Mitochondrial DNA. Part B, Resources最新文献

Bursera paradoxa is an endemic tree native to Mexico, with high economic and ecological value but little research. The complete chloroplast genome of B. paradoxa is reported for the first time. It is 159,851 bp in length and displays a typical quadripartite structure, including a large single-copy region (87,441 bp), two inverted repeat regions (26,810 bp), and a small single-copy (18,790 bp) region. The genome encodes 133 genes, comprising 87 protein-coding genes, 36 tRNA genes, and 10 rRNA genes, showing a similar structure to B. fagaroides. A total of 35 SSRs are detected in the genome, ranging from 10 bp to 108 bp in length and varying from 6 to 17 in number of repeats. Most of these SSRs are located in single-copy regions and rarely in inverted repeat regions. Phylogenetic analysis supports the monophyly of Bursera and places B. paradoxa as sister to B. fagaroides.

The complete chloroplast genome of Boehmeria tricuspis, a species exhibiting facultative apomixis, was sequenced. The circular genome spans 157,765 bp, comprising a large single-copy 84,524 bp, a small single-copy 18,385 bp, and two inverted repeat regions 27,428 bp each. The genome encodes 131 genes, including 86 protein-coding genes, 37 tRNA genes, and 8 rRNA genes. Phylogenetic analysis robustly resolves B. tricuspis as sister to B. japonica. Four apomictic taxa form a strongly supported clade, highlighting the plastome as critical markers for resolving cryptic diversity in apomictic complexes. This study provides essential genomic resources for clarifying evolutionary relationships within Boehmeria.

Artocarpus nitidus subsp. lingnanensis is an evergreen tree species bearing sour-sweet fruits. Although its economic and medicinal potential has been indicated by some phytochemical studies, the phylogenetic position of this species remains unclear. To address this, we sequenced and assembled its complete chloroplast genome for the first time. The genome with a total length of 161,009 bp and a GC content of 35.79%, displays the conventional quadripartite organization comprising four segments: an 89,552 bp large single-copy (LSC) region, a 20,093 bp small single-copy (SSC) region, and two 25,682 bp inverted repeat (IR) regions. Annotation identified 132 genes, encompassing 87 protein-coding genes, 37 tRNAs, and 8 rRNAs. Phylogenetic analysis revealed that A. nitidus subsp. lingnanensis forms a distinct clade with its closest relatives, A. petelotii, A. tonkinensis, A. hypargyreus, and A. gomezianus. This study provides the first complete chloroplast genomic resource for A. nitidus subsp. lingnanensis and offers valuable data for future research on genetic diversity and utilization.

Camellia melliana Hand. -Mazz. is an endangered shrub species endemic to China, but it has not been sequenced and has never been included in molecular phylogenetic studies to date. In the present study, the complete chloroplast genome sequence of the species was assembled through the genome-skimming approach, and the phylogenetic position of the species within Camellia was investigated for the first time. Results showed that the chloroplast genome of the species is 156,984 bp in length, including a large single copy (LSC) region of 86,588 bp and a small single-copy (SSC) region of 18,268 bp, which were separated by a pair of inverted repeat (IR) regions of 26,064 bp. The genome encoded 112 unique genes, including 79 protein-coding genes, four ribosomal RNA genes and 29 transfer RNA genes. The overall GC content of the complete genome is 37.3%. Results from phylogenetic analysis recovered a highly supported sister relationship between C. melliana and C. salicifolia. This study provides a foundation for the phylogenetics, taxonomy and exploration of genetic diversity of Camellia.

Trirachys orientalis (Hope, 1841) is a long-horned beetle widely distributed in China with economic importance and potential medicinal value. In this study, we sequenced and assembled its complete mitochondrial genome. The complete mitogenome is 16,028 bp in length with a GC content of 29.60%, including 13 protein-coding genes, 2 ribosomal RNA genes, 22 transfer RNA genes, and a control region. We further made the phylogenetic tree on the complete mitochondrial genomes of other 10 closely related species to show their phylogenic relationship. This genomic resource provides a fundamental baseline for future species identification, phylogenetic resolution, and the exploration of its potential utility as a biological resource.

The complete mitochondrial DNA (mtDNA) of Anomala antiqua (Gyllenhal, 1817) (Coleoptera: Scarabaeidae) was first described by next-generation sequencing in this study. The length of mitogenome is 16,430 bp with AT content of 77.3%, which contained 37 genes, including 13 protein-coding genes (PCGs), 22 transfer RNA genes (tRNAs) and two ribosomal RNA genes (rRNAs). Gene order is conserved and identical to most other previously sequenced Rutelinae. Phylogenetic analysis based on the amino acid sequences of 13 PCGs reveals that A. antiqua forms a basal branch of the subfamily Rutelinae and the genus Anomala is paraphyletic. The complete mtDNA of A. antiqua will be an important genomic resource for molecular identification and systematic classification of the genus Anomala, offering valuable insights into the evolutionary history and taxonomic status of its species.

The complete mitochondrial genome of Synandwakia multitentaculata, a marine protected species endemic to the western coast of Korea, was sequenced and analyzed. The circular mitogenome is 18,350 bp with AT-rich composition (G + C content: 34.3%) and contains 17 genes: 13 protein-coding genes (PCGs), two ribosomal RNAs , and two tRNAs. All PCGs are encoded on the heavy strand and initiate with ATG. The mitogenome shows characteristic Actiniaria split-gene architecture in COX1 and ND5, with ND1 and ND3 located within the ND5 intron. Phylogenetic analysis of 13 PCGs placed S. multitentaculata with Diadumene lineata within Metridioidea, providing the first mitochondrial genomic resource for Synandwakia and the family Andvakiidae.

Organic falls play an important role in the evolutionary transition of chemosymbiotic mollusks from shallow to deep seas. Exploring their genetic characteristics is essential to elucidating adaptive mechanisms. Here, we report the first complete mitochondrial genome of Glabracollonia laevigata (Family Colloniidae), collected from sunken wood at 200 m depth in the East China Sea. The circular genome is 18,056 bp in length with an average sequencing depth of 6847×, and contains 13 protein-coding genes (PCGs), two rRNA genes, and 23 tRNA genes, including a duplicated trnY. The nucleotide composition is biased toward A + T (69.0%). Most PCGs use ATG as the start codon, except nad6 (GTG) and nad4L (ATA), and all terminate with TAA or TAG. Codon usage analysis revealed a preference for A and U at the third codon position. Phylogenetic analyses based on concatenated PCGs, using Bayesian inference and maximum likelihood approaches, strongly support a close relationship between Colloniidae and Phasianellidae, consistent with recent studies. These findings offer new insights into the phylogenetic placement of Colloniidae within Trochoidea, while contributing to a broader understanding of biodiversity and evolutionary adaptation in organic-fall ecosystems.

The mushroom Pleurocybella porrigens is widely distributed in temperate regions of the Northern Hemisphere. However, in the autumn of 2004, 59 food-poisoning incidents were reported in Japan, resulting in 17 deaths due to acute encephalopathy. In previous studies, we demonstrated that a lectin (PPL), pleurocybelline (PC), and pleurocybellaziridine (PA) from this mushroom caused neurotoxic effects in mice, and we also reported its nuclear genome (2013, 2026) and transcriptome data from fruiting bodies and mycelia (2024). Here we report the complete mitochondrial genome sequence of P. porrigens. The mitochondrial genome of P. porrigens is 63,054 bp in length and contains 18 protein-coding genes, 2 rRNA genes, and 25 tRNA genes. Phylogenetic analysis based on 14 conserved mitochondrial protein-coding genes recovered P. porrigens as a distinct and well-supported lineage within Agaricales. In the inferred topology, P. porrigens was positioned basal to the core Agaricales clade, internal to Clavaria fumosa and Hygrophorus russula, and clearly separated from Boletales outgroup taxa. This phylogenetic placement is consistent with recent phylogenomic frameworks recognizing Phyllotopsidaceae as an independent lineage within Agaricales. This study represents the first report of a complete mitochondrial genome from the genus Pleurocybella and provides a valuable reference for future comparative mitochondrial genomic studies within Agaricales.

We sequenced two complete mitochondrial genomes of Chaetogeoica ulmidrupa, a gall-forming aphid on Pistacia chinensis. Each genome consists of 13 protein-coding genes, 22 tRNA genes, two rRNA genes and a control region, with a strong A+T bias (∼85%). All protein-coding genes initiate with ATN codon and terminate with TAA, except for ND4 and COX1 ending with a single T. Phylogenetic analysis strongly supported that C. ulmidrupa was sister to C. yunlongensis and together they formed a clade with Slavum lentiscoides, all three species of which feed on the primary host plant P. chinensis to form galls.