Determining and quantifying the historical traces of spatial land arrangements in rural landscapes of Central and Eastern Europe

AbstractThe article attempts to define and determine the intangible components of cultural heritage related to the spatial structure of land in a comprehensive way using computational methods. The components were quantified and a method of empirical evaluation of landscape durability was proposed for agricultural areas of significant cultural and historical value with an evident mosaic structure of fields, baulks, ponds, meadows, and forests. This method allows us to identify places more resistant to political transformation and those with greater cultural potential. The paper proposed an integrated approach to the measuring of the degree of preservation of spatial arrangements in the landscape based on a set of objects that describe the spatial land structure. The article classifies areas by the degree of preservation of rural spatial arrangements of land. The spatial analysis employed facilitated a synthetic quantification of the multi-criteria process. Three groups of factors were used: spatial assessment of land-cover type persistence (u), agricultural land structure persistence (w), and persistence of settlement buildings (z). The final results pinpointed areas in need of strategic intervention to sufficiently protect the rural cultural heritage, properly consider them in zoning planning, and ensure their sustainable development. The proposed tool can be used to monitor the degree of changes in the landscape layout structure when multiple time points are analysed as well.

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Physical activity levels among ovarian cancer survivors: a prospective longitudinal cohort study

International Journal of Gynecological Cancer ◽

10.1136/ijgc-2020-002107 ◽

2021 ◽

pp. ijgc-2020-002107

Author(s):

Tamara Jones ◽

Carolina Sandler ◽

Dimitrios Vagenas ◽

Monika Janda ◽

Andreas Obermair ◽

...

Keyword(s):

Physical Activity ◽

Ovarian Cancer ◽

Stage Iv ◽

Multiple Time ◽

Activity Levels ◽

Prospective Longitudinal Study ◽

Physical Activity Advice ◽

Physical Activity Levels ◽

Multiple Time Points ◽

Prospective Longitudinal

ObjectivePhysical activity following cancer diagnosis is associated with improved outcomes, including potential survival benefits, yet physical activity levels among common cancer types tend to decrease following diagnosis and remain low. Physical activity levels following diagnosis of less common cancers, such as ovarian cancer, are less known. The objectives of this study were to describe physical activity levels and to explore characteristics associated with physical activity levels in women with ovarian cancer from pre-diagnosis to 2 years post-diagnosis.MethodsAs part of a prospective longitudinal study, physical activity levels of women with ovarian cancer were assessed at multiple time points between pre-diagnosis and 2 years post-diagnosis. Physical activity levels and change in physical activity were described using metabolic equivalent task hours and minutes per week, and categorically (sedentary, insufficiently, or sufficiently active). Generalized Estimating Equations were used to explore whether participant characteristics were related to physical activity levels.ResultsA total of 110 women with ovarian cancer with a median age of 62 years (range 33–88) at diagnosis were included. 53–57% of the women were sufficiently active post-diagnosis, although average physical activity levels for the cohort were below recommended levels throughout the 2-year follow-up period (120–142.5min/week). A decrease or no change in post-diagnosis physical activity was reported by 44–60% of women compared with pre-diagnosis physical activity levels. Women diagnosed with stage IV disease, those earning a lower income, those receiving chemotherapy, and those currently smoking or working were more likely to report lower physical activity levels and had increased odds of being insufficiently active or sedentary.ConclusionsInterventions providing patients with appropriate physical activity advice and support for behavior change could potentially improve physical activity levels and health outcomes.

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Relating environmental variables with aquatic community structure in an agricultural/urban coldwater stream

Ecological Processes ◽

10.1186/s13717-021-00312-6 ◽

2021 ◽

Vol 10 (1) ◽

Author(s):

Daniel T. L. Myers ◽

Richard R. Rediske ◽

James N. McNair ◽

Aaron D. Parker ◽

E. Wendy Ogilvie

Keyword(s):

Land Use ◽

Environmental Variables ◽

Fish Community ◽

Agricultural Land ◽

Urban Land ◽

Urban Land Use ◽

Aquatic Communities ◽

Natural Stream ◽

Longitudinal Gradients ◽

Agricultural Areas

Abstract Background Urban areas are often built along large rivers and surrounded by agricultural land. This may lead to small tributary streams that have agricultural headwaters and urbanized lower reaches. Our study objectives assessed are as follows: (1) landscape, geomorphic, and water quality variables that best explained variation in aquatic communities and their integrity in a stream system following this agricultural-to-urban land use gradient; (2) ways this land use gradient caused aquatic communities to differ from what would be expected for an idealized natural stream or other longitudinal gradients; and (3) whether the impacts of this land use gradient on aquatic communities would grow larger in a downstream direction through the agricultural and urban developments. Our study area was an impaired coldwater stream in Michigan, USA. Results Many factors structured the biological communities along the agricultural-to-urban land use gradient. Instream woody debris had the strongest relationship with EPT (Ephemeroptera, Plecoptera, and Trichoptera) abundance and richness and were most common in the lower, urbanized watershed. Fine streambed substrate had the strongest relationship with Diptera taxa and surface air breather macroinvertebrates and was dominant in agricultural headwaters. Fish community assemblage was influenced largely by stream flow and temperature regimes, while poor fish community integrity in lower urban reaches could be impacted by geomorphology and episodic urban pollution events. Scraping macroinvertebrates were most abundant in deforested, first-order agricultural headwaters, while EPT macroinvertebrate richness was the highest downstream of agricultural areas within the urban zone that had extensive forest buffers. Conclusion Environmental variables and aquatic communities would often not conform with what we would expect from an idealized natural stream. EPT richness improved downstream of agricultural areas. This shows promise for the recovery of aquatic systems using well-planned management in watersheds with this agricultural-to-urban land use pattern. Small patches of forest can be the key to conserving aquatic biodiversity in urbanized landscapes. These findings are valuable to an international audience of researchers and water resource managers who study stream systems following this common agricultural-to-urban land use gradient, the ecological communities of which may not conform with what is generally known about land use impacts to streams.

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The molecular make up of smoldering myeloma highlights the evolutionary pathways leading to multiple myeloma

Nature Communications ◽

10.1038/s41467-020-20524-2 ◽

2021 ◽

Vol 12 (1) ◽

Author(s):

Eileen M. Boyle ◽

Shayu Deshpande ◽

Ruslana Tytarenko ◽

Cody Ashby ◽

Yan Wang ◽

...

Keyword(s):

Tumour Suppressor Genes ◽

Multiple Time ◽

Clonal Structure ◽

Time To Progression ◽

Novel Mutations ◽

Evolutionary Patterns ◽

Risk Of Progression ◽

Multiple Time Points ◽

Smoldering Myeloma ◽

Copy Number Changes

AbstractSmoldering myeloma (SMM) is associated with a high-risk of progression to myeloma (MM). We report the results of a study of 82 patients with both targeted sequencing that included a capture of the immunoglobulin and MYC regions. By comparing these results to newly diagnosed myeloma (MM) we show fewer NRAS and FAM46C mutations together with fewer adverse translocations, del(1p), del(14q), del(16q), and del(17p) in SMM consistent with their role as drivers of the transition to MM. KRAS mutations are associated with a shorter time to progression (HR 3.5 (1.5–8.1), p = 0.001). In an analysis of change in clonal structure over time we studied 53 samples from nine patients at multiple time points. Branching evolutionary patterns, novel mutations, biallelic hits in crucial tumour suppressor genes, and segmental copy number changes are key mechanisms underlying the transition to MM, which can precede progression and be used to guide early intervention strategies.

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Use of TanDEM-X and SRTM-C Data for Detection of Deforestation Caused by Bark Beetle in Central European Mountains

Remote Sensing ◽

10.3390/rs13153042 ◽

2021 ◽

Vol 13 (15) ◽

pp. 3042

Author(s):

Kateřina Gdulová ◽

Jana Marešová ◽

Vojtěch Barták ◽

Marta Szostak ◽

Jaroslav Červenka ◽

...

Keyword(s):

Bark Beetle ◽

Synergistic Effects ◽

Canopy Height ◽

Surface Model ◽

Multiple Time ◽

Central European ◽

Time Points ◽

Bohemian Forest ◽

Multiple Time Points ◽

Surrounding Areas

The availability of global digital elevation models (DEMs) from multiple time points allows their combination for analysing vegetation changes. The combination of models (e.g., SRTM and TanDEM-X) can contain errors, which can, due to their synergistic effects, yield incorrect results. We used a high-resolution LiDAR-derived digital surface model (DSM) to evaluate the accuracy of canopy height estimates of the aforementioned global DEMs. In addition, we subtracted SRTM and TanDEM-X data at 90 and 30 m resolutions, respectively, to detect deforestation caused by bark beetle disturbance and evaluated the associations of their difference with terrain characteristics. The study areas covered three Central European mountain ranges and their surrounding areas: Bohemian Forest, Erzgebirge, and Giant Mountains. We found that vertical bias of SRTM and TanDEM-X, relative to the canopy height, is similar with negative values of up to −2.5 m and LE90s below 7.8 m in non-forest areas. In forests, the vertical bias of SRTM and TanDEM-X ranged from −0.5 to 4.1 m and LE90s from 7.2 to 11.0 m, respectively. The height differences between SRTM and TanDEM-X show moderate dependence on the slope and its orientation. LE90s for TDX-SRTM differences tended to be smaller for east-facing than for west-facing slopes, and varied, with aspect, by up to 1.5 m in non-forest areas and 3 m in forests, respectively. Finally, subtracting SRTM and NASA DEMs from TanDEM-X and Copernicus DEMs, respectively, successfully identified large areas of deforestation caused by hurricane Kyril in 2007 and a subsequent bark beetle disturbance in the Bohemian Forest. However, local errors in TanDEM-X, associated mainly with forest-covered west-facing slopes, resulted in erroneous identification of deforestation. Therefore, caution is needed when combining SRTM and TanDEM-X data in multitemporal studies in a mountain environment. Still, we can conclude that SRTM and TanDEM-X data represent suitable near global sources for the identification of deforestation in the period between the time points of their acquisition.

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Associations of Binge Drinking With Vascular Brain Injury and Atrophy in Older American Indians: The Strong Heart Study

Journal of Aging and Health ◽

10.1177/08982643211013696 ◽

2021 ◽

Vol 33 (7-8_suppl) ◽

pp. 51S-59S

Author(s):

Jordan P. Lewis ◽

Astrid M. Suchy-Dicey ◽

Carolyn Noonan ◽

Valarie Blue Bird Jernigan ◽

Jason G. Umans ◽

...

Keyword(s):

Brain Injury ◽

Binge Drinking ◽

American Indians ◽

Multiple Time ◽

Heart Study ◽

Neurological Risk ◽

The Us ◽

Large Cohort Study ◽

Magnetic Resonance Imaging Mri ◽

Multiple Time Points

Objectives: American Indians (AIs) generally consume less alcohol than the US general population; however, the prevalence of alcohol use disorder is higher. This is the first large cohort study to examine binge drinking as a risk factor for vascular brain injury (VBI). Methods: We used linear and Poisson regression to examine the association of self-reported binge drinking with VBI, measured via magnetic resonance imaging (MRI), in 817 older AIs who participated in the Strong Heart and Cerebrovascular Disease and Its Consequences in American Indians studies. Results: Any binge drinking at multiple time-points was associated with increased sulcal (β = 0.360, 95% CI [0.079, 0.641]) and ventricle dilatation (β = 0.512, 95% CI [0.174, 0.850]) compared to no binge drinking. Discussion: These observed associations are consistent with previous findings. Identifying how binge drinking may contribute to VBI in older AIs may suggest modifiable health behaviors for neurological risk reduction and disease prevention.

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Body size, sex and high philopatry influence the use of agricultural land by Galapagos giant tortoises

Oryx ◽

10.1017/s0030605320001167 ◽

2021 ◽

pp. 1-10

Author(s):

Kyana N. Pike ◽

Stephen Blake ◽

Freddy Cabrera ◽

Iain J. Gordon ◽

Lin Schwarzkopf

Keyword(s):

National Park ◽

Agricultural Land ◽

Large Male ◽

Gps Data ◽

Santa Cruz Island ◽

Santa Cruz ◽

Agricultural Areas ◽

On Farm ◽

Human Wildlife Conflict ◽

Privately Owned

Abstract As agricultural areas expand, interactions between wild animals and farmland are increasing. Understanding the nature of such interactions is vital to inform the management of human–wildlife coexistence. We investigated patterns of space use of two Critically Endangered Galapagos tortoise species, Chelonoidis porteri and Chelonoidis donfaustoi, on privately owned and agricultural land (hereafter farms) on Santa Cruz Island, where a human–wildlife conflict is emerging. We used GPS data from 45 tortoises tracked for up to 9 years, and data on farm characteristics, to identify factors that influence tortoise movement and habitat use in the agricultural zone. Sixty-nine per cent of tagged tortoises used the agricultural zone, where they remained for a mean of 150 days before returning to the national park. Large male tortoises were more likely to use farms for longer periods than female and smaller individuals. Tortoises were philopatric (mean overlap of farmland visits = 88.7 ± SE 2.9%), on average visiting four farms and occupying a mean seasonal range of 2.9 ± SE 0.3 ha. We discuss the characteristics of farm use by tortoises, and its implications for tortoise conservation and coexistence with people.

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Inferring time series chromatin states for promoter-enhancer pairs based on Hi-C data

BMC Genomics ◽

10.1186/s12864-021-07373-z ◽

2021 ◽

Vol 22 (1) ◽

Author(s):

Henriette Miko ◽

Yunjiang Qiu ◽

Bjoern Gaertner ◽

Maike Sander ◽

Uwe Ohler

Keyword(s):

Time Series ◽

Histone Modifications ◽

Gene Activation ◽

Expectation Maximization Algorithm ◽

Chromatin State ◽

Open Chromatin ◽

Multiple Time ◽

Enhancer Activity ◽

Chromatin States ◽

Multiple Time Points

Abstract Background Co-localized combinations of histone modifications (“chromatin states”) have been shown to correlate with promoter and enhancer activity. Changes in chromatin states over multiple time points (“chromatin state trajectories”) have previously been analyzed at promoter and enhancers separately. With the advent of time series Hi-C data it is now possible to connect promoters and enhancers and to analyze chromatin state trajectories at promoter-enhancer pairs. Results We present TimelessFlex, a framework for investigating chromatin state trajectories at promoters and enhancers and at promoter-enhancer pairs based on Hi-C information. TimelessFlex extends our previous approach Timeless, a Bayesian network for clustering multiple histone modification data sets at promoter and enhancer feature regions. We utilize time series ATAC-seq data measuring open chromatin to define promoters and enhancer candidates. We developed an expectation-maximization algorithm to assign promoters and enhancers to each other based on Hi-C interactions and jointly cluster their feature regions into paired chromatin state trajectories. We find jointly clustered promoter-enhancer pairs showing the same activation patterns on both sides but with a stronger trend at the enhancer side. While the promoter side remains accessible across the time series, the enhancer side becomes dynamically more open towards the gene activation time point. Promoter cluster patterns show strong correlations with gene expression signals, whereas Hi-C signals get only slightly stronger towards activation. The code of the framework is available at https://github.com/henriettemiko/TimelessFlex. Conclusions TimelessFlex clusters time series histone modifications at promoter-enhancer pairs based on Hi-C and it can identify distinct chromatin states at promoter and enhancer feature regions and their changes over time.

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Comprehensive characterization of 536 patient-derived xenograft models prioritizes candidates for targeted treatment

Nature Communications ◽

10.1038/s41467-021-25177-3 ◽

2021 ◽

Vol 12 (1) ◽

Cited By ~ 1

Author(s):

Hua Sun ◽

Song Cao ◽

R. Jay Mashl ◽

Chia-Kuei Mo ◽

Simone Zaccaria ◽

...

Keyword(s):

Human Tumors ◽

Multiple Time ◽

Cancer Treatments ◽

Whole Genome Duplications ◽

Patient Derived Xenograft ◽

Genome Duplications ◽

Genomic Characterization ◽

Cancer Types ◽

Multiple Time Points ◽

Pdx Models

AbstractDevelopment of candidate cancer treatments is a resource-intensive process, with the research community continuing to investigate options beyond static genomic characterization. Toward this goal, we have established the genomic landscapes of 536 patient-derived xenograft (PDX) models across 25 cancer types, together with mutation, copy number, fusion, transcriptomic profiles, and NCI-MATCH arms. Compared with human tumors, PDXs typically have higher purity and fit to investigate dynamic driver events and molecular properties via multiple time points from same case PDXs. Here, we report on dynamic genomic landscapes and pharmacogenomic associations, including associations between activating oncogenic events and drugs, correlations between whole-genome duplications and subclone events, and the potential PDX models for NCI-MATCH trials. Lastly, we provide a web portal having comprehensive pan-cancer PDX genomic profiles and source code to facilitate identification of more druggable events and further insights into PDXs’ recapitulation of human tumors.

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The “Intrinsic Value” of Cultural Heritage as Driver for Circular Human-Centered Adaptive Reuse

Sustainability ◽

10.3390/su13063231 ◽

2021 ◽

Vol 13 (6) ◽

pp. 3231

Author(s):

Luigi Fusco Girard ◽

Marilena Vecco

Keyword(s):

Cultural Heritage ◽

Intrinsic Value ◽

Investment Decision ◽

Adaptive Reuse ◽

Living Organism ◽

Integrated Approach ◽

Human Beings ◽

Model Concept ◽

Investment Decision Making ◽

Instrumental Values

By referring to the European Green Deal, this paper analyzes the “intrinsic value” of cultural heritage by investigating the human-centered adaptive reuse of this heritage. This implies questions such as how to improve the effectiveness of reuse, restoration, and valorization interventions on cultural heritage/landscapes and how to transform a cultural asset into a place, interpreted as a living ecosystem, to be managed as a living organism. The autopoietic characteristic of the eco-bio-systems, specifically focusing on the intrinsic versus instrumental values of cultural heritage ecosystem is discussed in detail. Specifically, the notion of complex social value is introduced to express the above integration. In ecology, the notion of intrinsic value (or “primary value”) relates to the recognition of a value that “pre-exists” any exploitation by human beings. The effectiveness of transforming a heritage asset into a living ecosystem is seen to follow from an integration of these two values. In this context, the paper provides an overview of the different applications of the business model concept in the circular economy, for a better investment decision-making and management in heritage adaptive reuse. Matera case is presented as an example of a cultural heritage ecosystem. To conclude, recommendations toward an integrated approach in managing the adaptive reuse of heritage ecosystem as a living organism are proposed.

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Polygenic Score for Smoking Is Associated With Externalizing Psychopathology and Disinhibited Personality Traits but Not Internalizing Psychopathology in Adolescence

Clinical Psychological Science ◽

10.1177/21677026211002117 ◽

2021 ◽

pp. 216770262110021

Author(s):

Brian M. Hicks ◽

D. Angus Clark ◽

Joseph D. Deak ◽

Mengzhen Liu ◽

C. Emily Durbin ◽

...

Keyword(s):

Personality Traits ◽

Behavioral Control ◽

Behavioral Disinhibition ◽

Multiple Time ◽

Normal Range ◽

Polygenic Score ◽

Externalizing Psychopathology ◽

Internalizing Psychopathology ◽

Multiple Time Points ◽

Related Personality

We examined whether a polygenic score (PGS) for smoking measured genetic risk for general behavioral disinhibition by estimating its associations with externalizing and internalizing psychopathology and related personality traits at multiple time points in adolescence (ages 11, 14, and 17 years; N = 3,225). The smoking PGS had strong associations with the stable variance across time for all the externalizing measures (mean standardized β = 0.27), agreeableness (β = −0.22, 95% confidence interval [CI] = [−0.28, −0.16]), and conscientiousness (β = −0.19, 95% CI = [−0.24, −0.13]) but was not significantly associated with internalizing measures (mean β = 0.06) or extraversion (β = 0.01, 95% CI = [−0.05, 0.07]). After controlling for smoking at age 17 years, the associations with externalizing, low agreeableness, and low conscientiousness remained statistically significant. The smoking PGS measures genetic influences that contribute to a spectrum of phenotypes related to behavioral disinhibition, including externalizing psychopathology and normal-range personality traits related to behavioral control but not internalizing psychopathology.

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