Comparison of culture-dependent and culture-independent molecular methods for characterization of vaginal microflora

Pandya, Shirali; Ravi, Kavitha; Srinivas, Vijaya; Jadhav, Smitha; Khan, Anisa; Arun, Anjali; Riley, Lee W.; Madhivanan, Purnima

doi:10.1099/jmm.0.000407

Cited by 26 publications

(13 citation statements)

References 24 publications

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“…Moreover, in order to obtain more information, a cultural-dependent approach was combined with a cultural-independent molecular method. According to Pandya et al (2017) these techniques seem to be roughly equivalent and, when used in parallel, it is possible to obtain best results leading to major advances in the reliable knowledge of microbial populations living in an environment. The cultural results were confirmed by the HTS analysis that showed an increase in bacterial families belonging to Clostridiales order, such as Tissierellaceae and Clostridiaceae , which represented the most abundant bacterial taxa until the end of the incubation time.…”

Section: Discussionmentioning

confidence: 99%

Anaerobic Process for Bioenergy Recovery From Dairy Waste: Meta-Analysis and Enumeration of Microbial Community Related to Intermediates Production

et al. 2019

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Dairy wastes are widely studied for the hydrogen and methane production, otherwise the changes in microbial communities related to intermediate valuable products was not deeply investigated. Culture independent techniques are useful tools for exploring microbial communities in engineered system having new insights into their structure and function as well as potential industrial application. The deep knowledge of the microbiota involved in the anaerobic process of specific waste and by-products represents an essential step to better understand the entire process and the relation of each microbial population with biochemical intermediates and final products. Therefore, this study investigated the microbial communities involved in the laboratory-scale anaerobic digestion of a mixture of mozzarella cheese whey and buttermilk amended with 5% w/v of industrial animal manure pellets. Culture-independent methods by employing high-throughput sequencing and microbial enumerations highlighted that lactic acid bacteria, such as Lactobacillaceae and Streptococcaceae dominated the beginning of the process until about day 14 when a relevant increase in hydrogen production (more than 10 ml H2 gVS-1 from days 13 to 14) was observed. Furthermore, during incubation a gradual decrease of lactic acid bacteria was detected with a simultaneous increase of Clostridia, such as Clostridiaceae and Tissierellaceae families. Moreover, archaeal populations in the biosystem were strongly related to inoculum since the non-inoculated samples of the dairy waste mixture had a relative abundance of archaea less than 0.1%; whereas, in the inoculated samples of the same mixture several archaeal genera were identified. Among methanogenic archaea, Methanoculleus was the dominant genus during all the process especially when the methane production occurred, and its relative abundance increased up to 99% at the end of the incubation time highlighting that methane was formed from dairy wastes primarily by the hydrogenotrophic pathway in the reactors.

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Section: Discussionmentioning

confidence: 99%

Anaerobic Process for Bioenergy Recovery From Dairy Waste: Meta-Analysis and Enumeration of Microbial Community Related to Intermediates Production

et al. 2019

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“…Not many studies have been conducted on which sampling method is favorable for sequence-based diagnostic techniques. Regardless of how the sample is acquired, culture-dependent and molecular sequencing-based techniques have been shown to isolate different types of Lactobacilli in different amounts in women (10,25,44). A comparative study in healthy mares showed that there is no significant difference in the sequence-based results found between different sampling techniques: double-guarded endometrial swab, low-volume lavage, or endometrial biopsy (26).…”

Section: Sequence-based Techniquesmentioning

confidence: 99%

Role for the mammalian female reproductive tract microbiome in pregnancy outcomes

Heil

Paccamonti

Sones

2019

Physiological Genomics

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Since the discovery of the microbiome in humans, it has been studied in many mammalian species. Different microbiological communities with variable richness and diversity have been found among these species in distinct areas of the reproductive tract. Human studies have shown that the composition of the microbiome is dependent on body site and several host-related factors. Furthermore, specific phyla have been identified among the different species and within distinct areas of the female reproductive tract, but a “core” microbiome of the female reproductive tract has not been defined in any species. Moreover, the function of the microbiome in the reproductive tract is not yet fully understood. However, it has been suggested that a change in diversity of the microbiome and the presence or absence of specific microbial species might be useful indicators of pregnancy outcomes. Increased comprehensive knowledge of the microbiological communities in the female reproductive tract is needed since adverse outcomes represent a significant problem to many species, including livestock, exotic or endangered species, and humans. To the authors’ knowledge, a review combining current female reproductive tract microbiome data among different mammalian species has not been published yet. Herein is a comprehensive review of what is known in the field of the female reproductive microbiome and how it correlates with reproductive success or failure in mammals. Further studies may lead to optimization of therapies in the treatment of reproductive tract infections and pregnancy failure, and may create opportunities for novel approaches for improving reproductive efficiency in animals and people.

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“…Since the 1800s, physicians and researchers investigate the vaginal bacterial community using both cultivation and culture‐independent methods (Pandya et al., ; Srinivasan et al., ). To date, many species from the vaginal microbiota have been identified.…”

Section: Introductionmentioning

confidence: 99%

Description of three new Peptoniphilus species cultured in the vaginal fluid of a woman diagnosed with bacterial vaginosis: Peptoniphilus pacaensis sp. nov., Peptoniphilus raoultii sp. nov., and Peptoniphilus vaginalis sp. nov.

Diop

Michelle

et al. 2018

MicrobiologyOpen

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Three previously unidentified Gram-positive anaerobic coccoid bacteria, strains KhD-2 , KHD4 , and Kh-D5 , isolated from a vaginal swab, were characterized using the taxonogenomics concept. The phylogenic analysis, phenotypic characteristics, and genotypic data presented in this report attest that these three bacteria are distinct from previously known bacterial species with standing in nomenclature and represent three new Peptoniphilus species. Strain KhD-2 is most closely related to Peptoniphilus sp. DNF00840 and Peptoniphilus harei (99.7% and 98.2% identity, respectively); strain KHD4 to Peptoniphilus lacrimalis (96%) and strain Kh-D5 to Peptoniphilus coxii (97.2%). Strains KhD-2 , KHD4 , and Kh-D5 DNA G+C contents are, respectively, 34.23%, 31.87%, and 49.38%; their major fatty acid was C (41.6%, 32.0%, and 36.4%, respectively). We propose that strains KhD-2 (=CSUR P0125 = DSM 101742), KHD4 (=CSUR P0110 = CECT 9308), and Kh-D5 (=CSUR P2271 = DSM 101839) be the type strains of the new species for which the names Peptoniphilus vaginalis sp. nov., Peptoniphilus raoultii sp. nov., and Peptoniphilu pacaensis sp. nov., are proposed, respectively.

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Comparison of culture-dependent and culture-independent molecular methods for characterization of vaginal microflora

Cited by 26 publications

References 24 publications

Anaerobic Process for Bioenergy Recovery From Dairy Waste: Meta-Analysis and Enumeration of Microbial Community Related to Intermediates Production

Anaerobic Process for Bioenergy Recovery From Dairy Waste: Meta-Analysis and Enumeration of Microbial Community Related to Intermediates Production

Role for the mammalian female reproductive tract microbiome in pregnancy outcomes

Description of three new Peptoniphilus species cultured in the vaginal fluid of a woman diagnosed with bacterial vaginosis: Peptoniphilus pacaensis sp. nov., Peptoniphilus raoultii sp. nov., and Peptoniphilus vaginalis sp. nov.

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