Life cycle inventory dataset review criteria—a new proposal

Purpose

A review of LCA process datasets is an important element of quality assurance for databases and for other systems to provide LCA datasets. Somewhat surprisingly, a broadly accepted and applicable set of criteria for a review of LCA process datasets was lacking so far. Different LCA databases and frameworks are proposing and using different criteria for reviewing datasets. To close this gap, a set of criteria for reviewing LCA dataset has been developed within the Life Cycle Initiative.

Methods

Previous contributions to LCA dataset review have been analysed for a start, from ISO and various LCA databases. To avoid somewhat arbitrary review criteria, four basic rules are proposed which are to be fulfilled by any dataset. Further, concepts for assessing representativeness and relevance are introduced into the criteria set from established practices in statistics and materiality. To better structure the criteria and to ease their application, they are grouped into clusters. A first version of the developed review criteria was presented in two workshops with database providers and users on different levels of experience, and draft versions of the criteria were shared within the initiative. The current version of the criteria reflects feedback received from various stakeholders and has been applied and tested in a review for newly developed datasets in Brazil, Malaysia and Thailand.

Results and discussion

Overall, 14 criteria are proposed, which are organised in clusters. The clusters are goal, model, value, relevance and procedure. For several criteria, a more science-based definition and evaluation is proposed in comparison to ‘traditional’ LCA. While most of the criteria depend on the goal and scope of dataset development, a core set of criteria are seen as essential and independent from specific LCA modelling. For all the criteria, value scales are developed, typically using an ordinal scale, following the pedigree approach.

Conclusions

Review criteria for LCI datasets are now defined based on a stringent approach. They aim to be globally acceptable, considering also database interoperability and database management aspects, as well as feedback received from various stakeholders, and thus close an important gap in LCA dataset quality assurance. The criteria take many elements of already existing criteria but are the first to fully reflect the implications of the ISO data quality definition, and add new concepts for representativeness and relevance with the idea to better reflect scientific practice outside of the LCA domain. A first application in a review showed to be feasible, with a level of effort similar to applying other review criteria. Aspects not addressed yet are the review procedure and the mutual recognition of dataset reviews, and their application for a very high number of datasets.

     

Predicting protein–protein interactions from sequence using correlation coefficient and high-quality interaction dataset

Identifying protein–protein interactions (PPIs) is critical for understanding the cellular function of the proteins and the machinery of a proteome. Data of PPIs derived from high-throughput technologies are often incomplete and noisy. Therefore, it is important to develop computational methods and high-quality interaction dataset for predicting PPIs. A sequence-based method is proposed by combining correlation coefficient (CC) transformation and support vector machine (SVM). CC transformation not only adequately considers the neighboring effect of protein sequence but describes the level of CC between two protein sequences. A gold standard positives (interacting) dataset MIPS Core and a gold standard negatives (non-interacting) dataset GO-NEG of yeast Saccharomyces cerevisiae were mined to objectively evaluate the above method and attenuate the bias. The SVM model combined with CC transformation yielded the best performance with a high accuracy of 87.94% using gold standard positives and gold standard negatives datasets. The source code of MATLAB and the datasets are available on request under smgsmg@mail.ustc.edu.cn.     

Chlorophyll–nutrient relationships of different lake types using a large European dataset

In Europe there is a renewed focus on relationships between chemical determinands and ecological impact as a result of the Water Framework Directive (WFD). In this paper we use regression analysis to examine the relationship of growing season mean chlorophyll a concentration with total phosphorus and total nitrogen using summary data from over 1,000 European lakes. For analysis, lakes were grouped into types with three categories of mean depth, alkalinity and humic content. The lakes were also divided into broad geographic regions covering Atlantic, Northern, Central/Baltic and for some types the Mediterranean areas of Europe. Chlorophyll a was found to be significantly related to both total phosphorus and total nitrogen, although total phosphorus was almost always found to be the best predictor of chlorophyll. Different nutrient chlorophyll relationships were found for lakes according to mean depth and alkalinity, although no significant effect of geographic region or humic content was found for the majority of lake types. We identified three groups of lakes with significantly different responses. Deep lakes had the lowest yield of chlorophyll per unit of nutrient, low and moderate alkalinity shallow lakes the highest and high alkalinity lakes were intermediate. We recommend that the regression models provided for these three lake groups should be used for lake management in Europe and discuss the limitations of such models.     

Old fold in a new X‐ray diffraction dataset? Low‐resolution molecular replacement using representative structural templates can provide phase information

The advent of structural genomics has led to a dramatic increase in the number of structures deposited in the Protein Data Bank. The number of new folds, however, still remains a very small fraction of the total number of deposited structures. Recent data on the progress of the structural genomics initiative reveals that more than 85% of target proteins that progress to the stage of data collection and structure determination have a known fold. Enzymes, which tend to exploit reaction space while adopting a common stable scaffold, contribute significantly to this observation. Herein, we evaluate a method to examine the "old fold in a new dataset" scenario likely to be encountered in the structural genomics pipeline. We demonstrate that a fold detection strategy based on secondary structure signatures followed by molecular replacement using a minimalist model can be effectively used to solve the phase problem in X-ray crystallography without further recourse to heavy atom derivatives or multiple anomalous dispersion techniques. Three common folds-the triosephosphate isomerase (TIM), adenine nucleotide alpha hydrolase-like (HUP), and RNA recognition motif (RRM)-were examined using this approach. The results presented herein also provide an estimate of the extent of phase information that can be derived from a single domain in a large multidomain structure.     

How does marriage affect length of life? Analysis of a French historical dataset from an evolutionary perspective

There are broadly two explanations for why human longevity appears to be extended by marriage. First, there is the social explanation, whereby the companionship, division of labour and the economic support that marriage offers is thought to extend life. Second, there is a selective explanation, whereby those individuals with high potential longevity are more attractive to the opposite sex and therefore more likely to get married. Here we analyse the “TRA” dataset from 19th century France, using an evolutionary approach to address the question of why marriage is linked to longevity, focussing particularly on sex differences. The dataset is based on death and marriage records from all of France between 1798 and 1901 and includes information on age at death, marriage and wealth for individuals whose surnames began with the letters TRA. We find that marriage is positively associated with longevity, particularly for men. In part, this is related to the higher rate of deaths for single males during marriageable age, as compared to a higher rate of deaths for females during marriage. There is a positive association between wealth (at death) and longevity for individuals who were single or married at death, with a stronger effect for singles. Analysis of the effect of spousal age gap on duration of survival after first marriage indicates that men who were married to younger women lived longer, whereas the longevity of women was not associated with the spousal age gap. We put forward an evolutionary perspective on marriage and longevity, hypothesizing that there is an important role for sexual selection in the association between marriage and longevity, with women selecting on characteristics associated with longevity, whilst men select on characteristics associated with reproductive potential.     

Assessing the value of the Garden Moth Scheme citizen science dataset: how does light trap type affect catch?

Done well, citizen science projects can gather datasets of a size and scope far larger than would be possible using professional researchers. This study uses data gathered in Britain by the Garden Moth Scheme (GMS). Participants run garden light traps for at least 26 weeks a year and complete garden questionnaires detailing garden habitat and nearby landscape features. We used data exploration and generalised linear modelling (GLM) to investigate whether the data can be used to generate reliable research findings, testing the effect of moth light trap type on moth catch. Robinson traps, then Skinner traps, then Heath traps were found to catch the highest abundance and diversity of moths. Mercury vapour bulbs, then blended light bulbs, then actinic bulbs collected the highest abundance and diversity of moths. The GMS dataset can be used to generate useful and reliable research findings, and can be used in the future to investigate temporal and spatial trends in moth assemblage. Under international law, the use of mercury vapour bulbs will be phased out in coming years, leading to changes in the way moth assemblages are sampled. Information on the relative efficacy of different bulb types will aid the analysis of long‐term moth datasets after these changes.     

A Tenebrionid beetle’s dataset (Coleoptera,Tenebrionidae) from Peninsula Valdés (Chubut,?Argentina)

The Natural Protected Area Peninsula Valdés, located in Northeastern Patagonia, is one of the largest conservation units of arid lands in Argentina. Although this area has been in the UNESCO World Heritage List since 1999, it has been continually exposed to sheep grazing and cattle farming for more than a century which have had a negative impact on the local environment. Our aim is to describe the first dataset of tenebrionid beetle species living in Peninsula Valdés and their relationship to sheep grazing. The dataset contains 118 records on 11 species and 198 adult individuals collected. Beetles were collected using pitfall traps in the two major environmental units of Peninsula Valdés, taking into account grazing intensities over a three year time frame from 2005–2007. The Data quality was enhanced following the best practices suggested in the literature during the digitalization and geo-referencing processes. Moreover, identification of specimens and current accurate spelling of scientific names were reviewed. Finally, post-validation processes using DarwinTest software were applied. Specimens have been deposited at Entomological Collection of the Centro Nacional Patagónico (CENPAT-CONICET). The dataset is part of the database of this collection and has been published on the internet through GBIF Integrated Publishing Toolkit (IPT) (http://data.gbif.org/datasets/resource/14669/). Furthermore, it is the first dataset for tenebrionid beetles of arid Patagonia available in GBIF database, and it is the first one based on a previously designed and standardized sampling to assess the interaction between these beetles and grazing in the area. The main purposes of this dataset are to ensure accessibility to data associated with Tenebrionidae specimens from Peninsula Valdés (Chubut, Argentina), also to contribute to GBIF with primary data about Patagonian tenebrionids and finally, to promote the Entomological Collection of Centro Nacional Patagónico (CENPAT-CONICET) and its associated biodiversity data. For these reasons, we believe that this information will certainly be useful for future faunistic, ecological, conservational and biogeographical studies.     

Does Help in Decision-Making in Biology Help in Decision-Making in Human Sciences and Conversely?

A link between biological and human sciences may be established, under the condition that we should admit the existence of reciprocal influences between them. The model for the regulation of agonistic antagonistic couples (MRAAC) is built from the study of biological systems and gives rise to specific types of control. This model can be helpful in decision processes in some human sciences such as management, economical and political strategies. The reason for such an opportunity lies in the fact that MRAAC is a general and phenomenological model able to incorporate the whole of the agonistic antagonistic systems. This type of regulation might be related to the concept of the viability of a system (yet also valid for human science systems) and to a functional and structural pattern which is the basis for agonistic antagonistic networks.     

Calcium signaling in pancreatic β-cells in health and in Type 2 diabetes

Changes in cytosolic free Ca²⁺ concentration ([Ca²⁺]_c) play a crucial role in the control of insulin secretion from the electrically excitable pancreatic β-cell. Secretion is controlled by the finely tuned balance between Ca²⁺ influx (mainly through voltage-dependent Ca²⁺ channels, but also through voltage-independent Ca²⁺ channels like store-operated channels) and efflux pathways. Changes in [Ca²⁺]_c directly affect [Ca²⁺] in various organelles including the endoplasmic reticulum (ER), mitochondria, the Golgi apparatus, secretory granules and lysosomes, as imaged using recombinant targeted probes. Because most of these organelles have specific Ca²⁺ influx and efflux pathways, they mutually influence free [Ca²⁺] in the others. In this article, we review the mechanisms of control of [Ca²⁺] in various compartments and particularly the cytosol, the endoplasmic reticulum ([Ca²⁺]_ER), acidic stores and mitochondrial matrix ([Ca²⁺]_mito), focusing chiefly on the most important physiological stimulus of β-cells, glucose. We also briefly review some alterations of β-cell Ca²⁺ homeostasis in Type 2 diabetes.     

Sex-associated difference in estrogen receptor β expression in N-methyl-N'-nitro-N-nitrosoguanidine-induced gastric cancers in rats

Epidemiologic studies indicate that the incidence of gastric cancer is higher in males than in females. Although the mechanisms mediating this difference are unclear, a role for estrogens has been proposed. We used Western blotting to evaluate the role of estrogen receptor (ER) subtypes ERα and ERβ and proliferating cell nuclear antigen (PCNA) in N-methyl-N'-nitro-N-nitrosoguanidine (MNNG)-induced gastric carcinogenesis in Wistar rats; ERα and ERβ mRNA levels also were analyzed by quantitative real-time RT-PCR analysis. The incidence of gastric cancer was significantly higher in male than female rats. In both sexes, ERα expression was similar in MNNG-treated cancerous and noncancerous tissues and normal gastric tissue. However, ERβ expression in MNNG-treated cancerous and noncancerous tissues was significantly lower in male rats and higher in female rats than that in normal gastric tissue; MNNG-induced cancerous tissue showed the highest ERβ expression. PCNA expression in MNNG-treated cancerous tissues was higher than that in noncancerous tissues, and was higher in male rats than female rats. Western blotting results were consistent with the mRNA changes determined by quantitative real-time RT-PCR. The present study provides evidence of a sex-associated difference in ERβ and PCNA expression in MNNG-induced gastric cancers in Wistar rats.     

Variation in Ambrosia pollen concentration in Southern and Central Poland in 1982–1999

The aim of the study was to investigate theAmbrosia pollen concentrations inselected Polish cities and for Kraków torelate it to some meteorological factors.Sampling was carried out in Kraków in1982–1997 and in Rabka in 1992–1996 with theuse of the gravimetric method. In Zakopane,Kraków, Ostrowiec witokrzyski,Warszawa and Pozna in 1995–1996 both thegravimetric and volumetric methods (Burkardtrap) were employed. In Kraków themonitoring has been performed since 1994 usingthe volumetric method. The results show theragweed pollen presence in August and Septemberwith the tendency to appear more frequently inAugust in some years. In Kraków (1994–1999)Ambrosia pollen was found either in thelast two weeks of August or in the first twoweeks of September which seems to be a regularand repeatable pattern every two years.Seasonal fluctuations of Ambrosia pollenconcentration do not show a clear increasingtendency except at Warszawa and Ostrowiecwitokrzyski in 1996 and at Krakówin 1999. Percentage of Ambrosia pollen inannual sums of total pollen is very low anddoes not exceed 1% except at Ostrowiecwitokrzyski in 1996 (1.2%) and atKraków in 1999 (2%). For Kraków theanalysis of some meteorological factors (Tmax,Tmin, precipitation, wind direction) wasperformed. High temperature and lack of rain orlow precipitation correlate well with ragweedpollen concentrations. During the Ambrosia pollen seasons ESE, E, S, SE, WSW, SWwind directions prevailed which could suggest along-distance transport from Ukraine, the CzechRepublic, Slovakia and also from Hungary, one ofthe most ragweed-polluted countries.     

Interindividual human variation in cisplatinum sensitivity,predictable in an in vitro assay?

Cisplatinum [cis-diamminedichloroplatinum(II)] is one of the most active antitumour agents and its effect is mainly due to the formation of cisplatinum-DNA crosslinks. Formation of cisplatinum-DNA intrastrand crosslinks in nucleated white blood cells of patients was measured, both in (pretreatment) samples exposed in vitro and in cells collected immediately after in vivo exposure to cisplatinum. Large interpatient variations were found. The in vitro results showed a linear correlation with the in vivo data (cc=0.91). The in vitro measurements of crosslinks may allow prediction of response and avoidance of toxicity in individual patients.     

Interindividual human variation in cisplatinum sensitivity, predictable in an in vitro assay?

Cisplatinum [cis-diamminedichloroplatinum(II)] is one of the most active antitumour agents and its effect is mainly due to the formation of cisplatinum-DNA crosslinks. Formation of cisplatinum-DNA intrastrand crosslinks in nucleated white blood cells of patients was measured, both in (pretreatment) samples exposed in vitro and in cells collected immediately after in vivo exposure to cisplatinum. Large interpatient variations were found. The in vitro results showed a linear correlation with the in vivo data (cc = 0.91). The in vitro measurements of crosslinks may allow prediction of response and avoidance of toxicity in individual patients.     

Does variation in morphology correspond with variation in habitat use in freshwater gastropods?

We tested if variations (i.e., breadth) in morphology and habitat use vary predictably among six aquatic gastropod species that were collected across Indiana and Illinois, USA. We predicted that interspecific morphological variation would positively covary with variation in habitat use among species. We used geometric morphometrics (Procrustes technique and relative warp analysis) to quantify morphology and multivariate analyses (PCA) to quantify habitat. Increased morphological breadth did not vary predictably with increased habitat breadth. However, we found that life history traits correspond with patterns in morphological and habitat breadth for these six aquatic gastropods. Pulmonate gastropods (use lungs for respiration) that lack an operculum cover exhibited decreased morphological breadth compared to coenogastropods (use gills for respiration). This pattern may ultimately be a function of behavioral adaptations in freshwater gastropods. Gastropods that are capable of breathing air or using other behavioral modifications such as burrowing to escape predators may not require high morphological breadth. Conversely, selection may favor higher morphological breadth in gastropods with gills that also do not move out of the water column to escape predators.     

Are changes in maximal squat strength during preseason training reflected in changes in sprint performance in rugby league players?

Because previous research has shown a relationship between maximal squat strength and sprint performance, this study aimed to determine if changes in maximal squat strength were reflected in sprint performance. Nineteen professional rugby league players (height = 1.84 ± 0.06 m, body mass [BM] = 96.2 ± 11.11 kg, 1 repetition maximum [1RM] = 170.6 ± 21.4 kg, 1RM/BM = 1.78 ± 0.27) conducted 1RM squat and sprint tests (5, 10, and 20 m) before and immediately after 8 weeks of preseason strength (4-week Mesocycle) and power (4-week Mesocycle) training. Both absolute and relative squat strength values showed significant increases after the training period (pre: 170.6 ± 21.4 kg, post: 200.8 ± 19.0 kg, p < 0.001; 1RM/BM pre: 1.78 ± 0.27 kg·kg(-1), post: 2.05 ± 0.21 kg·kg(-1), p < 0.001; respectively), which was reflected in the significantly faster sprint performances over 5 m (pre: 1.05 ± 0.06 seconds, post: 0.97 ± 0.05 seconds, p < 0.001), 10 m (pre: 1.78 ± 0.07 seconds, post: 1.65 ± 0.08 seconds, p < 0.001), and 20 m (pre: 3.03 ± 0.09 seconds, post: 2.85 ± 0.11 seconds, p < 0.001) posttraining. Whether the improvements in sprint performance came as a direct consequence of increased strength or whether both are a function of the strength and power mesocycles incorporated into the players' preseason training is unclear. It is likely that the increased force production, noted via the increased squat performance, contributed to the improved sprint performances. To increase short sprint performance, athletes should, therefore, consider increasing maximal strength via the back squat.     

Exercise early in life in rats born small does not normalize reductions in skeletal muscle PGC-1α in adulthood

We have previously shown that 4 wk of exercise training early in life normalizes the otherwise greatly reduced pancreatic β-cell mass in adult male rats born small. The aim of the current study was to determine whether a similar normalization in adulthood of reduced skeletal muscle mitochondrial biogenesis markers and alterations in skeletal muscle lipids of growth-restricted male rats occurs following early exercise training. Bilateral uterine vessel ligation performed on day 18 of gestation resulted in Restricted offspring born small (P < 0.05) compared with both sham-operated Controls and a sham-operated Reduced litter group. Offspring remained sedentary or underwent treadmill running from 5-9 (early exercise) or 20-24 (later exercise) wk of age. At 24 wk of age, Restricted and Reduced litter offspring had lower (P < 0.05) skeletal muscle peroxisome proliferator-activated receptor γ coactivator-1α (PGC-1α) protein expression compared with Control offspring. Early exercise training had the expected effect of increasing skeletal muscle markers of mitochondrial biogenesis, but, at this early age (9 wk), there was no deficit in Restricted and Reduced litter skeletal muscle mitochondrial biogenesis. Unlike our previous observations in pancreatic β-cell mass, there was no "reprogramming" effect of early exercise on adult skeletal muscle such that PGC-1α was lower in adult Restricted and Reduced litter offspring irrespective of exercise training. Later exercise training increased mitochondrial biogenesis in all groups. In conclusion, although the response to exercise training remains intact, early exercise training in rats born small does not have a reprogramming effect to prevent deficits in skeletal muscle markers of mitochondrial biogenesis in adulthood.     

Species richness and floristic composition in four hectares in the Jaú National Park in upland forests in Central Amazonia

Four hectares were inventoried for all trees with diameter at breast height (DBH) of 10cm or greater in a terra firme forest 200km Northeast of Manaus, Central Amazonia. The number of species varied from 137 to 168, the number of individuals from 639 to 713, total basal area from 32.8 to 40.2 and total biomass from 405 to 560 tons per hectare. The majority of trees, 90%, had a DBH between 10 and 30 cm. Leguminosae, Lauraceae, Sapotaceae, Chrysobalanaceae and Moraceae were the most rich families (number of species) in all sampled hectares. The most abundant families in all sampled hectares (number of trees) were Leguminosae, Burseraceae, Myristicaceae, Moraceae and Chrysobalanaceae. The most dominant families in all sampled hectares (basal area and biomass) were Leguminosae, Lecythidaceae, Chrysobalanaceae, Bombacaceae and Moraceae. Similarity indexes at family level varied from 67 to 86% between the four hectares sampled. Alexa grandiflora (Leguminosae) was the most abundant species in the hectares one and three, while Scleronema micranthum (Bombacaceae), and Oenocarpus bacaba (Palmae) were the most abundant species in hectares two and four. S. micranthum was the most dominant species (basal area) in hectares one and two, while Bertholletia excelsa (Lecythidaceae) and Goupia glabra (Celastraceae) were the most dominant species in hectares three and four. S. micranthum (Bombacaceae), Buchenavia sp. 2 (Combretaceae), B. excelsa (Lecythidaceae) Couepia obovata (Chrysobalanaceae) were the most dominant species (biomass) in hectares one to four, respectively. Similarity indexes at species level varied from 26 to 44% between the four sampled hectares. This inventory is compared with previous studies and it was found that, in our study area, there was a greater proportion of trees of 60cm diameter or more and consequently a considerably higher total basal area. It is concluded that there are still an inadequate number of inventories of Amazonian terra firme forests to elucidate the major floristic pattern a both regional and local levels. Since the area is a mosaic of distinct floristic communities it is essential to obtain further standardized inventory data in order to set adequate conservation policies for the region.     

β-adrenergic modulation of in vivo long-term potentiation in area CA1 and its role in spatial learning in rats

The hippocampus plays a key role in declarative learning and memory [1]. Hippocampal long-term potentiation (LTP) is a type of synaptic plasticity that has been widely studied as a syn-aptic mechanism underlying learning and memory[27]. It has been reported that in vitro LTP in area CA1 is subjected to b-adrenergic modulation. For example, the theta-pulse stimulation (510 Hz), a neutral frequency not modifying synaptic strength, can elicit a robust LTP in area CA1 in slice when the b-adr…