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Complete plastome sequence of Mallotus japonicus (Linn. f.) Mull. Arg. (Euphorbiaceae): a medicinal plant species endemic in East Asia.

ABSTRACT: Mallotus japonicus is a shrub species in the family of Euphorbiaceae. The study of plastome would be helpful for its phylogenetic study and species identification. The total length of complete plastome for Mallotus japonicus is of 164,912 bp, with typical part-four structure and gene content of angiosperm plastome, including two inverted repeat (IR) regions of 27,829 bp, a large single-copy (LSC) region of 90,319 bp, and a small single-copy (SSC) region of 18,935 bp. The plastome contains 125 genes, consisting of 80 unique protein-coding genes, 31 unique tRNA gene, four unique rRNA genes (5S rRNA, 4.5S rRNA, 16S rRNA, and 23S rRNA), and five pseudogenes. The overall G/C content in the plastome of Mallotus japonicus is 40.2%. The phylogenetic analysis indicates that M. japonicus is closer to M. peltatus than other species in this study. The complete plastome sequence is conducive to the exploitation and utilization of Euphorbiaceae resources and the phylogenetic study in future.

SUBMITTER: Wu WP

PROVIDER: S-EPMC8079058 | biostudies-literature |

REPOSITORIES: biostudies-literature

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Complete plastome sequence of Mallotus peltatus (Geiseler) Mull. Arg. (Euphorbiaceae): A beverage and medicinal plant in Hainan, China.

Project description:Mallotus peltatus is a tropical plant of the Euphorbiaceae family, which could be used as a beverage and medicine in Hainan, China. Here, we report and characterize the complete plastome of M. peltatus. The complete plastome is 163,304 bp in length and contains a typical structure and gene content of angiosperm plastome, including two inverted repeat (IR) regions of 27,112 bp, a large single-copy (LSC) region of 89,886 bp and a small single-copy (SSC) region of 18,840 bp. The plastome contains 131 genes, consisting of 78 unique protein-coding genes, 30 unique tRNA gene, four unique rRNA genes (5S rRNA, 4.5S rRNA, 23S rRNA and 16S rRNA), and eight pseudogenes. The overall A/T content in the plastome of M. peltatus is 64.02%. The complete plastome sequence of M. peltatus will provide a useful resource for the conservation genetics of this species as well as for phylogenetic studies in Euphorbiaceae.

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Complete chloroplast genome sequence and phylogenetic analysis of Mallotus paniculatus (Lam.) Mull. Arg. (Euphorbiaceae).

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Complete plastome sequence of Macaranga tanarius (L.) Muell. Arg. (Euphorbiaceae): a fast-growing timber species.

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The complete plastome sequence of Rumex japonicus Houtt.: a medicinal plant.

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Complete plastome sequence of Croton laevigatus Vahl (Euphorbiaceae): an endemic species in Hainan, China.

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Complete plastome sequence of Vernicia Montana Lour. (Euphorbiaceae): a deciduous tree species in southeast Asia.

Project description:Vernicia montana Lour. is a deciduous tree species belonging to the family of Euphorbiaceae, distributed in southeast Asia. Here, we report and characterize the complete plastome of Vernicia montana Lour. The complete plastome is of 164,506 bp in length with a typical structure and gene content of angiosperm plastome, including two inverted repeat (IRs) regions of 27,965 bp, a large single-copy (LSC) region of 91,427 bp and a small single-copy (SSC) region of 17,149 bp. The plastome contains 130 genes, consisting of 81 protein-coding genes (six of which are repetitive in IR), 38 tRNA genes (seven of which are repetitive in IR), seven rRNA genes (5S rRNA, 4.5S rRNA, 23S rRNA and 16S rRNA) (three of which are repetitive in the IR), and four pseudogenes. The overall G/C content in the plastome of Vernicia montana Lour. is 35.8%. The complete plastome sequence of montana Lour. will provide a useful resource for the conservation genetics of this species as well as for phylogenetic studies in Euphorbiaceae.

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Mallotus japonicus

Project description:Mallotus japonicus overview

| PRJNA759694 | ENA

Dated phylogenies of the sister genera Macaranga and Mallotus (Euphorbiaceae): congruence in historical biogeographic patterns?

Project description:Molecular phylogenies and estimates of divergence times within the sister genera Macaranga and Mallotus were estimated using Bayesian relaxed clock analyses of two generic data sets, one per genus. Both data sets were based on different molecular markers and largely different samples. Per genus three calibration points were utilised. The basal calibration point (crown node of all taxa used) was taken from literature and used for both taxa. The other three calibrations were based on fossils of which two were used per genus. We compared patterns of dispersal and diversification in Macaranga and Mallotus using ancestral area reconstruction in RASP (S-DIVA option) and contrasted our results with biogeographical and geological records to assess accuracy of inferred age estimates. A check of the fossil calibration point showed that the Japanese fossil, used for dating the divergence of Mallotus, probably had to be attached to a lower node, the stem node of all pioneer species, but even then the divergence time was still younger than the estimated age of the fossil. The African (only used in the Macaranga data set) and New Zealand fossils (used for both genera) seemed reliably placed. Our results are in line with existing geological data and the presence of stepping stones that provided dispersal pathways from Borneo to New Guinea-Australia, from Borneo to mainland Asia and additionally at least once to Africa and Madagascar via land and back to India via Indian Ocean island chains. The two genera show congruence in dispersal patterns, which corroborate divergence time estimates, although the overall mode and tempo of dispersal and diversification differ significantly as shown by distribution patterns of extant species.

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Project description:Bridelia tomentosa is a deciduous shrub in the family of Phyllanthaceae. It grows in the evergreen primary or secondary thickets or forests in the sea level from 1000 to 1500 m. It distributed in.south China (e.g., Fujian, Guangdong, Guangxi, Hainan etc) and other south Asian countries (e.g. Bangladesh, Bhutan, Cambodia etc). Here, we report and characterize the complete plastome of B. tomentosa. The complete plastome is of 149,958 bp in length with a typical structure and gene content of angiosperm plastome, including two inverted repeat (IRs) regions of 26,354 bp, a large single-copy (LSC) region of 81,355 bp and a small single-copy (SSC) region of 15,895 bp. The plastome contains 129 genes, consisting of 84 protein-coding genes, 37 tRNA genes, eight rRNA genes. The overall G/C content in the plastome of B. tomentosa is 36.0%. The complete plastome sequence of B. tomentosa will provide a useful resource for the conservation genetics of this species as well as for phylogenetic studies in Phyllanthaceae.

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