FAIR research data management as community approach in bioengineering

Research data management (RDM) requires standards, policies, and guidelines. Findable, accessible, interoperable, and reusable (FAIR) data management is critical for sustainable research. Therefore, collaborative approaches for managing FAIR-structured data are becoming increasingly important for long-term, sustainable RDM. However, they are rather hesitantly applied in bioengineering. One of the reasons may be found in the interdisciplinary character of the research field. In addition, bioengineering as application of principles of biology and tools of process engineering, often have to meet different criteria. In consequence, RDM is complicated by the fact that researchers from different scientific institutions must meet the criteria of their home institution, which can lead to additional conflicts. Therefore, centrally provided general repositories implementing a collaborative approach that enables data storage from the outset In a biotechnology research network with over 20 tandem projects, it was demonstrated how FAIR-RDM can be implemented through a collaborative approach and the use of a data structure. In addition, the importance of a structure within a repository was demonstrated to keep biotechnology research data available throughout the entire data lifecycle. Furthermore, the biotechnology research network highlighted the importance of a structure within a repository to keep research data available throughout the entire data lifecycle.     

Diversity,equity, and inclusion in the melanoma research community

The inaugural Diversity and Inclusion in Science Session was held during the 2021 Society for Melanoma Research (SMR) congress. The goal of the session was to discuss diversity, equity, and inclusion in the melanoma research community and strategies to promote the advancement of underrepresented melanoma researchers. An international survey was conducted to assess the diversity, equity, and inclusion (DEI) climate among researchers and clinicians within the Society for Melanoma Research (SMR). The findings suggest there are feelings and experiences of inequity, bias, and harassment within the melanoma community that correlate with one's gender, ethnic/racial group, and/or geographic location. Notably, significant reports of inequity in opportunity, discrimination, and sexual harassment demonstrate there is much work remaining to ensure all scientists in our community experience an academic workplace culture built on mutual respect, fair access, inclusion, and equitable opportunity.     

ORGANIZATION OF PREDATOR-PREY COMMUNITIES AS AN EVOLUTIONARY GAME

We consider a simple predator-prey model of coevolution. By allowing coevolution both within and between trophic levels the model breaks the traditional dichotomy between coevolution among competitors and coevolution between a prey and its predator. By allowing the diversity of prey and predator species to emerge as a property of the evolutionarily stable strategies (ESS), the model breaks another constraint of most approaches to coevolution that consider as fixed the number of coevolving species. The number of species comprising the ESS is influenced by a parameter that determines the predator's niche breadth. Depending upon the parameter's value the ESS may contain: 1) one prey and one predator species, 2) two prey and one predator, 3) two prey and two predators, 4) three prey and two predators, 5) three prey and three predators, etc. Evolutionarily, these different ESSs all emerge from the same model. Ecologically, however, these ESSs result in very different patterns of community organization. In some communities the predator species are ecologically keystone in that their removal results in extinctions among the prey species. In others, the removal of a predator species has no significant impact on the prey community. These varied ecological roles for the predator species contrasts sharply with the essential evolutionary role of the predators in promoting prey species diversity. The ghost of predation past in which a predator's insignificant ecological role obscures its essential evolutionary role may be a frequent property of communities of predator and prey.     

Species–energy relationships and habitat complexity in bird communities

Species–energy theory is a commonly invoked theory predicting a positive relationship between species richness and available energy. The More Individuals Hypothesis (MIH) attempts to explain this pattern, and assumes that areas with greater food resources support more individuals, and that communities with more individuals include more species. Using a large dataset for North American birds, I tested these predictions of the MIH, and also examined the effect of habitat complexity on community structure. I found qualitative support for the relationships predicted by the MIH, however, the MIH alone was inadequate for fully explaining richness patterns. Communities in more productive sites had more individuals, but they also had more even relative abundance distributions such that a given number of individuals yielded a greater number of species. Richness and evenness were also higher in structurally complex forests compared to structurally more simple grasslands when controlling for available energy.     

Local-regional relationships and the geographical distribution of species

Aim Local‐regional (LR) species diversity plots were conceived to assess the contribution of regional and local processes in shaping the patterns of biological diversity, but have been used also to explore the scaling of diversity in terms of its alpha, beta, and gamma components. Here we explore the idea that patterns in the geographical ranges of species over a continent can determine the shape of small region to large region (SRLR) plots, which are equivalent to LR plots when comparing the diversity of sites at two regional scales. Location To test that idea, we analysed the diversity patterns at two regional scales for the mammals of North America, defined as the mainland from Alaska and Canada to Panama. Method We developed a theoretical model relating average range size of species over a large‐scale region with its average regional point species diversity (RPD). Then, we generated a null model of expected SRLR plots based on theoretical predictions. Species diversities at two scales were modelled using linear and saturation functions for Type I and Type II SRLR relationships, respectively. We applied the models to the case of North American mammals by examining the regional diversity and the RPD for 21 large‐scale quadrats (with area equal to 160,000 km²), arranged along a latitudinal gradient. Results Our model showed that continental and large‐scale regional patterns of distribution of species can generate both types of SRLR relationship, and that these patterns can be reflected in LR plots without invoking any kind of local processes. We found that North American nonvolant mammals follow a Type I SRLR relationship, whereas bats follow a Type II pattern. This difference was linked to patterns in which species of the two mammalian groups distribute in geographical space. Conclusion Traditional LR plots and the new SRLR plots are useful tools in exploring the scaling of species diversity and in showing the relationship between distribution and diversity. Their usefulness in comparing the relative role of local and regional processes is, however, very limited.     

Snail diversity, abundance and distribution in Arabuko Sokoke forest, Kenya

This study sought to investigate land‐snail diversity, abundance and distribution in Arabuko Sokoke forest. Sampling was done using standard timed direct search and litter sample methods. In total, 25 species and 1263 specimens were recorded. The 25 species rank Arabuko Sokoke forest as the second richest coastal forest in land snails in East Africa. The 25 species, however, are not uniformly distributed across the forest. The majority of the snails were localized with low levels of abundance. Eight species were restricted to one forest type, whereas those shared among forest types tended to concentrate in one forest type. Only five species, Gulella radius, Gulella foveolata, Gonaxis kibweziensis, Pseudoglessula biovini and Opeas gracilis, were widespread. The highest snail diversity was recorded in the mixed forest, implying that special conservation of this habitat is necessary for retention of the broadest molluscan diversity. The observation that some species rare in the mixed forest were recorded in excess from Brachystegia and Cynometra forest, further suggests that conservation of the entire A. Sokoke forest is critical for efficient molluscan conservation. Species recorded in low levels of abundance are probably declining and investigation on the snails' ecology to understand factors that influence the snails' diversity is recommended.     

Actinomycete diversity associated with foaming in activated sludge plants

Large numbers of mycolic acid-containing actinomycetes were isolated from foam and scum samples taken from three activated-sludge sewage-treatment plants using several selective isolation media. Organisms presumptively identified as gordonae formed the dominant population in all of the samples. A representative set of these strains have chemical properties consistent with their classification in the genusGordona. Forty-eight of theGordona strains were compared through 165 unit characters with the type strains of validly described species ofGordona. The resultant data were examined using the Jaccard and simple matching coefficients and clustering achieved using the unweighted pair group method with arithmetic averages algorithm. The numerical classification was only marginally affected by the statistics used or by test error, estimated as 3.92%. The isolates were assigned to five multi-membered and 28 single-membered clusters defined by the simple matching coefficient at the 89% similarity level. With few exceptions, the isolates were sharply separated from theGordona marker strains. Essentially the same classification was obtained when the test strains were examined using a Curie-point pyrolysis mass spectrometric procedure. It can be concluded that the gordonae form a heterogeneous taxonomic group, the members of which can be distinguished from representatives of validly described species ofGordona.     

Trends in structural compositional attributes of dune-interdune vegetation and their edaphic relations in the Indian desert

Vegetation of 127 sites on different aspects of dune-interdunes in the Indian Thar Desert was classified using TWINSPAN. TWINSPAN groupings of sites separated better vegetated dunes of the northeast form the poorly vegetated dunes of the northwest and the southwest. Of the different ordinations using noncentred, centred and centred and standardized principal component analysis, reciprocal averaging and detrended correspondence analysis (DCA), the site and species classes in DCA correlated well with ten edaphic and ten vegetational attributes of each site. Strong correlation of vegetation groupings with soil texture, moisture holding capacity and low correlation with pH and electrical conductivity revealed the possible importance of soil physical properties in affecting vegetation composition.The 11 species classes in TWINSPAN were regrouped into 18 species classes in DCA, which separated highly frequent species from those of less and least frequent species. Based on dominance-diversity attributes, Calligonum polygonoides-Lasiurus sindicus was brought out as bioedaphic climax stage. Correlation of ordination scores in different site groupings with vegetational attributes showed specific trends: From the zero of x, y and z axes to their maximum, the ordination scores of grasses and browse species declined while score of spinous species increased. The sites near the origin of the x, y and z axes were therefore least degraded and those at or near the maximum of x, y & z axes were most disturbed as was confirmed by the dominance diversity trends. Thus trends of compositional and functional attributes of vegetation of sites in different groupings helped in inferring a site's degradation status.Abbreviations RIV Relative importance value - TWINSPAN Two Way Indicator Species Analysis - PCA Principal Component Analysis - RA Reciprocal Averaging - DCA Detrended Correspondence Analysis - EC Electrical Conductivity - WHC Water Holding Capacity - BD Beta Diversity - DC Dominance Concentration - WWS Windward slope of the dune - LWS Leeward slope of the dune - ID Interdune Nomenclature: Bhandari, (1990)