scholarly journals Shade Effects on Peanut Yield Associate with Physiological and Expressional Regulation on Photosynthesis and Sucrose Metabolism

2020 ◽  
Vol 21 (15) ◽  
pp. 5284
Author(s):  
Tingting Chen ◽  
Huajian Zhang ◽  
Ruier Zeng ◽  
Xinyue Wang ◽  
Luping Huang ◽  
...  
Keyword(s):  
Plant Hormone ◽  
Signal Pathways ◽  
Shade Avoidance ◽  
Rna Seq ◽  
Land Utilization ◽  
Flowering Stage ◽  
Stem Internode ◽  
Core Sets ◽  
Growth Promoting ◽  
Core Genes

Intercropping improves land utilization with more crops grown together; however, shorter crops in intercropping experience stress, being shaded by the taller crops. Systematic changes in phenotype, physiology, yield, and gene regulation under shade stress in peanut are largely unknown, although shade responses have been well analyzed in model plants. We exposed peanut plants to simulated 40% and 80% shade for 15 and 30 days at the seedling stage, flowering stage, and both stages. Shade caused the increased elongation growth of the main stem, internode, and leaf, and elongation was positively associated with auxin levels. Shade stress reduced peanut yield. Further comparative RNA-seq analyses revealed expressional changes in many metabolism pathways and common core sets of expressional regulations in all shade treatments. Expressional downregulation of most genes for light-harvesting and photosynthesis agreed with the observed decreased parameters of photosynthesis processes. Other major regulations included expressional downregulation of most core genes in the sucrose and starch metabolism, and growth-promoting genes in plant hormone signal pathways. Together, the results advance our understanding of physiological and molecular regulation in shade avoidance in peanut, which could guide the breeding designing in the intercropping system.

scholarly journals Biochemical and Genetic Bases of Indole-3-Acetic Acid (Auxin Phytohormone) Degradation by the Plant-Growth-Promoting Rhizobacterium Paraburkholderia phytofirmans PsJN

2016 ◽  
Vol 83 (1) ◽  
Author(s):  
Raúl Donoso ◽  
Pablo Leiva-Novoa ◽  
Ana Zúñiga ◽  
Tania Timmermann ◽  
Gonzalo Recabarren-Gajardo ◽  
...  
Keyword(s):  
Energy Source ◽  
Gene Regulation ◽  
Acetic Acid ◽  
Plant Growth ◽  
Plant Hormone ◽  
Content Type ◽  
Gene Functions ◽  
Plant Growth Promoting ◽  
Growth Promoting ◽  
Indole 3 Acetic Acid

ABSTRACT Several bacteria use the plant hormone indole-3-acetic acid (IAA) as a sole carbon and energy source. A cluster of genes (named iac) encoding IAA degradation has been reported in Pseudomonas putida 1290, but the functions of these genes are not completely understood. The plant-growth-promoting rhizobacterium Paraburkholderia phytofirmans PsJN harbors iac gene homologues in its genome, but with a different gene organization and context than those of P. putida 1290. The iac gene functions enable P. phytofirmans to use IAA as a sole carbon and energy source. Employing a heterologous expression system approach, P. phytofirmans iac genes with previously undescribed functions were associated with specific biochemical steps. In addition, two uncharacterized genes, previously unreported in P. putida and found to be related to major facilitator and tautomerase superfamilies, are involved in removal of an IAA metabolite called dioxindole-3-acetate. Similar to the case in strain 1290, IAA degradation proceeds through catechol as intermediate, which is subsequently degraded by ortho-ring cleavage. A putative two-component regulatory system and a LysR-type regulator, which apparently respond to IAA and dioxindole-3-acetate, respectively, are involved in iac gene regulation in P. phytofirmans. These results provide new insights about unknown gene functions and complex regulatory mechanisms in IAA bacterial catabolism. IMPORTANCE This study describes indole-3-acetic acid (auxin phytohormone) degradation in the well-known betaproteobacterium P. phytofirmans PsJN and comprises a complete description of genes, some of them with previously unreported functions, and the general basis of their gene regulation. This work contributes to the understanding of how beneficial bacteria interact with plants, helping them to grow and/or to resist environmental stresses, through a complex set of molecular signals, in this case through degradation of a highly relevant plant hormone.

scholarly journals RNA-Seq Expression Analysis of Chronic Asthmatic Mice with Bu-Shen-Yi-Qi Formula Treatment and Prediction of Regulated Gene Targets of Anti-Airway Remodeling

2021 ◽  
Vol 2021 ◽  
pp. 1-9
Author(s):  
Jie Cui ◽  
Zexi Lv ◽  
Fangzhou Teng ◽  
La Yi ◽  
Weifeng Tang ◽  
...  
Keyword(s):  
Oxidative Stress ◽  
Gene Network ◽  
Structural Changes ◽  
Airway Remodeling ◽  
Signal Pathways ◽  
Rna Seq ◽  
Critical Nodes ◽  
Differential Expression Genes ◽  
Polymerase Chain ◽  
And Oxidative Stress

Airway remodeling is one of the typical pathological characteristics of asthma, while the structural changes of the airways in asthma are complex, which impedes the development of novel asthma targeted therapy. Our previous study had shown that Bu-Shen-Yi-Qi formula (BSYQF) could ameliorate airway remodeling in chronic asthmatic mice by modulating airway inflammation and oxidative stress in the lung. In this study, we analysed the lung transcriptome of control mice and asthmatic mouse model with/without BSYQF treatment. Using RNA-sequencing (RNA-seq) analysis, we found that 264/1746 (15.1%) of transcripts showing abnormal expression in asthmatic mice were reverted back to completely or partially normal levels by BSYQF treatment. Additionally, based on previous results, we identified 21 differential expression genes (DEGs) with fold changes (FC) > (±) 2.0 related to inflammatory, oxidative stress, mitochondria, PI3K/AKT, and MAPK signal pathways which may play important roles in the mechanism of the anti-remodeling effect of BSYQF treatment. Through inputting 21 DEGs into the IPA database to construct a gene network, we inferred Adipoq, SPP1, and TNC which were located at critical nodes in the network may be key regulators of BSYQF's anti-remodeling effect. In addition, the quantitative real-time polymerase chain reaction (qRT-PCR) result for the selected four DEGs matched those of the RNA-seq analysis. Our results provide a preliminary clue to the molecular mechanism of the anti-remodeling effect of BSYQF in asthma.

scholarly journals Transcriptomic profiling of sesame during waterlogging and recovery

2019 ◽  
Vol 6 (1) ◽  
Author(s):  
Komivi Dossa ◽  
Jun You ◽  
Linhai Wang ◽  
Yanxin Zhang ◽  
Donghua Li ◽  
...  
Keyword(s):  
Molecular Mechanisms ◽  
Growth Yield ◽  
Arid Environments ◽  
Rna Seq ◽  
Resolution Time ◽  
Flowering Stage ◽  
High Quality ◽  
Time Points ◽  
Data Analyses ◽  
Waterlogging Treatment

Abstract Sesame is naturally adapted to arid environments but highly susceptible to waterlogging stress. A few hours of waterlogging (lasting over 36 h) are detrimental to the crop growth, yield and survival. To better understand the molecular mechanisms underlying sesame responses to waterlogging and recovery, it is essential to design a high-resolution time-series experiment. In this study, we reported the RNA-seq profiling of two contrasting genotypes under waterlogging and recovery. The plants were grown in pots and subjected to waterlogging treatment at the flowering stage for 36 h and subsequently, 12 h drainage. Root samples were collected in triplicate at 22 time points under waterlogging/drainage treatments and at 10 time points in the control condition. This represents a total of 195 biological samples and the RNA-seq yielded over eight billion reads. Basic data analyses demonstrated a clear separation of transcriptomes from control, waterlogging and drainage treatments. Overall, the generated high-quality and comprehensive RNA-seq resources will undoubtedly advance our understanding of waterlogging/drainage responses in a non-model sensitive crop.

ZmCLA4 regulates leaf angle through multiple plant hormone-mediated signal pathways in maize

2020 ◽  
Author(s):  
Dandan Dou ◽  
Shengbo Han ◽  
Lixia Ku ◽  
Huafeng Liu ◽  
Huihui Su ◽  
...  
Keyword(s):  
Regulatory Network ◽  
Plant Architecture ◽  
Plant Hormone ◽  
Auxin Transport ◽  
Regulatory Mechanism ◽  
Affinity Purification ◽  
Leaf Angle ◽  
Signal Pathways ◽  
Brassinosteroid Signaling ◽  
Ear Motif

AbstractLeaf angle in cereals is an important agronomic trait contributing to plant architecture and grain yield by determining the plant compactness. Although ZmCLA4 was identified to shape plant architecture by affecting leaf angle, the detailed regulatory mechanism of ZmCLA4 in maize remains unclear. ZmCLA4 was identified as a transcriptional repressor using the Gal4-LexA/UAS system and transactivation analysis in yeast. The DNA affinity purification (DAP)-seq assay showed that ZmCLA4 not only acts as a repressor containing the EAR motif (CACCGGAC), but was also found to have two new motifs, CCGARGS and CDTCNTC. On analyzing the ZmCLA4-bound targeted genes, we found that ZmCLA4, as a cross node of multiple plant hormone-mediated pathways, directly bound to ARF22 and IAA26 to regulate auxin transport and mediated brassinosteroid signaling by directly binding to BZR3 and 14-3-3. ZmCLA4 bound two WRKY genes involved with abscisic acid, two genes (CYP75B1, CYP93D1) involved with jasmonic acid, B3 involved in the response to ethylene, and thereby negatively regulated leaf angle formation. We built a new regulatory network for the ZmCLA4 gene controlling leaf angle in maize, which contributed to the understanding of ZmCLA4’s regulatory mechanism and will improve grain yields by facilitating optimization of plant architecture.

scholarly journals RNA-seq studies using wheat PHYTOCHROME B and PHYTOCHROME C mutants reveal shared and specific functions in the regulation of flowering and shade-avoidance pathways

2016 ◽  
Vol 16 (1) ◽  
Author(s):  
Stephen Pearce ◽  
Nestor Kippes ◽  
Andrew Chen ◽  
Juan Manuel Debernardi ◽  
Jorge Dubcovsky
Keyword(s):  
Shade Avoidance ◽  
Phytochrome B ◽  
Rna Seq

scholarly journals Cytokinin- microbiome interactions regulate developmental functions

2021 ◽  
Author(s):  
Rupali Gupta ◽  
Dorin Elkabetz ◽  
Meirav Leibman-Markus ◽  
Elie Jami ◽  
Maya Bar
Keyword(s):  
Bacterial Community ◽  
Plant Growth ◽  
Plant Hormone ◽  
Developmental Program ◽  
Age Related ◽  
Developmental Age ◽  
Age Dependent ◽  
Growth Promoting ◽  
Content Support ◽  
Microbiome Assembly

The interaction of plants with the complex microbial networks that inhabit them is important for plant health. While the reliance of plants on their microbial inhabitants for defense against invading pathogens is well documented, the acquisition of data concerning the relationships between plant developmental stage or aging, and microbiome assembly, is still underway. In this work, we observed developmental-age dependent changes in the phyllopshere microbiome of tomato. The plant hormone cytokinin (CK) regulates various plant growth and developmental processes. Here, we show that age-related shifts in microbiome content vary based on content of, or sensitivity to, CK. We observed a developmental age associated decline in microbial richness and diversity, accompanied by a decline in the presence of growth promoting and resistance inducing bacilli in the phyllosphere. This decline was absent from CK-rich or CK-hypersensitive genotypes. Bacillus isolates we obtained from CK rich genotypes were found to re-program the transcriptome to support morphogenesis and alter the leaf developmental program when applied to seedlings, and enhance yield and agricultural productivity when applied to mature plants. Our results support the notion that CK-dependent effects on microbiome content support developmental functions, suggesting that these are mediated by CK in part via the bacterial community.

scholarly journals Effect of ethylene on physiological and biochemical parameters in different crop plants - A review

2015 ◽  
Vol 7 (2) ◽  
pp. 1064-1069 ◽  
Author(s):  
Kanchan Pahwa ◽  
Navita Ghai
Keyword(s):  
Biochemical Parameters ◽  
Plant Hormone ◽  
Growth Inhibitor ◽  
Growth And Yield ◽  
Transcriptional Level ◽  
Growth Responses ◽  
Flowering Stage ◽  
Crop Species ◽  
Source Sink ◽  
Physiological And Biochemical

A phytohormone may be defined as an organic substance other than a nutrient active in very minute amounts which is formed in certain parts of all plants and which is usually translocated to other sites, where it evokes specific biochemical, physiological and morphological responses. The gaseous plant hormone ethylene modulates many internal processes and growth responses to environmental stimuli. Ethylene is known to exert its effects by altering gene expression both at transcriptional and post-transcriptional level. Ethylene has long beenrecognized as a growth inhibitor, but evidence is accumulating that ethylene can also promote growth. Therefore, the concept of ethylene as a general growth inhibitor needs reconsideration. Different authors screened various concentrations viz. 100 ppm, 150 ppm which promotes the plant growth in groundnut, soybean, mustard, barley, pigeonpea etc. The lower concentration of ethylene (100ppm) has increased the yield by 17 percent in pigeonpea. It increased the yield by manipulating source-sink relationships and flower retention The present study highlights the various processes of growth stimulated by ethylene and its use in enhancing yield of various crop species. It could be inferred that lower concentration of ethrel sprayed at pre-flowering stage promoted the growth and yield of various crops (barley, corn, groundnut, pigeonpea, soybean etc.).

scholarly journals Transcriptome Analysis Reveals Key Genes and Pathways Associated with Mummify Piglets

Genome ◽  
2021 ◽  
Author(s):  
Shujie Wang ◽  
Pingxian Wu ◽  
Kai Wang ◽  
Xiang Ji ◽  
Dong Chen ◽  
...  
Keyword(s):  
Candidate Genes ◽  
Transcriptome Profiling ◽  
Differentially Expressed ◽  
Reproductive Capacity ◽  
Signal Pathways ◽  
Comparative Transcriptome ◽  
Rna Seq ◽  
Promising Candidate ◽  
Pork Consumption ◽  
Differential Genes

China is the country with the largest pork consumption in the world. However, the incidence of high mummify piglets (3-5%) is one of the important factors that cause the slow improvement of pig reproductive capacity, and the genetic mechanism is still unclear. This study aimed to identify candidate genes related to high mummify piglets. RNA-seq technology was used to comparative transcriptome profiling of blood from high piglets mummified and healthy sow at different stages of pregnancy (35d, 56d, 77d and 98d). A total of 137 to 420 DEGs were detected in each stage. Seven differentially expressed genes were significantly differentially expressed at various stages. IL-9R, TLR8, ABLIM3, FSH-α, ASCC1, PRKCZ, and GCK may play an important role in course of mummify piglets. The differential genes we identified between the groups were mainly enriched in immune and inflammation regulation, and others were mainly enriched in reproduction. Considering the function of candidate genes, IL-9R and TLR8 were suggested as the most promising candidate genes involved in mummify piglet traits. We speculate that during pregnancy, it may be the combined effects of the above-mentioned inflammation, immune response, and reproduction-related signal pathways that affect the occurrence of mummifying piglets, and further affect pig reproduction.

scholarly journals Morphophysiological and phytochemical responses of fenugreek to plant growth promoting rhizobacteria (PGPR) under different soil water levels

2018 ◽  
Vol 30 (2) ◽  
pp. 215-228
Author(s):  
Ali Sharghi ◽  
Hassanali Naghdi Badi ◽  
Sahebali Bolandnazar ◽  
Ali Mehrafarin ◽  
Mohammad Reza Sarikhani
Keyword(s):  
Plant Growth ◽  
Water Content ◽  
Soil Water ◽  
Soil Water Content ◽  
Plant Growth Promoting Rhizobacteria ◽  
Water Levels ◽  
Flowering Stage ◽  
Positive Effects ◽  
Plant Growth Promoting ◽  
Growth Promoting

Abstract Fenugreek (Trigonella foenum-graecum L.) is a valuable medicinal plant, which is widely distributed throughout the world. It has been known that plant growth promoting rhizobacteria (PGPR) have positive effects on the quality and quantity of medicinal plants under different soil water levels. For this reason, a factorial experiment was conducted on the basis of a randomized complete block design (RCBD) to evaluate PGPR effects on the morphophysiological and phytochemical traits of fenugreek under different soil water levels. This study was conducted in two separate experiments: after the six-leaf stage and after the flowering stage. In the experiments, the treatments were plant growth promoting rhizobacteria (PGPR) including the control, Sinorhizobium meliloti, Pseudomonas fluorescens, a combination of S. meliloti and P. fluorescens, and different soil water levels (i.e. 100, 80, 60 and 40% of field capacity (FC) in three replications. The results showed that the highest seed weight per plant was obtained by inoculation with the S. meliloti and P. fluorescens combination at 100% FC after the two developmental stages. The maximum concentrations of nicotinic acid and trigonelline were observed for the combination of S. meliloti and P. fluorescens at the soil water content of 40% FC after the six-leaf stage and for S. meliloti at the soil water content of 40% FC after the flowering stage. The correlation and stepwise regression analyses showed positive effects of PGPR application on the morphophysiological and phytochemical traits of fenugreek plants under different soil water levels.

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