Characterization of the complete chloroplast genome of Fraxinus chiisanensis (Oleaceae), an endemic to Korea

Kim, Changkyun; Kim, Hyuk-Jin; Khoa, Hoang Dang; Jung, Joonhyung; Kim, Joohwan

doi:10.1007/s12686-017-0969-9

Cited by 4 publications

(5 citation statements)

References 9 publications

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“…For molecular dating analyses, we included 42 species, excluding four from which we could not obtain nuclear and/or cpDNA regions used in this study from NCBI. Based on previous phylogenetic studies ( Wallander, 2008 ; Hinsinger et al., 2013 ; Kim et al., 2019 ), we also included three species ( Olea europaea L., Osmanthus fragrans Lour., and Ligustrum vulgare L.) of Oleaceae as outgroups. The sampled taxa and GenBank accession numbers of all species are listed in Table S1 .…”

Section: Methodsmentioning

confidence: 99%

Phylogenetic relationship, biogeography, and conservation genetics of endangered Fraxinus chiisanensis (Oleaceae), endemic to South Korea

Kim

Sun

et al. 2022

Plant Diversity

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Section: Methodsmentioning

confidence: 99%

Phylogenetic relationship, biogeography, and conservation genetics of endangered Fraxinus chiisanensis (Oleaceae), endemic to South Korea

Kim

Sun

et al. 2022

Plant Diversity

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“…Total DNA was used for the shotgun library construction and the subsequent high-throughput sequencing on the Illumina HiSeq 2500 Sequencing System ( 0 ). In total, 2.1G raw reads were obtained, quality-trimmed and used for the cp genome assembly using MITObim v1.8 (Hahn et al 2013) with F. chiisanensis (GenBank: NC_037171) (Kim et al 2018) as the initial reference. The genome was annotated using software Geneious v 9.0.2 (Biomatters Ltd., Auckland, New Zealand).…”

Section: Fraxinus Mandshurica; Chloroplast; Illumina Sequencing; Phylmentioning

confidence: 99%

“… 2013 ) with F. chiisanensis (GenBank: NC_037171) (Kim et al. 2018 ) as the initial reference. The genome was annotated using software Geneious v 9.0.2 (Biomatters Ltd., Auckland, New Zealand).…”

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confidence: 99%

Characterization of the complete chloroplast genome of Fraxinus mandshurica (Oleaceae)

Zhao

Zhou

Zhang

et al. 2018

Mitochondrial DNA Part B

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The whole chloroplast (cp) genome sequence of Fraxinus mandshurica has been characterized from Illumina pair-end sequencing. The complete cp genome was 155,530 bp in length, containing a large single copy region (LSC) of 86,415 bp and a small single copy region (SSC) of 19,279 bp, which were separated by a pair of inverted repeat (IR) regions of 25,653 bp. The genome contained 133 genes, including 88 protein-coding genes, 37 tRNA genes and eight ribosomal RNA genes (four rRNA species). Most genes occur as a single copy, while 19 gene species are duplicated. phylogenetic analysis revealed that F. mandshurica is closely related to the species of F. chiisanensis and F. excelsior.

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“…Various analyses have been performed to identify the plastid genome features and develop molecular markers to define the phylogenesis of endemic species (C. Kim et al. 2019 ; C. Kim et al. 2020 ).…”

Section: Introductionmentioning

confidence: 99%

Characterization of the complete plastid genome of Korean endemic,Ajuga spectabilisNakai (Lamiaceae)

Kamra

Jung

Kim

et al. 2023

Mitochondrial DNA Part B

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Ajuga spectabilis Nakai is a Korean endemic species in Lamiaceae. In spite of its importance, genomic studies are not performed on this species. Here, we report the complete plastid genome sequences of A. spectabilis , which will provide valuable information for its natural conservation and future studies for the plastid genome evolution. The plastid genome is 150,417 bp in length, containing a large single-copy region (LSC) of 82,140 bp and a small single-copy (SSC) region of 17,165 bp which are separated by a pair of inverted repeats (IR) of 25,556 bp. It encodes 113 genes, including 79 protein-coding genes, 30 tRNA genes, and four rRNA genes. The overall GC content is 38.3%, and those in the LSC, SSC, and IR regions are 36.4%, 32.2%, and 43.3%, respectively, which is consistent with other Ajuga species. Our phylogenetic analysis revealed that A. spectabilis formed a close relationship with A. ciliata and A. decumbens .

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Characterization of the complete chloroplast genome of Fraxinus chiisanensis (Oleaceae), an endemic to Korea

Cited by 4 publications

References 9 publications

Phylogenetic relationship, biogeography, and conservation genetics of endangered Fraxinus chiisanensis (Oleaceae), endemic to South Korea

Phylogenetic relationship, biogeography, and conservation genetics of endangered Fraxinus chiisanensis (Oleaceae), endemic to South Korea

Characterization of the complete chloroplast genome of Fraxinus mandshurica (Oleaceae)

Characterization of the complete plastid genome of Korean endemic,Ajuga spectabilisNakai (Lamiaceae)

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