Dataset Information

The complete chloroplast genome of Myxopyrum hainanense and phylogenic analysis of Oleaceae.

ABSTRACT: We assembled and characterized the complete chloroplast genome sequence of Myxopyrum hainanense to investigate its phylogenetic position. The plastome is 156,064 bp in length, which is comprised of a large single-copy (LSC) region of 86,851 bp, a small single-copy (SSC) region of 17,837 bp, and two inverted repeat (IR) regions of 25,688 bp. The overall GC content of the plastome was 37.7. The new sequence comprised total 135 genes, including 87 protein-coding genes, 8 ribosomal RNA genes, and 40 tRNA genes. Phylogenetic analysis showed that M. hainanense was close to Nyctanthes arbor-tristis.

SUBMITTER: Zhu X

PROVIDER: S-EPMC7510599 | biostudies-literature |

REPOSITORIES: biostudies-literature

ACCESS DATA

Similar Datasets

Project description:Background:Phylogenetic relationship within different genera of Lemnoideae, a kind of small aquatic monocotyledonous plants, was not well resolved, using either morphological characters or traditional markers. Given that rich genetic information in chloroplast genome makes them particularly useful for phylogenetic studies, we used chloroplast genomes to clarify the phylogeny within Lemnoideae. Methods:DNAs were sequenced with next-generation sequencing. The duckweeds chloroplast genomes were indirectly filtered from the total DNA data, or directly obtained from chloroplast DNA data. To test the reliability of assembling the chloroplast genome based on the filtration of the total DNA, two methods were used to assemble the chloroplast genome of Landoltia punctata strain ZH0202. A phylogenetic tree was built on the basis of the whole chloroplast genome sequences using MrBayes v.3.2.6 and PhyML 3.0. Results:Eight complete duckweeds chloroplast genomes were assembled, with lengths ranging from 165,775 bp to 171,152 bp, and each contains 80 protein-coding sequences, four rRNAs, 30 tRNAs and two pseudogenes. The identity of L. punctata strain ZH0202 chloroplast genomes assembled through two methods was 100%, and their sequences and lengths were completely identical. The chloroplast genome comparison demonstrated that the differences in chloroplast genome sizes among the Lemnoideae primarily resulted from variation in non-coding regions, especially from repeat sequence variation. The phylogenetic analysis demonstrated that the different genera of Lemnoideae are derived from each other in the following order: Spirodela, Landoltia, Lemna, Wolffiella, and Wolffia. Discussion:This study demonstrates potential of whole chloroplast genome DNA as an effective option for phylogenetic studies of Lemnoideae. It also showed the possibility of using chloroplast DNA data to elucidate those phylogenies which were not yet solved well by traditional methods even in plants other than duckweeds.

Dataset Information

The complete chloroplast genome of Myxopyrum hainanense and phylogenic analysis of Oleaceae.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets