- Title
- Comparative genomics for understanding intraspecific diversity: a case study of the cyanobacterium Raphidiopsis raciborskii
- Creator
- Willis, Anusuya; Woodhouse, Jason N.; Neilan, Brett A.; Burford, Michele A.
- Relation
- Advances in Phytoplankton Ecology: Applications of Emerging Technologies p. 415-434
- Publisher Link
- http://dx.doi.org/10.1016/B978-0-12-822861-6.00021-2
- Publisher
- Elsevier
- Resource Type
- book chapter
- Date
- 2021
- Description
- Characterization and identification of phytoplankton species is important for understanding aquatic systems ecology. Whole genome sequencing of a phytoplankton species provides a detailed characterization of its gene content, giving insights into its metabolic pathways and physiology. Comparative genomics: the investigation into the similarities and differences of two or more organisms extends this characterization to an understanding of a species' environmental adaptation, ecology, and evolutionary history. This chapter provides an overview of comparative genomics, including a general workflow and the principles of data analysis. Concepts cover core, pan- and variable shell genomes, gene gain and loss, and strategies of genome evolution. As a model, we focus on the cyanobacteria, due to their small genome size, which provides an ease of study that does not extend to larger eukaryotes. A case study of the harmful bloom-forming cyanobacterium Raphidiopsis raciborskii is presented as an example of the investigation of intraspecific genomic diversity. Comparative genomics of R. raciborskii revealed that strains of this species complex have a high level of genetic variability, suggesting on-going genome adaptation via horizontal gene transfer and phage interactions.
- Subject
- genomes; intraspecific diversity; core genome; pangenome; variable shell genome; unique genes; SDG 14; Sustainable Development Goals
- Identifier
- http://hdl.handle.net/1959.13/1481222
- Identifier
- uon:50677
- Identifier
- ISBN:9780128230299
- Language
- eng
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