Comparative and phylogenetic analyses of 26 Magnoliaceae species based on complete chloroplast genome sequences

Shen, Yamei; Chen, Kai; Gu, Cuihua; Zheng, Shaoyu; Ma, Lan

doi:10.1139/cjfr-2018-0296

Cited by 11 publications

(14 citation statements)

References 44 publications

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“…Among the 26 Magnoliaceae species, the length of the cp genome ranged from 158,177 to 160,183 bp, the GC content ranged from 39.15% to 39.30%, and they collectively contained 112 common genes, including 79 PCGs, 29 tRNA, and four rRNA genes; also, one or two introns were found among these 16 genes. The results for the M. shiluensis cp genome were consistent with a previous analysis of 26 Magnoliaceae species [34], except for the number of genes, one additional tRNA gene (trnV-GAC) was detected in M. shiluensis. Similar to other angiosperms, a high GC content was detected in the IR region of M. shiluensis, which may be a result of the existence of high-GC rRNA sequences [9,[35][36][37].…”

Section: Discussionsupporting

confidence: 90%

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Complete Chloroplast Genome of Michelia shiluensis and a Comparative Analysis with Four Magnoliaceae Species

Deng

Luo

et al. 2020

Forests

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Michelia shiluensis is a rare and endangered magnolia species found in South China. This species produces beautiful flowers and is thus widely used in landscape gardening. Additionally, its timber is also used for furniture production. As a result of low rates of natural reproduction and increasing levels of human impact, wild M. shiluensis populations have become fragmented. This species is now classified as endangered by the IUCN. In the present study, we characterized the complete chloroplast genome of M. shiluensis and found it to be 160,075 bp in length with two inverted repeat regions (26,587 bp each), a large single-copy region (88,105 bp), and a small copy region (18,796 bp). The genome contained 131 genes, including 86 protein-coding genes, 37 tRNAs, and 8 rRNAs. The guanine-cytosine content represented 39.26% of the overall genome. Comparative analysis revealed high similarity between the M. shiluensis chloroplast genome and those of four closely related species: Michelia odora, Magnolia laevifolia, Magnolia insignis, and Magnolia cathcartii. Phylogenetic analysis shows that M. shiluensis is most closely related to M. odora. The genomic information presented in this study is valuable for further classification, phylogenetic studies, and to support ongoing conservation efforts.

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Section: Discussionsupporting

confidence: 90%

“…In this study, no introns were lost in the cp genome of M. shiluensis during evolution, which reflects the fact that the cp genome is highly conserved in Magnoliaceae [34].…”

Section: Discussionmentioning

confidence: 54%

Complete Chloroplast Genome of Michelia shiluensis and a Comparative Analysis with Four Magnoliaceae Species

Deng

Luo

et al. 2020

Forests

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“…This phylogenetic result enhanced the study by Shen et al. ( 2018 ) using complete cp genomes but was not consistent with the analysis by Kim et al. ( 2001 ) using cp ndh F and Nie et al.…”

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confidence: 70%

“…The phylogenetic tree revealed that the species of M. delavayi was isolated first among the genus Magnolia with the support rate of 100% (Figure 1). This phylogenetic result enhanced the study by Shen et al (2018) The first report of complete cp genome in M. delavayi will be a valuable resource for the future studies in conservation genetics, phylogeny, and breeding in Magnolia.…”

Section: Disclosure Statementmentioning

confidence: 68%

The complete chloroplast genome of Magnolia delavayi, a threatened species endemic to Southwest China

Xia

et al. 2020

Mitochondrial DNA Part B

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Magnolia delavayi, a threatened plant endemic to Southwest China, is of great importance for landscaping because of its lotus-like creamy flowers. In this study, the complete chloroplast (cp) genome of M. delavayi was assembled based on the Illumina sequences. The cp genome of M. delavayi was 159,470 bp in length and contained a pair of inverted regions (IR, 26,409 bp) which were separated by the small single copy (SSC, 18,760 bp) and the large single copy (LSC, 87,892 bp) regions. It encoded 132 genes including 86 protein-coding genes, 37 tRNA genes, and eight rRNA ribosomal genes. The overall AT content of M. delavayi cp genome is 60.7%. The maximum likelihood phylogenetic analysis revealed that the species of M. delavayi was isolated first among the genus Magnolia. This result will be helpful for the conservation and phylogeny programs of the genus Magnolia.

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“…The Magnoliaceae family presents a classic Asian-North American disjunct distribution, with adequate fossil records all around Laurasia [10,11]. Members of the family also have relatively primitive flowers [12], which makes these taxa highly valuable for research in plant evolution and reproductive ecology [13,14,15]. There are widely differing opinions on the taxonomy of the Magnoliaceae, mainly regarding generic circumscription [16].…”

Section: Introductionmentioning

confidence: 99%

The Complete Plastid Genome of Magnolia zenii and Genetic Comparison to Magnoliaceae species

Sylvester

et al. 2019

Molecules

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Magnolia zenii is a critically endangered species known from only 18 trees that survive on Baohua Mountain in Jiangsu province, China. Little information is available regarding its molecular biology, with no genomic study performed on M. zenii until now. We determined the complete plastid genome of M. zenii and identified microsatellites. Whole sequence alignment and phylogenetic analysis using BI and ML methods were also conducted. The plastome of M. zenii was 160,048 bp long with 39.2% GC content and included a pair of inverted repeats (IRs) of 26,596 bp that separated a large single-copy (LSC) region of 88,098 bp and a small single-copy (SSC) region of 18,757 bp. One hundred thirty genes were identified, of which 79 were protein-coding genes, 37 were transfer RNAs, and eight were ribosomal RNAs. Thirty seven simple sequence repeats (SSRs) were also identified. Comparative analyses of genome structure and sequence data of closely-related species revealed five mutation hotspots, useful for future phylogenetic research. Magnolia zenii was placed as sister to M. biondii with strong support in all analyses. Overall, this study providing M. zenii genomic resources will be beneficial for the evolutionary study and phylogenetic reconstruction of Magnoliaceae.

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Comparative and phylogenetic analyses of 26 Magnoliaceae species based on complete chloroplast genome sequences

Cited by 11 publications

References 44 publications

Complete Chloroplast Genome of Michelia shiluensis and a Comparative Analysis with Four Magnoliaceae Species

Complete Chloroplast Genome of Michelia shiluensis and a Comparative Analysis with Four Magnoliaceae Species

The complete chloroplast genome of Magnolia delavayi, a threatened species endemic to Southwest China

The Complete Plastid Genome of Magnolia zenii and Genetic Comparison to Magnoliaceae species

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