scholarly journals Comparison of chrysanthemum flowers grown under hydroponic and soil-based systems: yield and transcriptome analysis

2021 ◽  
Vol 21 (1) ◽  
Author(s):  
Penghui Ai ◽  
Xiaoqi Liu ◽  
Zhongai Li ◽  
Dongru Kang ◽  
Muhammad Ayoub Khan ◽  
...  
Keyword(s):  
Signal Transduction ◽  
Cell Wall ◽  
Metabolic Pathways ◽  
Culture System ◽  
Plant Hormone ◽  
Hydroponic Culture ◽  
Soil Culture ◽  
Active Compounds ◽  
Tea Production ◽  
Hydroponic Conditions

Abstract Background Flowers of Chrysanthemum × morifolium Ramat. are used as tea in traditional Chinese cuisine. However, with increasing population and urbanization, water and land availability have become limiting for chrysanthemum tea production. Hydroponic culture enables effective, rapid nutrient exchange, while requiring no soil and less water than soil cultivation. Hydroponic culture can reduce pesticide residues in food and improve the quantity or size of fruits, flowers, and leaves, and the levels of active compounds important for nutrition and health. To date, studies to improve the yield and active compounds of chrysanthemum have focused on soil culture. Moreover, the molecular effects of hydroponic and soil culture on chrysanthemum tea development remain understudied. Results Here, we studied the effects of soil and hydroponic culture on yield and total flavonoid and chlorogenic acid contents in chrysanthemum flowers (C. morifolium ‘wuyuanhuang’). Yield and the total flavonoids and chlorogenic acid contents of chrysanthemum flowers were higher in the hydroponic culture system than in the soil system. Transcriptome profiling using RNA-seq revealed 3858 differentially expressed genes (DEGs) between chrysanthemum flowers grown in soil and hydroponic conditions. Gene Ontology (GO) enrichment annotation revealed that these differentially transcribed genes are mainly involved in “cytoplasmic part”, “biosynthetic process”, “organic substance biosynthetic process”, “cell wall organization or biogenesis” and other processes. Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis revealed enrichment in “metabolic pathways”, “biosynthesis of secondary metabolites”, “ribosome”, “carbon metabolism”, “plant hormone signal transduction” and other metabolic processes. In functional annotations, pathways related to yield and formation of the main active compounds included phytohormone signaling, secondary metabolism, and cell wall metabolism. Enrichment analysis of transcription factors also showed that under the hydroponic system, bHLH, MYB, NAC, and ERF protein families were involved in metabolic pathways, biosynthesis of secondary metabolites, and plant hormone signal transduction. Conclusions Hydroponic culture is a simple and effective way to cultivate chrysanthemum for tea production. A transcriptome analysis of chrysanthemum flowers grown in soil and hydroponic conditions. The large number of DEGs identified confirmed the difference of the regulatory machinery under two culture system.

Transcriptome profiling reveals the mechanism of ripening and epidermal senescence in passion (Passiflora edulia Sims) fruit

2020 ◽  
Author(s):  
Changbao Li ◽  
Ming Xin ◽  
Li Li ◽  
Xuemei He ◽  
Guomin Liu ◽  
...  
Keyword(s):  
Gene Expression ◽  
Signal Transduction ◽  
Cell Wall ◽  
Rna Sequencing ◽  
Fruit Ripening ◽  
Plant Hormone ◽  
Passion Fruit ◽  
Cell Wall Degradation ◽  
Cell Wall Metabolism ◽  
Phenylpropanoid Biosynthesis

AbstractPassion fruit (Passiflora edulia Sims), an important tropical and sub-tropical species, is classified as a respiration climacteric fruit, the quality deteriorates rapidly after harvest. To reveal the mechanisms involved in ripening and rapidly fruit senescence, the phytochemical characteristics and RNA sequencing were conducted in the purple passion fruits with different (1-MCP and PF) treatment. Comprehensive functional annotation and KEGG enrichment analysis showed that the starch and sucrose metabolism, plant hormone signal transduction, phenylpropanoid biosynthesis, flavonid biosynthesis, carotenoid biosynthesis were involved in fruit ripening. Applying with PF and 1-MCP significantly affected transcript levels of passion fruit after harvest storage. A large number of differently expressed unigenes (DEGs) were identified significantly enrichen in starch and sucrose metabolism, plant hormone signal transduction and phenylpropanoid biosynthesis at postharvest stage. The preservative film (PF) and 1-Methylcyclopropene (1-MCP) treatments increased superoxide dismutase (SOD), catalase (CAT) and peroxidase (POD) gene expression and enzyme activities, accelerated the lignin accumulation, decline β-galactosidase (β-Gal), polygalacturonase (PG) and cellulose activities and gene expression to delay cell wall degradation during fruit senescence. The RNA sequencing data of cell wall metabolism and hormone signal transduction pathway related unigenes were verified by RT-qPCR. The results indicated that the cell wall metabolism and hormone signal pathways were notably related to passion fruit ripening. PF and 1-MCP treatment might inhibited ethylene signaling and regulated cell wall metabolism pathways to inhibited cell wall degradation. Our results reveal ripening and senescence related networks during passion fruit ripening, which can provide a foundation for understanding the molecular mechanisms underlying PF and 1-MCP treatment on fruit ripening.

Effects of hydroponic culture system and NaCl on interactions between common bean lines and native rhizobia from Tunisian soils

Agronomie ◽  
2001 ◽  
Vol 21 (6-7) ◽  
pp. 601-605 ◽  
Author(s):  
Moez Jebara ◽  
Jean-Jacques Drevon ◽  
Mohamed Elarbi Aouani
Keyword(s):  
Common Bean ◽  
Culture System ◽  
Hydroponic Culture

scholarly journals Transcriptomic and epigenomic remodeling occurs during vascular cambium periodicity in Populus tomentosa

2021 ◽  
Vol 8 (1) ◽  
Author(s):  
Bo Chen ◽  
Huimin Xu ◽  
Yayu Guo ◽  
Paul Grünhofer ◽  
Lukas Schreiber ◽  
...  
Keyword(s):  
Signal Transduction ◽  
Plant Hormone ◽  
Target Genes ◽  
Populus Tomentosa ◽  
Differentially Expressed ◽  
Vascular Cambium ◽  
Differentially Methylated Region ◽  
Gene Body Methylation ◽  
Transcription Analysis ◽  
Global Methylation

AbstractTrees in temperate regions exhibit evident seasonal patterns, which play vital roles in their growth and development. The activity of cambial stem cells is the basis for regulating the quantity and quality of wood, which has received considerable attention. However, the underlying mechanisms of these processes have not been fully elucidated. Here we performed a comprehensive analysis of morphological observations, transcriptome profiles, the DNA methylome, and miRNAs of the cambium in Populus tomentosa during the transition from dormancy to activation. Anatomical analysis showed that the active cambial zone exhibited a significant increase in the width and number of cell layers compared with those of the dormant and reactivating cambium. Furthermore, we found that differentially expressed genes associated with vascular development were mainly involved in plant hormone signal transduction, cell division and expansion, and cell wall biosynthesis. In addition, we identified 235 known miRNAs and 125 novel miRNAs. Differentially expressed miRNAs and target genes showed stronger negative correlations than other miRNA/target pairs. Moreover, global methylation and transcription analysis revealed that CG gene body methylation was positively correlated with gene expression, whereas CHG exhibited the opposite trend in the downstream region. Most importantly, we observed that the number of CHH differentially methylated region (DMR) changes was the greatest during cambium periodicity. Intriguingly, the genes with hypomethylated CHH DMRs in the promoter were involved in plant hormone signal transduction, phenylpropanoid biosynthesis, and plant–pathogen interactions during vascular cambium development. These findings improve our systems-level understanding of the epigenomic diversity that exists in the annual growth cycle of trees.

scholarly journals Transcriptome-Based Analysis of Phosphite-Induced Resistance against Pathogens in Rice

Plants ◽  
2020 ◽  
Vol 9 (10) ◽  
pp. 1334
Author(s):  
Yuqing Huang ◽  
Shengguan Cai ◽  
Guoping Zhang ◽  
Songlin Ruan
Keyword(s):  
Signal Transduction ◽  
Molecular Mechanism ◽  
Differentially Expressed Genes ◽  
Induced Resistance ◽  
Plant Hormone ◽  
Xanthomonas Oryzae ◽  
Pyricularia Grisea ◽  
Protection Effect ◽  
Phenylpropanoid Biosynthesis ◽  
Xanthomonas Oryzae Pv.Oryzae

Phosphite (PHI) has been used in the management of Phytophthora diseases since the 1970s.We assessed the effect of PHI on controlling the incidence of Xanthomonas oryzae pv.oryzae and Pyricularia grisea. As a result, PHI application significantly inhibited the incidence of the diseases. To clarify the molecular mechanism underlying this, a transcriptome study was employed. In total, 2064 differentially expressed genes (DEGs) were identified between control and PHI treatment. The key DEGs could be classified into phenylpropanoid biosynthesis (ko00940), starch and sucrose metabolism (ko00500), and plant hormone signal transduction (ko04075). The expressions of defense-related genes had a higher expression lever upon PHI treatment. This study provides new insights into the mechanism of protection effect of PHI against pathogens.

SALT STRESS UNDER HYDROPONIC CONDITIONS CAUSES CHANGES IN CELL WALL EXTENSION DURING GROWTH

1995 ◽  
pp. 91-98 ◽  
Author(s):  
H. Nonami ◽  
K. Tanimoto ◽  
A. Tabuchi ◽  
T. Fukuyama ◽  
Y. Hashimoto
Keyword(s):  
Cell Wall ◽  
Salt Stress ◽  
Cell Wall Extension ◽  
Hydroponic Conditions

Illumina Sequencing Reveals Conserved and Novel MicroRNAs of Dendrobium nobile Protocorm Involved in Synthesizing Dendrobine, a Potential Nanodrug

2021 ◽  
Vol 17 (3) ◽  
pp. 416-425
Author(s):  
Xu Qian ◽  
Jieying Zhu ◽  
Qingjun Yuan ◽  
Qi Jia ◽  
Hui Jin ◽  
...  
Keyword(s):  
Signal Transduction ◽  
Illumina Sequencing ◽  
Plant Hormone ◽  
Signal Transduction Pathway ◽  
Perennial Herb ◽  
Transduction Pathway ◽  
Biological Regulation ◽  
Dendrobium Nobile ◽  
Short Period ◽  
Post Transcriptional Regulation

Emergency of nanoparticulate drug delivery systems has improved the target, bioavailability, and curative effect of traditional Chinese medicine (TCM). However, the application of nano-preparation has been limited owing to the low content of active ingredients in part TCM. MicroRNAs (miRNAs) regulate plant growth, development, and response to environmental stresses at post-transcriptional regulation level by cleavage or translational inhibition. The molecular functions of miRNAs playing a role in synthesizing active comportments at medicinal plants have been widely researched. Dendrobium nobile is a perennial herb in the orchidaceae family. D. nobile protocorm can produce plant-specific metabolites at a short period. Therefore, it is a good substitute for producing metabolites. To understand the functions of miRNAs in D. nobile protocorm, Illumina sequencing of D. nobile protocorm (Dnp), D. officinale protocorm (Dcp), and D. nobile leaf (Dnl) were carried out. A total of 439, 412, and 432 miRNAs were identified from Dnp, Dcp, and Dnl, respectively. Some specific miRNAs were identified among them. Through combing GO and KEGG function annotation, miRNAs mainly involved metabolic pathways, plant hormone signal transduction, biological regulation, and protein binding. Acetyl-CoA acetyltransferase (AACT), mevalonate kinase (MK), 1-deoxy-D-xylulose 5-phosphate reductoisomerase (DXR), and 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase (HDS), synthesizing basic precursor isoprene pyrophosphate (IPP) in terpenoid backbone biosynthesis pathway, were predicted as potential targets of 6 different miRNAs. Twenty-six miRNAs participated in auxin, cytokinin, abscisic acid, jasmonic acid, and salicylic acid signal transduction pathway. This report provided valuable candidate genes in Dnp involved in terpenoid biosynthesis and plant hormone signal transduction pathway. At the same time, it can help accelerate the use of dendrobine into nano preparation.

scholarly journals Candida albicans Response Regulator Gene SSK1 Regulates a Subset of Genes Whose Functions Are Associated with Cell Wall Biosynthesis and Adaptation to Oxidative Stress

2003 ◽  
Vol 2 (5) ◽  
pp. 1018-1024 ◽  
Author(s):  
Neeraj Chauhan ◽  
Diane Inglis ◽  
Elvira Roman ◽  
Jesus Pla ◽  
Dongmei Li ◽  
...  
Keyword(s):  
Oxidative Stress ◽  
Signal Transduction ◽  
Hydrogen Peroxide ◽  
Cell Wall ◽  
Response Regulator ◽  
Cell Wall Biosynthesis ◽  
Regulator Protein ◽  
Two Component ◽  
Response Regulator Protein ◽  
Mutant Cells

ABSTRACT Ssk1p of Candida albicans is a putative response regulator protein of the Hog1 two-component signal transduction system. In Saccharomyces cerevisiae, the phosphorylation state of Ssk1p determines whether genes that promote the adaptation of cells to osmotic stress are activated. We have previously shown that C. albicans SSK1 does not complement the ssk1 mutant of S. cerevisiae and that the ssk1 mutant of C. albicans is not sensitive to sorbitol. In this study, we show that the C. albicans ssk1 mutant is sensitive to several oxidants, including hydrogen peroxide, t-butyl hydroperoxide, menadione, and potassium superoxide when each is incorporated in yeast extract-peptone-dextrose (YPD) agar medium. We used DNA microarrays to identify genes whose regulation is affected by the ssk1 mutation. RNA from mutant cells (strain CSSK21) grown in YPD medium for 3 h at 30°C was reverse transcribed and then compared with similarly prepared RNA from wild-type cells (CAF2). We observed seven genes from mutant cells that were consistently up regulated (three-fold or greater compared to CAF2). In S. cerevisiae, three (AHP1, HSP12, and PYC2) of the seven genes that were up regulated provide cells with an adaptation function in response to oxidative stress; another gene (GPH1) is regulated under stress conditions by Hog1p. Three other genes that are up regulated encode a cell surface protein (FLO1), a mannosyl transferase (MNN4-4), and a putative two-component histidine kinase (CHK1) that regulates cell wall biosynthesis in C. albicans. Of the down-regulated genes, ALS1 is a known cell adhesin in C. albicans. Verification of the microarray data was obtained by reverse transcription-PCR for HSP12, AHP1, CHK1, PYC2, GPH1, ALS1, MNN4-4, and FLO1. To further determine the function of Ssk1p in the Hog1p signal transduction pathway in C. albicans, we used Western blot analysis to measure phosphorylation of Hog1p in the ssk1 mutant of C. albicans when grown under either osmotic or oxidative stress. We observed that Hog1p was phosphorylated in the ssk1 mutant of C. albicans when grown in a hyperosmotic medium but was not phosphorylated in the ssk1 mutant when the latter was grown in the presence of hydrogen peroxide. These data indicate that C. albicans utilizes the Ssk1p response regulator protein to adapt cells to oxidative stress, while its role in the adaptation to osmotic stress is less certain. Further, SSK1 appears to have a regulatory function in some aspects of cell wall biosynthesis. Thus, the functions of C. albicans SSK1 differ from those of S. cerevisiae SSK1.

scholarly journals Relative Salinity Tolerance of Turf-type Saltgrass Selections

HortScience ◽  
2007 ◽  
Vol 42 (2) ◽  
pp. 205-209 ◽  
Author(s):  
Y.L. Qian ◽  
J.M. Fu ◽  
S.J. Wilhelm ◽  
D. Christensen ◽  
A.J. Koski
Keyword(s):  
Salt Tolerance ◽  
Culture System ◽  
Hydroponic Culture ◽  
Distichlis Spicata ◽  
Saline Soils ◽  
Salt Tolerant ◽  
Saline Irrigation ◽  
Turf Quality ◽  
Salinity Levels ◽  
Irrigation Waters

Salt-tolerant turfgrass is highly desirable in areas associated with saline soils or saline irrigation waters. To determine the salt tolerance of 14 saltgrass [Distichlis spicata var. stricta (Greene)] selections, two greenhouse studies were conducted by means of a hydroponic culture system. Five salinity levels (from 2 to 48 dS·m−1) were created with ocean salts. In general, turf quality decreased and leaf firing increased as salinity increased. However, varying levels of salt tolerance were observed among selections based on leaf firing, turf quality, root growth, and clipping yield. Selections COAZ-01, COAZ-18, CO-01, and COAZ-19 exhibited the best turf quality and the least leaf firing at 36 and 48 dS·m−1 salinity levels in both Experiments 1 and 2. At the highest salinity level (48 dS·m−1), COAZ-18 and COAZ-19 exhibited the highest root activity among all accessions. Salinity levels that caused 25% clipping reduction ranged from 21.2 to 29.9 dS·m−1 and were not significantly different among entries. The data on 25% clipping reduction salinity of saltgrass generated in this study rank saltgrass as one of the most salt-tolerant species that can be used as turf.

ABA accelerates blackberry (Rubus spp.) fruit ripening by positively affecting ripening-related gene expression and metabolite profiles

2021 ◽  
pp. 1-16
Author(s):  
Chunhong Zhang ◽  
Yaqiong Wu ◽  
Zhenghao Xiong ◽  
Weilin Li ◽  
Wenlong Wu ◽  
...  
Keyword(s):  
Gene Expression ◽  
Cell Wall ◽  
Fruit Ripening ◽  
Plant Hormone ◽  
Expression Profiles ◽  
Related Gene ◽  
Commercial Use ◽  
Metabolite Profiles ◽  
Metabolite Accumulation ◽  
Aba Synthesis

BACKGROUND: The softness of blackberry fruits limits their postharvest shelf-life and commercial use, and abscisic acid (ABA) is considered one of the key hormones involved in fruit ripening. OBJECTIVE: This study aimed to explore the underlying physiological and molecular actions of ABA on blackberry fruit ripening and softening. METHODS: Various physiological indices of and plant hormone levels in treated and untreated blackberry fruits were determined simultaneously. The differentially expressed genes (DEGs) were analyzed by RNA-sequencing, and their expression profiles were detected. The ripening mechanism was elucidated by UHPLC-MS using two groups of fruits at 28 d. RESULTS: After 25 d, the ABA concentration and polygalacturonase (PG) and beta-1,4-endoglucanase (EG) activities in ABA-treated fruits were significantly higher than those in untreated fruits. Large differences in the expression profiles were detected at 28 d. The expression of DEGs related to cell wall softening and ABA synthesis was largely triggered after 25 or 28 d. Sixty-nine differentially accumulated metabolites were ultimately annotated as related to fruit ripening. CONCLUSIONS: ABA stimulates blackberry fruit ripening by promoting cell wall enzyme activities, the expression of various ripening-related genes and metabolite accumulation.

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