The complete chloroplast genome of <i>Sorbus folgneri</i> (C.K.Schneid.) Rehder (Rosaceae)

Qiu, Jing; Chen, Lin; Yi, Xin; Li, Mingzhi; Geng-guo, Tang

doi:10.1080/23802359.2018.1558127

Cited by 4 publications

(5 citation statements)

References 4 publications

(4 reference statements)

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“…In our results, A. alnifolia showed the closest relationship with Sorbus folgneri (MK161058), which was consistent with the findings of Qiu et al. ( 2019 ), where they used 17 complete chloroplast genomes to construct the ML phylogenetic tree. However, the chloroplast genome of A. alnifolia used in their study was incomplete.…”

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confidence: 91%

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The complete chloroplast genome of Alniaria alnifolia (Siebold and Zucc.) Rushforth, 2018

Yu¹,

Bu²,

Han

et al. 2022

Mitochondrial DNA Part B

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Alniaria alnifolia (Siebold and Zucc.) Rushforth, 2018 (alternative name: Sorbus alnifolia ) belongs to the genus Alniaria of the family Rosaceae and is widely distributed in northern China, Korea, and Japan. It is an essential resource used in the construction, pharmaceuticals, and food industries. It is also used to treat various diseases, such as fever, hyperglycemia, rash, asthma, bronchitis, constipation, leprosy, anemia, and other skin ailments. In this study, we sequenced a sample of A. alnifolia and determined its complete chloroplast genome. The chloroplast genome of A. alnifolia has a circular structure with a length of 159,855 bp, which includes a small single-copy region (19,409 bp), a large single-copy region (87,628 bp), and two inverted repeats (26,409 bp). The sequence had 130 genes, including 85 protein-coding genes, eight rRNA genes, and 37 tRNA genes, and the overall GC content was 36.6%. The genes trn K-UUU, rps 16, trn G-UCC, atp F, rpo C1, trn L-UAA, trn V-UAC, pet B, pet D, rpl 16, rpl 2, ndh B, trn I-GAU, trn A-UGC, and ndh A contained one intron; genes clp P and ycf 3 contained two introns. Phylogenetic results showed that A. alnifolia had the closest relationship with Sorbus folgneri (MK161058).

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confidence: 91%

“…The results of the phylogenetic analysis strongly support the findings of Qiu et al. ( 2019 ). Moreover, there are many evolutionary divergences within the genus Sorbus .…”

supporting

confidence: 88%

The complete chloroplast genome of Alniaria alnifolia (Siebold and Zucc.) Rushforth, 2018

Yu¹,

Bu²,

Han

et al. 2022

Mitochondrial DNA Part B

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“…This somewhat in accordance with the cp genome of Sorbus folgneri (Qiu et al. 2019 ). In addition, 19 genes contained two exons and four genes (clpP, ycf3, and two rps12) contained thee exons which in accordance most of the plant cp genomes (Han et al.…”

supporting

confidence: 88%

“…Five protein-coding genes, seven tRNA genes, and four rRNA genes were duplicated in IR regions. This somewhat in accordance with the cp genome of Sorbus folgneri (Qiu et al 2019). In addition, 19 genes contained two exons and four genes (clpP, ycf3, and two rps12) contained thee exons which in accordance most of the plant cp genomes (Han et al 2019;Li et al 2019;Yi et al 2019).…”

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confidence: 86%

The complete chloroplast genome of Changium smyrnioides Wolff

Bao

Zhu

Gai

2019

Mitochondrial DNA Part B

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Changium smyrnioides Wolff, which could only be found in Eastern China, is a monotypic species of the genus Changium Wolff. In this study, the complete chloroplast genome sequence of C. smyrnioides was assembled and characterized by the 42.33 M high-throughput sequencing data. The chloroplast genome was 155,221 bp in length, consisting of large single-copy (LSC) and small single-copy (SSC) regions of 84,793 bp and 17,828 bp, respectively, which were separated by a pair of 26,300 bp inverted repeat (IR) regions. The genome is predicted to contain 131 genes, including 8 rRNA genes, 37 tRNA genes, and 86 protein-coding genes. The overall GC content of the genome is 37.7%. A phylogenetic tree reconstructed by 37 chloroplast genomes reveals that Chuanminshen violaceum is mostly related species to C. smyrnioides. The work reported here is the first complete chloroplast genome of C. smyrnioides which may provide useful information to the evolution of Changium genus.

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“…Facilitated by next‐generation sequencing (NGS) techniques, genomic data are increasingly incorporated to investigate phylogenetic relationships (Bernhardt et al , Kim and Cullis ). To date, three complete cp Sorbus genomes have been assembled and annotated (Ulaszewski et al , Gil and Kim ,Qiu et al ). The purpose of the present study was not only to understand the phylogenetic status of S. setschwanensis by the complete cp genome comparative analyses with other closely related species, but also to identify highly variable sites in the cp genomes that may be associated with adaptive evolution in different environments and which may be used in future studies of the genetic diversity in the genus.…”

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confidence: 99%

The complete chloroplast genome sequence of the Chinese endemic species Sorbus setschwanensis (Rosaceae) and its phylogenetic analysis

Wang

Niu

et al. 2020

Nordic Journal of Botany

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Sorbus setschwanensis Koehne is a pinnate‐leaved Sorbus s.str. species endemic to China with narrow distribution and intriguing phylogeny that needs wider attention. In this paper, the complete chloroplast (cp) genome of S. setschwanensis is reported, and its phylogenetic position is analyzed. The complete cp genome of S. setschwanensis is 160 064 bp in size with 36.50% GC content. It has a typical quadripartite structure including a pair of inverted repeat regions (IRs) of 26 378 bp that separates a large single copy (LSC) region of 86 013 bp and a small single copy (SSC) region of 19 295 bp. The cp genome encodes 108 genes, comprising 76 protein‐coding genes, 28 tRNA genes and 4 rRNA genes. Additionally, 52 simple sequence repeats (SSRs) and 43 dispersed repeats were identified. Comparison of the whole cp genome with those of other Sorbus species showed an overall high degree of sequence similarity, but there are six highly variable regions (trnR‐atpA, petN‐psbM, ndhC‐trnV, trnE‐trnT, trnT‐trnL and rpl32‐trnL) located in intergenic spacers that may be useful as molecular markers in future population genetic and phylogenetic studies in the genus. Phylogenetic analyses based on 108 coding genes from 25 species in Rosaceae revealed that S. setschwanensis is nested within Sorbus sect. Sorbus together with other pinnately leaved species, but does not form a sister lineage to S. rufopilosa belonging to the same series Multijugae. Thus, the systematic position of S. setschwanensis and relationships with other species in the genus needs to be further studied.

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The complete chloroplast genome of Sorbus folgneri (C.K.Schneid.) Rehder (Rosaceae)

Cited by 4 publications

References 4 publications

The complete chloroplast genome of Alniaria alnifolia (Siebold and Zucc.) Rushforth, 2018

The complete chloroplast genome of Alniaria alnifolia (Siebold and Zucc.) Rushforth, 2018

The complete chloroplast genome of Changium smyrnioides Wolff

The complete chloroplast genome sequence of the Chinese endemic species Sorbus setschwanensis (Rosaceae) and its phylogenetic analysis

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