The complete chloroplast genome of <i>Clivia miniata</i>

Wang, Wei; Zhang, Fan; Li, Chenhe; Zhou, Xudan

doi:10.1080/23802359.2020.1721033

Cited by 3 publications

(1 citation statement)

References 5 publications

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“…17 protein coding genes contain one or two introns. Phylogenetic tree analysis shows that Clivia miniata has the closest genetic relationship with Lycoris radiata, Lycoris squamigera, and Narcissus poeticus [52] . After consulting a large number of literature, it has been found that there are many studies on the correlation analysis of the whole chloroplast genome of the entire subfamily of the Allium subfamily, comparison of multiple Allium plants to study systematic development and evolution, genetic variation and cluster analysis of the Lycoris genus, providing reference for studying the genetic diversity, origin or phylogenetic relationship, and variety identi cation of wild species [30-34, 21, 27-38] .…”

Section: Introductionmentioning

confidence: 99%

Characteristics analysis of chloroplast genome and molecular evolution of chloroplast genes in Amaryllidaceae plants

Chen

2023

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Background Amaryllidaceae is a family of Monocotyledons in Liliflorae, and is considered an important ornamental and economic plant due to its usually showy flowers, and the Amaryllidaceae also has enormous medicinal value. Currently, the gene structure characteristics and molecular function analysis of all chloroplast genomes in Amaryllidaceae are rarely reported, so this study mainly analyzed the gene structure characteristics and molecular function of all chloroplast genomes in Amaryllidaceae to reveal the characteristics of the chloroplast genome of Amaryllidaceae plants and explore their evolution and development patterns, and it used bioinformatics methods to analyze the chloroplast genome sequences of 64 Amaryllidaceae plants that have been published on NCBI. Results Among the 64 species of Amaryllidaceae plants, the species with a gene number of 86 had the most chloroplasts, with 38 species accounting for approximately 59%. The number of rRNAs in its chloroplast genome is all 8. There are 55 species of plants in the Amaryllidaceae with 38 tRNAs, and only a few species have abnormal tRNA numbers in their chloroplast genomes due to the loss or duplication of tRNA genes. The GC content of chloroplast genomes in all species ranges from 36–39%, indicating that their AT content is roughly between 61–64%. The high proportion of AT content in chloroplast genomes indicates that chloroplast codons prefer to use A/T bases. By constructing a phylogenetic evolution tree, it was found that the 64 species of Amaryllidaceae plants can be divided into 12 evolutionary groups. Lycoris longituba and Lycoris anhuiensis have the fastest evolutionary speed, while Allium przewalskianum and Allium polyrhizum CMS-S have the most primitive and slowest evolutionary speed. By analyzing the codon preference of chloroplast genomes, it was found that plants in the Amaryllidaceae prefer to use synonymous codons ending in A/U, and their chloroplast genome codon usage bias is weak. Conclusion Our results preliminarily explored the relationship between each species in Amaryllidaceae, and the characteristics of the entire chloroplast genome sequence of Amaryllidaceae were revealed, these results provide a certain theoretical basis for further research on the plants of the Amaryllidaceae family in the future.

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Section: Introductionmentioning

confidence: 99%

Characteristics analysis of chloroplast genome and molecular evolution of chloroplast genes in Amaryllidaceae plants

Chen

2023

Preprint

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Comparative plastomics of Amaryllidaceae: Inverted repeat expansion and the degradation of the ndh genes in Strumaria truncata Jacq

Könyves

Bilsborrow

Christodoulou

et al. 2021

Preprint

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Amaryllidaceae is a widespread and distinctive plant family contributing both food and ornamental plants. Here we present an initial survey of plastomes across the family and report on both structural rearrangements and gene losses. Most plastomes in the family are of similar gene arrangement and content however some taxa have shown gains in plastome length while in several taxa there is evidence of gene loss. Strumaria truncata shows a substantial loss of ndh family genes while three other taxa show loss of cemA, which has been reported only rarely. Our sparse sampling of the family has detected sufficient variation to suggest further sampling across the family could be a rich source of new information on plastome variation and evolution.

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Comparative plastomics of Amaryllidaceae: inverted repeat expansion and the degradation of the ndh genes in Strumaria truncata Jacq.

Könyves

Bilsborrow

Christodoulou

et al. 2021

PeerJ

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The complete chloroplast genome of Clivia miniata

Cited by 3 publications

References 5 publications

Characteristics analysis of chloroplast genome and molecular evolution of chloroplast genes in Amaryllidaceae plants

Characteristics analysis of chloroplast genome and molecular evolution of chloroplast genes in Amaryllidaceae plants

Comparative plastomics of Amaryllidaceae: Inverted repeat expansion and the degradation of the ndh genes in Strumaria truncata Jacq

Comparative plastomics of Amaryllidaceae: inverted repeat expansion and the degradation of the ndh genes in Strumaria truncata Jacq.

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