Paleoparasitological investigations were carried out on 124 sediment samples from the Swiss Neolithic lakeside settlement of Zürich-Parkhaus-Opéra (layer 13, 3176–3153 years BCE). Analyses revealed ...the presence of several taxa of human and/or animal gastrointestinal parasites, including whipworm (genus Trichuris), capillariids, tapeworms (Taenia/Echinococcus and Diphyllobothrium genera) and flukes (Fasciola and Paramphistomum genera). Owing to excavation conditions and the sampling strategy, an original spatial analysis of the results was applied. This approach contributes to defining concentrations of parasite remains and proposes hypotheses concerning waste management or the functions of some archaeological areas and structures at the site.
Paleomicrobiological investigations of a 14(th)-century coprolite found inside a barrel in Namur, Belgium were done using microscopy, a culture-dependent approach and metagenomics. Results were ...confirmed by ad hoc PCR--sequencing. Investigations yielded evidence for flora from ancient environment preserved inside the coprolite, indicated by microscopic observation of amoebal cysts, plant fibers, seeds, pollens and mold remains. Seventeen different bacterial species were cultured from the coprolite, mixing organisms known to originate from the environment and organisms known to be gut inhabitants. Metagenomic analyses yielded 107,470 reads, of which known sequences (31.9%) comprised 98.98% bacterial, 0.52% eukaryotic, 0.44% archaeal and 0.06% viral assigned reads. Most abundant bacterial phyla were Proteobacteria, Gemmatimonadetes, Actinobacteria and Bacteroidetes. The 16 S rRNA gene dataset yielded 132,000 trimmed reads and 673 Operational Taxonomic Units. Most abundant bacterial phyla observed in the 16 S rRNA gene dataset belonged to Proteobacteria, Firmicutes, Actinobacteria and Chlamydia. The Namur coprolite yielded typical gut microbiota inhabitants, intestinal parasites Trichuris and Ascaris and systemic pathogens Bartonella and Bordetella. This study adds knowledge to gut microbiota in medieval times.
Viruses in a 14th-century coprolite Appelt, Sandra; Fancello, Laura; Le Bailly, Matthieu ...
Applied and Environmental Microbiology,
05/2014, Volume:
80, Issue:
9
Journal Article
Peer reviewed
Open access
Coprolites are fossilized fecal material that can reveal information about ancient intestinal and environmental microbiota. Viral metagenomics has allowed systematic characterization of viral ...diversity in environmental and human-associated specimens, but little is known about the viral diversity in fossil remains. Here, we analyzed the viral community of a 14th-century coprolite from a closed barrel in a Middle Ages site in Belgium using electron microscopy and metagenomics. Viruses that infect eukaryotes, bacteria, and archaea were detected, and we confirmed the presence of some of them by ad hoc suicide PCR. The coprolite DNA viral metagenome was dominated by sequences showing homologies to phages commonly found in modern stools and soil. Although their phylogenetic compositions differed, the metabolic functions of the viral communities have remained conserved across centuries. Antibiotic resistance was one of the reconstructed metabolic functions detected.
Human gastrointestinal parasites are good indicators for hygienic conditions and health status of past and present individuals and communities. While microscopic analysis of eggs in sediments of ...archeological sites often allows their taxonomic identification, this method is rarely effective at the species level, and requires both the survival of intact eggs and their proper identification. Genotyping via PCR-based approaches has the potential to achieve a precise species-level taxonomic determination. However, so far it has mostly been applied to individual eggs isolated from archeological samples. To increase the throughput and taxonomic accuracy, as well as reduce costs of genotyping methods, we adapted a PCR-based approach coupled with next-generation sequencing to perform precise taxonomic identification of parasitic helminths directly from archeological sediments. Our study of twenty-five 100 to 7,200 year-old archeological samples proved this to be a powerful, reliable and efficient approach for species determination even in the absence of preserved eggs, either as a stand-alone method or as a complement to microscopic studies.
Excavation (2008-2014) carried out under the Uffizi Gallery (Florence, Italy) led to the discovery of 75 individuals, mostly buried in multiple graves. Based on Roman minted coins, the graves were ...preliminarily dated between the second half of the 4th and the beginning of the 5th centuries CE. Taphonomy showed that this was an emergency burial site associated with a catastrophic event, possibly an epidemic of unknown etiology with high mortality rates. In this perspective, paleoparasitological investigations were performed on 18 individuals exhumed from 9 multiple graves to assess the burden of gastrointestinal parasitism. Five out of eighteen individuals (27.7%) tested positive for ascarid-type remains; these are considered as "decorticated" Ascaris eggs, which have lost their outer mammillated coat. Roundworms (genus Ascaris) commonly infest human populations under dire sanitary conditions. Archaeological and historical evidence indicates that Florentia suffered a period of economic crisis between the end of 4th and the beginning of the 5th centuries CE, and that the aqueduct was severely damaged at the beginning of the 4th century CE, possibly during the siege of the Goths (406 CE). It is more than plausible that the epidemic, possibly coupled with the disruption of the aqueduct, deeply affected the living conditions of these individuals. A 27.7% frequency suggests that ascariasis was widespread in this population. This investigation exemplifies how paleoparasitological information can be retrieved from the analysis of sediments sampled in cemeteries, thus allowing a better assessment of the varying frequency of parasitic infections among ancient populations.
This paper presents an original palaeoparasitological study performed on samples from a sedimentary core in a peat bog (Asi Gonia, White Mountains, Crete, Greece). The aim of the study is to test the ...preservation and concentration of parasitic remains in peat sediments, to discuss animal presence around the site throughout the record, and to compare the results with other biomarkers of environmental history. In this aim, 22 sediment samples distributed between the Roman period and the present were processed and the residues were observed under light microscopy in search of parasitic markers (microscopic eggs or oocysts). The majority of the samples (86.4%) tested positive for the presence of helminth eggs. Several taxa were observed throughout the studied period, including Trichuris sp., Ascaris sp., Capillaria sp., Fasciola sp., Paramphistomum sp. and Macracanthorhynchus sp. The assemblage of parasite markers changes throughout the record and the variations show close correlations with previously published grazing indicators (fungal spores) and vegetation changes (pollen grains). This study sheds lights on animal associations and changing environments in the watershed over the past 2000 years. Indeed, we detected three main phases consisting of: Roman animal herding with pigs in an evergreen oak forest, then a more irregular but almost constant presence of ruminants during a second Byzantine and modern phase in a heather maquis landscape and, finally, present-day grazing in a phrygana/steppe landscape. These results highlight how palaeoparasitology can contribute to multi-proxy approaches in peat bog sedimentary sequences.
Paleoparasitological analysis was carried on 4 Merovingian skeletons, dated from the late-5th to the late-9th centuries, and recovered in the church of Saint-Martin-au-Val in Chartres (Center region, ...France). The corpses were buried in stone sarcophagi, which were still sealed at the time of excavation. Parasite marker extraction was conducted on sediment samples taken from the abdominal and pelvic regions, but also on samples taken from under the head and the feet as control samples. Microscopic observation revealed the presence of 3 gastrointestinal parasites, namely the roundworm (Ascaris lumbricoides), the whipworm (Trichuris trichiura) and the fish tapeworm (genus Diphyllobothrium). This analysis contributes to a better knowledge of the health status and the lifestyle of ancient medieval populations during the Merovingian period, for which very few paleoparasitological data were available, up until now. It demonstrates the presence of the fish tapeworm for the first time during this period.
Paleoparasitological analyses were conducted on samples from the Neolithic lakeside settlement of La Draga in Spain (5320–4980 BC). Conventional microscopic analysis revealed the presence of ...tapeworms (genus Taenia/Echinoccocus and Diphyllobothrium), roundworms (genus Trichuris, Capillaria, and Ascaris), rumen fluke (genus Paramphistomum), and Acanthocephalan (genus Macracanthorhynchus). In addition, genetic analysis demonstrated the presence of the lancet liver fluke (Dicrocoelium dendriticum) and the human pinworm (Enterobius vermicularis) at the site. These results represent the first parasitological data from a Neolithic lakeside settlement related to the Cardial Pottery Culture. Some parasites are comparable with those retrieved from Neolithic lakeside sites studied in France, Germany, and Switzerland, which stem from and are posterior to the Linear Band Keramic Culture. However, some taxa were identified here for the first time during the Neolithic period, or represent the oldest mention of these parasites. This new paleoparasitological contribution reinforces our knowledge of intestinal parasites in Neolithic populations and provides new data on their history.
Paleoparasitology, the study of parasites in the past, brings the knowledge of where and when they occurred in preterit populations. Some groups of parasites, as capillariids, have a complex and ...controversial systematic, hindering the paleoparasitological diagnosis. In this article, we synthesized the occurrence of capillariids in both the New and the Old World in ancient times, and discussed the difficulty of the diagnosis of species and the strategies for identification. The present review also shows the current status of the phylogeny in capillariids and indicates the necessity to try new approaches for a better understanding of capillariid paleodistribution.
For the systematic review, a predefined guideline defined by PRISMA was used. The articles collected were identified, screened, and included in the review following criteria for eligibility. The current status of the phylogeny of capillariids was accessed using MUSCLE, Bioedit v.7.0.5 and MEGA v. 7.0.21 programs.
The review discussed 38 articles that presented information about capillariids in past populations. Most of capillariid eggs found in the New and Old World were not identified. However, Calodium hepaticum eggs were the most identified, as some from Eucoleus genus. It was observed that sites from the New World had a better chance for capillariid egg identification, due to previous knowledge of its host, when compared to the Old World. In the 18S rDNA phylogenetic analyses, two datasets were constructed, one including sequences from 7 Moravec's genera, where 3 genus-specific clusters, with high bootstrap values, could be observed for Capillaria (ML = 99%, NJ = 96%), Eucoleus (ML / NJ = 100%) and Paratrichosoma (ML / NJ = 100%). A fourth cluster of 18S rDNA dataset I revealed lack of definition of Pearsonema and Aonchotheca genera. The 18S rDNA dataset II comprised 8 Moravec's genera and defined 3 clusters, 2 genus-specific for Eucoleus (ML = 99%, NJ = 100%) and Capillaria (ML / NJ = 98%). The third 18S rDNA dataset II cluster included 6 genera and exhibited, once again, Pearsonema and Aonchotheca poor discrimination. The cox1 gene data consist of 4 Moravec's genera, and in spite of grouping some species-specific clusters, did not show genera-specific definition.
Despite the numerous archaeological findings, both in the New and the Old Worlds, the identification of capillariid species based on the morphology and morphometry of eggs remains imprecise, often resulting in a generic diagnosis of a group or morphotype of capillariid. Capillariid is one of the most diverse group of helminths recovered in archaeological sites. The phylogenetic trees produced in this study showed limited genetic information available, unresolved genera and incongruence with the classical taxonomy. The elucidation of the paleodistribution of capillariids can give insights of the ancient host-parasite associations but also in modern sceneries.
The Neolithic period in Europe was subject to marked climatic variations during the fourth millennium BCE in the Alpine arc, marking the transition between the recent Atlantic and the Subboreal. This ...phase is characterized by falling temperatures and rising humidity in the Northern Hemisphere. Within this phase, between 3700 and 3250 BCE, a more intense phase takes place, known as Rootmoos 2 or Piora 2. This phase is characterized by a significant drop in lake water levels. This climatic change had repercussions on lakeside dwellers, notably through the modification and adaptation of their diet and subsistence modes. Intestinal parasites (helminths), found by human and animals via parasitic markers, seem to respond over time to these climatic variations. At first sight, low lake level phases are characterized by significant proportions of Trichuris at the expense of Diphyllobothrium, as well as an increase in Fasciola. These phases therefore seem to favour parasites indicative of agropastoral activities. During periods of high lake levels, Diphyllobothrium increase in number, pointing to a higher frequency of fishing practices. In sum, during periods of cooler/wetter climate, Neolithic lakeside populations seem to focus more on fishing produce, which may be a response to a destabilization of previously established agropastoral systems, marking a return to more opportunistic behaviour with the exploitation of products from the direct environment. This pilot study tends to evaluate if the evolution of parasitic communities in the 4th millennium BCE could therefore be used to complete our understanding of the effects of climatic variations on societies, both as a direct consequence of environmental destabilization (effect on the hosts) and the result of the behavioural adaptation of the inhabitants, even if it is still difficult to determine the importance of the influence of each factor on these variations. Despite some remaining challenges in the current study, the integration of paleoparasitic data into broader paleoenvironmental models appears promising. Future research can continue to develop along this path.
•Compilation of all the available data for lacustrine sites dated for the 4th millennium BCE and from Central Europe lake-dwelling area.•Application of the seriograph method and a novel index to analyse intestinal parasitic spectrum diversity.•Evaluation of the intestinal parasitic spectrum response to climate variations and human opportunistic behaviour.
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