Analysis of the bacterial communities in ancient human bones and burial soil samples: Tracing the impact of environmental bacteria

Kazarina, Alisa; Gerhards, Guntis; Pētersone-Gordina, Elīna; Ķimsis, Jānis; Pole, Ilva; Zole, Egija; Leonova, Viktorija; Ranka, Renāte

doi:10.1016/j.jas.2019.104989

Cited by 18 publications

(11 citation statements)

References 42 publications

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“…Similarly, in sample S38 a group of 55 nucleotides long sequences was found, which revealed similarity with Lysobacter enzymogenes. These data confirmed that bacterial DNA can be efficiently ligated into the libraries and sequenced [27], and provided further data on the bacterial species which colonize skeletal remains [44]. Few samples showed a 26 nucleotides long sequence, which did not return any result on BLAST®.…”

Section: Assessment Of Non-human Dna Sequencing In Bone Samplessupporting

confidence: 63%

“…In detail, assuming 0.41 as the average random match probability (RMP) of each autosomal SNP marker [24,25], the combined RMP was of at least 1.6 x 10 -13 . Thus, even if only 37 % of the autosomal loci were typed, the high number of markers which can be analysed by PCR-MPS provided however a high discriminatory power that underlined the usefulness of the SNP markers in the analysis of degraded samples [4,5,26,27,44,45].…”

Section: Final Remarksmentioning

confidence: 99%

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Assessment of the Precision ID Identity Panel kit on challenging forensic samples

Turchi

Previderé

Bini

et al. 2020

Forensic Science International: Genetics

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The precision of the ID Identity Panel kit was assessed on a large set of challenging forensic samples. A threshold of 50 reads for locus call reduces the frequency of sequencing errors. Replicate analyses assure a low/null rate of typing errors. The high number of markers of the kit assures a random match of probability ≤ 1.6 x 10-13 even for the most challenging samples. PCR-MPS of SNP markers is the ideal approach to the analysis of LCN and degraded DNAs.

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Section: Assessment Of Non-human Dna Sequencing In Bone Samplessupporting

confidence: 63%

Section: Final Remarksmentioning

confidence: 99%

Assessment of the Precision ID Identity Panel kit on challenging forensic samples

Turchi

Previderé

Bini

et al. 2020

Forensic Science International: Genetics

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“…Laboratory blank samples (BC and BC_sk) were processed simultaneously with archaeological samples. DNA extraction was performed as described previously [ 16 , 17 ].…”

Section: Methodsmentioning

confidence: 99%

The Postmedieval Latvian Oral Microbiome in the Context of Modern Dental Calculus and Modern Dental Plaque Microbial Profiles

Kazarina

Pētersone-Gordina

Ķimsis

et al. 2021

Genes

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Recent advantages in paleomicrobiology have provided an opportunity to investigate the composition of ancient microbial ecologies. Here, using metagenome analysis, we investigated the microbial profiles of historic dental calculus retrieved from archaeological human remains from postmedieval Latvia dated 16–17th century AD and examined the associations of oral taxa and microbial diversity with specific characteristics. We evaluated the preservation of human oral microbiome patterns in historic samples and compared the microbial composition of historic dental calculus, modern human dental plaque, modern human dental calculus samples and burial soil microbiota. Overall, the results showed that the majority of microbial DNA in historic dental calculus originated from the oral microbiome with little impact of the burial environment. Good preservation of ancient DNA in historical dental calculus samples has provided reliable insight into the composition of the oral microbiome of postmedieval Latvian individuals. The relative stability of the classifiable oral microbiome composition was observed. Significant differences between the microbiome profiles of dental calculus and dental plaque samples were identified, suggesting microbial adaptation to a specific human body environment.

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“…In the last 20 years, systematic bioarchaeological and paleopathological studies on Latvian materials were carried out by the research group guided by Guntis Gerhards, Gunita Zariņa and colleagues from the University of Latvia. Bioarchaeological research was dedicated to trauma analysis (Gerhards, 2007(Gerhards, , 2008, secular stature variations (Gerhards, 2005(Gerhards, , 2006, infectious diseases (Gerhards et al, 2017;Pētersone-Gordina et al, 2018), malnutrition and metabolic diseases (Pētersone-Gordina, 2018;Pētersone-Gordina et al, 2013), dental diseases (Pētersone-Gordina & Gerhards, 2011;Pētersone-Gordina et al, 2018) and biomolecular studies (Legzdiņa et al, 2015;Ščėsnaitė-Jerdiakova et al, 2015;Kazarina et al, 2019;Susat et al, 2020). International collaborations were undertaken by Lithuanian and Latvian research groups, and skeletal data from these countries were also included in the database of the Global History of Health Project (Steckel et al, 2006).…”

Section: Latviamentioning

confidence: 99%

Giving a Voice to the Little Ones: The Bioarchaeology of Children in the Baltics

Morrone

2020

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The skeletal remains of non-adults provide endless insights into numerous aspects of their personal, family and social lives. Although they were considered to be marginal members of society, children can potentially shed light on factors influencing the overall health and survival of their communities, sensitively conveying the ability of a population to adapt to its environment and cope with moments of crisis. In the last decade, worldwide interest in the archaeology of children has grown, and has driven the bioarchaeological investigation of their skeletal remains. However, the bioarchaeological study of non-adults has received surprisingly little interest in the Baltic states. This review presents the past and current state of the art with specific focus on the Baltic area from prehistory to historic times, outlining new research fields and the benefits of studying non-adult skeletal remains, and proposing specific possible directions for future work on this topic. The paper is aimed at giving a louder voice to the youngest actors of ancient communities, and perhaps offers a starting point for developing a definitive bioarchaeology of children in the Baltics.

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Analysis of the bacterial communities in ancient human bones and burial soil samples: Tracing the impact of environmental bacteria

Cited by 18 publications

References 42 publications

Assessment of the Precision ID Identity Panel kit on challenging forensic samples

Assessment of the Precision ID Identity Panel kit on challenging forensic samples

The Postmedieval Latvian Oral Microbiome in the Context of Modern Dental Calculus and Modern Dental Plaque Microbial Profiles

Giving a Voice to the Little Ones: The Bioarchaeology of Children in the Baltics

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