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Characterization of the complete chloroplast genome of Phtheirospermum japonicum (Rhinantheae).

ABSTRACT: In this study, we report the complete chloroplast (cp) genome of Phtheirospermum japonicum was determined through Illumina sequencing method. The complete chloroplast genome of Ph. japonicum was 153,397?bp in length and contained a pair of IR regions (25,601?bp) separated by a small single copy region (17,728?bp) and a large single copy region (84,467?bp). The cp genome of Ph. japonicum encoded 125 genes including 86 protein-coding genes, 31 tRNA genes and eight ribosomal RNA genes. The overall GC content of Ph. japonicum cp genome is 38.3%. By phylogenetic analysis using ML method, Ph. japonicum was placed in family Orobanchaceae and showed the closest relationship with Castilleja paramensis.

SUBMITTER: Li YC

PROVIDER: S-EPMC7707329 | biostudies-literature | 2019 Oct

REPOSITORIES: biostudies-literature

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Characterization of the complete chloroplast genome of Phtheirospermum japonicum (Rhinantheae).

Li Yong-Chao YC Zhao Xin-Liang XL Yang Jing J Fu Qing-Yun QY

Mitochondrial DNA. Part B, Resources 20191009 2

In this study, we report the complete chloroplast (cp) genome of Phtheirospermum japonicum was determined through Illumina sequencing method. The complete chloroplast genome of Ph. japonicum was 153,397 bp in length and contained a pair of IR regions (25,601 bp) separated by a small single copy region (17,728 bp) and a large single copy region (84,467 bp). The cp genome of Ph. japonicum encoded 125 genes including 86 protein-coding genes, 31 tRNA genes and eight ribosomal RN ...[more]

PMID: 33366029

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Project description:Erigeron breviscapus is a famous medicinal plant. However, the limited chloroplast genome information of E. breviscapus, especially for the chloroplast DNA sequence resources, has hindered the study of E. breviscapus chloroplast genome transformation. Here, the complete chloroplast (cp) genome of E. breviscapus was reported. This genome was 152,164bp in length, included 37.2% GC content and was structurally arranged into two 24,699bp inverted repeats (IRs) and two single-copy areas. The sizes of the large single-copy region and the small single-copy region were 84,657 and 18,109bp, respectively. The E. breviscapus cp genome consisted of 127 coding genes, including 83 protein coding genes, 36 transfer RNA (tRNA) genes, and eight ribosomal RNA (rRNA) genes. For those genes, 95 genes were single copy genes and 16 genes were duplicated in two inverted regions with seven tRNAs, four rRNAs, and five protein coding genes. Then, genomic DNA of E. breviscapus was used as a template, and the endogenous 5' and 3' flanking sequences of the trnI gene and trnA gene were selected as homologous recombinant fragments in vector construction and cloned through PCR. The endogenous 5' flanking sequences of the psbA gene and rrn16S gene, the endogenous 3' flanking sequences of the psbA gene, rbcL gene, and rps16 gene and one sequence element from the psbN-psbH chloroplast operon were cloned, and certain chloroplast regulatory elements were identified. Two homologous recombination fragments and all of these elements were constructed into the cloning vector pBluescript SK (+) to yield a series of chloroplast expression vectors, which harbored the reporter gene EGFP and the selectable marker aadA gene. After identification, the chloroplast expression vectors were transformed into Escherichia coli and the function of predicted regulatory elements was confirmed by a spectinomycin resistance test and fluorescence intensity measurement. The results indicated that aadA gene and EGFP gene were efficiently expressed under the regulation of predicted regulatory elements and the chloroplast expression vector had been successfully constructed, thereby providing a solid foundation for establishing subsequent E. breviscapus chloroplast transformation system and genetic improvement of E. breviscapus.

Dataset Information

Characterization of the complete chloroplast genome of Phtheirospermum japonicum (Rhinantheae).

Publications

Characterization of the complete chloroplast genome of <i>Phtheirospermum japonicum</i> (Rhinantheae).

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