About this Research Topic
Sequencing complete organelle genomes has become a common and powerful approach to generate large amounts of data with the potential to explore genomic evolution across lineages. Organelle genomes are also useful to reconstruct phylogenetic relationships, compare rates of molecular evolution between organelles, and to detect genomic rearrangements and gene selection pressures. Given the growing number of published organelle genomes in the last years, now it is possible to perform large-scale comparative analyses using hundreds of taxa, which allows comprehensive analyses and provide a framework to detect discrepancies in phylogenetic signal among organelles. Organelle genomes can be also used to extract common barcoding regions able to complement data matrices including large numbers of species with few genomic data available.
During recent years, thousands of studies have been published characterizing organelle genomes from animals, plants, and other organisms using a variety of methods to assemble, annotate, and analyze them. Our goal in this Special Issue is to compile studies characterizing organelle genomes applying different methods and taxonomic scales to learn current trends and summarize the most common and accurate techniques to conduct these analyses.
This Research Topic aims to promote the publication of studies describing organelle genomes within a broad evolutionary framework. Manuscripts can be formatted as Original Research, Brief Research Reports, Systematic Reviews, Mini Reviews, Opinions, and Perspectives. Submissions should represent high quality work not being considered for publication elsewhere. Manuscripts can describe organelle genomes from any organism. Submissions describing single organelle genomes will not be considered for publication. Studies on non-model species are particularly welcome. Topics include, but are not limited, to:
• Characterization of multiple organelles representing diverse taxa, especially non-model species and taxa not previously included in molecular studies or from poorly studied regions.
• Comprehensive analyses comparing organelle genomes.
• Linking genomic features with factors promoting adaptations, phenotypic changes, and diversifications.
• Comparative assessments of gene structure.
• Evaluation of phylogenetic congruence among signals from different organelles.
• Detection of selection pressure in genes.
• Building phylogenies from whole genomes or multi-gene datasets for systematics.
• Systematic or population studies based on whole organelle genomes.
• Novel approaches or pipelines to characterize and/or analyze organelle genomes.
• Evaluation of methods to characterize, annotate and/or analyze organelle genomes.
During recent years, thousands of studies have been published characterizing organelle genomes from animals, plants, and other organisms using a variety of methods to assemble, annotate, and analyze them. Our goal in this Special Issue is to compile studies characterizing organelle genomes applying different methods and taxonomic scales to learn current trends and summarize the most common and accurate techniques to conduct these analyses.
This Research Topic aims to promote the publication of studies describing organelle genomes within a broad evolutionary framework. Manuscripts can be formatted as Original Research, Brief Research Reports, Systematic Reviews, Mini Reviews, Opinions, and Perspectives. Submissions should represent high quality work not being considered for publication elsewhere. Manuscripts can describe organelle genomes from any organism. Submissions describing single organelle genomes will not be considered for publication. Studies on non-model species are particularly welcome. Topics include, but are not limited, to:
• Characterization of multiple organelles representing diverse taxa, especially non-model species and taxa not previously included in molecular studies or from poorly studied regions.
• Comprehensive analyses comparing organelle genomes.
• Linking genomic features with factors promoting adaptations, phenotypic changes, and diversifications.
• Comparative assessments of gene structure.
• Evaluation of phylogenetic congruence among signals from different organelles.
• Detection of selection pressure in genes.
• Building phylogenies from whole genomes or multi-gene datasets for systematics.
• Systematic or population studies based on whole organelle genomes.
• Novel approaches or pipelines to characterize and/or analyze organelle genomes.
• Evaluation of methods to characterize, annotate and/or analyze organelle genomes.
Keywords: Chloroplast genomes, diversification, evolutionary relationships, genome characterization, genome rearrangements, genome structure, mitochondrial genome, molecular phylogenetics, next-generation sequencing, organelle genomes, phylogenomics
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.
