The complete chloroplast genome and phylogenetic analysis of <i>Smilax moranensis</i> (Liliales: Smilacaceae)

Ji, Baoyu; Pei, Lixin; Cui, Ning

doi:10.1080/23802359.2022.2091960

Cited by 3 publications

(3 citation statements)

References 4 publications

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“… 2018 ), Smilax moranensis OL693684 (Ji et al. 2022 ), S. microphylla NC_056390 (Wu et al. 2021 ), S. weniae NC_067604 (Feng et al.…”

Section: Resultsmentioning

confidence: 99%

Complete chloroplast genome of Tricyrtis xianjuensis Li, Chen & Ma 2014 (Liliaceae): a species endemic to Zhejiang province, China

Huang,

Lu,

Wang

et al. 2024

Mitochondrial DNA Part B

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Tricyrtis xianjuensis Li, Chen & Ma 2014 is a rare and endangered species endemic to Zhejiang province, with fewer than 200 individuals in the wild. In our present study, the complete chloroplast genome of T. xianjuensis was assembled by using high-throughput sequencing data, and its genomic features were described and comparative genomic analyses within Liliaceae family were performed. The complete chloroplast genome of T. xianjuensis was 155,748 bp in length, exhibiting a GC content of 37.3%. This genome structure contained two inverted repeats (IRs), as well as a small single-copy (SSC) and a large single-copy (LSC) region. The IR region measured 26,371 bp, while the SSC and LSC regions were 17,729 bp and 85,277 bp in length, respectively. A total of 137 genes were identified, including 85 protein-coding genes, 38 tRNA genes, eight rRNA genes, and six pseudogenes. Phylogenic analysis revealed T. xianjuensis shared a clade with T. formosana Baker 1879 and T. macropoda Miq. 1867, with a support rate of 100%. The assembly and analysis of T. xianjuensis chloroplast genome provided an insight into further studies on the conservation genetics of this endangered species.

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“… 2018 ), Smilax moranensis OL693684 (Ji et al. 2022 ), S. microphylla NC_056390 (Wu et al. 2021 ), S. weniae NC_067604 (Feng et al.…”

Section: Resultsmentioning

confidence: 99%

Complete chloroplast genome of Tricyrtis xianjuensis Li, Chen & Ma 2014 (Liliaceae): a species endemic to Zhejiang province, China

Huang,

Lu,

Wang

et al. 2024

Mitochondrial DNA Part B

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“…The stated species of the accession OL693684 was “ Smilax moranensis ”, which is native from Mexico to Nicaragua [ 97 ], without record in China [ 45 ]. Referring to the publication of Ji et al in 2022 [ 42 ] reporting OL693684, the sample was collected from Henan, China. Meanwhile, the reference list included studies related to S. scobinicaulis .…”

Section: Methodsmentioning

confidence: 99%

“…(NC_049023 = MT261169) and Smilax nipponica Miq. (NC_049024 = MT261170) in 2020 [ 39 ], Smilax microphylla C. H. Wright (NC_056390 = MW423607) [ 40 ] and S. glabra (NC_058534 = MZ566572) [ 41 ] in 2021, and Smilax scobinicaulis C. H. Wright (OL693684) [ 42 ] in 2022.…”

Section: Introductionmentioning

confidence: 99%

The Complete Chloroplast Genomes of Nine Smilacaceae Species from Hong Kong: Inferring Infra- and Inter-Familial Phylogeny

Wong

Siu

Tsang

et al. 2023

IJMS

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The Smilacaceae is a cosmopolitan family consisting of 200–370 described species. The family includes two widely accepted genera, namely Smilax and Heterosmilax. Among them, the taxonomical status of Heterosmilax has been continuously challenged. Seven Smilax and two Heterosmilax species can be found in Hong Kong, with most of them having medicinal importance. This study aims to revisit the infra-familial and inter-familial relationships of the Smilacaceae using complete chloroplast genomes. The chloroplast genomes of the nine Smilacaceae species from Hong Kong were assembled and annotated, which had sizes of 157,885 bp to 159,007 bp; each of them was identically annotated for 132 genes, including 86 protein-coding genes, 38 transfer RNA genes, and 8 ribosomal RNA genes. The generic status of Heterosmilax was not supported because it was nested within the Smilax clade in the phylogenetic trees, echoing previous molecular and morphological studies. We suggest delimitating the genus Heterosmilax as a section under the genus Smilax. The results of phylogenomic analysis support the monophyly of Smilacaceae and the exclusion of Ripogonum from the family. This study contributes to the systematics and taxonomy of monocotyledons, authentication of medicinal Smilacaceae, and conservation of plant diversity.

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The complete chloroplast genome of Syzygium grijsii (Myrtaceae)

Zhou

Zhang

Yang

2023

Preprint

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Syzygium grijsii roots and leaves can be used as medicine, and the fruits are rich in many nutrients, which have many research and application prospects. By analyzing the chloroplast genome of S. grijsii by analyzing the chloroplast genome of S. grijsii, it can help to evaluate its phylogenetic relationships and provide a theoretical basis for the development and application of S. grijsii. In this study, we first sequenced the complete chloroplast genome of S. grijsii to investigate its phylogenetic position in the Myrtaceae. The chloroplast genome of S. grijsii is 158,591 bp in size, including a large single-copy region of 88,046 bp, a small single-copy region of 18, 409 bp, and a reverse repeat region; a total of 129 genes were detected, 84 protein-coding genes, 37 tRNA genes and eight rRNA genes, with a total GC content of 37.0%. In S. grijsii, a total of 84 SSR loci were detected, and it has a strong A/T bias. Phylogenetic analysis showed that S. grijsii was closest related to S. jambos, S. forrestii and S. cumini. The analysis of the chloroplast genome and phylogeny analysis of S. grijsii provides a theoretical basis for the identification of S. grijsii species resources identification and exploitation.

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The complete chloroplast genome and phylogenetic analysis of Smilax moranensis (Liliales: Smilacaceae)

Cited by 3 publications

References 4 publications

Complete chloroplast genome of Tricyrtis xianjuensis Li, Chen & Ma 2014 (Liliaceae): a species endemic to Zhejiang province, China

Complete chloroplast genome of Tricyrtis xianjuensis Li, Chen & Ma 2014 (Liliaceae): a species endemic to Zhejiang province, China

The Complete Chloroplast Genomes of Nine Smilacaceae Species from Hong Kong: Inferring Infra- and Inter-Familial Phylogeny

The complete chloroplast genome of Syzygium grijsii (Myrtaceae)

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