Mitochondrial DNA. Part B, Resources最新文献

Aster scaber Thunb. (1784) is primarily distributed in eastern Asia,  has a total length of 152,778 bp and consists of a large single copy (LSC) region of 84,517 bp, a small single copy (SSC) region of 18,277 bp, and two inverted repeat (IRs) regions of 24,992 bp . The GC content is 37.31%. A total of 133 genes were annotated, including 88 protein-coding genes, 8 rRNA genes, and 37 tRNA genes. Phylogenetic analysis using the maximum likelihood method showed that A. scaber is closely related to Aster species. This study provides chloroplast genome resource for further research on the phylogenetics and resource development of A. scaber.

Karelinia caspia (Compositae) is a perennial herbaceous plant owning high economic, feeding and medicinal values. It is widely distributed in desertification and saline alkali areas. The complete chloroplast genome was firstly reported in this study. The chloroplast genome of K. caspia with a total size of 151,239 bp consists of two inverted repeats separated by a large single-copy region and a small single-copy region. Its chloroplast genome contains 129 genes, including 85 protein-coding genes, 36 tRNA genes, and 8 rRNA genes. Also, a total of 62 simple sequence repeats were identified. These results will be useful for study on the evolution and genetic diversity of K. caspia in the future.

Viola vaginata, a perennial herb in subsection Stolonosae, is endemic to the snowy mountainous regions on the Sea of Japan side of Japan. Its complete chloroplast genome was 156,056 bp in length, comprising one large single-copy region (86,407 bp), one small single-copy region (17,301 bp), and two inverted repeat regions (27,174 bp each). It contained 111 unique genes, including 77 protein-coding genes, 30 transfer RNA genes, and 4 ribosomal RNA genes. Phylogenetic analysis placed V. vaginata in a clade with subsection Biobatae species and some Patellares species, while other Patellares species formed a distinct clade, contrasting with previous nuclear ITS results. These findings highlight the phylogenetic complexity within Viola.

Trichosanthes sunhangii (Cucurbitaceae) is an endemic species native to the Shennongjia forestry district of China, whose plastid genome was reported in this study. The whole genome exhibits the typical quadripartite structure with 156,906 bp in size. A total of 130 genes were identified, containing 85 protein-coding genes (CDS), 37 tRNA, and 8 rRNA genes. Phylogenetic reconstruction based on 83 shared CDS sequences reaffirmed the status of T. sunhangii within the Sect. Foliobracteola, revealing close relationships with morphologically similar species, T. kirilowii and T. rosthornii. Our findings will provide a significant foundation for future investigations into the evolution, conservation, and potential utilization of this species.

The complete mitochondrial genome of Leptopilina myrica Chen, 2023 has been sequenced and analyzed for the first time. The total length we assembled is 15,448 bp, which comprises 13 PCGs, 22 tRNAs, 2 rRNAs, and a CR. The overall nucleotide composition consists of 41.1% A, 37.7% T, 14.7% C, and 6.5% G, respectively. The nucleotide sequences of 13 PCGs and 2 rRNAs from L. myrica and another 10 Drosophila parasitoid species were used for phylogenetic analysis by MrBayes, with one species from Drosophilidae as an outgroup. The result shows that L. myrica is closely related to L. syphax.

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.