About this Research Topic
The continuing advances in the high-throughput and deep sequencing technologies and the bioinformatics tools used to analyse, interpret, and share sequencing data have revolutionised infectious disease microbiology. The emergence of varied “omics” or “omes” technologies have advanced the transition to sequence-based characterisation of infectious diseases.
The microbial genomics characterised by high resolution have allowed for tracking the transmission of infectious agents, establishing accurate evolutionary relationships among circulating pathogens and predicating associated phenotypes (e.g. serotype, pathogenicity, and antimicrobial resistance(AMR)). Therefore, microbial genomics have been extremely useful in investigating outbreaks, detecting the emergence of atypical and novel variants, and tracking the dissemination of AMR.
Currently the size of archived microbial sequences is doubled every two years and, with hundreds of thousands of bacterial and viral samples being sequenced annually, it is likely to grow at an increasing pace. However, this huge volume of microbial sequences has not yet reflected an advance in our understanding of the “functionality” of microbial genes (microbial gene function).
Bacterial functional genomics technologies can have tremendous impact on this knowledge gap because they can assay every gene in the bacterial genome simultaneously to discern genotype-phenotype associations, and they can identify functional signatures of individual bacterial species and/or bacterial populations within specific niches. These included Microbial functional genomics, Transposon Insertion Sequencing (TIS), Transposon Directed Insertion-site Sequencing (TraDIS), Transposon Sequencing (IN-Seq, Tn-Seq), Whole transcriptome, shotgun megtagenomics, microbial genome-wide association studies (mGWAS), Antimicrobial Resistant bacteria, microbe-host interactions, ecological niches, high-throughput phenotype, bacterial knock-out
This Research Topic aims to disseminate up-to-date microbial functional genomic research and highlight the tremendous impact of these technologies in tackling infectious diseases (infectious disease microbiology). This specifically includes novel findings and comprehensive insights on the molecular basis of (and metabolic pathway associated with) bacterial growth, survival, and infectivity and pathogenicity in hosts.
The specific themes of this Research Topic include (but are not limited to):
1. Identification of the molecular basis of bacterial emergence, pathogenesis and infection biology (infections within in vivo environments)
2. Survival mechanisms (and metabolic pathways) employed by bacterial species to resist multiple antimicrobial drugs, tolerate environmental stress, evade host immune responses, and evade bacteriophage killing mechanisms
3. Microbiomics analysis to identify the dynamics of AMR bacteria and ARGs within different hosts and/or varied environments (ecological niches)
4. Translational microbiology involving the identification of bacterial targets for novel therapeutics and preventive interventions
This Research Topic is open for submission of all types of articles offered by Frontiers in Microbiology (Original Research, Systematic Review, Methods, Review, Mini Review, Hypothesis and Theory, Perspective, Opinion, and Technology and Code)
The microbial genomics characterised by high resolution have allowed for tracking the transmission of infectious agents, establishing accurate evolutionary relationships among circulating pathogens and predicating associated phenotypes (e.g. serotype, pathogenicity, and antimicrobial resistance(AMR)). Therefore, microbial genomics have been extremely useful in investigating outbreaks, detecting the emergence of atypical and novel variants, and tracking the dissemination of AMR.
Currently the size of archived microbial sequences is doubled every two years and, with hundreds of thousands of bacterial and viral samples being sequenced annually, it is likely to grow at an increasing pace. However, this huge volume of microbial sequences has not yet reflected an advance in our understanding of the “functionality” of microbial genes (microbial gene function).
Bacterial functional genomics technologies can have tremendous impact on this knowledge gap because they can assay every gene in the bacterial genome simultaneously to discern genotype-phenotype associations, and they can identify functional signatures of individual bacterial species and/or bacterial populations within specific niches. These included Microbial functional genomics, Transposon Insertion Sequencing (TIS), Transposon Directed Insertion-site Sequencing (TraDIS), Transposon Sequencing (IN-Seq, Tn-Seq), Whole transcriptome, shotgun megtagenomics, microbial genome-wide association studies (mGWAS), Antimicrobial Resistant bacteria, microbe-host interactions, ecological niches, high-throughput phenotype, bacterial knock-out
This Research Topic aims to disseminate up-to-date microbial functional genomic research and highlight the tremendous impact of these technologies in tackling infectious diseases (infectious disease microbiology). This specifically includes novel findings and comprehensive insights on the molecular basis of (and metabolic pathway associated with) bacterial growth, survival, and infectivity and pathogenicity in hosts.
The specific themes of this Research Topic include (but are not limited to):
1. Identification of the molecular basis of bacterial emergence, pathogenesis and infection biology (infections within in vivo environments)
2. Survival mechanisms (and metabolic pathways) employed by bacterial species to resist multiple antimicrobial drugs, tolerate environmental stress, evade host immune responses, and evade bacteriophage killing mechanisms
3. Microbiomics analysis to identify the dynamics of AMR bacteria and ARGs within different hosts and/or varied environments (ecological niches)
4. Translational microbiology involving the identification of bacterial targets for novel therapeutics and preventive interventions
This Research Topic is open for submission of all types of articles offered by Frontiers in Microbiology (Original Research, Systematic Review, Methods, Review, Mini Review, Hypothesis and Theory, Perspective, Opinion, and Technology and Code)
Keywords: Microbial functional genomics, Transposon Insertion Sequencing (TIS), Transposon Directed Insertion-site Sequencing (TraDIS), Transposon Sequencing (IN-Seq, Tn-Seq), Whole transcriptome, shotgun megtagenomics, microbial genome-wide association studies
Important Note: All contributions to this Research Topic must be within the scope of the section and journal to which they are submitted, as defined in their mission statements. Frontiers reserves the right to guide an out-of-scope manuscript to a more suitable section or journal at any stage of peer review.
