Dataset Information

Temperature fluctuations in a changing climate: an ensemble-based experimental approach.

ABSTRACT: There is an ongoing debate in the literature about whether the present global warming is increasing local and global temperature variability. The central methodological issues of this debate relate to the proper treatment of normalised temperature anomalies and trends in the studied time series which may be difficult to separate from time-evolving fluctuations. Some argue that temperature variability is indeed increasing globally, whereas others conclude it is decreasing or remains practically unchanged. Meanwhile, a consensus appears to emerge that local variability in certain regions (e.g. Western Europe and North America) has indeed been increasing in the past 40 years. Here we investigate the nature of connections between external forcing and climate variability conceptually by using a laboratory-scale minimal model of mid-latitude atmospheric thermal convection subject to continuously decreasing 'equator-to-pole' temperature contrast ?T, mimicking climate change. The analysis of temperature records from an ensemble of experimental runs ('realisations') all driven by identical time-dependent external forcing reveals that the collective variability of the ensemble and that of individual realisations may be markedly different - a property to be considered when interpreting climate records.

SUBMITTER: Vincze M

PROVIDER: S-EPMC5428220 | biostudies-literature | 2017 Mar

REPOSITORIES: biostudies-literature

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Temperature fluctuations in a changing climate: an ensemble-based experimental approach.

Vincze Miklós M Borcia Ion Dan ID Harlander Uwe U

Scientific reports 20170321 1

There is an ongoing debate in the literature about whether the present global warming is increasing local and global temperature variability. The central methodological issues of this debate relate to the proper treatment of normalised temperature anomalies and trends in the studied time series which may be difficult to separate from time-evolving fluctuations. Some argue that temperature variability is indeed increasing globally, whereas others conclude it is decreasing or remains practically u ...[more]

PMID: 28325927

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Project description:Global climate is warming rapidly, threatening vertebrates with temperature-dependent sex determination (TSD) by disrupting sex ratios and other traits. Less understood are the effects of increased thermal fluctuations predicted to accompany climate change. Greater fluctuations could accelerate feminization of species that produce females under warmer conditions (further endangering TSD animals), or counter it (reducing extinction risk). Here we use novel experiments exposing eggs of Painted Turtles (Chrysemys picta) to replicated profiles recorded in field nests plus mathematically-modified profiles of similar shape but wider oscillations, and develop a new mathematical model for analysis. We show that broadening fluctuations around naturally male-producing (cooler) profiles feminizes developing embryos, whereas embryos from warmer profiles remain female or die. This occurs presumably because wider oscillations around cooler profiles expose embryos to very low temperatures that inhibit development, and to feminizing temperatures where most embryogenesis accrues. Likewise, embryos incubated under broader fluctuations around warmer profiles experience mostly feminizing temperatures, some dangerously high (which increase mortality), and fewer colder values that are insufficient to induce male development. Therefore, as thermal fluctuations escalate with global warming, the feminization of TSD turtle populations could accelerate, facilitating extinction by demographic collapse. Aggressive global CO2 mitigation scenarios (RCP2.6) could prevent these risks, while intermediate actions (RCP4.5 and RCP6.0 scenarios) yield moderate feminization, highlighting the peril that insufficient reductions of greenhouse gas emissions pose for TSD taxa. If our findings are generalizable, TSD squamates, tuatara, and crocodilians that produce males at warmer temperatures could suffer accelerated masculinization, underscoring the broad taxonomic threats of climate change.

Project description:BackgroundSystems-level analyses, such as differential gene expression analysis, co-expression analysis, and metabolic pathway reconstruction, depend on the accuracy of the transcriptome. Multiple tools exist to perform transcriptome assembly from RNAseq data. However, assembling high quality transcriptomes is still not a trivial problem. This is especially the case for non-model organisms where adequate reference genomes are often not available. Different methods produce different transcriptome models and there is no easy way to determine which are more accurate. Furthermore, having alternative-splicing events exacerbates such difficult assembly problems. While benchmarking transcriptome assemblies is critical, this is also not trivial due to the general lack of true reference transcriptomes.ResultsIn this study, we first provide a pipeline to generate a set of the simulated benchmark transcriptome and corresponding RNAseq data. Using the simulated benchmarking datasets, we compared the performance of various transcriptome assembly approaches including both de novo and genome-guided methods. The results showed that the assembly performance deteriorates significantly when alternative transcripts (isoforms) exist or for genome-guided methods when the reference is not available from the same genome. To improve the transcriptome assembly performance, leveraging the overlapping predictions between different assemblies, we present a new consensus-based ensemble transcriptome assembly approach, ConSemble.ConclusionsWithout using a reference genome, ConSemble using four de novo assemblers achieved an accuracy up to twice as high as any de novo assemblers we compared. When a reference genome is available, ConSemble using four genome-guided assemblies removed many incorrectly assembled contigs with minimal impact on correctly assembled contigs, achieving higher precision and accuracy than individual genome-guided methods. Furthermore, ConSemble using de novo assemblers matched or exceeded the best performing genome-guided assemblers even when the transcriptomes included isoforms. We thus demonstrated that the ConSemble consensus strategy both for de novo and genome-guided assemblers can improve transcriptome assembly. The RNAseq simulation pipeline, the benchmark transcriptome datasets, and the script to perform the ConSemble assembly are all freely available from: http://bioinfolab.unl.edu/emlab/consemble/ .

Dataset Information

Temperature fluctuations in a changing climate: an ensemble-based experimental approach.

Publications

Temperature fluctuations in a changing climate: an ensemble-based experimental approach.

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