Complete chloroplast genome of endangered Bruguiera hainesii C.G.Rogers 1919 and phylogenetic analysis with associated species
Background: Bruguiera hainesii C.G. Rogers 1919, a true mangrove tree is a critically endangered species (CR) in Vietnam. This species is restricted to the Con Dao National Park, Ba Ria-Vung Tau province, where it occurs in very tiny populations. However, the exploration of the chloroplast genome of...
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| Format: | Article |
| Language: | English |
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Wolters Kluwer Medknow Publications
2023-01-01
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| Series: | Biomedical and Biotechnology Research Journal |
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| Online Access: | http://www.bmbtrj.org/article.asp?issn=2588-9834;year=2023;volume=7;issue=4;spage=590;epage=597;aulast=Tran |
| _version_ | 1797352255823806464 |
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| author | Viet Ha Tran Thi Thu Trang Hoang Mai Phuong Pham Dinh Giap Vu Quoc Khanh Nguyen Dinh Duy Vu |
| author_facet | Viet Ha Tran Thi Thu Trang Hoang Mai Phuong Pham Dinh Giap Vu Quoc Khanh Nguyen Dinh Duy Vu |
| author_sort | Viet Ha Tran |
| collection | DOAJ |
| description | Background: Bruguiera hainesii C.G. Rogers 1919, a true mangrove tree is a critically endangered species (CR) in Vietnam. This species is restricted to the Con Dao National Park, Ba Ria-Vung Tau province, where it occurs in very tiny populations. However, the exploration of the chloroplast genome of B. hainesii in Vietnam has a serious lack of information. It is extremely challenging to promote the conservation of B. hainesii. Therefore, urgently required to discover and comprehend the chloroplast genome of B. hainesii. Methods: To detect evolutionary analysis between mangroves, we sequenced the complete chloroplast genome of B. hainesii using next-generation sequencing technology (Illumina Hiseq X Ten). Results: We sequenced and assembled the complete chloroplast genome of B. hainesii, which was deposited in GenBank as accession number OR086085. The DNA was circular with 164,305 bp length, comprising 37% GC. The genome contained a large single-copy region of 91,724 bp, inverted repeat regions of 26,360 bp, and a short single-copy region of 19,861 bp. Furthermore, it contained 130 genes, consisting of 83 protein-coding genes, 37 tRNAs, and 8 rRNAs. We detected 131 single-sequence repeats, including 119 mononucleotides, 11 dinucleotides, and one trinucleotide. Phylogenetic analysis showed strong support that B. hainesii was sister to B. cylindrica. Conclusions: The findings in this study provide a foundation for species identification, evolutionary genetics, and the conservation of endangered B. hainesii in Vietnam. |
| first_indexed | 2024-03-08T13:13:37Z |
| format | Article |
| id | doaj.art-c87516b27301407b8336c552a24923b0 |
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| issn | 2588-9834 2588-9842 |
| language | English |
| last_indexed | 2024-03-08T13:13:37Z |
| publishDate | 2023-01-01 |
| publisher | Wolters Kluwer Medknow Publications |
| record_format | Article |
| series | Biomedical and Biotechnology Research Journal |
| spelling | doaj.art-c87516b27301407b8336c552a24923b02024-01-18T11:02:45ZengWolters Kluwer Medknow PublicationsBiomedical and Biotechnology Research Journal2588-98342588-98422023-01-017459059710.4103/bbrj.bbrj_218_23Complete chloroplast genome of endangered Bruguiera hainesii C.G.Rogers 1919 and phylogenetic analysis with associated speciesViet Ha TranThi Thu Trang HoangMai Phuong PhamDinh Giap VuQuoc Khanh NguyenDinh Duy VuBackground: Bruguiera hainesii C.G. Rogers 1919, a true mangrove tree is a critically endangered species (CR) in Vietnam. This species is restricted to the Con Dao National Park, Ba Ria-Vung Tau province, where it occurs in very tiny populations. However, the exploration of the chloroplast genome of B. hainesii in Vietnam has a serious lack of information. It is extremely challenging to promote the conservation of B. hainesii. Therefore, urgently required to discover and comprehend the chloroplast genome of B. hainesii. Methods: To detect evolutionary analysis between mangroves, we sequenced the complete chloroplast genome of B. hainesii using next-generation sequencing technology (Illumina Hiseq X Ten). Results: We sequenced and assembled the complete chloroplast genome of B. hainesii, which was deposited in GenBank as accession number OR086085. The DNA was circular with 164,305 bp length, comprising 37% GC. The genome contained a large single-copy region of 91,724 bp, inverted repeat regions of 26,360 bp, and a short single-copy region of 19,861 bp. Furthermore, it contained 130 genes, consisting of 83 protein-coding genes, 37 tRNAs, and 8 rRNAs. We detected 131 single-sequence repeats, including 119 mononucleotides, 11 dinucleotides, and one trinucleotide. Phylogenetic analysis showed strong support that B. hainesii was sister to B. cylindrica. Conclusions: The findings in this study provide a foundation for species identification, evolutionary genetics, and the conservation of endangered B. hainesii in Vietnam.http://www.bmbtrj.org/article.asp?issn=2588-9834;year=2023;volume=7;issue=4;spage=590;epage=597;aulast=Trancp sequencegenome comparisonmangrovesphylogenysequence repeats |
| spellingShingle | Viet Ha Tran Thi Thu Trang Hoang Mai Phuong Pham Dinh Giap Vu Quoc Khanh Nguyen Dinh Duy Vu Complete chloroplast genome of endangered Bruguiera hainesii C.G.Rogers 1919 and phylogenetic analysis with associated species Biomedical and Biotechnology Research Journal cp sequence genome comparison mangroves phylogeny sequence repeats |
| title | Complete chloroplast genome of endangered Bruguiera hainesii C.G.Rogers 1919 and phylogenetic analysis with associated species |
| title_full | Complete chloroplast genome of endangered Bruguiera hainesii C.G.Rogers 1919 and phylogenetic analysis with associated species |
| title_fullStr | Complete chloroplast genome of endangered Bruguiera hainesii C.G.Rogers 1919 and phylogenetic analysis with associated species |
| title_full_unstemmed | Complete chloroplast genome of endangered Bruguiera hainesii C.G.Rogers 1919 and phylogenetic analysis with associated species |
| title_short | Complete chloroplast genome of endangered Bruguiera hainesii C.G.Rogers 1919 and phylogenetic analysis with associated species |
| title_sort | complete chloroplast genome of endangered bruguiera hainesii c g rogers 1919 and phylogenetic analysis with associated species |
| topic | cp sequence genome comparison mangroves phylogeny sequence repeats |
| url | http://www.bmbtrj.org/article.asp?issn=2588-9834;year=2023;volume=7;issue=4;spage=590;epage=597;aulast=Tran |
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