Using automated vegetation cover estimation from close-range photogrammetric point clouds to compare vegetation location properties in mountain terrain

In this paper we present a low-cost approach to mapping vegetation cover by means of high-resolution close-range terrestrial photogrammetry. A total of 249 clusters of nine 1 m2 plots each, arranged in a 3 × 3 grid, were set up on 18 summits in Mediterranean mountain regions and in the Alps to capture images for photogrammetric processing and in-situ vegetation cover estimates. This was done with a hand-held pole-mounted digital single-lens reflex (DSLR) camera. Low-growing vegetation was automatically segmented using high-resolution point clouds. For classifying vegetation we used a two-step semi-supervised Random Forest approach. First, we applied an expert-based rule set using the Excess Green index (ExG) to predefine non-vegetation and vegetation points. Second, we applied a Random Forest classifier to further enhance the classification of vegetation points using selected topographic parameters (elevation, slope, aspect, roughness, potential solar irradiation) and additional vegetation indices (Excess Green Minus Excess Red (ExGR) and the vegetation index VEG). For ground cover estimation the photogrammetric point clouds were meshed using Screened Poisson Reconstruction. The relative influence of the topographic parameters on the vegetation cover was determined with linear mixed-effects models (LMMs). Analysis of the LMMs revealed a high impact of elevation, aspect, solar irradiation, and standard deviation of slope. The presented approach goes beyond vegetation cover values based on conventional orthoimages and in-situ vegetation cover estimates from field surveys in that it is able to differentiate complete 3D surface areas, including overhangs, and can distinguish between vegetation-covered and other surfaces in an automated manner. The results of the Random Forest classification confirmed it as suitable for vegetation classification, but the relative feature importance values indicate that the classifier did not leverage the potential of the included topographic parameters. In contrast, our application of LMMs utilized the topographic parameters and was able to reveal dependencies in the two biomes, such as elevation and aspect, which were able to explain between 87% and 92.5% of variance

The marine isotope stage 1–5 cryptotephra record of Tenaghi Philippon, Greece:Towards a detailed tephrostratigraphic framework for the Eastern Mediterranean region

The iconic climate archive of Tenaghi Philippon (TP), NE Greece, allows the study of short-term palaeoclimatic and environmental change throughout the past 1.3 Ma. To provide high-quality age control for detailed palaeoclimate reconstructions based on the TP archive, (crypto)tephra studies of a peat core ‘TP-2005’ have been carried out for the 0–130 ka interval. The results show that the TP basin is ideally positioned to receive tephra fall from both the Italian and Aegean Arc volcanic provinces. Two visible tephra layers, the Santorini Cape Riva/Y-2 (c. 22 ka) and the Campanian Ignimbrite (CI)/Y-5 (c. 39.8 ka) tephras, and six primary cryptotephra layers, namely the early Holocene E1 tephra from the Aeolian Islands (c. 8.3 ka), the Campanian Y-3 (c. 29 ka) and X-6 tephras (c. 109.5 ka), as well as counterpart tephras TM-18-1d (c. 40.4 ka), TM-23-11 (c. 92.4 ka) and TM-33-1a (c. 116.7 ka) from the Lago Grande di Monticchio sequence (southern Italy), were identified along with repeatedly redeposited Y-2 and CI tephra material. Bayesian modelling of the ages of seven of the primary tephra layers, 60 radiocarbon measurements and 20 palynological control points have been applied to markedly improve the chronology of the TP archive. This revised chronology constrains the age of tephra TM-18-1d to 40.90–41.66 cal ka BP (95.4% range). Several tephra layers identified in the TP record form important isochrons for correlating this archive with other terrestrial (e.g., Lago Grande di Monticchio, Sulmona Basin and Lake Ohrid) and marine (e.g., Adriatic Sea core PRAD 1-2 and Aegean Sea core LC21) palaeoclimate records in the Mediterranean region

Using CIPP model to evaluate “NTUE 2012 Nepal Snowland school” service-learning project

In 2012, the department of Education, National Taipei University of Education (NTUE), conducted an oversea service-learning project to Nepal. The project was tied with two courses, i.e., Service-Learning Theory and Practice as well as International Education research. There were 9 university students (volunteer teachers) and 4 professors in the NTUE delegation. They served the 150 students of Snowland Ranag Light of Education School at Kathmandu, Nepal. This study aimed to use the CIPP model to evaluate the context, input, process and product of the project. Classroom observations, interviews questionnaires and document analysis were used to collect data following the triangulation principle. The research findings were as follows. 1. The context of the NTUE Nepal service-learning project includes the impact of low birth rate to NTUE, the high demand of international education in Taiwan, and the enhancement of pre- and in-service teacher’s affective domain. 2. The inputs include internal and external human resources in Taiwan and Nepal, funds from government and university, donated supplies collected by students. 3. The process includes the five phases of service-learning, with preparation from October, 2011 to August, 2012; service in the first two weeks of September, 2012; series of celebration activities in mid September at Snowland and autumn at NTUE; while reflection and evaluation phases throughout the entire process. 4. The product was evaluated according to the three instructional objectives, i.e., (1) to learn about Nepali culture and education, (2) to be able to teach Nepali 4th to 9th grade students mandarin Chinese and Taiwanese culture in English, and (3) to demonstrate affection to Snowland or Nepal. Based on the findings, recommendations were made to future practice and research

Ethnic differences in the association between blood pressure components and chronic kidney disease in middle aged and older Asian adults

10.1186/1471-2369-14-86BMC Nephrology141

Age-related transcriptional changes in gene expression in different organs of mice support the metabolic stability theory of aging

Individual differences in the rate of aging are determined by the efficiency with which an organism transforms resources into metabolic energy thus maintaining the homeostatic condition of its cells and tissues. This observation has been integrated with analytical studies of the metabolic process to derive the following principle: The metabolic stability of regulatory networks, that is the ability of cells to maintain stable concentrations of reactive oxygen species (ROS) and other critical metabolites is the prime determinant of life span. The metabolic stability of a regulatory network is determined by the diversity of the metabolic pathways or the degree of connectivity of genes in the network. These properties can be empirically evaluated in terms of transcriptional changes in gene expression. We use microarrays to investigate the age-dependence of transcriptional changes of genes in the insulin signaling, oxidative phosphorylation and glutathione metabolism pathways in mice. Our studies delineate age and tissue specific patterns of transcriptional changes which are consistent with the metabolic stability–longevity principle. This study, in addition, rejects the free radical hypothesis which postulates that the production rate of ROS, and not its stability, determines life span

Enhanced NFκB and AP-1 transcriptional activity associated with antiestrogen resistant breast cancer

BACKGROUND: Signaling pathways that converge on two different transcription factor complexes, NFκB and AP-1, have been identified in estrogen receptor (ER)-positive breast cancers resistant to the antiestrogen, tamoxifen. METHODS: Two cell line models of tamoxifen-resistant ER-positive breast cancer, MCF7/HER2 and BT474, showing increased AP-1 and NFκB DNA-binding and transcriptional activities, were studied to compare tamoxifen effects on NFκB and AP-1 regulated reporter genes relative to tamoxifen-sensitive MCF7 cells. The model cell lines were treated with the IKK inhibitor parthenolide (PA) or the proteasome inhibitor bortezomib (PS341), alone and in combination with tamoxifen. Expression microarray data available from 54 UCSF node-negative ER-positive breast cancer cases with known clinical outcome were used to search for potential genes signifying upregulated NFκB and AP-1 transcriptional activity in association with tamoxifen resistance. The association of these genes with patient outcome was further evaluated using node-negative ER-positive breast cancer cases identified from three other published data sets (Rotterdam, n = 209; Amsterdam, n = 68; Basel, n = 108), each having different patient age and adjuvant tamoxifen treatment characteristics. RESULTS: Doses of parthenolide and bortezomib capable of sensitizing the two endocrine resistant breast cancer models to tamoxifen were capable of suppressing NFκB and AP-1 regulated gene expression in combination with tamoxifen and also increased ER recruitment of the transcriptional co-repressor, NCoR. Transcript profiles from the UCSF breast cancer cases revealed three NFκB and AP-1 upregulated genes – cyclin D1, uPA and VEGF – capable of dichotomizing node-negative ER-positive cases into early and late relapsing subsets despite adjuvant tamoxfien therapy and most prognostic for younger age cases. Across the four independent sets of node-negative ER-positive breast cancer cases (UCSF, Rotterdam, Amsterdam, Basel), high expression of all three NFκB and AP-1 upregulated genes was associated with earliest metastatic relapse. CONCLUSION: Altogether, these findings implicate increased NFκB and AP-1 transcriptional responses with tamoxifen resistant breast cancer and early metastatic relapse, especially in younger patients. These findings also suggest that agents capable of preventing NFκB and AP-1 gene activation may prove useful in restoring the endocrine responsiveness of such high-risk ER-positive breast cancers

Decreased renal function in overweight and obese prepubertal children

BACKGROUND: Obesity is a potentially modifiable risk factor for the development and progression of kidney disease, both in adults and children. We aim to study the association of obesity and renal function in children, by comparing estimated glomerular filtration rate (eGFR) in nonoverweight and overweight/obese children. Secondarily, we aim to evaluate the accuracy of equations on eGFR estimation when compared to 24-h urinary creatinine clearance (CrCl). METHODS: Cross-sectional study of 313 children aged 8-9 y, followed in the birth cohort Generation XXI (Portugal). Creatinine and cystatin C, GFR estimated by several formulas and CrCl were compared in 163 nonoverweight and 150 overweight/obese, according to World Health Organization growth reference. RESULTS: Overweight/obese children had significantly lower eGFR, estimated by all methods, except for CrCl and revised Schwartz formula. Despite all children having renal function in the normal range, eGFR decreased significantly with BMI z-score (differences ranging from -4.3 to -1.1 ml/min/1.73 m(2) per standard deviation of BMI). The Zappitelli combined formula presented the closest performance to CrCl, with higher correlation coefficients and higher accuracy values. CONCLUSION: Young prepubertal children with overweight/obesity already present significantly lower GFR estimations that likely represent some degree of renal impairment associated with the complex deleterious effects of adiposity

NF-κB activation in inflammatory breast cancer is associated with oestrogen receptor downregulation, secondary to EGFR and/or ErbB2 overexpression and MAPK hyperactivation

Activation of NF-κB in inflammatory breast cancer (IBC) is associated with loss of estrogen receptor (ER) expression, indicating a potential crosstalk between NF-κB and ER. In this study, we examined the activation of NF-κB in IBC and non-IBC with respect to ER and EGFR and/or ErbB2 expression and MAPK hyperactivation. A qRT–PCR based ER signature was evaluated in tumours with and without transcriptionally active NF-κB, as well as correlated with the expression of eight NF-κB target genes. Using a combined ER/NF-κB signature, hierarchical clustering was executed. Hyperactivation of MAPK was investigated using a recently described MAPK signature (Creighton et al, 2006), and was linked to tumour phenotype, ER and EGFR and/or ErbB2 overexpression. The expression of most ER-modulated genes was significantly elevated in breast tumours without transcriptionally active NF-κB. In addition, the expression of most ER-modulated genes was significantly anticorrelated with the expression of most NF-κB target genes, indicating an inverse correlation between ER and NF-κB activation. Clustering using the combined ER and NF-κB signature revealed one cluster mainly characterised by low NF-κB target gene expression and a second one with elevated NF-κB target gene expression. The first cluster was mainly characterised by non-IBC specimens and IHC ER+ breast tumours (13 out of 18 and 15 out of 18 respectively), whereas the second cluster was mainly characterised by IBC specimens and IHC ER− breast tumours (12 out of 19 and 15 out of 19 respectively) (Pearson χ2, P<0.0001 and P<0.0001 respectively). Hyperactivation of MAPK was associated with both ER status and tumour phenotype by unsupervised hierarchical clustering using the MAPK signature and was significantly reflected by overexpression of EGFR and/or ErbB2. NF-κB activation is linked to loss of ER expression and activation in IBC and in breast cancer in general. The inverse correlation between NF-κB activation and ER activation is due to EGFR and/or ErbB2 overexpression, resulting in NF-κB activation and ER downregulation