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Complete Chloroplast Genome Sequence of Sonchus brachyotus Helps to Elucidate Evolutionary Relationships with Related Species of Asteraceae
- Source :
- BioMed Research International, Vol 2021 (2021), BioMed Research International
- Publication Year :
- 2021
- Publisher :
- Hindawi Limited, 2021.
-
Abstract
- Sonchus brachyotus DC. possesses both edible and medicinal properties and is widely distributed throughout China. In this study, the complete cp genome of S. brachyotus was sequenced and assembled. The total length of the complete S. brachyotus cp genome was 151,977 bp, including an LSC region of 84,553 bp, SSC region of 18,138 bp, and IR region of 24,643 bp. Sequence analyses revealed that the cp genome encoded 132 genes, including 87 protein-coding genes, 37 tRNA genes, and 8 rRNA genes. The GC content was 37.6%. One hundred mononucleotide microsatellites, 4 dinucleotide microsatellites, 67 trinucleotide microsatellites, 4 tetranucleotide microsatellites, and 1 long repeat were identified. The SSR frequency of the LSC region was significantly greater than that of the IR and SSC regions. In total, 175 SSRs and highly variable regions were recognized as potential cp markers. By analyzing the IR/LSC and IR/SSC boundaries, structural differences between S. brachyotus and 6 other species were detected. According to phylogenetic analyses, S. brachyotus was most closely related to S. arvensis and S. oleraceus. Overall, this study provides complete cp genome resources for S. brachyotus that will be beneficial for identifying potential molecular markers and evolutionary patterns of S. brachyotus and its closely related species.
- Subjects :
- China
Chloroplasts
Article Subject
Biology
Asteraceae
Genome
General Biochemistry, Genetics and Molecular Biology
Sonchus
RNA, Transfer
Genome, Chloroplast
Gene
Phylogeny
Whole genome sequencing
Genetics
Base Composition
General Immunology and Microbiology
Phylogenetic tree
Whole Genome Sequencing
High-Throughput Nucleotide Sequencing
General Medicine
Sequence Analysis, DNA
Ribosomal RNA
Biological Evolution
Transfer RNA
Microsatellite
Medicine
GC-content
Research Article
Microsatellite Repeats
Subjects
Details
- Language :
- English
- ISSN :
- 23146141
- Volume :
- 2021
- Database :
- OpenAIRE
- Journal :
- BioMed Research International
- Accession number :
- edsair.doi.dedup.....bdae6b24db197b96b9661ed50a7d5ddb