Mitochondrial DNA. Part B, Resources最新文献

The genus Sinosenecio B. Nordenstam (1978) is a challenging taxonomic group with complex infrageneric relationships. Here, we newly report the plastid genome of S. eriopodus (Cumm.) C. Jeffrey & Y. L. Chen (1984). Whole genome exhibited a typical quadratic structure with a total size of 151,212 bp and 132 genes. We revealed for the first time that the matK and rpoA were positively selected genes within Sinosenecio. Phylogenetic reconstruction based on whole plastid genome sequences indicated that S. eriopodus was not clustered into a monophyletic clade with members belonging to the S. oldhamianus group of Sinosenecio but rather was closely related to some genera in the subtribe Tussilaginae s.s. of Asteraceae.

Clivia mirabilis Rourke 2002 is an evergreen herbaceous flower with high ornamental value. In this study, we sequenced the complete chloroplast (cp) genome of C. mirabilis and reported it for the first time. The cp genome was 158,914 base pairs (bp) in total length, including two inverted repeats (IRs, 27,052 bp), separated by a large single-copy region (LSC, 86,519 bp) and a small single-copy region (SSC, 18,291 bp). There are 133 different genes in the cp genome of Clivia mirabilis, including 87 protein-coding genes, 38 transfer RNA genes, and eight ribosomal RNA genes. The overall GC content of the cp genome was 37.9%. Our phylogenetic analysis showed that C. mirabilis formed a monophyletic clade with the other sampled species of Clivia, falling into the Amaryllidoideae clade. Our findings could be used to identify and analyze the genetic diversity of C. mirabilis and provide new data for taxonomic and phylogenetic studies of Clivia.

Lycium barbarum var. implicatum (2010), is a new variety of L. barbarum in Solanaceae. Here, we sequenced, assembled, and annotated the complete chloroplast (cp) genome of L. barbarum var. implicatum. Results showed that the complete cp genome of L. barbarum var. implicatum was 154,888 bp in length, containing a large single copy (LSC) region of 85,894 bp, a pair of inverted repeats (IR) region of 25,393 bp, and a small single copy (SSC) region of 18,208 bp. Maximum-likelihood (ML) phylogenetic tree elucidated that L. barbarum var. implicatum was sister to L. ruthenicum. Our results provide useful information for future phylogenetic studies in the family of Solanaceae.

Hemisteptia lyrata, widely distributed in China, has a 152,467 bp chloroplast genome with a large single-copy (LSC) region of 83,473 bp, a small single-copy (SSC) region of 18,594 bp, a pair of inverted repeat regions (IRs) of 25,194 bp in length. The GC content is 36.46%. A total of 133 genes were encoded, of which 88 were protein coding genes, eight were rRNA genes, and 37 were tRNAs. The phylogenetic analysis using the maximum-likelihood method showed that H. lyrata is closely related to the species in Saussurea. This study provides genomic resources for phylogenetic genetics and resource exploitation of H. lyrata.

In this study, we studied the complete chloroplast (cp) genome of Carpesium longifolium F. H. Chen & C. M. Hu 1974. The results indicated that the cp genome had a typical circular structure of 151,260 bp in length. A total of 127 genes were identified, including 36 tRNA genes, 8 rRNA genes and 83 protein-coding genes, with the GC content of 37.7%. Phylogenetic analysis revealed the systematic position of C. longifolium is sister to C. cernuum and C. faberi. For the identification and phylogenetics study of the genus, the chloroplast genome sequence of C. longifolium provides a useful genetic resource.

Rehmannia glutinosa, an extensively utilized Chinese herbal medicine, is highly valued for its medicinal properties. In this study, the complete mitochondrial genome (mitogenome) of R. glutinosa was sequenced and assembled for the first time. The mitogenome is 547,032 bp in length, with an overall GC content of 44.97%. The mitogenome contains 67 unique genes, comprising 43 protein-coding, three rRNA, and 21 tRNA genes, with six protein-coding and nine tRNA genes being chloroplast-derived. The phylogenetic analysis, based on the maximum-likelihood criterion, demonstrated that R. glutinosa is closely related to Aeginetia indica and Castilleja paramensis within the family Orobanchaceae.

Vaccinium henryi Hemsl. 1889 is an endemic deciduous shrub in China, belonging to the family Ericaceae. In this study, the first complete chloroplast genome of V. henryi was assembled and annotated. The genome was 176,339 bp in size containing a large single-copy region of length 106,115 bp, a small single-copy region of length 3022 bp, and a pair of inverted repeat regions of 33,601 bp each. It contained 139 genes, including 91 protein-coding genes, 40 tRNA genes, and 8 rRNA genes. Phylogenetic analysis exhibited that V. henryi and V. oldhamii were phylogenetic closely related. The chloroplast genome of V. henryi would provide valuable information for phylogenetic and evolutionary research on genus Vaccinium.

The leaf beetles have important economic and ecological significance. Phyllobrotica signata belongs to the subfamily Galerucinae. In this study, the complete mitogenome of P. signata has been obtained by the next-generation sequencing. The length of the new complete mitogenome is 16,207 bp containing 37 genes and a control region. Fourteen species from Galerucinae and Alticinae were selected as ingroups for phylogenetic analysis based on mitogenomic data. The results supported that P. signata and P. quadrimaculata were sister groups. The mitochondrial genome of P. signata will provide valuable genetic information for exploring the phylogenetic relationships in the family Chrysomelidae.

Vaccinium oldhamii Miquel 1866 is a deciduous shrub native to Northeast Asia, including Korea, China, and Japan. Its polyphenol-rich edible berries may aid in managing chronic diseases. Despite its importance, the mitogenome of this species remains understudied. This study assembled the complete mitogenome, consisting of 626,941 bp with 45.34% GC content, using NOVOPlasty and Illumina sequencing. The genome includes 38 protein-coding genes, 24 tRNA genes, and three rRNA genes. Phylogenetic analysis revealed a close relationship with V. macrocarpon. This mitogenome provides a valuable resource for phylogenomic studies and insights into evolutionary relationships within the Vaccinium genus and the Ericales order. Vaccinium oldhamii Miquel 1866 is a deciduous shrub in the Ericales and the Ericaceae and is native to Northeast Asia including Korea, China, and Japan. Particular emphasis has been placed on the edible berries of Vaccinium species and their use as dietary supplements. Specifically, the edible berries of V. oldhamii contain high levels of polyphenols, which may aid in preventing and managing chronic diseases. However, the mitogenome sequence of this species, a valuable resource for studying evolutionary relationships and genetic diversity within the Vaccinium genus, has not been thoroughly investigated. In this study, the complete mitochondrial genome sequence of V. oldhamii was assembled into 626,941 bp circular nucleotides with a GC content of 45.34% using NOVOPlasty and Illumina sequencing data. The comprehensive annotation for mitogenome of V. oldhamii revealed that the mitogenome comprises 38 known protein-coding genes, 24 tRNA genes, and three rRNA genes. Phylogenetic analysis using ML method showed that this species is closely related to the V. macrocarpon. This newly sequenced mitochondrial genome offers a valuable resource for phylogenomic analysis and will enhance our understanding of evolutionary relationships within the Ericales order and/or the Vaccinium genus.

Schisandra macrocarpa Lin & Shui, 2011, belongs to the family Schisandraceae and was recently added to the List of National Key Protected Wild Plants in China. We report the complete chloroplast (cp) genome of S. macrocarpa using Illumina Nova-Seq 6000 platform. The results showed that the cp genome size of S. macrocarpa was 144,288 bp, which contained a small single-copy (SSC) region (17,862 bp), a large single-copy (LSC) region (93,332 bp), and a pair of inverted repeat (IR) regions (16,547 bp). The cp genome has 40% overall GC content. Annotated genes were 128 in all, including 83 protein-coding genes, eight rRNA genes, and 37 tRNA genes. The phylogenetic analysis showed that S. macrocarpa was closely related to S. propinqua subsp. sinensis. This work contributes to the conservation of this species and the evolutionary analysis of Schisandraceae.