Implications of reduced stand density on tree growth and drought susceptibility: A study of three species under varying climate

Producción CientíficaA higher frequency of increasingly severe droughts highlights the need for short-term measures to adapt existing forests to climate change. The maintenance of reduced stand densities has been proposed as a promising silvicultural tool for mitigating drought stress. However, the relationship between stand density and tree drought susceptibility remains poorly understood, especially across ecological gradients. Here, we analysed the effect of reduced stand density on tree growth and growth sensitivity, as well as on short-term drought responses (resistance, recovery, and resilience) of Scots pine (Pinus sylvestris L.), sessile oak (Quercus petraea (Matt.) Liebl.), and ponderosa pine (Pinus ponderosa Douglas ex C. Lawson). Tree ring series from 409 trees, growing in stands of varying stand density, were analysed at sites with different water availability. For all species, mean tree growth was significantly higher under low compared with maximum stand density. Mean tree growth sensitivity of Scots pine was significantly higher under low compared with moderate and maximum stand density, while growth sensitivity of ponderosa pine peaked under maximum stand density. Recovery and resilience of Scots pine, as well as recovery of sessile oak and ponderosa pine, decreased with increasing stand density. In contrast, resistance and resilience of ponderosa pine significantly increased with increasing stand density. Higher site water availability was associated with significantly reduced drought response indices of Scots pine and sessile oak in general, except for resistance of oak. In ponderosa pine, higher site water availability significantly lessened recovery. Higher site water availability significantly moderated the positive effect of reduced stand density on drought responses. Stand age had a significantly positive effect on the resistance of Scots pine and a negative effect on recovery of sessile oak. We discuss potential causes for the observed response patterns, derive implications for adaptive forest management, and make recommendations for further research in this field.Eva Mayr-Stihl Stiftung (170124)ERANet SUMFOREST project REFORM- AEI (PCIN-2017-026)German Federal Ministry of Food and Agriculture (2816ERA02S

Invasibility of three major non-native invasive shrubs and associated factors in Upper Midwest U.S. forest lands

We used non-native invasive plant data from the US Forest Service’s Forest Inventory and Analysis (FIA) program, spatial statistical methods, and the space (cover class)-for-time approach to quantify the invasion potential and success (‘‘invasibility”) of three major invasive shrubs (multiflora rose, non-native bush honeysuckles, and common buckthorn) in broadly classified forest-type groups in seven Upper Midwest states. Smoothed maps of presence and cover percent showed a strong clustering pattern for all three invasive shrubs despite their different ranges. The species are clustered around major cities or urban areas (e.g., Chicago, Illinois, and Des Moines, Iowa), indicating the potential role humans played in their invasion and spread on the landscape and throughout the Midwest. Conditional inference tree (ctree) models further quantified the significant factors contributing to the observed regional patterns: for distribution of multiflora rose, percentage of forest cover in the county (measuring human disturbance intensity) and stand density index; for distribution of common buckthorn, distance to major highways. Non-native bush honeysuckles were not associated with any disturbance and site/stand variables except for latitude and longitude. The infested FIA plots by cover class were positively associated in space, signifying a concentric-like spread trend from previously infested sites (hot spots) to surrounding areas. By forest-type groups or as a whole, the three species spread slowly at earlier stages, but recently have increased significantly in presence/ expansion. Oak/hickory and elm/ash/cottonwood forests were more susceptible to the three invasive shrubs compared to other forests. We recommend that resource managers and planners prescribe control and mitigation treatments for non-native invasive plants by forest types and spatial locations close to highways and residences

Invasibility of three major non-native invasive shrubs and associated factors in Upper Midwest U.S. forest lands

We used non-native invasive plant data from the US Forest Service’s Forest Inventory and Analysis (FIA) program, spatial statistical methods, and the space (cover class)-for-time approach to quantify the invasion potential and success (‘‘invasibility”) of three major invasive shrubs (multiflora rose, non-native bush honeysuckles, and common buckthorn) in broadly classified forest-type groups in seven Upper Midwest states. Smoothed maps of presence and cover percent showed a strong clustering pattern for all three invasive shrubs despite their different ranges. The species are clustered around major cities or urban areas (e.g., Chicago, Illinois, and Des Moines, Iowa), indicating the potential role humans played in their invasion and spread on the landscape and throughout the Midwest. Conditional inference tree (ctree) models further quantified the significant factors contributing to the observed regional patterns: for distribution of multiflora rose, percentage of forest cover in the county (measuring human disturbance intensity) and stand density index; for distribution of common buckthorn, distance to major highways. Non-native bush honeysuckles were not associated with any disturbance and site/stand variables except for latitude and longitude. The infested FIA plots by cover class were positively associated in space, signifying a concentric-like spread trend from previously infested sites (hot spots) to surrounding areas. By forest-type groups or as a whole, the three species spread slowly at earlier stages, but recently have increased significantly in presence/ expansion. Oak/hickory and elm/ash/cottonwood forests were more susceptible to the three invasive shrubs compared to other forests. We recommend that resource managers and planners prescribe control and mitigation treatments for non-native invasive plants by forest types and spatial locations close to highways and residences

Five anthropogenic factors that will radically alter forest conditions and management needs in the Northern United States

The Northern United States includes the 20 states bounded by Maine, Maryland, Missouri, and Minnesota. With 70 million ha of forestland and 124 million people, it is the most densely forested (42% of land area) and most densely populated (74 people/km2) quadrant of the United States. Three recent, large-scale, multiresource assessments of forest conditions provide insight about trends and issues in the North, and collectively these and other supporting documents highlight factors that will be extraordinarily influential in large-scale northern forest management needs over the next 50 years. This review article discusses five of those factors: (1) northern forests lack age-class diversity and will uniformly grow old without management interventions or natural disturbances, (2) the area of forestland in the North will decrease as a consequence of expanding urban areas, (3) invasive species will alter forest density, diversity, and function, (4) management intensity for timber is low in northern forests and likely to remain so, and (5) management for nontimber objectives will gain relevance but will be challenging to implement. Suggested actions to address these factors include the following: develop quantifiable state and regional goals for forest diversity, understand the spatial and structural impacts of urban expansion on forests, develop symbiotic relationships among forest owners, forest managers, forest industry and the other stakeholders to support contemporary conservation goals, and work to understand the many dimensions of forest change. In the next several decades, climate change seems unlikely to overwhelm or negate any of the five factors discussed in this article; rather it will add another complicating dimension.Natural Resource Ecology and Managemen

Decadal changes in fire frequencies shift tree communities and functional traits

Global change has resulted in chronic shifts in fire regimes. Variability in the sensitivity of tree communities to multi-decadal changes in fire regimes is critical to anticipating shifts in ecosystem structure and function, yet remains poorly understood. Here, we address the overall effects of fire on tree communities and the factors controlling their sensitivity in 29 sites that experienced multi-decadal alterations in fire frequencies in savanna and forest ecosystems across tropical and temperate regions. Fire had a strong overall effect on tree communities, with an average fire frequency (one fire every three years) reducing stem density by 48% and basal area by 53% after 50 years, relative to unburned plots. The largest changes occurred in savanna ecosystems and in sites with strong wet seasons or strong dry seasons, pointing to fire characteristics and species composition as important. Analyses of functional traits highlighted the impact of fire-driven changes in soil nutrients because frequent burning favoured trees with low biomass nitrogen and phosphorus content, and with more efficient nitrogen acquisition through ectomycorrhizal symbioses. Taken together, the response of trees to altered fire frequencies depends both on climatic and vegetation determinants of fire behaviour and tree growth, and the coupling between fire-driven nutrient losses and plant traits

Genomic, Pathway Network, and Immunologic Features Distinguishing Squamous Carcinomas

This integrated, multiplatform PanCancer Atlas study co-mapped and identified distinguishing molecular features of squamous cell carcinomas (SCCs) from five sites associated with smokin

Pan-Cancer Analysis of lncRNA Regulation Supports Their Targeting of Cancer Genes in Each Tumor Context

Long noncoding RNAs (lncRNAs) are commonly dys-regulated in tumors, but only a handful are known toplay pathophysiological roles in cancer. We inferredlncRNAs that dysregulate cancer pathways, onco-genes, and tumor suppressors (cancer genes) bymodeling their effects on the activity of transcriptionfactors, RNA-binding proteins, and microRNAs in5,185 TCGA tumors and 1,019 ENCODE assays.Our predictions included hundreds of candidateonco- and tumor-suppressor lncRNAs (cancerlncRNAs) whose somatic alterations account for thedysregulation of dozens of cancer genes and path-ways in each of 14 tumor contexts. To demonstrateproof of concept, we showed that perturbations tar-geting OIP5-AS1 (an inferred tumor suppressor) andTUG1 and WT1-AS (inferred onco-lncRNAs) dysre-gulated cancer genes and altered proliferation ofbreast and gynecologic cancer cells. Our analysis in-dicates that, although most lncRNAs are dysregu-lated in a tumor-specific manner, some, includingOIP5-AS1, TUG1, NEAT1, MEG3, and TSIX, synergis-tically dysregulate cancer pathways in multiple tumorcontexts

Pan-cancer Alterations of the MYC Oncogene and Its Proximal Network across the Cancer Genome Atlas

Although theMYConcogene has been implicated incancer, a systematic assessment of alterations ofMYC, related transcription factors, and co-regulatoryproteins, forming the proximal MYC network (PMN),across human cancers is lacking. Using computa-tional approaches, we define genomic and proteo-mic features associated with MYC and the PMNacross the 33 cancers of The Cancer Genome Atlas.Pan-cancer, 28% of all samples had at least one ofthe MYC paralogs amplified. In contrast, the MYCantagonists MGA and MNT were the most frequentlymutated or deleted members, proposing a roleas tumor suppressors.MYCalterations were mutu-ally exclusive withPIK3CA,PTEN,APC,orBRAFalterations, suggesting that MYC is a distinct onco-genic driver. Expression analysis revealed MYC-associated pathways in tumor subtypes, such asimmune response and growth factor signaling; chro-matin, translation, and DNA replication/repair wereconserved pan-cancer. This analysis reveals insightsinto MYC biology and is a reference for biomarkersand therapeutics for cancers with alterations ofMYC or the PMN

Spatial Organization and Molecular Correlation of Tumor-Infiltrating Lymphocytes Using Deep Learning on Pathology Images

Beyond sample curation and basic pathologic characterization, the digitized H&E-stained images of TCGA samples remain underutilized. To highlight this resource, we present mappings of tumorinfiltrating lymphocytes (TILs) based on H&E images from 13 TCGA tumor types. These TIL maps are derived through computational staining using a convolutional neural network trained to classify patches of images. Affinity propagation revealed local spatial structure in TIL patterns and correlation with overall survival. TIL map structural patterns were grouped using standard histopathological parameters. These patterns are enriched in particular T cell subpopulations derived from molecular measures. TIL densities and spatial structure were differentially enriched among tumor types, immune subtypes, and tumor molecular subtypes, implying that spatial infiltrate state could reflect particular tumor cell aberration states. Obtaining spatial lymphocytic patterns linked to the rich genomic characterization of TCGA samples demonstrates one use for the TCGA image archives with insights into the tumor-immune microenvironment