The role of snow cover affecting boreal-arctic soil freeze–thaw and carbon dynamics

Northern Hemisphere permafrost affected land areas contain about twice as much carbon as the global atmosphere. This vast carbon pool is vulnerable to accelerated losses through mobilization and decomposition under projected global warming. Satellite data records spanning the past 3 decades indicate widespread reductions (~ 0.8–1.3 days decade−1) in the mean annual snow cover extent and frozen-season duration across the pan-Arctic domain, coincident with regional climate warming trends. How the soil carbon pool responds to these changes will have a large impact on regional and global climate. Here, we developed a coupled terrestrial carbon and hydrology model framework with a detailed 1-D soil heat transfer representation to investigate the sensitivity of soil organic carbon stocks and soil decomposition to climate warming and changes in snow cover conditions in the pan-Arctic region over the past 3 decades (1982–2010). Our results indicate widespread soil active layer deepening across the pan-Arctic, with a mean decadal trend of 6.6 ± 12.0 (SD) cm, corresponding to widespread warming. Warming promotes vegetation growth and soil heterotrophic respiration particularly within surface soil layers (≤ 0.2 m). The model simulations also show that seasonal snow cover has a large impact on soil temperatures, whereby increases in snow cover promote deeper (≥ 0.5 m) soil layer warming and soil respiration, while inhibiting soil decomposition from surface (≤ 0.2 m) soil layers, especially in colder climate zones (mean annual T ≤ −10 °C). Our results demonstrate the important control of snow cover on northern soil freeze–thaw and soil carbon decomposition processes and the necessity of considering both warming and a change in precipitation and snow cover regimes in characterizing permafrost soil carbon dynamics

Changes in growing season duration and productivity of northern vegetation inferred from long-term remote sensing data

Monitoring and understanding climate-induced changes in the boreal and arctic vegetation is critical to aid in prognosticating their future. Weused a 33 year (1982-2014) long record of satellite observations to robustly assess changes in metrics of growing season (onset: SOS, end: EOS and length: LOS) and seasonal total gross primary productivity. Particular attention was paid to evaluating the accuracy of these metrics by comparing them to multiple independent direct and indirect growing season and productivity measures. These comparisons reveal that the derived metrics capture the spatio-temporal variations and trends with acceptable significance level (generally p < 0.05). We find that LOS has lengthened by 2.60 d dec(-1) (p < 0.05) due to an earlier onset of SOS (-1.61 d dec(-1), p < 0.05) and a delayed EOS (0.67 d dec(-1), p < 0.1) at the circumpolar scale over the past three decades. Relatively greater rates of changes in growing season were observed in Eurasia (EA) and in boreal regions than in North America (NA) and the arctic regions. However, this tendency of earlier SOS and delayed EOS was prominent only during the earlier part of the data record (1982-1999). During the later part (2000-2014), this tendency was reversed, i.e. delayed SOS and earlier EOS. As for seasonal total productivity, we find that 42.0% of northern vegetation shows a statistically significant (p < 0.1) greening trend over the last three decades. This greening translates to a 20.9% gain in productivity since 1982. In contrast, only 2.5% of northern vegetation shows browning, or a 1.2% loss of productivity. These trends in productivity were continuous through the period of record, unlike changes in growing season metrics. Similarly, we find relatively greater increasing rates of productivity in EA and in arctic regions than in NA and the boreal regions. These results highlight spatially and temporally varying vegetation dynamics and are reflective of biome-specific responses of northern vegetation during last three decades

Systematic analysis of transcribed loci in ENCODE regions using RACE sequencing reveals extensive transcription in the human genome

RACE sequencing of ENCODE regions shows that much of the human genome is represented in poly(A)+ RNA

An assessment of the carbon balance of Arctic tundra:Comparisons among observations, process models, and atmospheric inversions

Although Arctic tundra has been estimated to cover only 8% of the global land surface, the large and potentially labile carbon pools currently stored in tundra soils have the potential for large emissions of carbon (C) under a warming climate. These emissions as radiatively active greenhouse gases in the form of both CO&lt;sub&gt;2&lt;/sub&gt; and CH&lt;sub&gt;4&lt;/sub&gt; could amplify global warming. Given the potential sensitivity of these ecosystems to climate change and the expectation that the Arctic will experience appreciable warming over the next century, it is important to assess whether responses of C exchange in tundra regions are likely to enhance or mitigate warming. In this study we compared analyses of C exchange of Arctic tundra between 1990 and 2006 among observations, regional and global applications of process-based terrestrial biosphere models, and atmospheric inversion models. Syntheses of flux observations and inversion models indicate that the annual exchange of CO&lt;sub&gt;2&lt;/sub&gt; between Arctic tundra and the atmosphere has large uncertainties that cannot be distinguished from neutral balance. The mean estimate from an ensemble of process-based model simulations suggests that Arctic tundra has acted as a sink for atmospheric CO&lt;sub&gt;2&lt;/sub&gt; in recent decades, but based on the uncertainty estimates it cannot be determined with confidence whether these ecosystems represent a weak or a strong sink. Tundra was 0.6 °C warmer in the 2000s compared to the 1990s. The central estimates of the observations, process-based models, and inversion models each identify stronger sinks in the 2000s compared with the 1990s. Some of the process models indicate that this occurred because net primary production increased more in response to warming than heterotrophic respiration. Similarly, the observations and the applications of regional process-based models suggest that CH&lt;sub&gt;4&lt;/sub&gt; emissions from Arctic tundra have increased from the 1990s to 2000s because of the sensitivity of CH&lt;sub&gt;4&lt;/sub&gt; emissions to warmer temperatures. Based on our analyses of the estimates from observations, process-based models, and inversion models, we estimate that Arctic tundra was a sink for atmospheric CO&lt;sub&gt;2&lt;/sub&gt; of 110 Tg C yr&lt;sup&gt;−1&lt;/sup&gt; (uncertainty between a sink of 291 Tg C yr&lt;sup&gt;−1&lt;/sup&gt; and a source of 80 Tg C yr&lt;sup&gt;−1&lt;/sup&gt;) and a source of CH&lt;sub&gt;4&lt;/sub&gt; to the atmosphere of 19 Tg C yr&lt;sup&gt;−1&lt;/sup&gt; (uncertainty between sources of 8 and 29 Tg C yr&lt;sup&gt;−1&lt;/sup&gt;). The suite of analyses conducted in this study indicate that it is important to reduce uncertainties in the observations, process-based models, and inversions in order to better understand the degree to which Arctic tundra is influencing atmospheric CO&lt;sub&gt;2&lt;/sub&gt; and CH&lt;sub&gt;4&lt;/sub&gt; concentrations. The reduction of uncertainties can be accomplished through (1) the strategic placement of more CO&lt;sub&gt;2&lt;/sub&gt; and CH&lt;sub&gt;4&lt;/sub&gt; monitoring stations to reduce uncertainties in inversions, (2) improved observation networks of ground-based measurements of CO&lt;sub&gt;2&lt;/sub&gt; and CH&lt;sub&gt;4&lt;/sub&gt; exchange to understand exchange in response to disturbance and across gradients of climatic and hydrological variability, and (3) the effective transfer of information from enhanced observation networks into process-based models to improve the simulation of CO&lt;sub&gt;2&lt;/sub&gt; and CH&lt;sub&gt;4&lt;/sub&gt; exchange from Arctic tundra to the atmosphere

Diminished temperature and vegetation seasonality over northern high latitudes

Global temperature is increasing, especially over northern lands (>50° N), owing to positive feedbacks1. As this increase is most pronounced in winter, temperature seasonality (ST)—conventionally defined as the difference between summer and winter temperatures—is diminishing over time2, a phenomenon that is analogous to its equatorward decline at an annual scale. The initiation, termination and performance of vegetation photosynthetic activity are tied to threshold temperatures3. Trends in the timing of these thresholds and cumulative temperatures above them may alter vegetation productivity, or modify vegetation seasonality (SV), over time. The relationship between ST and SV is critically examined here with newly improved ground and satellite data sets. The observed diminishment of ST and SV is equivalent to 4° and 7° (5° and 6°) latitudinal shift equatorward during the past 30 years in the Arctic (boreal) region. Analysis of simulations from 17 state-of-the-art climate models4 indicates an additional STdiminishment equivalent to a 20° equatorward shift could occur this century. How SV will change in response to such large projected ST declines and the impact this will have on ecosystem services5 are not well understood. Hence the need for continued monitoring6 of northern lands as their seasonal temperature profiles evolve to resemble thosefurther south.Lopullinen vertaisarvioitu käsikirjoitu

X chromosome-wide analyses of genomic DNA methylation states and gene expression in male and female neutrophils

The DNA methylation status of human X chromosomes from male and female neutrophils was identified by high-throughput sequencing of HpaII and MspI digested fragments. In the intergenic and intragenic regions on the X chromosome, the sites outside CpG islands were heavily hypermethylated to the same degree in both genders. Nearly half of X chromosome promoters were either hypomethylated or hypermethylated in both females and males. Nearly one third of X chromosome promoters were a mixture of hypomethylated and heterogeneously methylated sites in females and were hypomethylated in males. Thus, a large fraction of genes that are silenced on the inactive X chromosome are hypomethylated in their promoter regions. These genes frequently belong to the evolutionarily younger strata of the X chromosome. The promoters that were hypomethylated at more than two sites contained most of the genes that escaped silencing on the inactive X chromosome. The overall levels of expression of X-linked genes were indistinguishable in females and males, regardless of the methylation state of the inactive X chromosome. Thus, in addition to DNA methylation, other factors are involved in the fine tuning of gene dosage compensation in neutrophils

Tiling array data analysis: a multiscale approach using wavelets

<p>Abstract</p> <p>Background</p> <p>Tiling array data is hard to interpret due to noise. The wavelet transformation is a widely used technique in signal processing for elucidating the true signal from noisy data. Consequently, we attempted to denoise representative tiling array datasets for ChIP-chip experiments using wavelets. In doing this, we used specific wavelet basis functions, <it>Coiflets</it>, since their triangular shape closely resembles the expected profiles of true ChIP-chip peaks.</p> <p>Results</p> <p>In our wavelet-transformed data, we observed that noise tends to be confined to small scales while the useful signal-of-interest spans multiple large scales. We were also able to show that wavelet coefficients due to non-specific cross-hybridization follow a log-normal distribution, and we used this fact in developing a thresholding procedure. In particular, wavelets allow one to set an unambiguous, absolute threshold, which has been hard to define in ChIP-chip experiments. One can set this threshold by requiring a similar confidence level at different length-scales of the transformed signal. We applied our algorithm to a number of representative ChIP-chip data sets, including those of Pol II and histone modifications, which have a diverse distribution of length-scales of biochemical activity, including some broad peaks.</p> <p>Conclusions</p> <p>Finally, we benchmarked our method in comparison to other approaches for scoring ChIP-chip data using spike-ins on the ENCODE Nimblegen tiling array. This comparison demonstrated excellent performance, with wavelets getting the best overall score.</p

Retrieving landscape freeze/thaw state fromSoil Moisture Active Passive (SMAP) radar and radiometer measurements

Over one-third of the global land area undergoes a seasonal transition between predominantly frozen and non-frozen conditions each year, with the land surface freeze/thaw (FT) state a significant control on hydrological and biospheric processes over northern land areas and at high elevations. The NASA Soil Moisture Active Passive (SMAP) mission produced a daily landscape FT product at 3-km spatial resolution derived from ascending and descending orbits of SMAP high-resolution L-band (1.4 GHz) radar measurements. Following the failure of the SMAP radar in July 2015, coarser (36-km) footprint SMAP radiometer inputs were used to develop an alternative daily passive microwave freeze/thaw product. In this study, in situ observations are used to examine differences in the sensitivity of the 3-km radar versus the 36-km radiometer measurements to the landscape freeze/thaw state during the period of overlapping instrument operation. Assessment of the retrievals at high-latitude SMAP core validation sites showed excellent agreement with in situ flags, exceeding the 80% SMAP mission accuracy requirement. Similar performance was found for the radar and radiometer products using both air temperature and soil temperature derived FT reference flags. There was a tendency for SMAP thaw retrievals to lead the surface flags due to the influence of wet snow cover conditions on both the radar and radiometer signal. Comparison with other satellite derived FT products showed those derived from passive measurements (SMAP radiometer; Aquarius radiometer; Advanced Microwave Scanning Radiometer - 2) retrieved less frozen area than the active products (SMAP radar; Aquarius radar)