scholarly journals Integrative analysis of the salt stress response in cyanobacteria

2021 ◽  
Vol 16 (1) ◽  
Author(s):  
Stephan Klähn ◽  
Stefan Mikkat ◽  
Matthias Riediger ◽  
Jens Georg ◽  
Wolfgang R. Hess ◽  
...  
Keyword(s):  
Stress Responses ◽  
Compatible Solute ◽  
Data Set ◽  
Salt Stress Response ◽  
Carbon And Nitrogen ◽  
Salt Shock ◽  
Metabolomic Data ◽  
Regulatory Rnas ◽  
Induced Changes ◽  
Post Transcriptional Regulation

AbstractMicroorganisms evolved specific acclimation strategies to thrive in environments of high or fluctuating salinities. Here, salt acclimation in the model cyanobacterium Synechocystis sp. PCC 6803 was analyzed by integrating transcriptomic, proteomic and metabolomic data. A dynamic reorganization of the transcriptome occurred during the first hours after salt shock, e.g. involving the upregulation of genes to activate compatible solute biochemistry balancing osmotic pressure. The massive accumulation of glucosylglycerol then had a measurable impact on the overall carbon and nitrogen metabolism. In addition, we observed the coordinated induction of putative regulatory RNAs and of several proteins known for their involvement in other stress responses. Overall, salt-induced changes in the proteome and transcriptome showed good correlations, especially among the stably up-regulated proteins and their transcripts. We define an extended salt stimulon comprising proteins directly or indirectly related to compatible solute metabolism, ion and water movements, and a distinct set of regulatory RNAs involved in post-transcriptional regulation. Our comprehensive data set provides the basis for engineering cyanobacterial salt tolerance and to further understand its regulation.

scholarly journals Integrative analysis of the salt stress response in cyanobacteria

2021 ◽  
Author(s):  
Stephan Klaehn ◽  
Stefan Mikkat ◽  
Matthias Riediger ◽  
Jens Georg ◽  
Wolfgang R Hess ◽  
...  
Keyword(s):  
Stress Responses ◽  
Compatible Solute ◽  
Data Set ◽  
Salt Stress Response ◽  
Carbon And Nitrogen ◽  
Salt Shock ◽  
Metabolomic Data ◽  
Regulatory Rnas ◽  
Induced Changes ◽  
Post Transcriptional Regulation

Microorganisms evolved specific acclimation strategies to thrive in environments of high or fluctuating salinities. Here, salt acclimation in the model cyanobacterium Synechocystis sp. PCC 6803 was analyzed by integrating transcriptomic, proteomic and metabolomic data. A dynamic reorganization of the transcriptome and proteome occurred during the first hours after salt shock, e.g. involving the upregulation of genes to activate compatible solute biochemistry balancing osmotic pressure. The massive accumulation of glucosylglycerol then had a measurable impact on the overall carbon and nitrogen metabolism. In addition, we observed the coordinated induction of putative regulatory RNAs and of several proteins known for their involvement in other stress responses. Overall, salt-induced changes in the proteome and transcriptome showed good correlations, especially among the stably up-regulated proteins and their transcripts. We define an extended salt stimulon comprising proteins directly or indirectly related to compatible solute metabolism, ion and water movements, and a distinct set of regulatory RNAs involved in post-transcriptional regulation. Our comprehensive data set provides the basis for engineering cyanobacterial salt tolerance and to further understand its regulation.

Identifying groups of airborne particles by ordination

1994 ◽  
Vol 52 ◽  
pp. 856-857
Author(s):  
M. Shlepr ◽  
C. M. Vicroy
Keyword(s):  
Elemental Analysis ◽  
Energy Dispersive Spectroscopy ◽  
Manufacturing Process ◽  
Spatial Representation ◽  
Airborne Particles ◽  
Common Source ◽  
Data Set ◽  
Microelectronics Industry ◽  
Induced Changes ◽  
Source Materials

The microelectronics industry is heavily tasked with minimizing contaminates at all steps of the manufacturing process. Particles are generated by physical and/or chemical fragmentation from a mothersource. The tools and macrovolumes of chemicals used for processing, the environment surrounding the process, and the circuits themselves are all potential particle sources. A first step in eliminating these contaminants is to identify their source. Elemental analysis of the particles often proves useful toward this goal, and energy dispersive spectroscopy (EDS) is a commonly used technique. However, the large variety of source materials and process induced changes in the particles often make it difficult to discern if the particles are from a common source.Ordination is commonly used in ecology to understand community relationships. This technique usespair-wise measures of similarity. Separation of the data set is based on discrimination functions. Theend product is a spatial representation of the data with the distance between points equaling the degree of dissimilarity.

scholarly journals Extensive Analysis of miRNA Trimming and Tailing Indicates that AGO1 Has a Complex Role in miRNA Turnover

Plants ◽  
2021 ◽  
Vol 10 (2) ◽  
pp. 267
Author(s):  
Axel J. Giudicatti ◽  
Ariel H. Tomassi ◽  
Pablo A. Manavella ◽  
Agustin L. Arce
Keyword(s):  
Small Rna ◽  
Stress Responses ◽  
Cellular Localization ◽  
Mirna Biogenesis ◽  
Small Rna Sequencing ◽  
Sequencing Data ◽  
Extensive Analysis ◽  
Small Regulatory Rnas ◽  
Regulatory Rnas ◽  
Argonaute 1

MicroRNAs are small regulatory RNAs involved in several processes in plants ranging from development and stress responses to defense against pathogens. In order to accomplish their molecular functions, miRNAs are methylated and loaded into one ARGONAUTE (AGO) protein, commonly known as AGO1, to stabilize and protect the molecule and to assemble a functional RNA-induced silencing complex (RISC). A specific machinery controls miRNA turnover to ensure the silencing release of targeted-genes in given circumstances. The trimming and tailing of miRNAs are fundamental modifications related to their turnover and, hence, to their action. In order to gain a better understanding of these modifications, we analyzed Arabidopsis thaliana small RNA sequencing data from a diversity of mutants, related to miRNA biogenesis, action, and turnover, and from different cellular fractions and immunoprecipitations. Besides confirming the effects of known players in these pathways, we found increased trimming and tailing in miRNA biogenesis mutants. More importantly, our analysis allowed us to reveal the importance of ARGONAUTE 1 (AGO1) loading, slicing activity, and cellular localization in trimming and tailing of miRNAs.

scholarly journals Interaction of SOS2 with Nucleoside Diphosphate Kinase 2 and Catalases Reveals a Point of Connection between Salt Stress and H2O2 Signaling in Arabidopsis thaliana

2007 ◽  
Vol 27 (22) ◽  
pp. 7771-7780 ◽  
Author(s):  
Paul E. Verslues ◽  
Giorgia Batelli ◽  
Stefania Grillo ◽  
Fernanda Agius ◽  
Yong-Sig Kim ◽  
...  
Keyword(s):  
Salt Stress ◽  
Stress Response ◽  
Stress Responses ◽  
Double Mutant ◽  
Nucleoside Diphosphate Kinase ◽  
Salt Resistance ◽  
Interacting Proteins ◽  
Salt Stress Response ◽  
Oxygen Signaling ◽  
Nucleoside Diphosphate Kinase 2

ABSTRACT SOS2, a class 3 sucrose-nonfermenting 1-related kinase, has emerged as an important mediator of salt stress response and stress signaling through its interactions with proteins involved in membrane transport and in regulation of stress responses. We have identified additional SOS2-interacting proteins that suggest a connection between SOS2 and reactive oxygen signaling. SOS2 was found to interact with the H2O2 signaling protein nucleoside diphosphate kinase 2 (NDPK2) and to inhibit its autophosphorylation activity. A sos2-2 ndpk2 double mutant was more salt sensitive than a sos2-2 single mutant, suggesting that NDPK2 and H2O2 are involved in salt resistance. However, the double mutant did not hyperaccumulate H2O2 in response to salt stress, suggesting that it is altered signaling rather than H2O2 toxicity alone that is responsible for the increased salt sensitivity of the sos2-2 ndpk2 double mutant. SOS2 was also found to interact with catalase 2 (CAT2) and CAT3, further connecting SOS2 to H2O2 metabolism and signaling. The interaction of SOS2 with both NDPK2 and CATs reveals a point of cross talk between salt stress response and other signaling factors including H2O2.

scholarly journals miRador: a fast and precise tool for the prediction of plant miRNAs

2021 ◽  
Author(s):  
Reza K Hammond ◽  
Parth Patel ◽  
Pallavi Gupta ◽  
Blake C. Meyers
Keyword(s):  
Stress Responses ◽  
Target Prediction ◽  
Accurate Identification ◽  
Rna Molecules ◽  
Prediction Tools ◽  
Novel Mirna ◽  
Precise Tool ◽  
Computationally Intensive ◽  
And Function ◽  
Post Transcriptional Regulation

Plant microRNAs (miRNAs) are short, non-coding RNA molecules that restrict gene expression via post-transcriptional regulation and function in several essential pathways including development, growth, and stress responses. Accurately identifying miRNAs in populations of small RNA (sRNA) sequencing libraries is a computationally intensive process which has resulted in the misidentification of inaccurately annotated miRNA sequences. In recent years, criteria for miRNA annotation have been refined to reduce these misannotations. Here, we describe miRador, a novel miRNA identification tool that utilizes the most up-to-date, community-established criteria for accurate identification of miRNAs in plants. We combine target prediction and Parallel Analysis of RNA Ends (PARE) data to assess the precision of the miRNAs identified by miRador. We compare miRador to other commonly used miRNA prediction tools and we find that miRador is at least as precise as other prediction tools while being significantly faster than other tools.

scholarly journals Glutamatergic adaptation to stress in medial prefrontal cortex underlies risk and resilience for pessimistic beliefs

2020 ◽  
Author(s):  
Jessica A. Cooper ◽  
Makiah R. Nuutinen ◽  
Victoria M. Lawlor ◽  
Brittany A. M. DeVries ◽  
Elyssa M. Barrick ◽  
...  
Keyword(s):  
Prefrontal Cortex ◽  
Medial Prefrontal Cortex ◽  
Perceived Stress ◽  
Stress Responses ◽  
Resonance Spectroscopy ◽  
Risk And Resilience ◽  
Adaptation To Stress ◽  
Stress Exposure ◽  
Induced Changes ◽  
Ecological Momentary

ABSTRACTStress is a major risk factor for the development of mental illness, including major depressive disorder (MDD), yet the underlying biological mechanisms remain unclear. Particular challenges lie in disentangling adaptive versus maladaptive responses to repeated stress exposure. Preclinically, stress-induced changes in glutamatergic function have been frequently observed in the medial prefrontal cortex (mPFC), a key region for mediating adaptive stress responses. Here, we examined stress-induced changes in mPFC glutamate using magnetic resonance spectroscopy (MRS) in four human samples varying in perceived stress exposure. Changes in mPFC glutamate following an acute stressor were reliably moderated by recent perceived stress in healthy controls. This adaptive glutamate response was absent in unmedicated individuals with MDD and was associated with excessively pessimistic beliefs as assessed via ecological momentary assessments over a 1-month follow-up period. Taken together, these data provide novel evidence for glutamatergic adaptation to stress in mPFC that is significantly disrupted in MDD.

scholarly journals Spatial and Seasonal Variations of Sedimentary Organic Matter in a Subtropical Bay: Implication for Human Interventions

2020 ◽  
Vol 17 (4) ◽  
pp. 1362 ◽  
Author(s):  
Xuan Lu ◽  
Fengxia Zhou ◽  
Fajin Chen ◽  
Qibin Lao ◽  
Qingmei Zhu ◽  
...  
Keyword(s):  
Organic Matter ◽  
Surface Sediment ◽  
Seasonal Variations ◽  
Seasonal Changes ◽  
Nitrogen Isotope ◽  
Anthropogenic Influences ◽  
Stable Carbon ◽  
Δ13c And Δ15n ◽  
Carbon And Nitrogen ◽  
Induced Changes

Elemental (total organic carbon (TOC) and total nitrogen (TN)) and stable carbon and nitrogen isotope compositions (δ13C and δ15N, respectively) in the surface sediment of Zhanjiang Bay (ZJB) in spring and summer were measured to study the spatial and seasonal changes of organic matter (OM) and assess the human-induced and environment-induced changes in the area. The OM in the surface sediment of ZJB was a mixture of terrestrial and marine sources, and was dominated by marine OM (54.9% ± 15.2%). Compared to the central ZJB, the channel and coastal ZJB areas had higher δ13C and δ15N values, higher TOC and TN concentrations, and lower TOC/TN ratios, indicating higher primary productivity and higher percentages of marine OM in the latter two subregions. Mariculture activities, sewage inputs, and dredging were responsible for these phenomena. Clear seasonal variations in OM were observed in ZJB. The average proportions of terrestrial OM in summer increased by 10.2% in the ZJB channel and 26.0% in the coastal ZJB area compared with those in spring. Heavy rainfall brought a large amount of terrestrial OM into the channel and coastal ZJB areas, leading to the increase of the terrestrial OM fraction in these two subregions in summer. In summary, anthropogenic influences had a significant influence on the spatial and seasonal variations of sedimentary OM in ZJB.

Effects of climate-induced changes in temperature and salinity on phytoplankton physiology and stress responses in coastal Antarctica

2020 ◽  
Vol 530-531 ◽  
pp. 151400 ◽  
Author(s):  
Marcelo Hernando ◽  
Diana E. Varela ◽  
Gabriela Malanga ◽  
Gastón O. Almandoz ◽  
Irene R. Schloss
Keyword(s):  
Stress Responses ◽  
Induced Changes

scholarly journals Identification of Salt Stress Responding Genes Using Transcriptome Analysis in Green Alga Chlamydomonas reinhardtii

2018 ◽  
Vol 19 (11) ◽  
pp. 3359 ◽  
Author(s):  
Ning Wang ◽  
Zhixin Qian ◽  
Manwei Luo ◽  
Shoujin Fan ◽  
Xuejie Zhang ◽  
...  
Keyword(s):  
Salt Stress ◽  
Chlamydomonas Reinhardtii ◽  
Green Alga ◽  
Transcriptome Analysis ◽  
Stress Responses ◽  
Electron Flow ◽  
Saline Stress ◽  
Alternative Source ◽  
Salt Stress Response ◽  
Stress Responding

Salinity is one of the most important abiotic stresses threatening plant growth and agricultural productivity worldwide. In green alga Chlamydomonas reinhardtii, physiological evidence indicates that saline stress increases intracellular peroxide levels and inhibits photosynthetic-electron flow. However, understanding the genetic underpinnings of salt-responding traits in plantae remains a daunting challenge. In this study, the transcriptome analysis of short-term acclimation to salt stress (200 mM NaCl for 24 h) was performed in C. reinhardtii. A total of 10,635 unigenes were identified as being differently expressed by RNA-seq, including 5920 up- and 4715 down-regulated unigenes. A series of molecular cues were screened for salt stress response, including maintaining the lipid homeostasis by regulating phosphatidic acid, acetate being used as an alternative source of energy for solving impairment of photosynthesis, and enhancement of glycolysis metabolism to decrease the carbohydrate accumulation in cells. Our results may help understand the molecular and genetic underpinnings of salt stress responses in green alga C. reinhardtii.

Sign in / Sign up

Export Citation Format

Share Document