&lt;p&gt;&lt;strong&gt;Excluding the species &lt;em&gt;Monoon fragrans&lt;/em&gt; (Annonaceae) from the flora of China&lt;/strong&gt;&lt;/p&gt;

Xue, Bine; Nurmawati, Subekti; Xu, Yuan; Li, Yongquan

doi:10.11646/phytotaxa.487.1.8

Cited by 3 publications

(1 citation statement)

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“…However, the remarkable diversity of Annonaceae has also posed great challenges and controversies in its phylogenetic research. For example, there are controversies regarding the relationships within certain branches and genera, including the Meiogyne - Fitzalania Clade ( Thomas et al., 2012 ), Desmopsis - Stenanona Clade ( Ortiz-Rodriguez et al., 2018 ), Friesodielsia ( Saunders et al., 2020 ), and Polyalthia ( Chaowasku et al., 2018 ; Xue et al., 2021 ), among others. The development of sequencing technology has greatly advanced research in platid genomics.…”

Section: Introductionmentioning

confidence: 99%

Comparative analysis of plastid genomes reveals rearrangements, repetitive sequence features, and phylogeny in the Annonaceae

Ping,

Hao,

Wang

et al. 2024

Front. Plant Sci.

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The Annonaceae stands as the most species rich family in the Magnoliales, a basal group of angiosperms. Widely distributed in tropical and subtropical regions, it holds significant ecological and economic value. The plastid genome (plastome) is often employed in studies related to plant phylogenetics, comparative genomics, evolutionary biology, and genetic engineering. Nonetheless, research progress on plastid genomics in the Annonaceae has been relatively slow. In this study, we analyzed the structure and repetitive sequence features of plastomes from 28 Annonaceae species. Among them, Mitrephora tomentosa and Desmos chinensis were newly sequenced, with sizes of 160,157 bp and 192,167 bp, and GC contents of 38.3% and 38.4%, respectively. The plastome size in the Annonaceae ranged from 158,837 bp to 202,703 bp, with inverted repeat (IR) region sizes ranging from 64,621 bp to 25,861 bp. Species exhibiting expansion in the IR region showed an increase in plastome size and gene number, frequent boundary changes, different expansion modes (bidirectional or unidirectional), and an increase in repetitive sequences. Specifically, a large number of dispersed repetitive sequences lead to an increase in the size of the LSC region in Goniothalamus tamirensis. Phylogenetic analysis revealed Annonoideae and Malmeoideae as monophyletic groups and sister clades, with Cananga odorata outside of them, followed by Anaxagorea javanica. This research uncovers the structural variation characteristics of plastomes in the Annonaceae, providing valuable information for understanding the phylogeny and plastome evolution of Annonaceae.

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Section: Introductionmentioning

confidence: 99%

Comparative analysis of plastid genomes reveals rearrangements, repetitive sequence features, and phylogeny in the Annonaceae

Ping,

Hao,

Wang

et al. 2024

Front. Plant Sci.

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Repetitive Sequences, Codon Usage Bias and Phylogenetic Analysis of the Plastome of Miliusa glochidioides

Gan,

Ping,

Liu

et al. 2024

Biochem Genet

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Comparative chloroplast genomes of Annonaceae species: Enlargement of plastomes in size, IR region, and gene content

Gan

Liu

Ping

et al. 2022

Preprint

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In recent years, the evolution and phylogeny of plastid genomes have attracted much attention from scholars all over the world. Annonaceae is the largest family in Magnoliales with the greatest diversity among and within genera. Thus comparative analyses of its plastomes will be informative. In this study, the complete chloroplast genome of Miliusa glochidioides was sequenced by next-generation sequencing technology. Using two Magnoliaceae species as out-group, a comparative analysis of the existing 13 Annonaceae plastomes was conducted, and a phylogenetic relationship was constructed based on four methods. Our results show that the Annonaceae plastomes have great variation in the evolution process. The genome size is between 159kb and 202kb while the gene content ranges from 127 to 165. The number of genes in the IR region is between 5 and 39. Plastomes underwent significant structural rearrangements, including one inversion and multiple large-scale expansion (6-20kb) in the lR region, and shrinkage and inversions in the SSC region. Compared with Magnoliaceae, two fragments (pafII-atpE and 5'-rps12-psbJ) were inversed in Annonaceae. The phylogenetic relationship based on 78 common protein genes showed that Cananga odorata was located at the base of Annonaceae. Annonoideae was a monophyletic group, and Chieniodendron hainanense was located inside the Malmeoideae. A total of 737 simple sequence repeats (SSRs) were detected in the study, and the distribution of SSRs varied from species. It is mainly dominated by A/T bases (mononucleotide) and is located in the intergenic region. In conclusion, the plastomes of Annonaceae have undergone great variation during evolution, especially the large-scale expansion of the IR region. Our study provides more information for studying the plastome evolution of Annonaceae.

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<p><strong>Excluding the species <em>Monoon fragrans</em> (Annonaceae) from the flora of China</strong></p>

Cited by 3 publications

References 0 publications

Comparative analysis of plastid genomes reveals rearrangements, repetitive sequence features, and phylogeny in the Annonaceae

Comparative analysis of plastid genomes reveals rearrangements, repetitive sequence features, and phylogeny in the Annonaceae

Repetitive Sequences, Codon Usage Bias and Phylogenetic Analysis of the Plastome of Miliusa glochidioides

Comparative chloroplast genomes of Annonaceae species: Enlargement of plastomes in size, IR region, and gene content

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