Complete chloroplast genome sequence of <i>Elatostema dissectum</i> (Urticaceae)

Fu, Long‐Fei; Xin, Zi-Bing; Wen, Fang; Li, Shu; Wei, Yi‐Gang

doi:10.1080/23802359.2019.1567292

Cited by 14 publications

(13 citation statements)

References 9 publications

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“…Our assembly results showed that the lengths of the 4 plastid genomes ranged from 150, 398 bp to 152,327 bp and that they have a typical tetrad structure. In terms of structure, these results are similar to those of most Urticaceae plants [35,36]. In this study, the longest and shortest plastid genomes in Urticaceae were 159,085 bp (Gonostegia hirta) and 146,842 bp (Hesperocnide tenella), respectively.…”

Section: Conserved Genome Structure and Gene Contentsupporting

confidence: 86%

Comparative plastid genomics of four Pilea (Urticaceae) species: insight into interspecific plastid genome diversity in Pilea

et al. 2021

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Background Pilea is a genus of perennial herbs from the family Urticaceae, and some species are used as courtyard ornamentals or for medicinal purposes. At present, there is no information about the plastid genome of Pilea, which limits our understanding of this genus. Here, we report 4 plastid genomes of Pilea taxa (Pilea mollis, Pilea glauca ‘Greizy’, Pilea peperomioides and Pilea serpyllacea ‘Globosa’) and performed comprehensive comparative analysis. Results The four plastid genomes all have a typical quartile structure. The lengths of the plastid genomes ranged from 150,398 bp to 152,327 bp, and each genome contained 113 unique genes, including 79 protein-coding genes, 4 rRNA genes, and 30 tRNA genes. Comparative analysis showed a rather high level of sequence divergence in the four genomes. Moreover, eight hypervariable regions were identified (petN-psbM, psbZ-trnG-GCC, trnT-UGU-trnL-UAA, accD-psbI, ndhF-rpl32, rpl32-trnL-UAG, ndhA-intron and ycf1), which are proposed for use as DNA barcode regions. Phylogenetic relationships based on the plastid genomes of 23 species of 14 genera of Urticaceae resulted in the placement of Pilea in the middle and lower part of the phylogenetic tree, with 100% bootstrap support within Urticaceae. Conclusion Our results enrich the resources concerning plastid genomes. Comparative plastome analysis provides insight into the interspecific diversity of the plastid genome of Pilea. The identified hypervariable regions could be used for developing molecular markers applicable in various research areas.

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Section: Conserved Genome Structure and Gene Contentsupporting

confidence: 86%

Comparative plastid genomics of four Pilea (Urticaceae) species: insight into interspecific plastid genome diversity in Pilea

et al. 2021

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“…Our assembly results showed that the length of 4 cp genomes ranged from 150,398 bp to 152,327 bp. This result is similar to most Urticaceae plants [43,44]. In our study, the longest and shortest cp genome sequences in Urticaceae are 159,085 bp (Gonostegia Hirta) and 146,842 bp (Hesperocnide Tenella), respectively.…”

Section: Discussionsupporting

confidence: 87%

Comparative Chloroplast Genomics of Four Pilea Species (Urticaceae): High Levels of Sequences Divergence Provides New Insight into Interspecific Diversity in Pilea

Li¹,

Tang²,

Zeng³

et al. 2020

Preprint

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Background Pilea is a genus of perennial herbs from the family Urticaceae, which are used for courtyard ornamental. For some species, they are used as medicinal plants in traditional Chinese medicine as well. The morphological characteristics of medicinal species from Pilea are similar, and it is difficult to accurately distinguish them based only on morphological characteristics. Besides, the species classification of Pilea are still controversial. The classification of many species are still in an unresolved state. At present, there is no information about the chloroplast genomes of Pilea, which limits our further understanding of this genus. Here, we first reported 4 chloroplast genomes of Pilea taxa (P. mollis, P. glauca, P. peperomioides and P. serpyllacea), and performed comprehensive comparative analysis. Results The four chloroplast genomes have similar structural characteristics and gene order with other angiosperms. These genomes all have a typical quartile structure, which contains 113 unique genes, including 79 protein-coding genes, 4 rRNA genes, and 30 tRNA genes. Besides, we detected SSRs and repeat sequences, and analyzed the expansion/contraction of IR regions. In particular, the comparative analysis showed a rather level of sequence divergence in the non-coding regions, even in the protein-coding regions of the four genome sequences, suggesting a high level of genetic diversity in Pilea. Moreover, we identified eight hypervariable regions, including petN-psbM; psbZ-trnG-GCC; trnT-UGU-trnL-UAA; accD-psbI; ndhF-rpl32; rpl32-trnL-UAG; ndhA-intron and ycf1, are proposed for use as DNA barcode regions. Phylogenetic analysis showed that four Pilea species form a monophyletic cluster with a 100% bootstrap value. Conclusion The results obtained here could provide abundant information for the phylogenetic position of Pilea and further species identification. High levels of sequences divergence promote our understanding of the interspecific diversity of this genus, also provide reference for the rational classification of unsolved species in the future.

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“…Plastome provides sufficient information to resolve the phylogenetic relationships at generic and infrageneric level. Despite several plastid genomes of species in Urticaceae have been reported (Wu et al 2017;Wu et al 2018;Fu et al 2019;Wang et al 2020), none of them belong to Procris.…”

mentioning

confidence: 99%

Complete chloroplast genome sequence of Procris crenata C.B.Rob (Urticaceae)

Zhang

2021

Mitochondrial DNA Part B

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The complete chloroplast (cp) genome of Procris crenata C.B.Rob was reported. The cp genome was 154,124 bp in length and contained two inverted repeats (IRs) of 25,626 bp, which were separated by large single-copy and small single-copy of 84,599 bp and 18,273 bp, respectively. The GC content was 36.5%. A total of 113 functional genes were encoded, comprising 79 protein-coding genes, 30 tRNA genes, and four rRNA genes. This is the first reported plastid genome in Procris (Urticaceae), which will be useful data for resolving the relationship within the family.

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Complete chloroplast genome sequence of Elatostema dissectum (Urticaceae)

Cited by 14 publications

References 9 publications

Comparative plastid genomics of four Pilea (Urticaceae) species: insight into interspecific plastid genome diversity in Pilea

Comparative plastid genomics of four Pilea (Urticaceae) species: insight into interspecific plastid genome diversity in Pilea

Comparative Chloroplast Genomics of Four Pilea Species (Urticaceae): High Levels of Sequences Divergence Provides New Insight into Interspecific Diversity in Pilea

Complete chloroplast genome sequence of Procris crenata C.B.Rob (Urticaceae)

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