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comparative genomics

  • <em>Mycoavidus</em> sp. Strain B2-EB: Comparative Genomics Reveals Minimal Genomic Features Required by a Cultivable <em>Burkholderiaceae</em>-Related Endofungal Bacterium
    Environmental Microbiology
    Mycoavidus sp. Strain B2-EB: Comparative Genomics Reveals Minimal Genomic Features Required by a Cultivable Burkholderiaceae-Related Endofungal Bacterium

    This study attempted the isolation of a novel endobacterium, Mycoavidus sp. B2-EB (JCM 33615), harbored in the fungal host Mortierella parvispora E1425 (JCM 39028). We report the complete genome sequence of this strain, which possesses a reduced genome size with relatively high genome completeness and a streamlined genome structure. The information indicates...

    Yong Guo, Yusuke Takashima, Yoshinori Sato, Kazuhiko Narisawa, Hiroyuki Ohta, Tomoyasu Nishizawa
  • Municipal Wastewater Surveillance Revealed a High Community Disease Burden of a Rarely Reported and Possibly Subclinical <em>Salmonella enterica</em> Serovar Derby Strain
    Public and Environmental Health Microbiology
    Municipal Wastewater Surveillance Revealed a High Community Disease Burden of a Rarely Reported and Possibly Subclinical Salmonella enterica Serovar Derby Strain

    Wastewater-based epidemiology (WBE) has been conventionally used to analyze community health via the detection of chemicals, such as legal and illicit drugs; however, municipal wastewater contains microbiological determinants of health and disease as well, including enteric pathogens. Here, we demonstrate that WBE can be used to examine subclinical community salmonellosis patterns. Derby was the most abundant Salmonella serovar...

    Sabrina Diemert, Tao Yan
  • Open Access
    Fumonisin and Beauvericin Chemotypes and Genotypes of the Sister Species <em>Fusarium subglutinans</em> and <em>Fusarium temperatum</em>
    Plant Microbiology
    Fumonisin and Beauvericin Chemotypes and Genotypes of the Sister Species Fusarium subglutinans and Fusarium temperatum

    Fusarium subglutinans and F. temperatum are sister species and maize pathogens commonly isolated worldwide that can produce several mycotoxins and cause seedling disease, stalk rot, and ear rot. The ability of these species to produce beauvericin and fumonisin mycotoxins is not settled, as reports...

    M. Veronica Fumero, Alessandra Villani, Antonia Susca, Miriam Haidukowski, Maria T. Cimmarusti, Christopher Toomajian, John F. Leslie, Sofia N. Chulze, Antonio Moretti
  • Phylogenomic Analyses of Members of the Widespread Marine Heterotrophic Genus <em>Pseudovibrio</em> Suggest Distinct Evolutionary Trajectories and a Novel Genus, <em>Polycladidibacter</em> gen. nov.
    Evolutionary and Genomic Microbiology
    Phylogenomic Analyses of Members of the Widespread Marine Heterotrophic Genus Pseudovibrio Suggest Distinct Evolutionary Trajectories and a Novel Genus, Polycladidibacter gen. nov.

    The genus Pseudovibrio is commonly associated with marine invertebrates, which are essential for ocean health and marine nutrient cycling. Traditionally, the phylogeny of the genus has been based on 16S rRNA gene analysis. The use of the 16S rRNA gene or any other single marker gene for robust phylogenetic placement has recently been questioned. We used a large set of marker genes from all available Pseudovibrio...

    I. Hinger, R. Ansorge, M. Mussmann, S. Romano
  • Predatory Organisms with Untapped Biosynthetic Potential: Descriptions of Novel <em>Corallococcus</em> Species <em>C. aberystwythensis</em> sp. nov., <em>C. carmarthensis</em> sp. nov., <em>C. exercitus</em> sp. nov., <em>C. interemptor</em> sp. nov., <em>C. llansteffanensis</em> sp. nov., <em>C. praedator</em> sp. nov., <em>C. sicarius</em> sp. nov., and <em>C. terminator</em> sp. nov.
    Environmental Microbiology | Spotlight
    Predatory Organisms with Untapped Biosynthetic Potential: Descriptions of Novel Corallococcus Species C. aberystwythensis sp. nov., C. carmarthensis sp. nov., C. exercitus sp. nov., C. interemptor sp. nov., C. llansteffanensis sp. nov., C. praedator sp. nov., C. sicarius sp. nov., and C. terminator sp. nov.

    Corallococcus is a genus of predators with broad prey ranges, whose genomes contain large numbers of gene clusters for secondary metabolite biosynthesis. The physiology and evolutionary heritage of eight Corallococcus species strains were characterized using a range of analyses and assays. Multiple metrics confirmed that each strain belonged to a novel species within the Corallococcus genus. The strains...

    Paul G. Livingstone, Oliver Ingleby, Susan Girdwood, Alan R. Cookson, Russell M. Morphew, David E. Whitworth
  • Pseudofructophilic <span class="named-content genus-species" id="named-content-1">Leuconostoc citreum</span> Strain F192-5, Isolated from Satsuma Mandarin Peel
    Environmental Microbiology
    Pseudofructophilic Leuconostoc citreum Strain F192-5, Isolated from Satsuma Mandarin Peel

    Obligate fructophilic lactic acid bacteria (FLAB) lack the metabolic pathways used in the metabolism of most carbohydrates and differ from other lactic acid bacteria in that they prefer to ferment d-fructose instead of d-glucose. These characteristics are well conserved at the genus or species level. Leuconostoc citreum...

    Shintaro Maeno, Yasuhiro Tanizawa, Akinobu Kajikawa, Yu Kanesaki, Eri Kubota, Masanori Arita, Leon Dicks, Akihito Endo
  • Clinically Unreported Salmonellosis Outbreak Detected via Comparative Genomic Analysis of Municipal Wastewater <em>Salmonella</em> Isolates
    Public and Environmental Health Microbiology
    Clinically Unreported Salmonellosis Outbreak Detected via Comparative Genomic Analysis of Municipal Wastewater Salmonella Isolates

    Underdetection of microbial infectious disease outbreaks in human communities carries enormous health costs and is an ongoing problem in public health monitoring (which relies almost exclusively on data from health clinics). Surveillance of municipal wastewater for community-level monitoring of infectious disease burdens has the potential to fill this information gap, due to its easy access to the mixed community microbiome. In the...

    Sabrina Diemert, Tao Yan
  • Population Genetics and Characterization of <span class="named-content genus-species" id="named-content-1">Campylobacter jejuni</span> Isolates from Western Jackdaws and Game Birds in Finland
    Public and Environmental Health Microbiology
    Population Genetics and Characterization of Campylobacter jejuni Isolates from Western Jackdaws and Game Birds in Finland

    The roles of environmental reservoirs, including wild birds, in the molecular epidemiology of Campylobacter jejuni have not been assessed in depth. Our results showed that game birds may pose a risk for acquiring campylobacteriosis, because they had C. jejuni genomotypes highly similar to human...

    Sara Kovanen, Mirko Rossi, Mari Pohja-Mykrä, Timo Nieminen, Mirja Raunio-Saarnisto, Mikaela Sauvala, Maria Fredriksson-Ahomaa, Marja-Liisa Hänninen, Rauni Kivistö
  • Comparative Genomic Analysis Reveals the Distribution, Organization, and Evolution of Metal Resistance Genes in the Genus <em>Acidithiobacillus</em>
    Environmental Microbiology
    Comparative Genomic Analysis Reveals the Distribution, Organization, and Evolution of Metal Resistance Genes in the Genus Acidithiobacillus

    Horizontal gene transfer (HGT), natural selection, and gene duplication are three main engines that drive the adaptive evolution of microbial genomes. Previous studies indicated that HGT was a main adaptive mechanism in acidophiles to cope with heavy-metal-rich environments. However, evidences of HGT in Acidithiobacillus species in response to challenging metal-rich environments and the mechanisms addressing how metal...

    Liangzhi Li, Zhenghua Liu, Delong Meng, Xueduan Liu, Xing Li, Ming Zhang, Jiemeng Tao, Yabing Gu, Shuiping Zhong, Huaqun Yin
  • A Cotransformation Method To Identify a Restriction-Modification Enzyme That Reduces Conjugation Efficiency in <span class="named-content genus-species" id="named-content-1">Campylobacter jejuni</span>
    Genetics and Molecular Biology
    A Cotransformation Method To Identify a Restriction-Modification Enzyme That Reduces Conjugation Efficiency in Campylobacter jejuni

    Conjugation is an important horizontal gene transfer mechanism contributing to the evolution of bacterial pathogenesis and antimicrobial resistance. Campylobacter jejuni, the leading foodborne bacterial organism, displays significant strain diversity due to horizontal gene transfer; however, the molecular components influencing conjugation efficiency in...

    Ximin Zeng, Zuowei Wu, Qijing Zhang, Jun Lin

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