Mitochondrial DNA. Part B, Resources最新文献

The complete plastome size of Citrus hystrix DC. 1813 was 159,893 bp in length and has a typical quadripartite structure. The 87,148-bp-long large single-copy and the 18,763-bp-long small single-copy regions were separated by a pair of inverted repeats (each 26,991 bp). The plastome was predicted to contain 132 genes, of which 87 were CDS, 37 were tRNA, and eight were rRNA genes. The plastome was A/T biassed, and the overall GC content was 38.4%. Using maximum likelihood and Bayesian inference methods, the phylogenetic analysis of the complete plastome sequence revealed a close relationship between C. hystrix and C. aurantiifolia, placing them under the same clade as C. micrantha.

We determined the complete chloroplast genome sequence of Sedum lushanense S. S. Lai 2004. The genome was 148,691 bp in length, including a large single copy (LSC; 80,497 bp), a small single copy (SSC; 16,620 bp), and two inverted repeats (IR; 25,787 bp) regions. It contained 84 coding gene sequences (CDS), 34 transfer RNA (tRNA) genes, and eight ribosomal RNA (rRNA) genes. A maximum likelihood phylogenetic analysis revealed a close relationship between S. lushanense and S. lineare. Therefore, our study provided new genetic information on S. lushanense, contributing to a better understanding of its relationship with other related species and the evolutionary history of Crassulaceae.

In 1921, Zimmer established the genus Dimorphostylis for Dimorphostylis asiatica from Japanese waters. This study determined the first complete mitogenome of hooded shrimp sequenced from Dimorphostylis asiatica (Cumacea: Diastylidae). D. asiatica is a type species of the genus Dimorphostylis, distributed in the West Pacific from southern Kuril to Vietnam, including Korean waters. The mitogenome is 14,888 base pairs (bp) long with a high A + T content of 70.9%. Phylogenetic analysis places Dimorphostylis within the Superorder Peracarida, providing new insights into the phylogeny and evolution of cumaceans and broader crustacean groups. This report provides a vital reference for further phylogenetic studies of cumaceans and enhances our molecular understanding of crustacean evolution.

The complete mitochondrial genome of the Lutjanus ehrenbergii was sequenced by Sanger platform. The circular mitogenome of L. ehrenbergii (16,512 bp) encoded the typical 37 genes, and one non-coding regions. All of the protein-encoding genes were located on the H chain except ND6. The nucleotide composition was A (28.04%), T (24.84%), C (30.89%) and G (16.23%). Phylogenetic analysis based on the 13PCGs sequences showed that L. ehrenbergii was closely related to the sister species of Lutjanus russellii and Lutjanus carponotatus. These studies provided important mitochondrial genome data of L. ehrenbergii, phylogenetic tree analysis revealed the position of L. ehrenbergii in Lutjaniformes.

Biting midges (Culicoides spp.) are important vectors of several insect borne arboviruses but are underrepresented in terms of availability of high-resolution genomic resources. We assembled and annotated complete mitochondrial genomes for two Culicoides species, namely C. brevitarsis and C. imicola which are proven vectors for Bluetongue Virus (BTV). We used both long read and short read sequencing technologies to assemble the circular genomes. The genome sizes are 17,100 bp and 17,031 bp, respectively, all comprising 37 genes, including 13 protein, 22 tRNA, two rRNA coding genes, and one non-coding AT rich control region. The gene organizations and orientations are comparable to other available Culicoides mitogenomes, except for a translocation of ND2 and six tRNA genes in both C. brevitarsis and C. imicola. Eleven protein-coding genes encode a full TAA stop codon, while two (ND5, COX3) are completed by mRNA polyadenylation. Phylogenetic analysis of the mitogenomes showed C. brevitarsis and C. imicola form a monophyletic group. The sequences of these mitogenomes contribute to a baseline of molecular tools for diagnostics and surveillance for use by World Organisation for Animal Health (WOAH) reference laboratories for monitoring vectors of emerging diseases.

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.