Dataset Information

Characterization of the complete chloroplast genome of Saussurea integrifolia (Compositae).

ABSTRACT: The complete chloroplast genome sequence of Saussurea integrifolia, a flowering plant occurring in Hengduan Mountains with high altitudes, is determined in this study. The plastome is 152,584?bp in length, with one large single-copy region of 83,497?bp, one small single-copy region of 18,646?bp, and two inverted repeat (IR) regions of 25,221?bp. It contains 123 genes, including 86 protein-coding genes, 8 ribosomal RNA, and 36 transfer RNA. Phylogenetic tree shows that this species is a sister to Arctium lappa. The published plastome within Saussurea provides significant insight for elucidating the phylogenetic relationship of taxa within tribe Compositae.

SUBMITTER: Chen C

PROVIDER: S-EPMC7707334 | biostudies-literature | 2019 Oct

REPOSITORIES: biostudies-literature

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Characterization of the complete chloroplast genome of <i>Saussurea integrifolia</i> (Compositae).

Chen Chunlin C Gong Yihua Y Hao Guoqian G

Mitochondrial DNA. Part B, Resources 20191011 2

The complete chloroplast genome sequence of <i>Saussurea integrifolia</i>, a flowering plant occurring in Hengduan Mountains with high altitudes, is determined in this study. The plastome is 152,584 bp in length, with one large single-copy region of 83,497 bp, one small single-copy region of 18,646 bp, and two inverted repeat (IR) regions of 25,221 bp. It contains 123 genes, including 86 protein-coding genes, 8 ribosomal RNA, and 36 transfer RNA. Phylogenetic tree shows that this species is a si ...[more]

PMID: 33366059

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Project description:BackgroundSequence data from the chloroplast genome have played a central role in elucidating the evolutionary history of flowering plants, Angiospermae. In the past decade, the number of complete chloroplast genomes has burgeoned, leading to well-supported angiosperm phylogenies. However, some relationships, particulary among early-diverging lineages, remain unresolved. The diverse Southern Hemisphere plant family Proteaceae arose on the ancient supercontinent Gondwana early in angiosperm history and is a model group for adaptive radiation in response to changing climatic conditions. Genomic resources for the family are limited, and until now it is one of the few early-diverging 'basal eudicot' lineages not represented in chloroplast phylogenomic analyses.ResultsThe chloroplast genome of the Australian nut crop tree Macadamia integrifolia was assembled de novo from Illumina paired-end sequence reads. Three contigs, corresponding to a collapsed inverted repeat, a large and a small single copy region were identified, and used for genome reconstruction. The complete genome is 159,714 bp in length and was assembled at deep coverage (3.29 million reads; ~2000 x). Phylogenetic analyses based on 83-gene and inverted repeat region alignments, the largest sequence-rich datasets to include the basal eudicot family Proteaceae, provide strong support for a Proteales clade that includes Macadamia, Platanus and Nelumbo. Genome structure and content followed the ancestral angiosperm pattern and were highly conserved in the Proteales, whilst size differences were largely explained by the relative contraction of the single copy regions and expansion of the inverted repeats in Macadamia.ConclusionsThe Macadamia chloroplast genome presented here is the first in the Proteaceae, and confirms the placement of this family with the morphologically divergent Plantanaceae (plane tree family) and Nelumbonaceae (sacred lotus family) in the basal eudicot order Proteales. It provides a high-quality reference genome for future evolutionary studies and will be of benefit for taxon-rich phylogenomic analyses aimed at resolving relationships among early-diverging angiosperms, and more broadly across the plant tree of life.

Dataset Information

Characterization of the complete chloroplast genome of Saussurea integrifolia (Compositae).

Publications

Characterization of the complete chloroplast genome of <i>Saussurea integrifolia</i> (Compositae).

Similar Datasets

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