Insight into the microbial diversity and community in the sacrificial pits of Sanxingdui site (Sichuan, China) DOI Creative Commons
Ruru Chen,

Zhenbin Xie,

Qing Xiao

et al.

Frontiers in Microbiology, Journal Year: 2024, Volume and Issue: 15

Published: Dec. 10, 2024

Introduction The Sanxingdui site (Sichuan, China) is the typical representative of ancient Shu culture, which lasts from late Neolithic to early Western Zhou. sacrificial pits are located in core region site, and numerous artifacts unearthed including ivory, seashells, bronzes, pottery, jade, stone, gold, bone, horn products. function buried has always been focus, but microbiome around attracts less attention. Recently, ivory soil just identified; however, other never studied. In term unique perspective for interpretation archaeological issues, study was carried out for: (1) microbial diversity community lower layer pits, (2) potential biodeterioration behavior organic inorganic relics, (3) impact burial activities different on microbiome. Methods There were 45 samples three 12 raw inside or outside pit sampling site. genomes then identified analyzed using next-generation high-throughput sequencing. Results represented bacterial phyla Proteobacteria, Actinobacteriota, GAL15, Chloroflexi, Acidobacteriota, Methylomirabilota, Thermoplasmatota, Crenarchaeota, Gemmatimonadota, Firmicutes, fungal Ascomycota, Mortierellomycota, Basidiomycota. Further functional analysis found that genera Sphingopyxis , Limnobacter Streptomyces Cladosporium Acremonium Mortierella concerned with degradation matter, while Pseudomonas, Arthrobacter Variovorax Aspergillus Penicillium might be related biocorrosion bronzes. addition, composition principal co-ordinate (PCoA) demonstrated significant differences structure between also pits. Discussion It important understand according results community. combination microbiology archaeology will shed light issues human behaviors.

Language: Английский

Streptococcus abundance and oral site tropism in humans and non-human primates reflects host and lifestyle differences DOI Creative Commons
Irina M. Velsko, Christina Warinner

npj Biofilms and Microbiomes, Journal Year: 2025, Volume and Issue: 11(1)

Published: Jan. 17, 2025

The genus Streptococcus is highly diverse and a core member of the primate oral microbiome. species are grouped into at least eight phylogenetically-supported clades, five which found almost exclusively in cavity. We explored dominant phylogenetic clades samples from multiple sites ancient modern-day humans non-human primates that clade dominance conserved across human sites, with most reads assigned to falling Sanguinis or Mitis clades. However, minor differences presence abundance individual within each differentiated lifestyles, loss S. sinensis appearing correlate toothbrushing. Of primates, only baboons show patterns similar humans, suggesting habitat diet early may favor growth species.

Language: Английский

Citations

0
Archaeological dental calculus: A rich bioarchive for exploring Classical Antiquity through ancient DNA methods DOI
Sterling Wright

Journal of Archaeological Science Reports, Journal Year: 2025, Volume and Issue: 62, P. 105038 - 105038

Published: Feb. 19, 2025

Language: Английский

Citations

0
The Impact of Diet and Nutrition on the Oral Microbiome DOI
Simona Santonocito, Alessandro Polizzi, Gaetano Isola

et al.

Advances in experimental medicine and biology, Journal Year: 2025, Volume and Issue: unknown, P. 53 - 69

Published: Jan. 1, 2025

Language: Английский

Citations

0
The Oral Microbiome and Us DOI
Nailê Damé‐Teixeira, Thuy Do, Dongmei Deng

et al.

Advances in experimental medicine and biology, Journal Year: 2025, Volume and Issue: unknown, P. 3 - 9

Published: Jan. 1, 2025

Language: Английский

Citations

0
The Caries and Caries-Free Archaeome DOI
Nailê Damé‐Teixeira, Julie A. Lynch, Xin Yu

et al.

Journal of Dental Research, Journal Year: 2025, Volume and Issue: unknown

Published: April 20, 2025

The difficulty of establishing a relationship between archaea and oral diseases such as dental caries stems from the challenges detecting, identifying, isolating these microorganisms. This study aimed to detect in publicly available datasets comprising caries-free saliva plaque by using tailored bioinformatic pipeline for shotgun sequencing analysis. A systematic search was performed identify studies metagenomics or metatranscriptomics on samples obtained individuals with caries. Two reviewers selected based eligibility criteria. Sequencing metadata each were retrieved SRA Bioproject. count table generated database mapping reads against an genome database, specifically this study, stringent filtering parameters greater than 97% similarity 90% query coverage. Archaeal prevalence determined arbitrary cutoff point (>500 reads). An effect size meta-analysis determine overall prevalence. Phyloseq DESeq2 packages used alpha beta diversities, differential abundance different taxonomic levels, expression comparing samples. Spearman correlation bacteriome. yielded 154 titles, which collection 7 8 obtained. Of 397 samples, N = 63 positive postfiltering, putative 20% (confidence interval 0%–40%) identifying Euryarchaeota , Thermoplasmatota Nitrosphaeria . Methanogens present both groups ( Methanobrevibacter spp., Methanosarcina Methanosphaera ) positively correlated Stenotrophomonas Streptococcus Actinomyces Abiotrophia Gemella Corynebacterium Several methanogenesis genes, including methyl-coenzyme M reductase, catalyzes final step methane production methanogens, underexpressed caries-active compared Saliva emerged sites low-abundance archaea, genes

Language: Английский

Citations

0
Contributions of Human Genetics to Island and Coastal Archaeology DOI
Jessica Stone,

Laura S. Weyrich

Oxford University Press eBooks, Journal Year: 2025, Volume and Issue: unknown

Published: April 22, 2025

Abstract Within island and coastal archaeology, the synthesis of archaeological, linguistic, biological data in transdisciplinary settlement models has established timing trajectory initial human interaction processes. As molecular techniques technologies have advanced, application genetic from both living ancient peoples improved past movements interactions provided new insights, particularly systems. In this chapter, authors provide an overview basic methodological approaches for studying contemporary DNA, including metagenomic methods obtaining non-destructive (e.g., sediment) indirect sources dental calculus coprolites). They also discuss how genetics can contribute dimensions to major topics debates within population origins dispersal trajectories as well relationships between communities. Lastly, they survey some ethical considerations remaining challenges associated with research highlight importance equitable community-engaged practices.

Language: Английский

Citations

0
Inferring diet, disease and antibiotic resistance from ancient human oral microbiomes DOI Creative Commons
Gwyn Dahlquist-Axe, Francesca J. Standeven, Camilla Speller

et al.

Microbial Genomics, Journal Year: 2024, Volume and Issue: 10(5)

Published: May 13, 2024

The interaction between a host and its microbiome is an area of intense study. For the human host, it known that various body-site-associated microbiomes impact heavily on health disease states. instance, oral source pathogens potential antibiotic resistance gene pools. effect historical changes to environment associated microbiome, however, has been less well explored. In this review, we characterize several prehistoric events which are considered have impacted therefore bacterial communities residing within it. link evolutionary microbiota significant societal behavioural occurring during pre-Neolithic, Agricultural Revolution, Industrial Revolution Antibiotic Era outlined. While previous studies suggest functional profile these may shifted over centuries, there currently gap in knowledge needs be filled. Biomolecular archaeological evidence innate antimicrobial shows increase abundance genes since advent widespread use antibiotics modern era. Nevertheless, lack research into prevalence evolution throughout history hinders our ability combat

Language: Английский

Citations

2
A Journey into the Evolution of Human Host-Oral Microbiome Relationship through Ancient Dental Calculus: A Scoping Review DOI Creative Commons
Alessandra Putrino, Enrico Marinelli, Angela Galeotti

et al.

Microorganisms, Journal Year: 2024, Volume and Issue: 12(5), P. 902 - 902

Published: April 30, 2024

One of the most promising areas research in palaeomicrobiology is study human microbiome. In particular, ancient dental calculus helps to reconstruct a substantial share oral microbiome composition by mapping together evolution with its state health/oral disease. This review aims trace microbial characteristics describe host-oral relationship health or disease children and adults. Following PRISMA-Extension for Scoping Reviews guidelines, main scientific databases (PubMed, Scopus, Lilacs, Cochrane Library) have been drawn upon. Eligibility criteria were established, all data collected on purpose-oriented collection form analysed descriptively. From initial 340 records, only 19 studies deemed comprehensive enough purpose this review. The knowledge microbiomes has broadened over past few years thanks increasingly well-performing decontamination protocols additional analytical avenues. Above all, metagenomic sequencing, also implemented state-of-the-art bioinformatics tools, allows determination qualitative-quantitative species associated status caries/periodontal Some species, especially periodontal pathogens, do not appear changed history, while others that support caries could be connected through lifestyle environmental contributing factors.

Language: Английский

Citations

1
Ancient DNA and paleoproteomic analysis on Roman Imperial-era individuals from Histria, Romania DOI
Sterling Wright, Kristen M. Rayfield, Robin R. Singleton

et al.

Journal of Archaeological Science Reports, Journal Year: 2024, Volume and Issue: 56, P. 104510 - 104510

Published: April 18, 2024

Language: Английский

Citations

0
Streptococcusabundance and oral site tropism in humans and non-human primates reflects host and lifestyle differences DOI Creative Commons
Irina M. Velsko, Christina Warinner

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: May 19, 2024

Abstract The genus Streptococcus is highly diverse and a core member of the primate oral microbiome. species are grouped into at least eight phylogenetically-supported clades, five which found almost exclusively in cavity. We explored dominant phylogenetic clades samples from multiple sites ancient modern-day humans non-human primates that clade dominance conserved across human sites, with most falling Sanguinis or Mitis clades. However, minor differences presence abundance individual within each differentiated lifestyles, loss S. sinensis appearing to correlate toothbrushing. Of primates, only baboons show patterns similar humans, suggesting habitat diet early may favor growth species.

Language: Английский

Citations

0