Integrating the salivary microbiome in the forensic toolkit by 16S rRNA gene: potential application in body fluid identification and biogeographic inference

Liang, Xiaomin; Xia, Han; Liu, Changhui; Du, Weian; Zhong, Peiwen; Huang, Litao; Huang, Manling; Fu, Linhe; Liu, Chao; Chen, Ling

doi:10.1007/s00414-022-02831-z

Cited by 17 publications

(5 citation statements)

References 34 publications

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“…However, this model has a certain probability for error and thus requires more in-depth research. Nonetheless, the microbial community information in saliva samples have a potential for application in body fluid identification and biogeographic inference (Liang et al, 2022). Sundström et al investigated the shared bacterial communities among family members and adult children and found that greater similarities were observed as related to mothers versus fathers.…”

Section: Review 21 Current Status Of Forensic Microbiomes For Use In ...mentioning

confidence: 99%

“…This 16S rDNA sequencing technology was also used to sequence the V3-V4 hypervariable regions in saliva samples from five different cities in China (Guangdong, Qinghai, Henan, Zhejiang, and Jilin) to reveal the role of regional location on the heterogeneity of microbial profile information in saliva. These investigators were then able to establish a prediction model based on the random forest algorithm that could distinguish saliva samples as obtained between different cities at the genus level (Liang et al, 2022).…”

Section: The Application Of 16s Rrna Gene Sequencing and Machine Lear...mentioning

confidence: 99%

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Research progress on the application of 16S rRNA gene sequencing and machine learning in forensic microbiome individual identification

Yang,

Wang,

Zhai

et al. 2024

Front. Microbiol.

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Forensic microbiome research is a field with a wide range of applications and a number of protocols have been developed for its use in this area of research. As individuals host radically different microbiota, the human microbiome is expected to become a new biomarker for forensic identification. To achieve an effective use of this procedure an understanding of factors which can alter the human microbiome and determinations of stable and changing elements will be critical in selecting appropriate targets for investigation. The 16S rRNA gene, which is notable for its conservation and specificity, represents a potentially ideal marker for forensic microbiome identification. Gene sequencing involving 16S rRNA is currently the method of choice for use in investigating microbiomes. While the sequencing involved with microbiome determinations can generate large multi-dimensional datasets that can be difficult to analyze and interpret, machine learning methods can be useful in surmounting this analytical challenge. In this review, we describe the research methods and related sequencing technologies currently available for application of 16S rRNA gene sequencing and machine learning in the field of forensic identification. In addition, we assess the potential value of 16S rRNA and machine learning in forensic microbiome science.

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Section: Review 21 Current Status Of Forensic Microbiomes For Use In ...mentioning

confidence: 99%

Section: The Application Of 16s Rrna Gene Sequencing and Machine Lear...mentioning

confidence: 99%

Research progress on the application of 16S rRNA gene sequencing and machine learning in forensic microbiome individual identification

Yang,

Wang,

Zhai

et al. 2024

Front. Microbiol.

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“…Both healthy and diseased individuals (with oral diseases) were included in the study, hence, the study depicted common core bacterial species shared between healthy and diseased Japanese population [ 33 ]. In a Chinese cohort, from different geographical regions in China, the following genera were dominant in saliva: Streptococcus , Rothia and Neisseria, Granulicatella, and Porphyromonas [ 34 ].…”

Section: Forensic Microbiome Databasementioning

confidence: 99%

A Review on Microbial Species for Forensic Body Fluid Identification in Healthy and Diseased Humans

Dass,

Singh,

Ghai

2023

Curr Microbiol

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Microbial communities present in body fluids can assist in distinguishing between types of body fluids. Metagenomic studies have reported bacterial genera which are core to specific body fluids and are greatly influenced by geographical location and ethnicity. Bacteria in body fluids could also be due to bacterial infection; hence, it would be worthwhile taking into consideration bacterial species associated with diseases. The present review reports bacterial species characteristic of diseased and healthy body fluids across geographical locations, and bacteria described in forensic studies, with the aim of collating a set of bacteria to serve as the core species-specific markers for forensic body fluid identification. The most widely reported saliva-specific bacterial species are Streptococcus salivarius, Prevotella melaninogenica, Neisseria flavescens, with Fusobacterium nucleatum associated with increased diseased state. Lactobacillus crispatus and Lactobacillus iners are frequently dominant in the vaginal microbiome of healthy women. Atopobium vaginae, Prevotella bivia, and Gardnerella vaginalis are more prevalent in women with bacterial vaginosis. Semen and urine-specific bacteria at species level have not been reported, and menstrual blood bacteria are indistinguishable from vaginal fluid. Targeting more than one bacterial species is recommended for accurate body fluid identification. Although metagenomic sequencing provides information of a broad microbial profile, the specific bacterial species could be used to design biosensors for rapid body fluid identification. Validation of microbial typing methods and its application in identifying body fluids in a mixed sample would allow regular use of microbial profiling in a forensic workflow.

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“…); 11 were not relevant to our subject of interest (male infertility or the study of circRNAs); and one was not in the English language, leaving a total of 18 articles for retrieval. More specifically, among the 11 articles excluded as irrelevant, four focused on the utilization of non-coding RNAs, or rRNA genes, as biomarkers in forensic body fluid identification [25][26][27][28]. Five articles examined the role of circRNAs in various types of cancer [29][30][31], as well as their involvement in other pathological conditions such as skeletal muscle atrophy [32] and bronchopulmonary dysplasia [33].…”

Section: Study Selection and Study Characteristicsmentioning

confidence: 99%

Circular RNAs and Their Role in Male Infertility: A Systematic Review

Kyrgiafini

Mamuris

2023

Biomolecules

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Male infertility is a global health problem that is on the rise. Today, many noncoding RNAs (ncRNAs) are associated with male infertility. Circular RNAs (circRNAs) have recently drawn attention, but a comprehensive understanding of the role of circRNAs in male infertility is limited. This systematic review investigates the differential expression of circRNAs in male infertility or circRNAs that could serve as candidate biomarkers. The PRISMA guidelines were used to search PubMed and Web of Science on 11 January 2023. Inclusion criteria were human participants, experimental studies aiming to associate circRNAs with male infertility reporting differentially expressed circRNAs, and the English language. A total of 156 articles were found, and after the screening and eligibility stages, 13 studies were included in the final sample. Many circRNAs are deregulated in male infertility, and their interactions with miRNAs play an important role in affecting cellular processes and pathways. CircRNAs could also be used as biomarkers to screen patients before sperm retrieval. However, most studies focus on the role of circRNAs in azoospermia, and there is a knowledge gap regarding other subtypes of male infertility. Future research is needed to explore the exact mechanism of action of circRNAs and investigate their use as biomarkers.

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Integrating the salivary microbiome in the forensic toolkit by 16S rRNA gene: potential application in body fluid identification and biogeographic inference

Cited by 17 publications

References 34 publications

Research progress on the application of 16S rRNA gene sequencing and machine learning in forensic microbiome individual identification

Research progress on the application of 16S rRNA gene sequencing and machine learning in forensic microbiome individual identification

A Review on Microbial Species for Forensic Body Fluid Identification in Healthy and Diseased Humans

Circular RNAs and Their Role in Male Infertility: A Systematic Review

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