Microbial genetics, genomics and proteomics

Section edited by Hirotada Mori

This section aims to publish studies relating to all aspects of microbial genomics, proteomics, metabolomics and systems biology.

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  1. Research article

    Identification of new Corynebacterium pseudotuberculosis antigens by immunoscreening of gene expression library

    Caseous lymphadenitis (CLA) is a disease that affects sheep, goats and occasionally humans. The etiologic agent is the Corynebacterium pseudotuberculosis bacillus. The objective of this study was to build a gene ...

    Cleber Eduardo Galvão, Stenio Perdigão Fragoso, Carina Elisei de Oliveira, Odinéia Forner, Renata Ribeiro Bastos Pereira, Cleber Oliveira Soares and Grácia Maria Soares Rosinha

    BMC Microbiology 2017 17:202

    Published on: 21 September 2017

  2. Research article

    The role of the two-component systems Cpx and Arc in protein alterations upon gentamicin treatment in Escherichia coli

    The aminoglycoside antibiotic gentamicin was supposed to induce a crosstalk between the Cpx- and the Arc-two-component systems (TCS). Here, we investigated the physical interaction of the respective TCS compon...

    Emina Ćudić, Kristin Surmann, Gianna Panasia, Elke Hammer and Sabine Hunke

    BMC Microbiology 2017 17:197

    Published on: 18 September 2017

  3. Research article

    A comparison of sequencing platforms and bioinformatics pipelines for compositional analysis of the gut microbiome

    Advancements in Next Generation Sequencing (NGS) technologies regarding throughput, read length and accuracy had a major impact on microbiome research by significantly improving 16S rRNA amplicon sequencing. A...

    Imane Allali, Jason W. Arnold, Jeffrey Roach, Maria Belen Cadenas, Natasha Butz, Hosni M. Hassan, Matthew Koci, Anne Ballou, Mary Mendoza, Rizwana Ali and M. Andrea Azcarate-Peril

    BMC Microbiology 2017 17:194

    Published on: 13 September 2017

  4. Research article

    Upper and lower respiratory tract microbiota in horses: bacterial communities associated with health and mild asthma (inflammatory airway disease) and effects of dexamethasone

    The microbial composition of the equine respiratory tract, and differences due to mild equine asthma (also called Inflammatory Airway Disease (IAD)) have not been reported. The primary treatment for control of...

    Stephanie L. Bond, Edouard Timsit, Matthew Workentine, Trevor Alexander and Renaud Léguillette

    BMC Microbiology 2017 17:184

    Published on: 23 August 2017

  5. Research article

    Differences in survival, virulence and biofilm formation between sialidase-deficient and W83 wild-type Porphyromonas gingivalis strains under stressful environmental conditions

    Porphyromonas gingivalis is a major causative pathogen of chronic periodontitis. Within the inflammatory microenvironment, there exists extreme pH values, elevated temperatures and oxi...

    Xiaoyu Xu, Tong Tong, Xue Yang, Yaping Pan, Li Lin and Chen Li

    BMC Microbiology 2017 17:178

    Published on: 18 August 2017

  6. Research article

    Genetic diversity and virulence potential of clinical and environmental Aeromonas spp. isolates from a diarrhea outbreak

    Aeromonas spp. are gram-negative bacteria that can cause a variety of infections in both humans and animals and play a controversial role in diarrhea outbreaks. Our aim was to identify...

    Lívia Christina Alves da Silva, Tereza Cristina Leal-Balbino, Beatriz Souza Toscano de Melo, Carina Lucena Mendes-Marques, Antonio Mauro Rezende, Alzira Maria Paiva de Almeida and Nilma Cintra Leal

    BMC Microbiology 2017 17:179

    Published on: 18 August 2017

  7. Research article

    Proteomic analysis during of spore germination of Moniliophthora perniciosa, the causal agent of witches’ broom disease in cacao

    Moniliophthora perniciosa is a phytopathogenic fungus responsible for witches’ broom disease of cacao trees (Theobroma cacao L.). Understanding the molecular events during germination ...

    Joise Hander Mares, Karina Peres Gramacho, Everton Cruz Santos, André da Silva Santiago, Juliano Oliveira Santana, Aurizângela Oliveira de Sousa, Fátima Cerqueira Alvim and Carlos Priminho Pirovani

    BMC Microbiology 2017 17:176

    Published on: 17 August 2017

  8. Research article

    Development of a new fluorescent reporter:operator system: location of AraC regulated genes in Escherichia coli K-12

    In bacteria, many transcription activator and repressor proteins regulate multiple transcription units that are often distally distributed on the bacterial genome. To investigate the subcellular location of DN...

    Laura E. Sellars, Jack A. Bryant, María-Antonia Sánchez-Romero, Eugenio Sánchez-Morán, Stephen J. W. Busby and David J. Lee

    BMC Microbiology 2017 17:170

    Published on: 3 August 2017

  9. Research article

    Biogeographical distribution analysis of hydrocarbon degrading and biosurfactant producing genes suggests that near-equatorial biomes have higher abundance of genes with potential for bioremediation

    Bacterial and Archaeal communities have a complex, symbiotic role in crude oil bioremediation. Their biosurfactants and degradation enzymes have been in the spotlight, mainly due to the awareness of ecosystem ...

    Jorge S. Oliveira, Wydemberg J. Araújo, Ricardo M. Figueiredo, Rita C. B. Silva-Portela, Alaine de Brito Guerra, Sinara Carla da Silva Araújo, Carolina Minnicelli, Aline Cardoso Carlos, Ana Tereza Ribeiro de Vasconcelos, Ana Teresa Freitas and Lucymara F. Agnez-Lima

    BMC Microbiology 2017 17:168

    Published on: 27 July 2017

  10. Research article

    Sequence-based identification of inositol monophosphatase-like histidinol-phosphate phosphatases (HisN) in Corynebacterium glutamicum, Actinobacteria, and beyond

    The eighth step of l-histidine biosynthesis is carried out by an enzyme called histidinol-phosphate phosphatase (HolPase). Three unrelated HolPase families are known so far. Two of them are well studied: HAD-type...

    Robert Kasimir Kulis-Horn, Christian Rückert, Jörn Kalinowski and Marcus Persicke

    BMC Microbiology 2017 17:161

    Published on: 18 July 2017

  11. Research article

    Proteomics-based identification of differentially abundant proteins reveals adaptation mechanisms of Xanthomonas citri subsp. citri during Citrus sinensis infection

    Xanthomonas citri subsp. citri (Xac) is the causal agent of citrus canker. A proteomic analysis under in planta infectious and non-infectious conditions was conducted in order to incre...

    Leandro M. Moreira, Márcia R. Soares, Agda P. Facincani, Cristiano B. Ferreira, Rafael M. Ferreira, Maria I. T. Ferro, Fábio C. Gozzo, Érica B. Felestrino, Renata A. B. Assis, Camila Carrião M. Garcia, João C. Setubal, Jesus A. Ferro and Julio C.F. de Oliveira

    BMC Microbiology 2017 17:155

    Published on: 11 July 2017

  12. Research article

    Transcriptome profiling analysis reveals metabolic changes across various growth phases in Bacillus pumilus BA06

    Bacillus pumilus can secret abundant extracellular enzymes, and may be used as a potential host for the industrial production of enzymes. It is necessary to understand the metabolic pr...

    Lin-Li Han, Huan-Huan Shao, Yong-Cheng Liu, Gang Liu, Chao-Ying Xie, Xiao-Jie Cheng, Hai-Yan Wang, Xue-Mei Tan and Hong Feng

    BMC Microbiology 2017 17:156

    Published on: 11 July 2017

  13. Research article

    Intra- and inter-isolate variation of ribosomal and protein-coding genes in Pleurotus: implications for molecular identification and phylogeny on fungal groups

    The internal transcribed spacer (ITS), RNA polymerase II second largest subunit (RPB2), and elongation factor 1-alpha (EF1α) are often used in fungal taxonomy and phylogenetic analysis. As we know, an ideal mo...

    Xiao-Lan He, Qian Li, Wei-Hong Peng, Jie Zhou, Xue-Lian Cao, Di Wang, Zhong-Qian Huang, Wei Tan, Yu Li and Bing-Cheng Gan

    BMC Microbiology 2017 17:139

    Published on: 26 June 2017

  14. Research article

    Towards diagnostic metagenomics of Campylobacter in fecal samples

    The development of diagnostic metagenomics is driven by the need for universal, culture-independent methods for detection and characterization of pathogens to substitute the time-consuming, organism-specific, ...

    Sandra Christine Andersen, Kristoffer Kiil, Christoffer Bugge Harder, Mathilde Hasseldam Josefsen, Søren Persson, Eva Møller Nielsen and Jeffrey Hoorfar

    BMC Microbiology 2017 17:133

    Published on: 8 June 2017

  15. Research article

    Site-specific His/Asp phosphoproteomic analysis of prokaryotes reveals putative targets for drug resistance

    Phosphorylation of amino acid residues on proteins is an important and common post-translational modification in both eukaryotes and prokaryotes. Most research work has been focused on phosphorylation of serin...

    Shu-Jung Lai, I-Fan Tu, Wan-Ling Wu, Jhih-Tian Yang, Louis Y. P. Luk, Mei-Chin Lai, Yu-Hsuan Tsai and Shih-Hsiung Wu

    BMC Microbiology 2017 17:123

    Published on: 25 May 2017

  16. Research article

    Gene expression of Vibrio parahaemolyticus growing in laboratory isolation conditions compared to those common in its natural ocean environment

    Vibrio parahaemolyticus is an autochthonous marine bacterial species comprising strains able to grow in broth containing bile salts at 37 °C, a condition seldom found in the ocean. How...

    Katherine García, Cristian Yáñez, Nicolás Plaza, Francisca Peña, Pedro Sepúlveda, Diliana Pérez-Reytor and Romilio T. Espejo

    BMC Microbiology 2017 17:118

    Published on: 19 May 2017

  17. Research article

    Comparative proteomic analysis of Neisseria meningitidis wildtype and dprA null mutant strains links DNA processing to pilus biogenesis

    DNA processing chain A (DprA) is a DNA binding protein which is ubiquitous in bacteria, and is required for DNA transformation to various extents among bacterial species. However, the interaction of DprA with ...

    Getachew Tesfaye Beyene, Shewit Kalayou, Tahira Riaz and Tone Tonjum

    BMC Microbiology 2017 17:96

    Published on: 21 April 2017

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