Hygiene and Public Health courses in Biology curricula: the Italian scenario and the best examples from all over the world.

Different longstanding and emerging challenges for public health have been identified including population ageing, migration, infectious and non-communicable diseases, the environment and climatic changes, increasing risks of misinformation and chronic underinvestment. The multi- and inter-disciplinary public health approach - including biology, epidemiology, biostatistics, anthropology and public policy - raises the need to train experienced professionals in different fields. The education on these matters is fundamental to ensure the human well-being. In the last years, education in schools of public health is changing in response to new evidence-based knowledge, opportunities for improvement and scientific discoveries. In this manuscript the current scenario of teaching Hygiene in all the Italian degree courses in Biology were reviewed and summarized and the most excellent examples of academic training offer of Public Health for Biologists worldwide were provided and discussed as a source of inspiration for novel Masters and PhD degree programmes in Italy.

Evidence of Experimental Bias in the Life Sciences: Why We Need Blind Data Recording.

Observer bias and other "experimenter effects" occur when researchers' expectations influence study outcome. These biases are strongest when researchers expect a particular result, are measuring subjective variables, and have an incentive to produce data that confirm predictions. To minimize bias, it is good practice to work "blind," meaning that experimenters are unaware of the identity or treatment group of their subjects while conducting research. Here, using text mining and a literature review, we find evidence that blind protocols are uncommon in the life sciences and that nonblind studies tend to report higher effect sizes and more significant p-values. We discuss methods to minimize bias and urge researchers, editors, and peer reviewers to keep blind protocols in mind.

Women are underrepresented in computational biology: An analysis of the scholarly literature in biology, computer science and computational biology.

While women are generally underrepresented in STEM fields, there are noticeable differences between fields. For instance, the gender ratio in biology is more balanced than in computer science. We were interested in how this difference is reflected in the interdisciplinary field of computational/quantitative biology. To this end, we examined the proportion of female authors in publications from the PubMed and arXiv databases. There are fewer female authors on research papers in computational biology, as compared to biology in general. This is true across authorship position, year, and journal impact factor. A comparison with arXiv shows that quantitative biology papers have a higher ratio of female authors than computer science papers, placing computational biology in between its two parent fields in terms of gender representation. Both in biology and in computational biology, a female last author increases the probability of other authors on the paper being female, pointing to a potential role of female PIs in influencing the gender balance.

Race and diversity in U.S. Biological Anthropology: A decade of AAPA initiatives.

Biological Anthropology studies the variation and evolution of living humans, non-human primates, and extinct ancestors and for this reason the field should be in an ideal position to attract scientists from a variety of backgrounds who have different views and experiences. However, the origin and history of the discipline, anecdotal observations, self-reports, and recent surveys suggest the field has significant barriers to attracting scholars of color. For a variety of reasons, including quantitative research that demonstrates that diverse groups do better science, the discipline should strive to achieve a more diverse composition. Here we discuss the background and underpinnings of the current and historical dearth of diversity in Biological Anthropology in the U.S. specifically as it relates to representation of minority and underrepresented minority (URM) (or racialized minority) scholars. We trace this lack of diversity to underlying issues of recruitment and retention in the STEM sciences generally, to the history of Anthropology particularly around questions of race-science, and to the absence of Anthropology at many minority-serving institutions, especially HBCUs, a situation that forestalls pathways to the discipline for many minority students. The AAPA Committee on Diversity (COD) was conceived as a means of assessing and improving diversity within the discipline, and we detail the history of the COD since its inception in 2006. Prior to the COD there were no systematic AAPA efforts to consider ethnoracial diversity in our ranks and no programming around questions of diversity and inclusion. Departmental survey data collected by the COD indicate that undergraduate majors in Biological Anthropology are remarkably diverse, but that the discipline loses these scholars between undergraduate and graduate school and systematically up rank. Our analysis of recent membership demographic survey data (2014 and 2017) shows Biological Anthropology to have less ethnoracial diversity than even the affiliated STEM disciplines of Biology and Anatomy; nearly 87% of AAPA members in the United States identify as white and just 7% as URM scholars. These data also suggest that the intersection of race and gender significantly influence scholarly representation. In response to these data, we describe a substantial body of programs that have been developed by the COD to improve diversity in our ranks. Through these programs we identify principal concerns that contribute to the loss of scholars of color from the discipline at different stages in their careers, propose other directions that programming for recruitment should take, and discuss the beginnings of how to develop a more inclusive discipline at all career stages.

Participation, representation, and shared experiences of women scholars in biological anthropology.

American Association of Physical Anthropologists (AAPA) membership surveys from 1996 and 1998 revealed significant gender disparities in academic status. A 2014 follow-up survey showed that gender equality had improved, particularly with respect to the number of women in tenure-stream positions. However, although women comprised 70% of AAPA membership at that time, the percentage of women full professors remained low. Here, we continue to consider the status of women in biological anthropology by examining the representation of women through a quantitative analysis of their participation in annual meetings of the AAPA during the past 20 years. We also review the programmatic goals of the AAPA Committee on Diversity Women's Initiative (COD-WIN) and provide survey results of women who participated in COD-WIN professional development workshops. Finally, we examine the diversity of women's career paths through the personal narratives of 14 women biological anthropologists spanning all ranks from graduate student to Professor Emeritus. We find that over the past 20 years, the percentage of women first authors of invited symposia talks has increased, particularly in the sub-disciplines of bioarchaeology, genetics, and paleoanthropology. The percentage of women first authors on contributed talks and posters has also increased. However, these observed increases are still lower than expected given the percentage of graduate student women and women at the rank of assistant and associate professor. The personal narratives highlight first-hand the impact of mentoring on career trajectory, the challenges of achieving work-life satisfaction, and resilience in the face of the unexpected. We end with some suggestions for how to continue to improve equality and equity for women in biological anthropology.

[Bibliometry of collaboration and impact of the Revista de Biología Tropical (Web of Science 2003-2012)]. / Bibliometría de la colaboración e impacto de la Revista de Biología Tropical (Web of Science 2003-2012).

The activity analysis of a scientific journal is relevant to know the evolution of its characteristics over time. In this paper, results of a bibliometric study of the Revista de Biología Tropical/International Journal of Tropical Biology and Conservation (Costa Rica) are presented. The goal of this study was to describe the main characteristics of its scientific production, and analyze its level of collaboration and its impact between the years 2003-2012. Data was derived from the Web of Science (Thomson-Reuters), and the relationship among authors and coauthors, institutions and countries, and their links with the citations received were analyzed for that period. Descriptive statistics about production (number of documents per year, institution and country), collaboration (authorship index, collaboration among institutions and countries) and impact (IF, position in JCR and number of citations received) were collected. Results showed that the journal has published 1 473 papers in this period, in similar proportions English and Spanish. Mexico, Costa Rica, Venezuela and Colombia are the most common countries of origin, with the Universidad of Costa Rica, Universidad Autónoma de Mexico and the University of Puerto Rico as the most common leader institutions. Collaboration between authors, institutions and countries has shown an increasing trend over the last decade. The co-author index was 3.07 per document, 63 % of publications included 2 or more institutions, and 22 % of the papers were product of international collaboration. The most common collaboration link was between Costa Rica and the United States of America. The impact factor has been oscillating during this last decade, reaching a maximum in 2012 (IF JCR = 0.553). Besides, 10 % of the most cited papers concentrated half of the citations received by the journal, and have a very high number of citations, compared with the journal mean. The main countries that cite the journal were USA, Brazil, Mexico, Argentina and Costa Rica. Data showed an increasing collaboration between authors, institutions and countries, and a direct relationship between the increase of this collaboration and the received impact.

Bibliometry of the Revista de Biología Tropical / International Journal of Tropical Biology and Conservation: document types, languages, countries, institutions, citations and article lifespan.

The Revista de Biología Tropical / International Journal of Tropical Biology and Conservation, founded in 1953, publishes feature articles about tropical nature and is considered one of the leading journals in Latin America. This article analyzes document type, language, countries, institutions, citations and for the first time article lifespan, from 1976 through 2014. We analyzed 3 978 documents from the Science Citation Index Expanded. Articles comprised 88 % of the total production and had 3.7 citations on average, lower than reviews. Spanish and English articles were nearly equal in numbers and citation for English articles was only slightly higher. Costa Rica, Mexico, and the USA are the countries with more articles, and the leading institutions were Universidad de Costa Rica, Universidad Nacional, Universidad Nacional Autónoma de Mexico and Universidad de Oriente (Venezuela). The citation lifespan of articles is long, around 37 years. It is not surprising that Costa Rica, Mexico, and Venezuela lead in productivity and cooperation, because they are mostly covered by tropical ecosystems and share a common culture and a tradition of scientific cooperation. The same applies to the leading institutions, which are among the largest Spanish language universities in the neotropical region. American output can be explained by the regional presence of the Smithsonian Tropical Research Institute and the Organization for Tropical Studies. Tropical research does not have the rapid change typical of medical research, and for this reason, the impact factor misses most of citations for the Revista, which are made after the two-year window used by the Web of Science. This issue is especially damaging for the Revista because most journals that deal with tropical biology are never checked when citations are counted for by the Science Citation Index.

Subject and authorship of records related to the Organization for Tropical Studies (OTS) in BINABITROP, a comprehensive database about Costa Rican biology.

BINABITROP is a bibliographical database of more than 38000 records about the ecosystems and organisms of Costa Rica. In contrast with commercial databases, such as Web of Knowledge and Scopus, which exclude most of the scientific journals published in tropical countries, BINABITROP is a comprehensive record of knowledge on the tropical ecosystems and organisms of Costa Rica. We analyzed its contents in three sites (La Selva, Palo Verde and Las Cruces) and recorded scientific field, taxonomic group and authorship. We found that most records dealt with ecology and systematics, and that most authors published only one article in the study period (1963-2011). Most research was published in four journals: Biotropica, Revista de Biología Tropical/ International Journal of Tropical Biology and Conservation, Zootaxa and Brenesia. This may be the first study of a such a comprehensive database for any case of tropical biology literature.

Error bars in experimental biology.

Error bars commonly appear in figures in publications, but experimental biologists are often unsure how they should be used and interpreted. In this article we illustrate some basic features of error bars and explain how they can help communicate data and assist correct interpretation. Error bars may show confidence intervals, standard errors, standard deviations, or other quantities. Different types of error bars give quite different information, and so figure legends must make clear what error bars represent. We suggest eight simple rules to assist with effective use and interpretation of error bars.

Categorical data analysis in experimental biology.

The categorical data set is an important data class in experimental biology and contains data separable into several mutually exclusive categories. Unlike measurement of a continuous variable, categorical data cannot be analyzed with methods such as the Student's t-test. Thus, these data require a different method of analysis to aid in interpretation. In this article, we will review issues related to categorical data, such as how to plot them in a graph, how to integrate results from different experiments, how to calculate the error bar/region, and how to perform significance tests. In addition, we illustrate analysis of categorical data using experimental results from developmental biology and virology studies.

Permutation method for evaluating topographic craniofacial correlations.

INTRODUCTION: Correlations between cephalometric measurements are frequently assumed to represent biologic associations. However, a significant portion of such correlations might arise from purely geometric dependencies, when measurements share common landmarks. Analytic calculation of this topographic component is difficult. The purpose of this study was to propose a permutation method for evaluating the topographic component of cephalometric correlations. METHODS: The method consisted of creating a virtual sample of cephalometric tracings (landmark configurations) from the original biologic sample under investigation. Each novel landmark configuration was constructed by assigning coordinates to the cephalometric points; the coordinates of each point were taken randomly from the original sample, each from a potentially different subject. Correlation analysis was performed separately on both samples and the results compared. Biologic meaning was ascribed only when there was a significant difference in correlation values between the samples. Confidence intervals for assessing statistical significance were calculated by using a randomization approach. The method was tested on a sample of 170 radiographs to evaluate the correlation between cranial base angle (NSBa) and angles SNA and SNB, as well as between ANB angle and the Wits appraisal. RESULTS: No biologic association was found between ANB and Wits, or between NSBa and SNA. The biologic correlation between NSBa and SNB was statistically significant but low (r(2) = 12%). CONCLUSIONS: Topographic associations between cephalometric measurements are ubiquitous and difficult to assess. The proposed method enables evaluation of their relative strength without the need for analytic solutions.

Who are we now? A demographic assessment of three evolution societies.

Scientific societies have the potential to catalyze support for communities that have been historically excluded from science. Many of these societies have formed committees to propose and administer initiatives to promote the career and well-being of their members, with a special emphasis on racial and ethnic minorities. Yet, these societies are rarely armed with data to inform their proposals. Three of the evolution societies (American Society of Naturalists, "ASN"; Society of Systematic Biologists, "SSB"; Society for the Study of Evolution, "SSE") have also formed Diversity, Equity, and Inclusion committees in the last few years. As a first step in determining the needs of the societies, these committees collected data on the demographic characteristics of the societies' constituents by surveying the attendants of the Evolution 2019 meeting. Here, we report the proportions for different demographic groups in attendance at the meeting and compare these proportions to the demographics of recipients of Ph.D. degrees either in evolutionary biology or in the broader life sciences, as well as population demographics of the USA. Our results indicate that historically excluded groups are still underrepresented across US-based evolutionary biology professional societies. We explore whether demographic composition differs at different professional stages and find that representation for women and LGBTQ+ members decreases as the career stage progresses. We also find some evidence for heterogeneity across societies in terms of racial composition. Finally, we discuss the caveats and limitations of our procedures. Our results will serve to inform future efforts to collect demographic data at the society levels, which should in turn be used to design and implement evidence-based initiatives for inclusion and equity. This report should be a starting point for systematic efforts to characterize the ever-changing representation in evolutionary biology and to work toward the inclusion of all groups.

On the growth of scientific knowledge: yeast biology as a case study.

The tempo and mode of human knowledge expansion is an enduring yet poorly understood topic. Through a temporal network analysis of three decades of discoveries of protein interactions and genetic interactions in baker's yeast, we show that the growth of scientific knowledge is exponential over time and that important subjects tend to be studied earlier. However, expansions of different domains of knowledge are highly heterogeneous and episodic such that the temporal turnover of knowledge hubs is much greater than expected by chance. Familiar subjects are preferentially studied over new subjects, leading to a reduced pace of innovation. While research is increasingly done in teams, the number of discoveries per researcher is greater in smaller teams. These findings reveal collective human behaviors in scientific research and help design better strategies in future knowledge exploration.

On quality assurance and assessment of biological datasets and related statistics.

The complexity of modern biological database management systems indicates the need of integrated metadata repositories for harmonized and high-quality assured data processing. Such systems should allow for the derivation of specific producer-oriented indicators monitoring the quality of the final datasets and statistics provided to the end-users. In this paper, we offer a quality assurance and assessment framework for biological dataset management from both the producers' and users' perspective. In order to assist the producers in high-quality end-results, we consider the integration of a process-oriented data/metadata model enriched with quality declaration metadata, like quality indicators, for the entire process of dataset management. With the automatic manipulation of both data and "quality" metadata, we assure standardization of processes and error detection and reduction. Regarding the user assessment of final results, we discuss trade-offs among certain quality components (such as accuracy, timeliness, relevance, comparability, etc.) and offer indicative user-oriented quality indicators.

[Bibliometry of biological systematics in Latin America during the twentieth century in three global databases]. / Bibliometría de la sistemática biológica sobre América Latina durante el siglo XX en tres bases de datos mundiales.

We present a review of the biological systematic research in Latin America during the twentieth century, applying a bibliometric analysis to the information contained in international databases with the largest number of biological records: Biosis (since 1969), CAB (since 1910) and Science Citation Index (since 1900), to recognize certain patterns and trends regarding the document production. We obtained 19079 documents and 1387 journals for Biosis, 14326 and 2537 for CAB, 3257 and 1636 for SCI. Of the documents, 54.6% related to new species, 15.3% dealt with morphology, 14.9% keys, 12.5% descriptions, 10.6% cases of synonymies, 6% new genera, 4.9% new geographical records, 23.6% geographical distribution, 4.2% redescriptions, and 3.6% with new nomenclatural combinations. The regions mentioned were South America with 11.9%, Central America with 4% and America (all) with 2.56%. Nineteen Latin American countries appear, whereas outside this region we found the United States of America with 12.6% of representation and Canada with 3%. Animals (65.6%) were the most studied taxa, which was 1.7 times higher than what was published for plants (37%), 11 times higher than fungi (6%) and nearly 30 times higher than microorganisms (2.3%). Out of the 155 journals that produced 66% of the papers, 76.5% were better represented in Biosis, 21.4% in CAB and 2% in SCI. Twenty-nine journals published 33% of the articles, the maximum number of records obtained was 69% for Biosis, CAB 24% and 6.9% for SCI, three (10.3%) are in biology, 11 (37.9%) in botany, 13 (44.8%) zoology, and two (6.9%) paleontology; eight of these journals (27.5%) were published in Latin America and twenty were indexed in the Science Citation Index. In the last two years more journals of the region that publish on taxonomy have been indexed, but their impact factor is still low. However, the impact factor of a number of Latin American journals that published biodiversity increased with time. Countries that are more interested in studying the Latin American biota from the taxonomic point of view are Brazil, the United States, Argentina and Mexico. The most active institutions in this discipline were the Universidade de São Paulo, Universidad Nacional Autónoma de México, and the Universidade Federal do Rio de Janeiro; together they produced 24% of the documents.

The rise to dominance of genetic model organisms and the decline of curiosity-driven organismal research.

Curiosity-driven, basic biological research "…performed without thought of practical ends…" establishes fundamental conceptual frameworks for future technological and medical breakthroughs. Traditionally, curiosity-driven research in biological sciences has utilized experimental organisms chosen for their tractability and suitability for studying the question of interest. This approach leverages the diversity of life to uncover working solutions (adaptations) to problems encountered by living things, and evolutionary context as to the extent to which these solutions may be generalized to other species. Despite the well-documented success of this approach, funding portfolios of United States granting agencies are increasingly filled with studies on a few species for which cutting-edge molecular tools are available (genetic model organisms). While this narrow focus may be justified for biomedically-focused funding bodies such as the National Institutes of Health, it is critical that robust federal support for curiosity-driven research using diverse experimental organisms be maintained by agencies such as the National Science Foundation. Using the disciplines of neurobiology and behavioral research as an example, this study finds that NSF grant awards have declined in association with a decrease in the proportion of grants funded for experimental, rather than genetic model organism research. The decline in use of experimental organisms in the literature mirrors but predates the shift grant funding. Today's dominance of genetic model organisms was thus initiated by researchers themselves and/or by publication peer review and editorial preferences, and was further reinforced by pressure from granting agencies, academic employers, and the scientific community.

Relationships between the Religious Backgrounds and Evolution Acceptance of Black and Hispanic Biology Students.

The evolution education experiences of students of color represent an emerging area of research, because past inquiries indicate these students have differential outcomes, such as lower evolution acceptance and severe underrepresentation in evolutionary biology. Religion is often an important support for students of color who are navigating a science, technology, engineering, and mathematics culture that privileges White nonreligious students. For instance, religion helps mitigate the negative effects of racism, but religious students are also more likely to experience conflict when learning evolution. In this nationwide study, we examined the extent to which strong religiosity among students of color can explain their lower evolution acceptance. We surveyed students in 77 college biology courses across 17 states and found that Black/African American students tend to be more religious and less accepting of evolution than any other racial/ethnic identity group and that Hispanic students tend to be slightly more religious and slightly less accepting of evolution than White students. Importantly, we find that religious background is an important factor associated with Black and Hispanic students' lower levels of evolution acceptance. This study suggests that the biology community should become more inclusive of Christian religious students if it wishes to foster inclusive evolution education for Black and Hispanic students.

Does the Match between Gender and Race of Graduate Teaching Assistants and Undergraduates Improve Student Performance in Introductory Biology?

Research suggests there are potential benefits to students when taught by instructors who share the same gender and/or race/ethnicity. While underrepresented students have shown increased persistence and academic performance when they were taught by gender- and/or race/ethnicity-congruent faculty, there is little research that has explored the influence of matching for graduate student teaching assistants (GTAs). Given that science, technology, engineering, and mathematics (STEM) GTAs spend a significant amount of time with undergraduates, measurable impacts on student outcomes have the potential to contribute to the success of undergraduates who have been underrepresented in STEM fields. This study evaluated the effects on academic performance of GTA (n = 50) matching for first-year students (n = 976) in an introductory biology lab course at a Hispanic-serving institution. There was no significant difference in academic performance for students who matched with the gender, race/ethnicity, income, and first-generation status of their GTAs. Results were consistent across multiple cohorts of students, after including statistical controls for prior academic performance and other demographic characteristics and accounting for the nested structure of the data. These results suggest there is a need of supporting GTAs to develop more effective teaching practices and to consider effects of GTA matching on other outcomes.