MALDI-TOF MS as a supportive tool for the evaluation of bacterial diversity in soils from Africa and the Americas

Allen, Adrian Douglas; Velez-Quinones, Maria A.; Eribo, Broderick E.; Morris, Vernon R.

doi:10.1007/s10453-014-9351-5

Cited by 8 publications

(10 citation statements)

References 46 publications

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“…Biomarker‐based approaches to mixture characterization have extended beyond model mixtures constructed in the laboratory. Using IBMA, microbial mixtures indigenous to African and Asian soils were characterized, in part, through detection of biomarkers via MALDI‐TOF MS . Peptide mass fingerprinting (PMF) afforded identification of some of these biomarkers.…”

Section: Discussionmentioning

confidence: 99%

“…Most environmental applications have involved assessments of microbial diversity using IBMA as described above. MS has been used to identify individual members of microbial mixtures in diverse environments including soils, polluted soils, a produce production facility, shellfish, seawater, and sediments, public restrooms, and cave surfaces …”

Section: Select Applicationsmentioning

confidence: 99%

“…Most environmental applications have involved assessments of SANDRIN AND DEMIREV | 337 microbial diversity using IBMA as described above. MS has been used to identify individual members of microbial mixtures in diverse environments including soils, 151 polluted soils, 60,61,65 a produce production facility, 25 shellfish, seawater, and sediments, 62 public restrooms, 64 and cave surfaces. 152 Microbial mixtures in the environment tend to be more complex than the relatively simple mixtures observed in the clinical microbiology lab.…”

Section: Environmental Applicationsmentioning

confidence: 99%

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Characterization of microbial mixtures by mass spectrometry

Sandrin

Demirev

2017

Mass Spectrometry Reviews

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MS applications in microbiology have increased significantly in the past 10 years, due in part to the proliferation of regulator-approved commercial MALDI MS platforms for rapid identification of clinical infections. In parallel, with the expansion of MS technologies in the "omics" fields, novel MS-based research efforts to characterize organismal as well as environmental microbiomes have emerged. Successful characterization of microorganisms found in complex mixtures of other organisms remains a major challenge for researchers and clinicians alike. Here, we review recent MS advances toward addressing that challenge. These include sample preparation methods and protocols, and established, for example, MALDI, as well as newer, for example, atmospheric pressure ionization (API) techniques. MALDI mass spectra of intact cells contain predominantly information on the highly expressed house-keeping proteins used as biomarkers. The API methods are applicable for small biomolecule analysis, for example, phospholipids and lipopeptides, and facilitate species differentiation. MS hardware and techniques, for example, tandem MS, including diverse ion source/mass analyzer combinations are discussed. Relevant examples for microbial mixture characterization utilizing these combinations are provided. Chemometrics and bioinformatics methods and algorithms, including those applied to large scale MS data acquisition in microbial metaproteomics and MS imaging of biofilms, are highlighted. Select MS applications for polymicrobial culture analysis in environmental and clinical microbiology are reviewed as well.

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Section: Discussionmentioning

confidence: 99%

Section: Select Applicationsmentioning

confidence: 99%

Section: Environmental Applicationsmentioning

confidence: 99%

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Characterization of microbial mixtures by mass spectrometry

Sandrin

Demirev

2017

Mass Spectrometry Reviews

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“…Some of the microorganisms are identified as pathogens (Bacillus, Pseudomonas, and Burkholderia) that could potentially affect respiratory health (Kellogg et al, 2004;Shinn et al, 2003). Allen et al (2015) analyzed arid to semiarid soils in Mali, Morocco, Sudan, Niger, and Nigeria using molecular analysis and found Bacillus, a dominant bacteria. The microorganisms can pose a health risk, especially in highly populated centers.…”

Section: Introductionmentioning

confidence: 99%

“…The primary objective of this study is to identify bacteria associated with dust collected from Cheikh Anta Diop University, located in Dakar, Senegal, from 2013 to 2016 using two different collection techniques. We also identify bacteria and potential pathogens with the goal of follow-up studies using genomic techniques similar to Allen et al (2015).…”

Section: Introductionmentioning

confidence: 99%

Characterization of Bacteria on Aerosols From Dust Events in Dakar, Senegal, West Africa

et al. 2020

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We identify bacteria types on collected dust samples in Dakar Senegal, a region that experiences frequent Saharan dust events. We use classical techniques to identify bacteria types from dust samples. Seventy-seven bacteria types are identified from samples collected by spatula and the QuickTake® 30 air sampling pump. The dominant groups in the first batch of 51 bacteria (collected via deposition) are Micrococcus (33.33%), Bacillus (13.73%), Kytococcus (11.76%), Pseudomonas (9.80%), and Burkholderia (7.84%) and dominants in the second batch of 26 bacteria (collected with aerosol sampling vacuum pump): Pseudomonas (38.61%), Burkholderia (26.92%), Micrococcus (11.54%), and Brucella spp (7.69%). These bacteria are found in earlier studies from desert sources and can potentially cause respiratory diseases to exposed populations. Future work will use molecular methods is necessary to search for additional pathogens, including viruses on dust aerosols.Plain Language Summary Bacteria on the surfaces of Saharan dust samples collected from 2013-2016 were analyzed using traditional techniques at Dakar, Senegal. The samples were collected using a spatula and the QuickTake® 30 air sampling pump. The analysis finds some bacteria that are linked to respiratory disease, including Micrococcus, Burkholderia, and Pseudomonas. We believe that the spatula technique may include bacteria such as Bacillus from soils, which was not present in airborne samples. Additional analysis using genomic techniques will assist in better identifying bacteria and potential pathogens, which can impacts West African populations and are transported downstream over long distances to the Caribbean, Southeastern United States, South America, and Europe. During the dry season, PM 10 surface dust concentrations can reach hazardous levels with Marticornea et al. (2010) and Diokhane et al. (2016), showing frequent daily surface PM 10 concentrations exceeding 500 μg m −3 , which is 10 times the World Health Organization (2006) recommended daily levels of 50 μg m −3 . During the summer season, Toure et al. (2019) show that PM 10 monthly concentrations at Dakar, Senegal fall below the U.S. Environmental Protection Agency criteria of unhealthy levels (250 μg m −3 ), and monthly values are approximately 50 μg m −3 during August and September. The reduction in summer PM 10 and PM 2.5

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Mass Spectrometry Analysis of Peptides in Environment

Tang

Huang

et al. 2016

Encyclopedia of Analytical Chemistry

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Peptides are essential components of all living organisms, widely present in the environment, and play important roles in diverse environmental processes. Some peptides are a cause of concern for ecosystems and for environmental health, including drinking water safety. Peptides may impact the environment through their involvement in nitrogen cycles, cloud formation, and many other biogeochemistry processes. Some environmental peptides (e.g. microcystins, MCs) originating from microorganisms are highly toxic, and thus their distribution and transformation in the environment are of great health concern. Many analytical tools have been developed to characterize environmental peptides. The analysis of peptides in environmental samples is challenging, however, owing to their high chemical and structural diversities, low abundance, and complex sample matrices. Mass spectrometry (MS) has become one of the most attractive techniques for environmental peptide analysis, because of its high sensitivity and selectivity. In this article, we summarize the recent advances in MS methods for the analysis of peptides in environmental samples. Particularly, we discuss the analytical developments for the analysis of peptides in water, atmospheric aerosols, and soils, as each sample type represents a distinct analytical challenge.

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MALDI-TOF MS as a supportive tool for the evaluation of bacterial diversity in soils from Africa and the Americas

Cited by 8 publications

References 46 publications

Characterization of microbial mixtures by mass spectrometry

Characterization of microbial mixtures by mass spectrometry

Characterization of Bacteria on Aerosols From Dust Events in Dakar, Senegal, West Africa

Mass Spectrometry Analysis of Peptides in Environment

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