scholarly journals Genomic Responses Associated with Drought Stress in Walnut as Revealed Transcriptome Sequencing

2021 ◽  
Author(s):  
Mohammad Sadat-Hosseini ◽  
Mohammad Reza Bakhtiarizade ◽  
Naser Boroumand ◽  
Masoud Tohidfar ◽  
Sasan Aliniaeifard ◽  
...  
Keyword(s):  
Drought Stress ◽  
Rna Seq ◽  
Acid Biosynthesis ◽  
Tolerance Mechanisms ◽  
Leaf Morphogenesis ◽  
Abscisic Acid Biosynthesis ◽  
Future Studies ◽  
Leaf Transcriptome ◽  
Secondary Metabolite Biosynthesis ◽  
Biosynthesis Regulation

Abstract Walnut production is challenged by abiotic stresses. We investigated the leaf transcriptome responses of walnut under control and drought stress in 9 and 18 days. We identified 921, 1035 differentially expressed genes (DEGs) between control and drought stress groups in 9 and 18-day, respectively. In control and drought stress conditions DEGs were significantly enriched into the abscisic acid biosynthesis, regulation of stomata closure, leaf morphogenesis, carbohydrate metabolism, oxidative stress, cell wall macromolecule catabolism, and secondary metabolite biosynthesis pathways. We confirmed our RNA-Seq data using quantitative real-time PCR (qPCR) of six candidate genes. Our results indicated that more complicated transcript regulation of drought responses following prolong exposure to drought stress. In general, walnut activated more tolerance mechanisms 18 days after drought stress. Findings of this research would be useful for future studies on breeding for drought tolerance of Persian walnut and related species.

scholarly journals AtMybL-O modulates abscisic acid biosynthesis to optimize plant growth and ABA signaling in response to drought stress

2018 ◽  
Vol 61 (4) ◽  
pp. 473-477 ◽  
Author(s):  
Chan Young Jeong ◽  
Won Je Lee ◽  
Hai An Truong ◽  
Cao Sơn Trịnh ◽  
Suk-Whan Hong ◽  
...  
Keyword(s):  
Abscisic Acid ◽  
Drought Stress ◽  
Plant Growth ◽  
Aba Signaling ◽  
Acid Biosynthesis ◽  
Abscisic Acid Biosynthesis

scholarly journals Key Maize Drought-Responsive Genes and Pathways Revealed by Comparative Transcriptome and Physiological Analyses of Contrasting Inbred Lines

2019 ◽  
Vol 20 (6) ◽  
pp. 1268 ◽  
Author(s):  
Tinashe Zenda ◽  
Songtao Liu ◽  
Xuan Wang ◽  
Guo Liu ◽  
Hongyu Jin ◽  
...  
Keyword(s):  
Amino Acid ◽  
Drought Stress ◽  
Stress Tolerance ◽  
Amino Acid Biosynthesis ◽  
Molecular Networks ◽  
Comparative Transcriptome ◽  
Rna Seq ◽  
Acid Biosynthesis ◽  
Drought Treatment ◽  
Drought Stress Tolerance

To unravel the molecular mechanisms underpinning maize (Zea mays L.) drought stress tolerance, we conducted comprehensive comparative transcriptome and physiological analyses of drought-tolerant YE8112 and drought-sensitive MO17 inbred line seedlings that had been exposed to drought treatment for seven days. Resultantly, YE8112 seedlings maintained comparatively higher leaf relative water and proline contents, greatly increased peroxidase activity, but decreased malondialdehyde content, than MO17 seedlings. Using an RNA sequencing (RNA-seq)-based approach, we identified a total of 10,612 differentially expressed genes (DEGs). From these, we mined out four critical sets of drought responsive DEGs, including 80 specific to YE8112, 5140 shared between the two lines after drought treatment (SD_TD), five DEGs of YE8112 also regulated in SD_TD, and four overlapping DEGs between the two lines. Drought-stressed YE8112 DEGs were primarily associated with nitrogen metabolism and amino-acid biosynthesis pathways, whereas MO17 DEGs were enriched in the ribosome pathway. Additionally, our physiological analyses results were consistent with the predicted RNA-seq-based findings. Furthermore, quantitative real-time polymerase chain reaction (qRT-PCR) analysis and the RNA-seq results of twenty representative DEGs were highly correlated (R2 = 98.86%). Crucially, tolerant line YE8112 drought-responsive genes were predominantly implicated in stress signal transduction; cellular redox homeostasis maintenance; MYB, NAC, WRKY, and PLATZ transcriptional factor modulated; carbohydrate synthesis and cell-wall remodeling; amino acid biosynthesis; and protein ubiquitination processes. Our findings offer insights into the molecular networks mediating maize drought stress tolerance.

scholarly journals Transcriptional Profiles of Secondary Metabolite Biosynthesis Genes and Cytochromes in the Leaves of Four Papaver Species

Data ◽  
2018 ◽  
Vol 3 (4) ◽  
pp. 55 ◽  
Author(s):  
Dowan Kim ◽  
Myunghee Jung ◽  
In Ha ◽  
Min Lee ◽  
Seok-Geun Lee ◽  
...  
Keyword(s):  
Secondary Metabolite ◽  
Developmental Stages ◽  
Expression Profiles ◽  
Bioinformatics Analyses ◽  
Kegg Pathways ◽  
Benzylisoquinoline Alkaloid ◽  
Development Life Cycle ◽  
The Family ◽  
Leaf Transcriptome ◽  
Secondary Metabolite Biosynthesis

Poppies are well-known plants in the family Papaveraceae that are rich in alkaloids. This family contains 61 species, and in this study we sequenced the transcriptomes of four species’ (Papaver rhoeas, Papaver nudicaule, Papaver fauriei, and Papaver somniferum) leaves. These transcripts were systematically assessed for the expression of secondary metabolite biosynthesis (SMB) genes and cytochromes, and their expression profiles were assessed for use in bioinformatics analyses. This study contributed 265 Gb (13 libraries with three biological replicates) of leaf transcriptome data from three Papaver plant developmental stages. Sequenced transcripts were assembled into 815 Mb of contigs, including 226 Mb of full-length transcripts. The transcripts for 53 KEGG pathways, 55 cytochrome superfamilies, and benzylisoquinoline alkaloid biosynthesis (BIA) were identified and compared to four other alkaloid-rich genomes. Additionally, 22 different alkaloids and their relative expression profiles in three developmental stages of Papaver species were assessed by targeted metabolomics using LC-QTOF-MS/MS. Collectively, the results are given in co-occurrence heat-maps to help researchers obtain an overview of the transcripts and their differential expression in the Papaver development life cycle, particularly in leaves. Moreover, this dataset will be a valuable resource to derive hypotheses to mitigate an array of Papaver developmental and secondary metabolite biosynthesis issues in the future.

scholarly journals Transporters and Efflux Pumps Are the Main Mechanisms Involved in Staphylococcus epidermidis Adaptation and Tolerance to Didecyldimethylammonium Chloride

2020 ◽  
Vol 8 (3) ◽  
pp. 344 ◽  
Author(s):  
Urška Ribič ◽  
Jernej Jakše ◽  
Nataša Toplak ◽  
Simon Koren ◽  
Minka Kovač ◽  
...  
Keyword(s):  
Staphylococcus Epidermidis ◽  
Biofilm Formation ◽  
Efflux Pump ◽  
Thioredoxin Reductase ◽  
Multidrug Transporter ◽  
Acid Biosynthesis ◽  
Tolerance Mechanisms ◽  
Down Regulation ◽  
Didecyldimethylammonium Chloride ◽  
First Time

Staphylococcus epidermidis cleanroom strains are often exposed to sub-inhibitory concentrations of disinfectants, including didecyldimethylammonium chloride (DDAC). Consequently, they can adapt or even become tolerant to them. RNA-sequencing was used to investigate adaptation and tolerance mechanisms of S. epidermidis cleanroom strains (SE11, SE18), with S. epidermidis SE11Ad adapted and S. epidermidis SE18To tolerant to DDAC. Adaptation to DDAC was identified with up-regulation of genes mainly involved in transport (thioredoxin reductase [pstS], the arsenic efflux pump [gene ID, SE0334], sugar phosphate antiporter [uhpT]), while down-regulation was seen for the Agr system (agrA, arC, agrD, psm, SE1543), for enhanced biofilm formation. Tolerance to DDAC revealed the up-regulation of genes associated with transporters (L-cysteine transport [tcyB]; uracil permease [SE0875]; multidrug transporter [lmrP]; arsenic efflux pump [arsB]); the down-regulation of genes involved in amino-acid biosynthesis (lysine [dapE]; histidine [hisA]; methionine [metC]), and an enzyme involved in peptidoglycan, and therefore cell wall modifications (alanine racemase [SE1079]). We show for the first time the differentially expressed genes in DDAC-adapted and DDAC-tolerant S. epidermidis strains, which highlight the complexity of the responses through the involvement of different mechanisms.

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