scholarly journals Transcriptome analysis of the Larimichthys polyactis under heat and cold stress

2019 ◽  
Author(s):  
Tianqi Chu ◽  
Feng Liu ◽  
Gaochan Qin ◽  
Wei Zhan ◽  
Mengjie Wang ◽  
...  
Keyword(s):  
Cold Stress ◽  
Temperature Stress ◽  
Large Scale ◽  
Molecular Mechanisms ◽  
Control Group ◽  
Pathway Enrichment Analysis ◽  
Larimichthys Polyactis ◽  
Small Yellow Croaker ◽  
Heat And Cold Stress ◽  
Temperature Group

AbstractThe small yellow croaker (Larimichthys polyactis) is an important marine economic fish that is widely distributed in the East Sea, Yellow Sea and Bohai of China. However, the wild populations of small yellow croaker are severely depleted, and there is currently a developing large-scale artificial propagation of this fish for aquaculture. However, the current variety of small yellow croaker that is cultivated is not capable to coping with large fluctuations in temperature. Therefore, it is important to understand the molecular mechanisms that are activated in response to temperature stress in the small yellow croaker. Here, we conducted transcriptomic analysis of the liver of small yellow croaker under heat and cold stress. A total of 270,844,888, 265,727,006 and 259,666,218 clean reads were generated from heat temperature group, low temperature group and control group, respectively, and comparing expression of genes in these transcriptomes,10,878 unigenes that were differential expressed were identified. Sixteen of the differentially expressed unigenes were validated by qRT-PCR. Pathway enrichment analysis identified that the ER pathway, immune signaling pathway and metabolic response pathway were affected by temperature stress. The results of this study provide a comprehensive overview of temperature stress-induced transcriptional patterns in liver tissues of the small yellow croaker. In addition, these results can guide future molecular studies of heat and cold stress response in this species for improving the stock used for aquaculture.

scholarly journals Correlation of Heat and Cold Tolerance in Iranian Tall Fescue Ecotypes with Reactive Oxygen Species Scavenging and Osmotic Adjustment

HortScience ◽  
2018 ◽  
Vol 53 (7) ◽  
pp. 1062-1068
Author(s):  
Mohamad-Hossein Sheikh-Mohamadi ◽  
Nematollah Etemadi ◽  
Mostafa Arab
Keyword(s):  
Cold Stress ◽  
Tall Fescue ◽  
Osmotic Adjustment ◽  
Festuca Arundinacea ◽  
Antioxidant Activities ◽  
Control Group ◽  
Excessive Heat ◽  
Total Nonstructural Carbohydrates ◽  
Heat And Cold Stress

Excessive heat or cold usually reduces the growth and quality of turfgrass. Genetic variations along with efficient biochemical and physiological mechanisms can diversify the tolerance to heat and cold. This study examined the effects of heat and cold stress on several biochemical and physiological parameters in Iranian tall fescue ecotypes (Festuca arundinacea L.). The control group of plants was maintained under optimal temperatures, whereas other groups were exposed to heat or cold in a growth chamber. The experiment was designed as a split plot, with stress treatments as the main plots and ecotypes as subplots. Physiologically and biochemically, the results revealed that three ecotypes (‘FA1’, ‘FA3’, and ‘FA5’) of the eight ecotypes examined in this study had better abilities to survive the simulated heat and cold stress. Better tolerance to heat and cold in the ‘FA1’, ‘FA3’, and ‘FA5’ ecotypes were probably due to higher levels of enzymatic and nonenzymatic antioxidant activities, maintenance of lower levels of malondialdehyde (MDA) and hydrogen peroxide (H2O2), higher levels of proline and total nonstructural carbohydrates (TNC), along with a more efficient osmotic adjustment. Diamine oxidase (DAO) and polyamine oxidase (PAO) activities increased significantly in ‘FA1’, ‘FA3’, and ‘FA5’ ecotypes. In summary, the strength of tolerance among ecotypes can be ranked as ‘FA1’ > ‘FA3’ > ‘FA5’ > ‘FA2’ > ‘FA6’ > ‘FA4’ > ‘FA7’ > ‘FA8’ under heat stress and ‘FA5’> ‘FA1’ > ‘FA3’ > ‘FA2’ > ‘FA4’ > ‘FA6’ > ‘FA7’ > ‘FA8’ under cold stress.

scholarly journals Queen honey bees exhibit variable resilience to temperature stress

PLoS ONE ◽  
2021 ◽  
Vol 16 (8) ◽  
pp. e0255381
Author(s):  
Alison McAfee ◽  
David R. Tarpy ◽  
Leonard J. Foster
Keyword(s):  
Cold Stress ◽  
Temperature Stress ◽  
Honey Bees ◽  
Extreme Temperature ◽  
Temperature Tolerance ◽  
Effect Of Temperature ◽  
Future Research ◽  
Sperm Viability ◽  
Heat And Cold Stress ◽  
Before And After

Extreme temperature exposure can reduce stored sperm viability within queen honey bees; however, little is known about how thermal stress may directly impact queen performance or other maternal quality metrics. Here, in a blind field trial, we recorded laying pattern, queen mass, and average callow worker mass before and after exposing queens to a cold temperature (4°C, 2 h), hot temperature (42°C, 2 h), and hive temperature (33°C, control). We measured sperm viability at experiment termination, and investigated potential vertical effects of maternal temperature stress on embryos using proteomics. We found that cold stress, but not heat stress, reduced stored sperm viability; however, we found no significant effect of temperature stress on any other recorded metrics (queen mass, average callow worker mass, laying patterns, the egg proteome, and queen spermathecal fluid proteome). Previously determined candidate heat and cold stress biomarkers were not differentially expressed in stressed queens, indicating that these markers only have short-term post-stress diagnostic utility. Combined with variable sperm viability responses to temperature stress reported in different studies, these data also suggest that there is substantial variation in temperature tolerance, with respect to impacts on fertility, amongst queens. Future research should aim to quantify the variation and heritability of temperature tolerance, particularly heat, in different populations of queens in an effort to promote queen resilience.

scholarly journals iTRAQ-Based Quantitative Proteome Revealed Metabolic Changes in Winter Turnip Rape (Brassica rapa L.) under Cold Stress

2018 ◽  
Vol 19 (11) ◽  
pp. 3346 ◽  
Author(s):  
Yaozhao Xu ◽  
Xiucun Zeng ◽  
Jian Wu ◽  
Fenqin Zhang ◽  
Caixia Li ◽  
...  
Keyword(s):  
Catalytic Activity ◽  
Cold Stress ◽  
Brassica Rapa ◽  
Large Scale ◽  
Molecular Mechanisms ◽  
Enrichment Analysis ◽  
Pentose Phosphate ◽  
Metabolic Process ◽  
Cellular Process ◽  
Turnip Rape

Winter turnip rape (Brassica rapa L.) is a large-scale winter-only oil crop cultivated in Northwest China. However, its cold-resistant molecular mechanism remains inadequate. Studying the cold adaptation mechanisms of winter turnip rape based on the proteomic technique of isobaric tags for relative and absolute quantification (iTRAQ) offers a solution to this problem. Under cold stress (−4 °C for eight hours), 51 and 94 differently accumulated proteins (DAPs) in Longyou 7 (cold-tolerant) and Tianyou 4 (cold-sensitive) were identified, respectively. These DAPs were classified into 38 gene ontology (GO) term categories, such as metabolic process, cellular process, catalytic activity, and binding. The 142 DAPs identified between the two cold-stressed cultivars were classified into 40 GO terms, including cellular process, metabolic process, cell, catalytic activity, and binding. Kyoto Encyclopedia of Genes and Genomes enrichment analysis indicated that the DAPs participated in 10 pathways. The abundance of most protein functions in ribosomes, carbon metabolism, photosynthesis, and energy metabolism including the citrate cycle, pentose phosphate pathway, and glyoxylate and dicarboxylate metabolism decreased, and the proteins that participate in photosynthesis–antenna and isoflavonoid biosynthesis increased in cold-stressed Longyou 7 compared with those in cold-stressed Tianyou 4. The expression pattern of genes encoding the 10 significant DAPs was consistent with the iTRAQ data. This study provides new information on the proteomic differences between the leaves of Longyou 7 and Tianyou 4 plants and explains the possible molecular mechanisms of cold-stress adaptation in B. rapa.

scholarly journals CCDC114, DNAI2 and TOP2A involves in the effects of tibolone treatment on postmenopausal endometrium

2021 ◽  
Vol 21 (1) ◽  
Author(s):  
Yanhua Lv ◽  
Yanqing Liu ◽  
Yueqiang Wang ◽  
Fanrong Kong ◽  
Qiuxiang Pang ◽  
...  
Keyword(s):  
Postmenopausal Women ◽  
Molecular Mechanisms ◽  
Ion Homeostasis ◽  
Enrichment Analysis ◽  
Control Group ◽  
Pathway Enrichment Analysis ◽  
Ppi Network ◽  
Target Interaction ◽  
Protein Protein Interaction ◽  
Movement Function

Abstract Background This study aimed to explore the molecular mechanisms of tibolone treatment in postmenopausal women. Methods The gene set enrichment profile, GSE12446, which includes 9 human endometrial samples from postmenopausal women treated with tibolone (tibolone group) and 9 control samples (control group), was downloaded from GEO database for analysis. Differentially expressed genes (DEGs) in tibolone vs. control groups were identified and then used for function and pathway enrichment analysis. Protein–protein interaction (PPI) network and module analyses were also performed. Finally, drug–target interaction was predicted for genes in modules, and then were validated in Pubmed. Results A total of 238 up-regulated DEGs and 72 down-regulated DEGs were identified. These DEGs were mainly enriched in various biological processed and pathways, such as cilium movement (e.g., CCDC114 and DNAI2), calcium ion homeostasis, regulation of hormone levels and complement/coagulation cascades. PPI network contained 368 interactions and 166 genes, of which IGF1, DNALI1, CCDC114, TOP2A, DNAH5 and DNAI2 were the hue genes. A total of 96 drug–gene interactions were obtained, including 94 drugs and eight genes. TOP2A and HTR2B were found to be targets of 28 drugs and 38 drugs, respectively. Among the 94 obtained drugs, only 12 drugs were reported in studies, of which 7 drugs (e.g., epirubicin) were found to target TOP2A. Conclusions CCDC114 and DNAI2 might play important roles in tibolone-treated postmenopausal women via cilium movement function. TOP2A might be a crucial target of tibolone in endometrium of postmenopausal women.

scholarly journals Multiple Regulatory Networks Are Activated during Cold Stress in Medicago sativa L.

2018 ◽  
Vol 19 (10) ◽  
pp. 3169 ◽  
Author(s):  
Qiang Zhou ◽  
Dong Luo ◽  
Xutian Chai ◽  
Yuguo Wu ◽  
Yanrong Wang ◽  
...  
Keyword(s):  
Cold Stress ◽  
Medicago Sativa ◽  
Regulatory Networks ◽  
Molecular Mechanisms ◽  
High Throughput Sequencing ◽  
Enrichment Analysis ◽  
Pathway Enrichment Analysis ◽  
Sequencing Platform ◽  
Medicago Sativa L ◽  
Perennial Legume

Cultivated alfalfa (Medicago sativa L.) is one of the most important perennial legume forages in the world, and it has considerable potential as a valuable forage crop for livestock. However, the molecular mechanisms underlying alfalfa responses to cold stress are largely unknown. In this study, the transcriptome changes in alfalfa under cold stress at 4 °C for 2, 6, 24, and 48 h (three replicates for each time point) were analyzed using the high-throughput sequencing platform, BGISEQ-500, resulting in the identification of 50,809 annotated unigenes and 5283 differentially expressed genes (DEGs). Metabolic pathway enrichment analysis demonstrated that the DEGs were involved in carbohydrate metabolism, photosynthesis, plant hormone signal transduction, and the biosynthesis of amino acids. Moreover, the physiological changes of glutathione and proline content, catalase, and peroxidase activity were in accordance with dynamic transcript profiles of the relevant genes. Additionally, some transcription factors might play important roles in the alfalfa response to cold stress, as determined by the expression pattern of the related genes during 48 h of cold stress treatment. These findings provide valuable information for identifying and characterizing important components in the cold signaling network in alfalfa and enhancing the understanding of the molecular mechanisms underlying alfalfa responses to cold stress.

scholarly journals Effects of Cold Stress on the Photosynthesis and Antioxidant System of Rhododendron chrysanthum Pall.

2017 ◽  
Author(s):  
Xiaofu Zhou ◽  
Silin Chen ◽  
Hui Wu ◽  
Hongwei Xu
Keyword(s):  
Cold Stress ◽  
Antioxidant System ◽  
Molecular Mechanisms ◽  
Cold Resistance ◽  
Large Subunit ◽  
Photochemical Efficiency ◽  
Resistance Mechanisms ◽  
Photochemical Quenching ◽  
Control Group ◽  
Chlorophyll Fluorescence Parameters

Rhododendron chrysanthum Pall., live in Changbai Mountain being exposed to chilling temperature, high light intensities and water scarcity condition. To adapt to the harsh environment, the cold resistance mechanisms of R. chrysanthum have been successfully evolved in the long-term adaptive process. In our present work, the methods of proteomics combined with physiological and biochemical analyses were used to investigate the effects of cold stress on the photosynthesis and antioxidant system of Rhododendron chrysanthum Pall. and the molecular mechanisms involved in cold resistance of plants. A total of 153 photosynthesis related proteins were identified in present work, of which 7 proteins including Rubisco large subunit (rbcL) were up-regulated in experiment group (EG) compared with control group (CG). Simultaneously, four chlorophyll fluorescence parameters were measured in present study. The results showed that the maximum photochemical efficiency of photosystem II (Fv/Fm), actual quantum yield of PSII (Y(II)) and photochemical quenching (qP) were significantly higher in EG, whereas the non-photochemical quenching (NPQ) was notably decreased. Cold stress could lead to a significant reduction in electron transport rate (ETR) accompanied with an increase in excitation pressure (1-qP). The abundance of PetE which involved in the plants photosynthetic electron transfer was also significantly influenced by cold stress. Moreover, the up-regulated expressions and higher levels of enzymatic activities of Glutathione peroxidase (GPX) and Ascorbate peroxidases (APXs) were detected in EG. All these changes which can help plants to survive in low temperature are considered as the crucial parts of cold tolerance mechanisms. These results revealed that photosynthesis and redox adjustment play significant roles in the defense of cold-induced damage.

scholarly journals Transcriptome analysis of the Larimichthys polyactis under heat and cold stress

Cryobiology ◽  
2020 ◽  
Vol 96 ◽  
pp. 175-183
Author(s):  
Tianqi Chu ◽  
Feng Liu ◽  
Gaochan Qin ◽  
Wei Zhan ◽  
Mengjie Wang ◽  
...  
Keyword(s):  
Cold Stress ◽  
Transcriptome Analysis ◽  
Larimichthys Polyactis ◽  
Heat And Cold Stress

scholarly journals Study on Intervention Mechanism of Yiqi Huayu Jiedu Decoction on ARDS Based on Network Pharmacology

2020 ◽  
Vol 2020 ◽  
pp. 1-16
Author(s):  
Xu Liang ◽  
Changyong Luo ◽  
Yan Li ◽  
Xin Li ◽  
Qian Wang ◽  
...  
Keyword(s):  
Western Blot ◽  
Lung Tissue ◽  
Molecular Mechanisms ◽  
Enrichment Analysis ◽  
Expression Level ◽  
Network Pharmacology ◽  
Control Group ◽  
Pathway Enrichment Analysis ◽  
Protective Effects ◽  
Lung Tissue Damage

Background. Yiqi Huayu Jiedu (YQHYJD) is a traditional Chinese medicine decoction made up of eight traditional Chinese medicines. Although YQHYJD is effectively used to prevent and treat ARDS/acute lung injury (ALI) in rats, the molecular mechanisms supporting its clinical application remain elusive. The purpose of the current study was to understand its lung protective effects at the molecular level using network pharmacology approach. Methods. In an ARDS animal model, the beneficial pharmacological activities of YQHYJD were confirmed by reduced lung tissue damage levels observed on drug treated rats versus control group. We then proposed a network analysis to discover the key nodes based on drugs and disease network. Subsequently, we analyzed interaction networks and screened key targets. Using Western blot to detect the expression level of key targets, the intervention effect of changes in expression level of key targets on ARDS was evaluated. Results. Pathway enrichment analysis of highly ranked genes showed that ErbB pathways were highly related to ARDS. Finally, western blot results showed decreased level of the AKT1 and KRAS/NRAS/HRAS protein in the lung after treatment which confirmed the hypothesis. Conclusion. In conclusion, our results suggest that YQHYJD can exert lung tissue protective effect against the severe injury through multiple pathways, including the endothelial cells permeability improvement, inflammatory reaction inhibition, edema, and lung tissue hemorrhage reduction.

De novo transcriptome analysis of differentially expressed genes in the liver of pampus argenteus under temperature stress

2018 ◽  
Author(s):  
Zhaohong Shi ◽  
Lei Liu ◽  
Shiming Peng ◽  
Yanfeng Yue
Keyword(s):  
Differentially Expressed Genes ◽  
Temperature Stress ◽  
Temperature Regulation ◽  
De Novo ◽  
Differentially Expressed ◽  
Control Group ◽  
Pathway Enrichment Analysis ◽  
De Novo Transcriptome ◽  
Sequencing Technology ◽  
Pampus Argenteus

Pampus argenteus is an aquatic cold-blooded animal, and its growth and survival are greatly affected by ambient temperature. During aquaculture, a sudden change in water temperature may be caused by climate change or other human factors, resulting in acute temperature stress. In this study, de novo transcriptome sequencing technology was used to analyze changes in the gene expressions in the liver of P. argenteus under temperature stress to understand the mechanisms of temperature regulation in P. argenteus. The results showed that 72447398, 69534310, 63698204, 78876728 and 53969050 clean reads were obtained from four cDNA libraries (A: 27°C (control group), B: 22°C and 6 h, C: 32°C and 6 h, D: 22°C and 12 h, E: 32°C and 12 h) of the P. argenteus by Illumina sequencing technology. In A\B, A\C, A\D and A\E pairwise comparison, 353, 431, 1303 and 343 differentially expressed genes (DEGs) were detected, respectively. Of these genes, 67 genes were identified among all the pairwise comparisons as the common DEGs. Four genes related to metabolic adaption to temperature were randomly selected to validate the DEGs results by real time PCR. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis indicated some vital genes and pathways associated with metabolism in response to temperature challenge. These results will help us to understand the molecular mechanism underlying temperature regulation in P. argenteus and provide a theoretical basis for the study of related molecular mechanisms in fish under temperature stress.

scholarly journals Genetics of Behçet's Disease: Functional Genetic Analysis and Estimating Disease Heritability

2021 ◽  
Vol 8 ◽  
Author(s):  
Lourdes Ortiz-Fernández ◽  
Amr H. Sawalha
Keyword(s):  
Behçet’S Disease ◽  
Large Scale ◽  
Molecular Mechanisms ◽  
Behcet’S Disease ◽  
Behçet's Disease ◽  
Enrichment Analysis ◽  
Genetic Component ◽  
Pathway Enrichment Analysis ◽  
Inflammatory Disorder ◽  
Behcet's Disease

Behçet's disease is a chronic multisystemic inflammatory disorder characterized by recurrent oral and genital ulcers. Although its etiology remains unclear, it is thought that both genetic and environmental factors contribute to the onset and progression of Behçet's disease. Here, we provide an updated view of the genetic landscape and architecture of Behçet's disease. Large-scale genetic studies performed to date revealed 21 genetic susceptibility loci associated with the disease at a GWAS level of significance (p-value = 5 × 10−8). We performed epigenetic pattern enrichment analysis in Behçet's disease associated loci, providing new insights into the molecular mechanisms underlying its pathophysiology. Our data suggest the crucial involvement of several immune cell types, including natural killer cells, monocytes, and B cells in the pathogenesis of the disease. Pathway enrichment analysis identified important biological processes involved. Using large-scale genetic data available from ~200 immune-related loci (Immunochip), we estimate Behçet's disease heritability to be at least 16%. We further used the same approach to estimate the heritability explained by the known Behçet's disease-associated loci, suggesting that they explain ~ 60% of the genetic component underlying Behçet's disease. These results indicate a significant role of non-genetic factors in causing Behçet's disease and that additional genetic variation influencing the risk of Behçet's disease remains to be identified. Finally, we calculated a cumulative genetic risk score across populations reinforcing the link between geographic variations in disease prevalence with its genetic component.

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