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      ‘ Pseudomonas saudimassiliensis’ sp. nov. a new bacterial species isolated from air samples in the urban environment of Makkah, Saudi Arabia

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          Abstract

          We report here the main characteristics of ‘ Pseudomonas saudimassiliensis’ strain 12M76_air T (CSUR P1220), a new species of the Pseudomonas genus that was isolated from air samples in the city environment of Makkah, Saudi Arabia, during the pilgrim period of Hajj 2012.

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          MALDI-TOF-mass spectrometry applications in clinical microbiology.

          Piseth Seng, Didier Raoult, Jean Marc Rolain … (2010)
          MALDI-TOF-mass spectrometry (MS) has been successfully adapted for the routine identification of microorganisms in clinical microbiology laboratories in the past 10 years. This revolutionary technique allows for easier and faster diagnosis of human pathogens than conventional phenotypic and molecular identification methods, with unquestionable reliability and cost-effectiveness. This article will review the application of MALDI-TOF-MS tools in routine clinical diagnosis, including the identification of bacteria at the species, subspecies, strain and lineage levels, and the identification of bacterial toxins and antibiotic-resistance type. We will also discuss the application of MALDI-TOF-MS tools in the identification of Archaea, eukaryotes and viruses. Pathogenic identification from colony-cultured, blood-cultured, urine and environmental samples is also reviewed.
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            Gut microbiome and dietary patterns in different Saudi populations and monkeys

            Emmanouil Angelakis, Muhammad Yasir, Dipankar Bachar … (2016)
            Host genetics, environment, lifestyle and proximity between hosts strongly influence the composition of the gut microbiome. To investigate the association of dietary variables with the gut microbiota, we used 16S rDNA sequencing to test the fecal microbiome of Bedouins and urban Saudis and we compared it to the gut microbiome of baboons living in close contact with Bedouins and eating their leftovers. We also analyzed fermented dairy products commonly consumed by Bedouins in order to investigate their impact on the gut microbiome of this population. We found that the gut microbiomes of westernized urban Saudis had significantly lower richness and biodiversity than the traditional Bedouin population. The gut microbiomes of baboons were more similar to that of Bedouins compared to urban Saudis, probably due the dietary overlap between baboons and Bedouins. Moreover, we found clusters that were compositionally similar to clusters identified in humans and baboons, characterized by differences in Acinetobacter, Turicibacter and Collinsella. The fermented food presented significantly more bacteria genera common to the gut microbiome of Bedouins compared to urban Saudis. These results support the hypothesis that dietary habits influence the composition of the gut microbiome.
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              MALDI-TOF mass spectrometry and identification of new bacteria species in air samples from Makkah, Saudi Arabia

              Emmanouil Angelakis, Muhammad Yasir, Esam Azhar … (2014)
              Background During the Hajj season, respiratory symptoms are very common among pilgrims. Here, we investigated the viable bacterial population in air samples collected around the slaughterhouses used during the Hajj. Methods and results We collected air samples on three days from four different sites: slaughterhouses at Al-Kakia, Al-Meaisim and Al-Sharaia, and from a waste disposal area designated for the remnants of slaughter. Samples were cultured on blood agar plates for 48 h, and bacterial isolates were identified using MALDI-TOF MS. A dendrogram using the spectra of the unidentified bacterial species was constructed, and PCR amplification and sequencing of the 16S rRNA gene was performed for one isolate per cluster. In total, 2500 colonies appeared on the nutrient agar plates, and 244 were purified for further analysis. Good identification was obtained for 202 (83%) isolates by MALDI-TOF MS. The most common genera were Bacillus (n = 94, 45%) and Staphyloccocus (n = 55, 26%). Poor identification was obtained for 42 (17%) isolates, and their spectra clustering revealed that these isolates belonged to 10 species. Four of these were considered to be new species. Conclusions During the Hajj, the air was contaminated by many environmental bacterial agents, and MALDI-TOF MS was successfully adapted for their rapid identification.
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                Author and article information

                Contributors
                E. Angelakis
                Journal
                Journal ID (nlm-ta): New Microbes New Infect
                Journal ID (iso-abbrev): New Microbes New Infect
                Title: New Microbes and New Infections
                Publisher: Elsevier
                ISSN (Electronic): 2052-2975
                Publication date PMC-release: 03 January 2017
                Publication date Collection: March 2017
                Publication date (Electronic): 03 January 2017
                Volume: 16
                Pages: 43-44
                Affiliations
                [1) ]Special Infectious Agents Unit, King Fahd Medical Research Centre, King Abdulaziz University, Jeddah, Saudi Arabia
                [2) ]Department of Medical Laboratory Technology, Faculty of Applied Medical Sciences, King Abdulaziz University, Jeddah, Saudi Arabia
                [3) ]Unité de Recherche sur les Maladies Infectieuses et Tropicales Emergentes: URMITE CNRS-IRD 198 UMR 6236, Aix Marseille Université, Faculté de Médecine, Marseille, France
                [4) ]Department of Laboratory Medicine, Faculty of Applied Medical Science, Umm Al-Qura University, Makkah, Saudi Arabia
                Author notes
                [∗ ] Corresponding author: E. Angelakis, Unité de Recherche sur les Maladies Infectieuses et Tropicales Emergentes: URMITE CNRS-IRD 198 UMR 6236, Aix Marseille Université, Faculté de Médecine, 27 Bd Jean Moulin, 13385 Marseille, France e.angelakis@ 123456hotmail.com
                [5]

                E.I. Azhar and A. Papadioti contributed equally to this study.

                Article
                Publisher ID: S2052-2975(16)30158-5
                DOI: 10.1016/j.nmni.2016.12.021
                PMC ID: 5288317
                PubMed ID: 28179986
                SO-VID: 9f4736ea-90c0-4547-ba59-15cd369e1656
                Copyright © © 2017 The Authors
                License:

                This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).

                History
                Date received : 7 December 2016
                Date revision received : 27 December 2016
                Date accepted : 27 December 2016
                Categories
                Subject: New Species

                Keywords: air isolates,culturomics,new species,‘pseudomonas saudimassiliensis’ sp. nov.,saudi arabia
                Data availability:
                Keywords: air isolates, culturomics, new species, ‘pseudomonas saudimassiliensis’ sp. nov., saudi arabia

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