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Tuberculosis epidemiology and selection in an autochthonous Siberian population from the 16th-19th century.

ABSTRACT: Tuberculosis is one of most ancient diseases affecting human populations. Although numerous studies have tried to detect pathogenic DNA in ancient skeletons, the successful identification of ancient tuberculosis strains remains rare. Here, we describe a study of 140 ancient subjects inhumed in Yakutia (Eastern Siberia) during a tuberculosis outbreak, dating from the 16(th)-19(th) century. For a long time, Yakut populations had remained isolated from European populations, and it was not until the beginning of the 17(th) century that first contacts were made with European settlers. Subsequently, tuberculosis spread throughout Yakutia, and the evolution of tuberculosis frequencies can be tracked until the 19(th) century. This study took a multidisciplinary approach, examining historical and paleo-epidemiological data to understand the impact of tuberculosis on ancient Yakut population. In addition, molecular identification of the ancient tuberculosis strain was realized to elucidate the natural history and host-pathogen co-evolution of human tuberculosis that was present in this population. This was achieved by the molecular detection of the IS6110 sequence and SNP genotyping by the SNaPshot technique. Results demonstrated that the strain belongs to cluster PGG2-SCG-5, evocating a European origin. Our study suggests that the Yakut population may have been shaped by selection pressures, exerted by several illnesses, including tuberculosis, over several centuries. This confirms the validity and necessity of using a multidisciplinary approach to understand the natural history of Mycobacterium tuberculosis infection and disease.

SUBMITTER: Dabernat H

PROVIDER: S-EPMC3935942 | biostudies-literature |

REPOSITORIES: biostudies-literature

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Dental Calculi of Siberian Natives, Russian Settlers, and Korean People of Joseon Dynasty Period in the 16th to 19th Century Eurasia Continent.

Project description:ObjectiveThe prevalence of calculus is known to be variable by difference in diets or subsistence strategy between human populations. However, this situation has not been confirmed so far for hunter-gatherers and farming people in terms of history. In this study, we tried to reveal the association of diets or subsistence with calculus in different historical populations: Siberian natives, Joseon period Korean people, and Russian settlers in Siberia.DesignWe examined the teeth of Siberian natives (hunter-gatherers), Russian (wheat farming) settlers, and Joseon (rice farming) people in sixteenth to nineteenth century. Age and sex were estimated using the methods of Buikstra and Ubelaker (1994). We examined specimens to detect signs of calculus formation in teeth. Calculus rates in each group were statistically compared, and the proportions of calculus by age or sex were also compared across each group. We used package R for statistical analysis. Results and Discussion. The prevalence of calculus deposition decreased in the order of Joseon people, Russian settlers, and Siberian natives. Our study proposes that the rate of calculi among farming people was evidently higher than that of hunter-gatherers in sixteenth to nineteenth century Eurasia. In all three groups, calculus prevalence became higher as age increases and was noteworthy in males.ConclusionCurrent study demonstrated a significant difference of calculus formation between those groups with different diets or subsistence strategies. Higher prevalence of dental calculus was observed in agriculturalist Joseon Koreans and Russian settlers, but Siberian natives exhibited relatively lower frequency of dental calculus. The results of this study enable us to reconsider the meaning of association between subsistence strategy and calculus in different historical populations.

| S-EPMC9112181 | biostudies-literature

Mycobacterium tuberculosis complex in remains of 18th-19th century slaves, Brazil.

Project description: Not available

| S-EPMC3647487 | biostudies-literature

Large numbers of vertebrates began rapid population decline in the late 19th century.

Project description:Accelerated losses of biodiversity are a hallmark of the current era. Large declines of population size have been widely observed and currently 22,176 species are threatened by extinction. The time at which a threatened species began rapid population decline (RPD) and the rate of RPD provide important clues about the driving forces of population decline and anticipated extinction time. However, these parameters remain unknown for the vast majority of threatened species. Here we analyzed the genetic diversity data of nuclear and mitochondrial loci of 2,764 vertebrate species and found that the mean genetic diversity is lower in threatened species than in related nonthreatened species. Our coalescence-based modeling suggests that in many threatened species the RPD began ∼123 y ago (a 95% confidence interval of 20-260 y). This estimated date coincides with widespread industrialization and a profound change in global living ecosystems over the past two centuries. On average the population size declined by ∼25% every 10 y in a threatened species, and the population size was reduced to ∼5% of its ancestral size. Moreover, the ancestral size of threatened species was, on average, ∼22% smaller than that of nonthreatened species. Because the time period of RPD is short, the cumulative effect of RPD on genetic diversity is still not strong, so that the smaller ancestral size of threatened species may be the major cause of their reduced genetic diversity; RPD explains 24.1-37.5% of the difference in genetic diversity between threatened and nonthreatened species.

| S-EPMC5150392 | biostudies-literature

A demographic transition altered the strength of selection for fitness and age-specific survival and fertility in a 19th century American population.

Project description:Modernization has increased longevity and decreased fertility in many human populations, but it is not well understood how or to what extent these demographic transitions have altered patterns of natural selection. I integrate individual-based multivariate phenotypic selection approaches with evolutionary demographic methods to demonstrate how a demographic transition in 19th century female populations of Utah altered relationships between fitness and age-specific survival and fertility. Coincident with this demographic transition, natural selection for fitness, as measured by the opportunity for selection, increased by 13% to 20% over 65 years. Proportional contributions of age-specific survival to total selection (the complement to age-specific fertility) diminished from approximately one third to one seventh following a marked increase in infant survival. Despite dramatic reductions in age-specific fertility variance at all ages, the absolute magnitude of selection for fitness explained by age-specific fertility increased by approximately 45%. I show that increases in the adaptive potential of fertility traits followed directly from decreased population growth rates. These results suggest that this demographic transition has increased the adaptive potential of the Utah population, intensified selection for reproductive traits, and de-emphasized selection for survival-related traits.

| S-EPMC3675805 | biostudies-literature

Linking 19th century European settlement to the disruption of a seabird's natural population dynamics.

Project description:Recent estimates indicate that ∼70% of the world's seabird populations have declined since the 1950s due to human activities. However, for almost all bird populations, there is insufficient long-term monitoring to understand baseline (i.e., preindustrial) conditions, which are required to distinguish natural versus anthropogenically driven changes. Here, we address this lack of long-term monitoring data with multiproxy paleolimnological approaches to examine the long-term population dynamics of a major colony of Leach's Storm-petrel (Hydrobates leucorhous) on Grand Colombier Island in the St. Pierre and Miquelon archipelago-an overseas French territory in the northwest Atlantic Ocean. By reconstructing the last ∼5,800 y of storm-petrel dynamics, we demonstrate that this colony underwent substantial natural fluctuations until the start of the 19th century, when population cycles were disrupted, coinciding with the establishment and expansion of a European settlement. Our paleoenvironmental data, coupled with on-the-ground population surveys, indicate that the current colony is only ∼16% of the potential carrying capacity, reinforcing concerning trends of globally declining seabird populations. As seabirds are sentinel species of marine ecosystem health, such declines provide a call to action for global conservation. In response, we emphasize the need for enlarged protected areas and the rehabilitation of disturbed islands to protect ecologically critical seabird populations. Furthermore, long-term data, such as those provided by paleoecological approaches, are required to better understand shifting baselines in conservation to truly recognize current rates of ecological loss.

| S-EPMC7768677 | biostudies-literature

Susan Dimock, Pioneering 19th Century American Surgeon/Physician.

Project description: Not available

| S-EPMC10405988 | biostudies-literature

Poverty and painting: representations in 19th century Europe.

Project description: Not available

| S-EPMC139055 | biostudies-literature

Charles Darwin Synthetic Interview: A 19th Century Scientist Speaks in the 21st Century.

Project description:Charles Darwin is largely unknown and poorly understood as a historical figure. Similarly the fundamental principles of evolution are often misstated, misunderstood, or entirely rejected by large numbers of Americans. Simply trying to communicate more facts about Darwin, or facts supporting the principles of evaluation, is inadequate; neither students nor members of the public will care or retain the information. On the contrary, building facts into a one-on-one conversational narrative creates a memorable opportunity to learn. Here we create a digital media, self-guided question and answer 'synthetic interview' with Charles Darwin. Questions are derived from a survey of nearly 1,000 people. Answers spoken by an actor portraying Darwin are derived from Darwin's own writings. Questions on modern topics are answered by scientists, theologians, and lawyers. First produced as a museum exhibit and then later reproduced as an app (iOS/Android), the Darwin Synthetic Interview has been evaluated with more than 3,000 surveyed users, of which 69% indicated that they learned and more than 75% would recommend the experience. Students who interacted with the synthetic interview in a classroom setting found answers were unexpected and clarifying. Using a format of personal narrative, the Darwin Synthetic Interview creates a new way to engage students and the public in a process of self-directed discovery of a topic that is often considered difficult to teach.

| S-EPMC7351126 | biostudies-literature

An ancient coronavirus from individuals in France, circa 16th century.

Project description:ObjectivesAt the time when the COVID-19 pandemic was responsible for more than six million deaths worldwide, the antiquity of coronaviruses remains undefined. We investigated individuals buried during the 16th century in France for the direct and paleoserological diagnosis of the coronavirus.MethodsThe 2011-2012 excavation of Abbey Saint-Pierre in Baume-Les-Messieurs, France uncovered 12 skeletons of individuals from the 13th to the 18th century. The total proteins extracted from dental pulps were subjected to microbial paleoserology, targeting SARS-CoV-2, human-associated coronavirus (HCoV)-229E, and OC43 antigens and for coronavirus peptide research using metaproteomics, in parallel to negative controls.ResultsThree peptide sequences totaling 36 amino acids indicative of a coronavirus were retrieved from the dental pulp remains collected from two individuals buried circa 16th century, in whom paleoserology confirmed a specific immunological response against modern-day SARS-CoV-2 and HCoV-229E.ConclusionWe provide serological and proteomic evidence for a betacoronavirus with no modern correspondent, infecting populations in the 16th century, extending the antiquity of coronaviruses by more than three centuries. Historical, archaeozoological, and paleoproteomic data suggested close contacts between these two individuals and domestic swine, cattle, and poultry, suggesting an ancient zoonotic coronavirus. Coronaviruses have been undesirable companions of populations long before the ongoing coronavirus disease 2019 outbreak emerged.

| S-EPMC10014125 | biostudies-literature

Population structure in landrace barley (Hordeum vulgare L.) during the late 19th century crop failures in Fennoscandia.

Project description:Agricultural disasters and the subsequent need for supply of relief seed can be expected to influence the genetic composition of crop plant populations. The consequences of disasters and seed relief have, however, rarely been studied since specimens sampled before the events are seldomly available. A series of crop failures struck northern Fennoscandia (Norway, Sweden and Finland) during the second half of the 19th century. In order to assess population genetic dynamics of landrace barley (Hordeum vulgare), and consequences of crop failure and possible seed relief during this time period, we genotyped seeds from 16 historical accessions originating from two time periods spanning the period of repeated crop failure. Reliable identification of genetic structuring is highly dependent on sampling regimes and detecting fine-scale geographic or temporal differentiation requires large sample sizes. The robustness of the results under different sampling regimes was evaluated by analyzing subsets of the data and an artificially pooled dataset. The results led to the conclusion that six individuals per accession were insufficient for reliable detection of the observed genetic structure. We found that population structure among the data was best explained by collection year of accessions, rather than geographic origin. The correlation with collection year indicated a change in genetic composition of landrace barley in the area after repeated crop failures, likely a consequence of introgression of relief seed in local populations. Identical genotypes were found to be shared among some accessions, suggesting founder effects and local seed exchange along known routes for trade and cultural exchange.

| S-EPMC6834677 | biostudies-literature

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