The complete chloroplast genome of Ziziphus jujuba cv. Bokjo (Rhamnaceae)
We have sequenced the Ziziphus jujuba cv. Bokjo chloroplast genome by de novo assembly using next-generation sequencing. The complete circular chloroplast genome consisted of 161,714 bp and contained four parts: a large single-copy (LSC) region of 89,323 bp, a small single-copy (SSC) region of 19,36...
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| Format: | Article |
| Language: | English |
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Taylor & Francis Group
2022-10-01
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| Series: | Mitochondrial DNA. Part B. Resources |
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| Online Access: | http://dx.doi.org/10.1080/23802359.2022.2131366 |
| _version_ | 1797638514188222464 |
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| author | Moonkyo Kim Jin Hee Park Jinsu Gil Jung Sung Kim Hyoung Tae Kim Ha Kyung Oh Kyeong Hee Lee Minjee Lee Jungho Lee Yi Lee |
| author_facet | Moonkyo Kim Jin Hee Park Jinsu Gil Jung Sung Kim Hyoung Tae Kim Ha Kyung Oh Kyeong Hee Lee Minjee Lee Jungho Lee Yi Lee |
| author_sort | Moonkyo Kim |
| collection | DOAJ |
| description | We have sequenced the Ziziphus jujuba cv. Bokjo chloroplast genome by de novo assembly using next-generation sequencing. The complete circular chloroplast genome consisted of 161,714 bp and contained four parts: a large single-copy (LSC) region of 89,323 bp, a small single-copy (SSC) region of 19,361 bp, and two inverted repeat regions (IRa and IRb) of 26,515 bp each. The genome annotation predicted a total of 110 genes, including 76 protein-coding genes, 30 tRNA genes, and four rRNA genes. Phylogenetic analysis demonstrated the close taxonomic relationship between Z. jujuba cv. Bokjo and two other members of the Ziziphus genus, Z. spina-christi and Z. mauritiana. We found 135 polymorphic loci, 63 single nucleotide polymorphism (SNP) and 72 insertion–deletion (InDel), from the comparison of Z. jujuba cultivar Bokjo and Z. jujuba reference (NC_030299). The polymorphic loci could be used for the differentiation of Z. jujuba genetic resources and for breeding in the future. |
| first_indexed | 2024-03-11T13:04:42Z |
| format | Article |
| id | doaj.art-897a453b2f4c4c0d91bb2b3ae2ece761 |
| institution | Directory Open Access Journal |
| issn | 2380-2359 |
| language | English |
| last_indexed | 2024-03-11T13:04:42Z |
| publishDate | 2022-10-01 |
| publisher | Taylor & Francis Group |
| record_format | Article |
| series | Mitochondrial DNA. Part B. Resources |
| spelling | doaj.art-897a453b2f4c4c0d91bb2b3ae2ece7612023-11-03T14:44:05ZengTaylor & Francis GroupMitochondrial DNA. Part B. Resources2380-23592022-10-017101805180610.1080/23802359.2022.21313662131366The complete chloroplast genome of Ziziphus jujuba cv. Bokjo (Rhamnaceae)Moonkyo Kim0Jin Hee Park1Jinsu Gil2Jung Sung Kim3Hyoung Tae Kim4Ha Kyung Oh5Kyeong Hee Lee6Minjee Lee7Jungho Lee8Yi Lee9Department of Industrial Plant Science & Technology, Chungbuk National UniversityNakdonggang National Institute of Biological ResourcesDepartment of Industrial Plant Science & Technology, Chungbuk National UniversityDepartment of Forest Science, Chungbuk National UniversityCollege of Ecology and Environmental Science, Kyungpook National UniversityChungcheongbuk-do Agricultural Research & Extension ServicesChungcheongbuk-do Agricultural Research & Extension ServicesGreen Plant InstituteGreen Plant InstituteDepartment of Industrial Plant Science & Technology, Chungbuk National UniversityWe have sequenced the Ziziphus jujuba cv. Bokjo chloroplast genome by de novo assembly using next-generation sequencing. The complete circular chloroplast genome consisted of 161,714 bp and contained four parts: a large single-copy (LSC) region of 89,323 bp, a small single-copy (SSC) region of 19,361 bp, and two inverted repeat regions (IRa and IRb) of 26,515 bp each. The genome annotation predicted a total of 110 genes, including 76 protein-coding genes, 30 tRNA genes, and four rRNA genes. Phylogenetic analysis demonstrated the close taxonomic relationship between Z. jujuba cv. Bokjo and two other members of the Ziziphus genus, Z. spina-christi and Z. mauritiana. We found 135 polymorphic loci, 63 single nucleotide polymorphism (SNP) and 72 insertion–deletion (InDel), from the comparison of Z. jujuba cultivar Bokjo and Z. jujuba reference (NC_030299). The polymorphic loci could be used for the differentiation of Z. jujuba genetic resources and for breeding in the future.http://dx.doi.org/10.1080/23802359.2022.2131366chloroplast genomenext-generation sequencingziziphus jujuba |
| spellingShingle | Moonkyo Kim Jin Hee Park Jinsu Gil Jung Sung Kim Hyoung Tae Kim Ha Kyung Oh Kyeong Hee Lee Minjee Lee Jungho Lee Yi Lee The complete chloroplast genome of Ziziphus jujuba cv. Bokjo (Rhamnaceae) Mitochondrial DNA. Part B. Resources chloroplast genome next-generation sequencing ziziphus jujuba |
| title | The complete chloroplast genome of Ziziphus jujuba cv. Bokjo (Rhamnaceae) |
| title_full | The complete chloroplast genome of Ziziphus jujuba cv. Bokjo (Rhamnaceae) |
| title_fullStr | The complete chloroplast genome of Ziziphus jujuba cv. Bokjo (Rhamnaceae) |
| title_full_unstemmed | The complete chloroplast genome of Ziziphus jujuba cv. Bokjo (Rhamnaceae) |
| title_short | The complete chloroplast genome of Ziziphus jujuba cv. Bokjo (Rhamnaceae) |
| title_sort | complete chloroplast genome of ziziphus jujuba cv bokjo rhamnaceae |
| topic | chloroplast genome next-generation sequencing ziziphus jujuba |
| url | http://dx.doi.org/10.1080/23802359.2022.2131366 |
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