...
May 18, 2018: Genome Biology and Evolution
https://www.readbyqxmd.com/read/29786161/evidence-for-horizontal-gene-transfer-and-separation-of-effector-recognition-from-effector-function-revealed-by-analysis-of-effector-genes-shared-between-cape-gooseberry-and-tomato-infecting-formae-speciales-of-fusarium-oxysporum
#4
Jaime Simbaqueba, Ann-Maree Catanzariti, Carolina González, David A Jones
RNAseq reads from cape-gooseberry plants (Physalis peruviana) infected with Fusarium oxysporum f. sp. physali (Foph) were mapped against the lineage-specific transcriptome of Fusarium oxysporum f. sp. lycopersici (Fol) to look for putative effector genes. Homologues of Fol SIX1 (designated SIX1a and SIX1b), SIX7, SIX10, SIX12, SIX15 and Ave1 were identified. The near identity of the Foph and Fol SIX7, SIX10 and SIX12 genes and their intergenic regions suggest that this gene cluster may have undergone recent lateral transfer...
May 22, 2018: Molecular Plant Pathology
https://www.readbyqxmd.com/read/29784957/metabolic-reprogramming-in-leaf-lettuce-grown-under-different-light-quality-and-intensity-conditions-using-narrow-band-leds
#5
Kazuyoshi Kitazaki, Atsushi Fukushima, Ryo Nakabayashi, Yozo Okazaki, Makoto Kobayashi, Tetsuya Mori, Tomoko Nishizawa, Sebastian Reyes-Chin-Wo, Richard W Michelmore, Kazuki Saito, Kazuhiro Shoji, Miyako Kusano
Light-emitting diodes (LEDs) are an artificial light source used in closed-type plant factories and provide a promising solution for a year-round supply of green leafy vegetables, such as lettuce (Lactuca sativa L.). Obtaining high-quality seedlings using controlled irradiation from LEDs is critical, as the seedling health affects the growth and yield of leaf lettuce after transplantation. Because key molecular pathways underlying plant responses to a specific light quality and intensity remain poorly characterised, we used a multi-omics-based approach to evaluate the metabolic and transcriptional reprogramming of leaf lettuce seedlings grown under narrow-band LED lighting...
May 21, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29784955/integration-of-large-scale-data-for-extraction-of-integrated-arabidopsis-root-cell-type-specific-models
#6
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/29784821/characterization-of-gossypol-biosynthetic-pathway
#7
Xiu Tian, Ju-Xin Ruan, Jin-Quan Huang, Chang-Qing Yang, Xin Fang, Zhi-Wen Chen, Hui Hong, Ling-Jian Wang, Ying-Bo Mao, Shan Lu, Tian-Zhen Zhang, Xiao-Ya Chen
Gossypol and related sesquiterpene aldehydes in cotton function as defense compounds but are antinutritional in cottonseed products. By transcriptome comparison and coexpression analyses, we identified 146 candidates linked to gossypol biosynthesis. Analysis of metabolites accumulated in plants subjected to virus-induced gene silencing (VIGS) led to the identification of four enzymes and their supposed substrates. In vitro enzymatic assay and reconstitution in tobacco leaves elucidated a series of oxidative reactions of the gossypol biosynthesis pathway...
May 21, 2018: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/29783941/a-transposable-element-annotation-pipeline-and-expression-analysis-reveal-potentially-active-elements-in-the-microalga-tisochrysis-lutea
#8
Jérémy Berthelier, Nathalie Casse, Nicolas Daccord, Véronique Jamilloux, Bruno Saint-Jean, Grégory Carrier
BACKGROUND: Transposable elements (TEs) are mobile DNA sequences known as drivers of genome evolution. Their impacts have been widely studied in animals, plants and insects, but little is known about them in microalgae. In a previous study, we compared the genetic polymorphisms between strains of the haptophyte microalga Tisochrysis lutea and suggested the involvement of active autonomous TEs in their genome evolution. RESULTS: To identify potentially autonomous TEs, we designed a pipeline named PiRATE (Pipeline to Retrieve and Annotate Transposable Elements, download: https://doi...
May 22, 2018: BMC Genomics
https://www.readbyqxmd.com/read/29783940/small-rna-based-prediction-of-hybrid-performance-in-maize
#9
Felix Seifert, Alexander Thiemann, Tobias A Schrag, Dominika Rybka, Albrecht E Melchinger, Matthias Frisch, Stefan Scholten
BACKGROUND: Small RNA (sRNA) sequences are known to have a broad impact on gene regulation by various mechanisms. Their performance for the prediction of hybrid traits has not yet been analyzed. Our objective was to analyze the relation of parental sRNA expression with the performance of their hybrids, to develop a sRNA-based prediction approach, and to compare it to more common SNP and mRNA transcript based predictions using a factorial mating scheme of a maize hybrid breeding program...
May 21, 2018: BMC Genomics
https://www.readbyqxmd.com/read/29783718/functional-genomics-approaches-to-studying-symbioses-between-legumes-and-nitrogen-fixing-rhizobia
#10
REVIEW
Martina Lardi, Gabriella Pessi
Biological nitrogen fixation gives legumes a pronounced growth advantage in nitrogen-deprived soils and is of considerable ecological and economic interest. In exchange for reduced atmospheric nitrogen, typically given to the plant in the form of amides or ureides, the legume provides nitrogen-fixing rhizobia with nutrients and highly specialised root structures called nodules. To elucidate the molecular basis underlying physiological adaptations on a genome-wide scale, functional genomics approaches, such as transcriptomics, proteomics, and metabolomics, have been used...
May 18, 2018: High-throughput
https://www.readbyqxmd.com/read/29783187/impact-of-drought-and-salt-stress-on-the-biosynthesis-of-alkaloids-in-chelidonium-majus-l
#11
Mahdi Yahyazadeh, Rieke Meinen, Robert Hänsch, Sara Abouzeid, Dirk Selmar
When plants are exposed to various stress situations, their alkaloid concentration frequently is enhanced. This well-known phenomenon is presumably due to a passively enhanced rate of biosynthesis, caused by greatly elevated concentrations of NADPH in stressed plants. Here, we used Chelidonium majus L. plants, which accumulate high concentrations of dihydrocoptisine in their leaves, to study the impact of drought and salt stress on the biosynthesis and accumulation of alkaloids. In comparison to well-watered controls, in the transcriptome of the gene encoding the key enzyme in alkaloid biosynthesis, stylopine synthase, is enhanced in stressed C...
May 18, 2018: Phytochemistry
https://www.readbyqxmd.com/read/29780273/ectopic-ring-zinc-finger-gene-from-hot-pepper-induces-totally-different-genes-in-lettuce-and-tobacco
#12
Mahipal Singh Kesawat, Dong Kyun Kim, Naheed Zeba, Mi Chung Suh, Xinli Xia, Choo Bong Hong
Advances in molecular biology have improved crops through transferring genes from one organism to new hosts, and these efforts have raised concerns about potential unexpected outcomes. Here, we provide evidence that a gene with a specific function in one organism can yield completely different effects in a new host. CaRZFP1 is a C3HC4-type RING zinc finger protein gene previously isolated from a cDNA library for heat-stressed hot pepper. In our previous work investigating in vivo CaRZFP1 function, we transferred CaRZFP1 into tobacco; transgenic tobacco exhibited enhanced growth and tolerance to abiotic stresses...
2018: Molecular Breeding: New Strategies in Plant Improvement
https://www.readbyqxmd.com/read/29780036/revised-phylogeny-of-the-cellulose-synthase-gene-superfamily-insights-into-cell-wall-evolution
#13
Alan Little, Julian G Schwerdt, Neil J Shirley, Shi F Khor, Kylie Neumann, Lisa A O'Donovan, Jelle Lahnstein, Helen M Collins, Marilyn Henderson, Geoffrey B Fincher, Rachel A Burton
Cell walls are crucial for the integrity and function of all land plants, and are of central importance in human health, livestock production, and as a source of renewable bioenergy. Many enzymes that mediate the biosynthesis of cell wall polysaccharides are encoded by members of the large cellulose synthase (CesA) gene superfamily. Here, we analyzed 29 sequenced genomes and 17 transcriptomes to revise the phylogeny of the CesA gene superfamily in angiosperms. Our results identify ancestral gene clusters that predate the monocot-eudicot divergence and reveal several novel evolutionary observations, including the expansion of the Poaceae-specific cellulose synthase-like CslF family to the graminids and restiids and the characterisation of a previously unreported eudicot lineage, CslM, that forms a reciprocally monophyletic eudicot-monocot grouping with the CslJ clade...
May 20, 2018: Plant Physiology
https://www.readbyqxmd.com/read/29777991/co-evolutionary-associations-between-root-associated-microbiomes-and-root-transcriptomes-in-wild-and-cultivated-rice-varieties
#14
Lei Tian, Shaohua Shi, Lina Ma, Fahad Nasir, Xiujun Li, Lam-Son Phan Tran, Chunjie Tian
The plants and root-associated microbiomes are closely related. Plant metabolic substances can serve as a nutrient source for the microbiome, and in return, the microbiome can regulate the production of plant metabolic substances. Wild rice (Oryza rufipogon), as the ancestor of cultivated rice (Oryza sativa), has changed several metabolic pathways and root-associated microbiome during evolution. Thus, the study of the different associations between metabolic pathways and root-associated microbiomes in wild and cultivated rice varieties is important for rice breeding...
April 13, 2018: Plant Physiology and Biochemistry: PPB
https://www.readbyqxmd.com/read/29777775/genome-analysis-of-the-ancient-tracheophyte-selaginella-tamariscina-reveals-evolutionary-features-relevant-to-the-acquisition-of-desiccation-tolerance
#15
Zhichao Xu, Tianyi Xin, Dorothea Bartels, Ying Li, Wei Gu, Hui Yao, Sai Liu, Haoying Yu, Xiangdong Pu, Jianguo Zhou, Jiang Xu, Caicai Xi, Hetian Lei, Jingyuan Song, Shilin Chen
Resurrection plants, which are the "gifts" of natural evolution, are ideal models for studying genetic basis of plant desiccation tolerance. Here, we report a high-quality genome assembly of 301 Mb for the diploid spike moss Selaginella tamariscina, a primitive vascular resurrection plant. We predicated 27,761 protein-coding genes from the assembled S. tamariscina genome, 11.38% (2363) of which showed significant expression changes in response to desiccation. Approximately 60.58% of the S. tamariscina genome was annotated as repetitive DNA, which is almost 2-fold increase of that in the genome of desiccation-sensitive S...
May 16, 2018: Molecular Plant
https://www.readbyqxmd.com/read/29777364/cell-division-and-turgor-mediate-enhanced-plant-growth-in-arabidopsis-plants-treated-with-the-bacterial-signalling-molecule-lumichrome
#16
Motlalepula Pholo, Beatrix Coetzee, Hans J Maree, Philip R Young, James R Lloyd, Jens Kossmann, Paul N Hills
Transcriptomic analysis indicates that the bacterial signalling molecule lumichrome enhances plant growth through a combination of enhanced cell division and cell enlargement, and possibly enhances photosynthesis. Lumichrome (7,8 dimethylalloxazine), a novel multitrophic signal molecule produced by Sinorhizobium meliloti bacteria, has previously been shown to elicit growth promotion in different plant species (Phillips et al. in Proc Natl Acad Sci USA 96:12275-12280, https://doi.org/10.1073/pnas.96.22.12275 , 1999)...
May 17, 2018: Planta
https://www.readbyqxmd.com/read/29777132/the-modulation-of-acetic-acid-pathway-genes-in-arabidopsis-improves-survival-under-drought-stress
#17
Sultana Rasheed, Khurram Bashir, Jong-Myong Kim, Marina Ando, Maho Tanaka, Motoaki Seki
The Arabidopsis histone deacetylase 6 (HDA6) mutant exhibits increased tolerance to drought stress by negatively regulating the expression of ALDH2B7 and PDC1. Therefore, it was logical to determine if transgenic Arabidopsis plants expressing PDC1 or ALDH2B7 using a suitable promoter would also exhibit tolerance to drought stress. An analysis of published microarray data indicated the up-regulation of the TSPO gene, which encodes an outer membrane tryptophan-rich sensory protein (TSPO), by drought stress. RT-qPCR, as well as GUS analysis of the promoter, confirmed the up-regulation of TSPO by drought stress in Arabidopsis roots and shoots...
May 18, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29776925/unravelling-the-reduction-pathway-as-alternative-metabolic-route-to-hydroxycinnamate-decarboxylation-in-lactobacillus-plantarum
#18
Laura Santamaría, Inés Reverón, Félix López de Felipe, Blanca de Las Rivas, Rosario Muñoz
Lactobacillus plantarum is the lactic acid bacterial species most frequently found in plant-food fermentations where hydroxycinnamic acids are abundant. L. plantarum efficiently decarboxylates these compounds, and also reduces them, yielding substituted phenylpropionic acids. Although the reduction step is known to be induced by a hydroxycinnamic acid, the enzymatic machinery responsible for this reduction pathway has not been yet identified and characterized. A previous study on the transcriptomic response of L...
May 18, 2018: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/29776333/transcriptomic-analysis-of-genes-in-soybean-in-response-to-peronospora-manshurica-infection
#19
Hang Dong, Shuangfeng Shi, Chong Zhang, Sihui Zhu, Mei Li, Jie Tan, Yue Yu, Liping Lin, Shirong Jia, Xujing Wang, Yuanhua Wu, Yuhui Liu
BACKGROUND: Soybean downy mildew (SDM), caused by Peronospora manshurica (Pm), is a major fungal disease in soybean. To date, little is known regarding the defense mechanism at molecular level and how soybean plants response to Pm infection. In this study, differential gene expression in SDM-resistant (HR) and SDM-susceptible (HS) genotype was analyzed by RNA-seq to identify differentially expressed genes (DEGs) following Pm infection. RESULTS: Of a total of 55,017 genes mapped to the soybean reference genome sequences, 2581 DEGs were identified...
May 18, 2018: BMC Genomics
https://www.readbyqxmd.com/read/29775926/chlorophyll-a-%C3%AF-uorescence-and-transcriptome-reveal-the-toxicological-effects-of-bisphenol-a-on-an-invasive-cyanobacterium-cylindrospermopsis-raciborskii
#20
Rong Xiang, Junqiong Shi, Hongbo Zhang, Congcong Dong, Li Liu, JunKe Fu, Xinyu He, Yanjun Yan, Zhongxing Wu
Bisphenol A has attracted worldwide attention due to its harmful effects on humans, animals and plants. In this study, the toxicological effects of BPA on Cylindrospermopsis raciborskii were assessed based on chlorophyll a fluorescence and transcriptome analyses. The results showed that the growth of C. raciborskii was significantly inhibited when BPA exceeded 0.1 mg L-1 . A marked rise of phase J was observed at a concentration greater than 0.1 mg L-1 , while a K phase appeared at 20 mg L-1 . The chlorophyll a fluorescence parameters of RC/CS0 , F0 , φP0 , φE0 , and ψ0 , underwent a significant decline under all treatments of BPA, whereas a significant increase in both VJ and M0 occurred under all concentrations of BPA...
May 9, 2018: Aquatic Toxicology
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