scholarly journals Physiological and transcriptome analysis of Magnolia denudata leaf buds during long-term cold acclimation

2021 ◽  
Vol 21 (1) ◽  
Author(s):  
Kunjing Wu ◽  
Xiaojing Duan ◽  
Zhonglong Zhu ◽  
Ziyang Sang ◽  
Jie Duan ◽  
...  
Keyword(s):  
Cold Acclimation ◽  
Cold Tolerance ◽  
Transcriptome Analysis ◽  
Average Length ◽  
Cold Response ◽  
Helix Loop Helix ◽  
Smoke Pollution ◽  
Magnolia Denudata ◽  
Pathway Analyses

Abstract Background Magonlia denudata is an important perennial tree species of the Magnoliaceae family, known for its ornamental value, resistance to smoke pollution and wind, role in air purification, and robust cold tolerance. In this study, a high-throughput transcriptome analysis of leaf buds was performed, and gene expression following artificial acclimation 22 °C, 4 °C and 0 °C, was compared by RNA sequencing. Results Over 426 million clean reads were produced from three libraries (22 °C, 4 °C and 0 °C). A total of 74,503 non-redundant unigenes were generated, with an average length of 1173.7 bp (N50 = 1548). Based on transcriptional results, 357 and 235 unigenes were identified as being upregulated and downregulated under cold stress conditions, respectively. Differentially expressed genes were annotated using Gene Ontology and the Kyoto Encyclopedia of Genes and Genomes pathway analyses. The transcriptomic analysis focused on carbon metabolism and plant hormone signal transduction associated with cold acclimation. Transcription factors such as those in the basic helix-loop-helix and AP2/ERF families were found to play an important role in M. denudata cold acclimation. Conclusion M. denudata exhibits responses to non-freezing cold temperature (4 °C) to increase its cold tolerance. Cold resistance was further strengthened with cold acclimation under freezing conditions (0 °C). Cold tolerance genes, and cold signaling transcriptional pathways, and potential functional key components for the regulation of the cold response were identified in M. denudata. These results provide a basis for further studies, and the verification of key genes involved in cold acclimation responses in M. denudata lays a foundation for developing breeding programs for Magnoliaceae species.

scholarly journals Balancing selection maintains diversity in a cold tolerance gene in broadly distributed live oaks

Genome ◽  
2017 ◽  
Vol 60 (9) ◽  
pp. 762-769 ◽  
Author(s):  
Jose Eduardo Meireles ◽  
Anne Beulke ◽  
Daniel S. Borkowski ◽  
Jeanne Romero-Severson ◽  
Jeannine Cavender-Bares
Keyword(s):  
Cold Acclimation ◽  
Cold Tolerance ◽  
Freezing Tolerance ◽  
Negative Selection ◽  
Balancing Selection ◽  
Variable Temperature ◽  
Purifying Selection ◽  
Housekeeping Genes ◽  
Cold Response ◽  
Tolerance Gene

Cold poses major physiological challenges to plants, especially long-lived trees. In trees occurring along variable temperature clines, the expected direction and consequences of selection on cold acclimation ability and freezing tolerance are not straightforward. Here we estimated selection in cold acclimation genes at two evolutionary timescales in all seven species of the American live oaks (Quercus subsection Virentes). Two cold response candidate genes were chosen: ICE1, a key gene in the cold acclimation pathway, and HOS1, which modulates cold response by negatively regulating ICE1. Two housekeeping genes, GAPDB and CHR11, were also analyzed. At the shallow evolutionary timescale, we demonstrate that HOS1 experienced recent balancing selection in the two most broadly distributed species, Q. virginiana and Q. oleoides. At a deeper evolutionary scale, a codon-based model of evolution revealed the signature of negative selection in ICE1. In contrast, three positively selected codons have been identified in HOS1, possibly a signature of the diversification of Virentes into warmer climates from a freezing adapted lineage of oaks. Our findings indicate that evolution has favored diversity in cold tolerance modulation through balancing selection in HOS1 while maintaining core cold acclimation ability, as evidenced by purifying selection in ICE1.

scholarly journals Cold acclimation triggers lipidomic and metabolic adjustments in the spotted wing drosophila Drosophila suzukii (Matsumara)

2019 ◽  
Vol 316 (6) ◽  
pp. R751-R763 ◽  
Author(s):  
Thomas Enriquez ◽  
Hervé Colinet
Keyword(s):  
Fatty Acids ◽  
Cold Acclimation ◽  
Cold Tolerance ◽  
Metabolic Pathway ◽  
Large Scale ◽  
Drosophila Suzukii ◽  
Clear Cut ◽  
Head Groups ◽  
Scale Characterization ◽  
Pathway Analyses

Chronic cold exposure is detrimental to chill susceptible insects that may accumulate chill injuries. To cope with deleterious effects of cold temperature, insects employ a variety of physiological strategies and metabolic adjustments, such as production of cryoprotectants, or remodeling of cellular membranes. Cold tolerance is a key element determining the fundamental niche of species. Because Drosophila suzukii is an invasive fruit pest, originating from East Asia, knowledge about its thermal biology is urgently needed. Physiological mechanisms underlying cold tolerance plasticity remain poorly understood in this species. Here, we explored metabolic and lipidomic modifications associated with the acquisition of cold tolerance in D. suzukii using Omics technologies (LC- and GC-MS/MS). In both cold-acclimated males and females, we observed physiological changes consistent with homeoviscous/homeophasic adaptation of membranes: reshuffling of phospholipid head groups and increasing unsaturation rate of fatty acids. Modification of fatty acids unsaturation were also observed in triacylglycerides, which would likely increase accessibility of lipid reserves. At the metabolic level, we observed clear-cut differentiation of metabolic profiles with cold-acclimated metabotypes showing accumulation of several potential cryoprotectants (sugars and amino acids). Metabolic pathway analyses indicated a remodeling of various processes, including purine metabolism and aminoacyl tRNA biosynthesis. These data provide a large-scale characterization of lipid rearrangements and metabolic pathway modifications in D. suzukii in response to cold acclimation and contribute to characterizing the strategies used by this species to modulate cold tolerance.

Skeletal and cardiac muscle protein turnover during cold acclimation in young rats

2000 ◽  
Vol 278 (3) ◽  
pp. R705-R711 ◽  
Author(s):  
T. A. McAllister ◽  
J. R. Thompson ◽  
S. E. Samuels
Keyword(s):  
Skeletal Muscle ◽  
Protein Synthesis ◽  
Cardiac Muscle ◽  
Cold Acclimation ◽  
Protein Turnover ◽  
Muscle Protein ◽  
Muscle Protein Turnover ◽  
Protein Mass ◽  
The Absolute

The effect of long-term cold exposure on skeletal and cardiac muscle protein turnover was investigated in young growing animals. Two groups of 36 male 28-day-old rats were maintained at either 5°C (cold) or 25°C (control). Rates of protein synthesis and degradation were measured in vivo on days 5, 10, 15, and 20. Protein mass by day 20 was ∼28% lower in skeletal muscle (gastrocnemius and soleus) and ∼24% higher in heart in cold compared with control rats ( P < 0.05). In skeletal muscle, the fractional rates of protein synthesis ( k syn) and degradation ( k deg) were not significantly different between cold and control rats, although k syn was lower (approximately −26%) in cold rats on day 5; consequent to the lower protein mass, the absolute rates of protein synthesis (approximately −21%; P < 0.05) and degradation (approximately −13%; P < 0.1) were lower in cold compared with control rats. In heart, overall, k syn(approximately +12%; P < 0.1) and k deg(approximately +22%; P < 0.05) were higher in cold compared with control rats; consequently, the absolute rates of synthesis (approximately +44%) and degradation (approximately +54%) were higher in cold compared with control rats ( P < 0.05). Plasma triiodothyronine concentration was higher ( P < 0.05) in cold compared with control rats. These data indicate that long-term cold acclimation in skeletal muscle is associated with the establishment of a new homeostasis in protein turnover with decreased protein mass and normal fractional rates of protein turnover. In heart, unlike skeletal muscle, rates of protein turnover did not appear to immediately return to normal as increased rates of protein turnover were observed beyond day 5. These data also indicate that increased rates of protein turnover in skeletal muscle are unlikely to contribute to increased metabolic heat production during cold acclimation.

scholarly journals Transcriptome Analysis of Light-Regulated Monoterpenes Biosynthesis in Leaves of Mentha canadensis L.

Plants ◽  
2021 ◽  
Vol 10 (5) ◽  
pp. 930
Author(s):  
Xu Yu ◽  
Xiwu Qi ◽  
Shumin Li ◽  
Hailing Fang ◽  
Yang Bai ◽  
...  
Keyword(s):  
Essential Oil ◽  
Transcriptome Analysis ◽  
Average Length ◽  
Glandular Trichomes ◽  
Signal Transduction Pathway ◽  
Glandular Trichome ◽  
Light Treatment ◽  
Light Signal ◽  
Environmental Aspect ◽  
Underlying Mechanisms

Light is a key environmental aspect that regulates secondary metabolic synthesis. The essential oil produced in mint (Mentha canadensis L.) leaves is used widely in the aromatics industry and in medicine. Under low-light treatment, significant reductions in peltate glandular trichome densities were observed. GC-MS analysis showed dramatically reduced essential oil and menthol contents. Light affected the peltate glandular trichomes’ development and essential oil yield production. However, the underlying mechanisms of this regulation were elusive. To identify the critical genes during light-regulated changes in oil content, following a 24 h darkness treatment and a 24 h recovery light treatment, leaves were collected for transcriptome analysis. A total of 95,579 unigenes were obtained, with an average length of 754 bp. About 56.58% of the unigenes were annotated using four public protein databases: 10,977 differentially expressed genes (DEGs) were found to be involved in the light signaling pathway and monoterpene synthesis pathway. Most of the TPs showed a similar expression pattern: downregulation after darkness treatment and upregulation after the return of light. In addition, the genes involved in the light signal transduction pathway were analyzed. A series of responsive transcription factors (TFs) were identified and could be used in metabolic engineering as an effective strategy for increasing essential oil yields.

scholarly journals Intermolar Mandibular Distraction Osteogenesis—A Preliminary Report

2021 ◽  
Vol 11 (9) ◽  
pp. 4118
Author(s):  
Suen A. N. Lie ◽  
Britt H. B. T. Engelen ◽  
Veronique C. M. L. Timmer ◽  
Nico M. P. Vrijens ◽  
Paolo Asperio ◽  
...  
Keyword(s):  
Distraction Osteogenesis ◽  
Treatment Time ◽  
Average Length ◽  
Case Series ◽  
Growth Spurt ◽  
Overall Treatment Time ◽  
Mandibular Distraction ◽  
Mandibular Distraction Osteogenesis ◽  
Root Fractures

Background: Dental Class II is the most common indication for combined orthodontic-orthognathic treatment. Intermolar mandibular distraction osteogenesis (IMDO) treatment was performed during the growth spurt, to avoid surgery at a later age. The aim of this study is to present our first experience with IMDO. Methods: This is a retrospective case series of patients who underwent an IMDO. All patients showed mandibular retrognathism, and orthodontic treatment with functional appliances was not successful. Results: In total, 20 patients (mean age of 14.8 years (SD = 0.9 ys) were included. All patients achieved a Class I occlusion. An average length gain of 9.6 mm (SD = 3.7 mm) was reached. In one patient an abscess occurred. Nine patients presented with root fractures of the second molar; three were lost, one treated endodontically. The average time between insertion and removal of the distractors was 4.6 months (SD = 1.5 mths). In one case a premature consolidation was seen. Conclusion: We achieved satisfactory results with IMDO, although undesirable effects occurred. An advantage is the manageable overall treatment time. Open questions concern the occurrence of root fractures. Furthermore, the question of long-term stability is open. The question of dynamic distraction treatment in relation to temporomandibular joint changes can only be answered in the long term.

scholarly journals Long-Term Waterlogging as Factor Contributing to Hypoxia Stress Tolerance Enhancement in Cucumber: Comparative Transcriptome Analysis of Waterlogging Sensitive and Tolerant Accessions

Genes ◽  
2021 ◽  
Vol 12 (2) ◽  
pp. 189
Author(s):  
Kinga Kęska ◽  
Michał Wojciech Szcześniak ◽  
Izabela Makałowska ◽  
Małgorzata Czernicka
Keyword(s):  
Stress Tolerance ◽  
De Novo ◽  
Average Length ◽  
Marker Genes ◽  
Long Term Memory ◽  
Low Oxygen ◽  
Waterlogging Tolerance ◽  
Pre Treatment ◽  
Waterlogging Treatment

Waterlogging (WL), excess water in the soil, is a phenomenon often occurring during plant cultivation causing low oxygen levels (hypoxia) in the soil. The aim of this study was to identify candidate genes involved in long-term waterlogging tolerance in cucumber using RNA sequencing. Here, we also determined how waterlogging pre-treatment (priming) influenced long-term memory in WL tolerant (WL-T) and WL sensitive (WL-S) i.e., DH2 and DH4 accessions, respectively. This work uncovered various differentially expressed genes (DEGs) activated in the long-term recovery in both accessions. De novo assembly generated 36,712 transcripts with an average length of 2236 bp. The results revealed that long-term waterlogging had divergent impacts on gene expression in WL-T DH2 and WL-S DH4 cucumber accessions: after 7 days of waterlogging, more DEGs in comparison to control conditions were identified in WL-S DH4 (8927) than in WL-T DH2 (5957). Additionally, 11,619 and 5007 DEGs were identified after a second waterlogging treatment in the WL-S and WL-T accessions, respectively. We identified genes associated with WL in cucumber that were especially related to enhanced glycolysis, adventitious roots development, and amino acid metabolism. qRT-PCR assay for hypoxia marker genes i.e., alcohol dehydrogenase (adh), 1-aminocyclopropane-1-carboxylate oxidase (aco) and long chain acyl-CoA synthetase 6 (lacs6) confirmed differences in response to waterlogging stress between sensitive and tolerant cucumbers and effectiveness of priming to enhance stress tolerance.

scholarly journals A team approach to the introduction of safe early mobilisation in an adult critical care unit

2018 ◽  
Vol 7 (4) ◽  
pp. e000339 ◽  
Author(s):  
Sanjiv Chohan ◽  
Sara Ash ◽  
Lorraine Senior
Keyword(s):  
Critical Care ◽  
Intensive Care ◽  
Staff Development ◽  
Critical Care Unit ◽  
Average Length ◽  
Team Approach ◽  
Early Mobilisation ◽  
Long Term Outcomes ◽  
Average Length Of Stay

Delirium and intensive care unit acquired weakness are common in patients requiring critical care and associated with higher mortality and poor long-term outcomes. Early mobilisation has been shown to reduce the duration of both conditions and is recommended as part of a strategy of rehabilitation of critically ill patients starting during their stay in intensive care. Our aim was to achieve 95% reliability with a standardised mobilisation process. Multidisciplinary involvement through the use of regular focus groups lead to the development of a standardised process of sitting a ventilated or non-ventilated patient at the side of the bed for a set period of time, which was called the daily dangle. Team learning from Plan, Do, Study, Act (PDSA)cycles, as well as feedback from both staff and patients, allowed us to develop the process and achieve a median 87% reliability. Delirium rates fell from 54.1% to 28.8%. There was no change in average length of stay, and no adverse events. Ownership by the staff, development of the process by staff, iterative testing and learning, and designs for reliability were the factors behind the successful adoption of a new and challenging process. Particular changes which drove reliability were standardisation of the criteria for a dangle, standardisation of the dangle itself and a reminder included on the daily goals checklist.

scholarly journals De novo Transcriptome Assembly and Comparative Analysis Highlight the Primary Mechanism Regulating the Response to Selenium Stimuli in Oats (Avena sativa L.)

2021 ◽  
Vol 12 ◽  
Author(s):  
Tao Liu ◽  
Xiaoting Liu ◽  
Rangrang Zhou ◽  
Hong Chen ◽  
Huaigang Zhang ◽  
...  
Keyword(s):  
Transcriptome Analysis ◽  
Regulatory Mechanism ◽  
De Novo ◽  
Average Length ◽  
Transcriptome Assembly ◽  
Processing Technique ◽  
Sodium Selenate ◽  
Control Group ◽  
Primary Mechanism ◽  
High Selenium

Selenium is an essential microelement for humans and animals. The specific processing technique of oats can maximize the preservation of its nutrients. In this study, to understand the genetic response of oats in a high-selenium environment, oats were treated with sodium selenate for 24 h, and transcriptome analysis was performed. A total of 211,485,930 clean reads composing 31.30 Gb of clean data were retained for four samples. After assembly, 186,035 unigenes with an average length of 727 bp were generated, and the N50 length was 1,149 bp. Compared with that in the control group, the expression of 7,226 unigenes in the treatment group was upregulated, and 2,618 unigenes were downregulated. Based on the sulfur assimilation pathway and selenocompound metabolic pathway, a total of 27 unigenes related to selenate metabolism were identified. Among them, the expression of both key genes APS (ATP sulfurylase) and APR (adenosine 5′-phosphosulfate reductase) was upregulated more than 1,000-fold under selenate treatment, while that of CBL (cystathionine-β-synthase) was upregulated 3.12-fold. Based on the transcriptome analysis, we suspect that the high-affinity sulfur transporter Sultr1;2 plays a key role in selenate uptake in oats. A preliminary regulatory mechanism explains the oat response to selenate treatment was ultimately proposed based on the transcriptome analysis and previous research.

scholarly journals Modern state of the reproductive potential of Black Sea sprat Sprattus sprattus phalericus (Risso, 1826) (Pisces: Clupeidae) in Crimean region and conditions for its formation

2019 ◽  
Vol 4 (4) ◽  
pp. 3-14
Author(s):  
G. V. Zuyev
Keyword(s):  
Black Sea ◽  
Average Length ◽  
Reproductive Potential ◽  
Danube River ◽  
The Black Sea ◽  
Total Catch ◽  
Sprattus Sprattus ◽  
The Absolute ◽  
Individual Fecundity

Black Sea sprat Sprattus sprattus phalericus (Risso, 1826) is one of the abundant species of fish in the Sea of Azov – Black Sea basin. Due to its large number sprat plays an extremely important role in the ecosystem of the sea, being an intermediate link between zooplankton and representatives of the highest trophic level – large predatory fish, dolphins, and birds. At the same time sprat is one of the important commercial fish in all the Black Sea countries, steadily being on the second place of catch volume in recent decades (after anchovy). The total catch reaches 100 thousand tons. Turkey and Ukraine are the main producing countries. Monitoring and forecast of biological state of sprat population with rising fishing intensity and climate changes are urgent tasks. The research subject of this article is the long-term (2000–2016) dynamics of biological (qualitative) parameters determining the population fecundity of Black Sea sprat in Crimean region, the current state of reproductive potential, and the conditions for its formation. The article is based on the results of own research. Parameters determining the population fecundity – the length-age structure of the spawning part population, the absolute individual fecundity, and the sex structure population (ratio between females and males) – were studied. In the long-term plan (in 2011–2016 compared with 2000–2004) the average length of spawning females decreased by 1.22 times (from 7.36 to 6.03 cm). It was accompanied by a decrease in the absolute individual fecundity by 2.39 times (from 13 625 to 5690 eggs). The numerical ratio between females and males decreased by 1.23 times (from 1.95 to 1.59). Simultaneously the sprat stock in the northern part of the Black Sea was reduced by more than 2.5 times (from > 500 thousand tons to < 200 thousand tons). As a result, the population fecundity of sprat in Crimean region decreased by more than 7 times (2.39 × 1.23 × 2.5). The conditions of sprat fishing in the northern part of the Black Sea (from the mouth of the Danube River to the Kerch Strait) were studied. They showed 2-fold decrease (from 251.9 thousand tons in 2000–2004 to 129.1 thousand tons in 2011–2016) in the total catch and more than 2.3-fold decrease (from 50.4 to 21.4 thousand tons) in average annual catch in this region. On the contrary, in the Crimean shelf the total catch at that time increased by 1.2 times (from 76.9 to 92.2 thousand tons), and its average annual value remained constant (15.4 thousand tons). While reducing the stock by 2.5 times, this means that the fishing pressure on the Crimean population increased 2.5 times. This fact suggests considering the factor of fishing as the main cause of its degradation. Validity of this version is confirmed by the fact of conjugacy (inverse connection) of interannual fluctuations between the catch and the length-age parameters of sprat in Crimean region in 2003–2013 previously found: catches over 15–16 thousand tons were accompanied by a next year decrease in the fish average length. Regulation of fishing is a necessary condition for preventing further degradation, for restoring and maintaining sustainable state of sprat population in Crimean region and its reproductive potential. The negative impact of natural (climatic and trophic) factors on the state of the population should be recognized as a secondary one. Local overfishing indicates indirectly the structuring of the commercial stock of Black Sea sprat, its division into a number of geographical aggregations (stock units), i. e. the presence of intraspecific differentiation.

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