Transcript Profiles Differentiate Cold Acclimation-Induced Processes in a Summer and Winter Biotype of Camelina

2021 ◽  
Author(s):  
Hongxia Wang ◽  
Münevver Doğramacı ◽  
James V. Anderson ◽  
David P. Horvath ◽  
Wun S. Chao
Keyword(s):  
Cold Acclimation ◽  
Transcript Profiles

Major differences observed in transcript profiles of blueberry during cold acclimation under field and cold room conditions

Planta ◽  
2006 ◽  
Vol 225 (3) ◽  
pp. 735-751 ◽  
Author(s):  
Anik L. Dhanaraj ◽  
Nadim W. Alkharouf ◽  
Hunter S. Beard ◽  
Imed B. Chouikha ◽  
Benjamin F. Matthews ◽  
...  
Keyword(s):  
Cold Acclimation ◽  
Cold Room ◽  
Transcript Profiles

Marker Trait Association for Autumn Cold Acclimation and Growth Rhythm in Pinus sylvestris

2003 ◽  
Vol 18 (1) ◽  
pp. 29-38 ◽  
Author(s):  
Reza Yazdani ◽  
Jan-erik Nilsson ◽  
Christophe Plomion ◽  
Gaurov Mathur
Keyword(s):  
Pinus Sylvestris ◽  
Cold Acclimation ◽  
Growth Rhythm ◽  
Trait Association

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 Identification of a neural basis for cold acclimation in Drosophila larvae

iScience ◽  
2021 ◽  
pp. 102657
Author(s):  
Nathaniel J. Himmel ◽  
Jamin M. Letcher ◽  
Akira Sakurai ◽  
Thomas R. Gray ◽  
Maggie N. Benson ◽  
...  
Keyword(s):  
Cold Acclimation ◽  
Neural Basis ◽  
Drosophila Larvae

scholarly journals COR/LEA Proteins as Indicators of Frost Tolerance in Triticeae: A Comparison of Controlled versus Field Conditions

Plants ◽  
2021 ◽  
Vol 10 (4) ◽  
pp. 789
Author(s):  
Klára Kosová ◽  
Miroslav Klíma ◽  
Ilja Tom Prášil ◽  
Pavel Vítámvás
Keyword(s):  
Cold Acclimation ◽  
Field Experiments ◽  
Quantitative Relationship ◽  
Field Trials ◽  
Frost Tolerance ◽  
Late Embryogenesis Abundant ◽  
Field Conditions ◽  
Lea Proteins ◽  
Winter Cereals ◽  
Vernalisation Requirement

Low temperatures in the autumn induce enhanced expression/relative accumulation of several cold-inducible transcripts/proteins with protective functions from Late-embryogenesis-abundant (LEA) superfamily including dehydrins. Several studies dealing with plants grown under controlled conditions revealed a correlation (significant quantitative relationship) between dehydrin transcript/protein relative accumulation and plant frost tolerance. However, to apply these results in breeding, field experiments are necessary. The aim of the review is to provide a summary of the studies dealing with the relationships between plant acquired frost tolerance and COR/LEA transcripts/proteins relative accumulation in cereals grown in controlled and field conditions. The impacts of cold acclimation and vernalisation processes on the ability of winter-type Triticeae to accumulate COR/LEA proteins are discussed. The factors determining dehydrin relative accumulation under controlled cold acclimation treatments versus field trials during winter seasons are discussed. In conclusion, it can be stated that dehydrins could be used as suitable indicators of winter survival in field-grown winter cereals but only in plant prior to the fulfilment of vernalisation requirement.

scholarly journals sepal: identifying transcript profiles with spatial patterns by diffusion-based modeling

2021 ◽  
Author(s):  
Alma Andersson ◽  
Joakim Lundeberg
Keyword(s):  
Spatial Patterns ◽  
Expression Profiles ◽  
Synthetic Data ◽  
Real Data ◽  
Cell Types ◽  
Statistical Hypothesis ◽  
Supplementary Information ◽  
Statistical Hypothesis Testing ◽  
Transcriptomics Data ◽  
Transcript Profiles

Abstract Motivation Collection of spatial signals in large numbers has become a routine task in multiple omics-fields, but parsing of these rich datasets still pose certain challenges. In whole or near-full transcriptome spatial techniques, spurious expression profiles are intermixed with those exhibiting an organized structure. To distinguish profiles with spatial patterns from the background noise, a metric that enables quantification of spatial structure is desirable. Current methods designed for similar purposes tend to be built around a framework of statistical hypothesis testing, hence we were compelled to explore a fundamentally different strategy. Results We propose an unexplored approach to analyze spatial transcriptomics data, simulating diffusion of individual transcripts to extract genes with spatial patterns. The method performed as expected when presented with synthetic data. When applied to real data, it identified genes with distinct spatial profiles, involved in key biological processes or characteristic for certain cell types. Compared to existing methods, ours seemed to be less informed by the genes’ expression levels and showed better time performance when run with multiple cores. Availabilityand implementation Open-source Python package with a command line interface (CLI), freely available at https://github.com/almaan/sepal under an MIT licence. A mirror of the GitHub repository can be found at Zenodo, doi: 10.5281/zenodo.4573237. Supplementary information Supplementary data are available at Bioinformatics online.

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