Mitochondrial DNA Part B-Resources

The complete mitogenomes of all four species (Aves: Estrildidae)
Maddox JD, Zahnle E, McDonnell K, Grewe F, Gnoske TP, Bates JM and Hackett SJ
Crimsonwings are estrildid finches found in the understory of montane rainforests of sub-Saharan Africa. The genus includes four species: Sharpe 1902, Sharpe 1902, (Hartlaub 1874), and Reichenow 1892. The first two are endemic to the Albertine Rift, while the latter two are more widespread. Despite being well-represented in museum collections, genetic resources are scarce. Here we provide complete mitogenomes for all four species, each containing the standard 37 avian genes. Analyses showed as sister to the other three species, with and being highly similar (99.2%). Further research is needed to explore their evolutionary history.
The complete chloroplast genome of Thunb. 1784 (Asteraceae)
Sheng Y, Huang YT, Xing YP, Li CY, Tang ZX, Yang YY and Xu L
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 is closely related to species. This study provides chloroplast genome resource for further research on the phylogenetics and resource development of
The complete plastid genome of DC. 1813 (Rutaceae) and its phylogenetic analysis
Lee WS, Donrung W, Hung BM, Muhamad Rusly NH, Lee SY and Tanee T
The complete plastome size of 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 and , placing them under the same clade as .
A complete chloroplast genome of S. S. Lai 2004 (Crassulaceae: Crassuloideae)
Yang ED, Liang TJ, Lei ZY, Zhang J and Zhou XX
We determined the complete chloroplast genome sequence of 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 and . Therefore, our study provided new genetic information on , contributing to a better understanding of its relationship with other related species and the evolutionary history of Crassulaceae.
The complete mitochondrial genome of (Hymenoptera: Figitidae)
Zhang J, Lu Z, Dong Z, Wang H, Shan J, Xu Z, Huang J and Chen J
The complete mitochondrial genome of 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 and another 10 parasitoid species were used for phylogenetic analysis by MrBayes, with one species from Drosophilidae as an outgroup. The result shows that is closely related to .
The complete mitochondrial genomes of and
Alley ZD, Fast KM and Sandel MW
We present a novel mitogenome assembly of the Redlip Shiner, , and assemblies for the Greenhead Shiner, (Cypriniformes: Leuciscidae). Both are charismatic minnows in the taxonomic group and are endemic to the eastern United States. The genome contains 16,711bp and 16,706bp each comprising a total of 13 protein coding genes, 22 tRNAs, two rRNAs, and a control region. Sequence order and genome composition are similar to other We provide evidence supporting a monophyletic , while other phylogenetic relationships within support convoluted taxonomic revisions throughout the history of the genus.
The complete mitochondrial genome of Ratzeburg (Hymenoptera: ichneumonidae: pimplinae)
Nie YH, Li ZC and Hu HY
The genomic-level characteristics play a pivotal role as genetic assets for the identification of species and phylogenetic analysis. Here, we sequenced and analyzed the mitochondrial genome of (Ratzeburg), which was first morphologically described in "Die Ichneumonen der Forstinsecten in forstlicher und entomologischer Beziehung." The motivation for this research arises from the necessity to comprehend the genetic composition and evolutionary history of , a genus of parasitic wasps with potential agricultural significance, which. The circular genome is 26,103bp in length with an overall base composition of 42.02% for A, 43.71% for T, 8.64% for C, and 5.63% for G. The mitochondrial genome of contained 13 protein-coding genes that initiated by the ATN codon, 22 transfer RNA genes, two ribosomal RNA genes (rRNAs), and a control region (CR). Phylogenetic analyses using Maximum-likelihood methods supported that is closely related to , both of which belong to the subfamily Pimplinae, forming a clade that is sister to other subfamilies of Ichneumonidae. This study provides value not only into the genetic diversity and evolutionary history of at the mitochondrial level but basic research on parasitic wasp biology and applied efforts in biological control.
The plastid genome and phylogenetic status of C. Jeffrey & Y. L. Chen 1984 (Asteraceae)
Sun Y, Zhang C, Peng J and Zhou Q
The genus B. Nordenstam (1978) is a challenging taxonomic group with complex infrageneric relationships. Here, we newly report the plastid genome of S. (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 . Phylogenetic reconstruction based on whole plastid genome sequences indicated that was not clustered into a monophyletic clade with members belonging to the S. group of but rather was closely related to some genera in the subtribe Tussilaginae s.s. of Asteraceae.
The complete chloroplast genome sequence of Hook.f.1890 R.W.Bouman, 2022 (Phyllanthaceae)
Liu Q, Wang S and Fan M
, a significant folk medicinal plant, is utilized to treat a variety of ailments. In this study, we reported the complete chloroplast genome sequence of this species. The length of the complete chloroplast genome was 155,810 bp, included a pair of inverted repeat (IR) regions (26,340 bp), a large single-copy region (LSC, 84,853 bp), and a small single-copy region (SSC, 18,277 bp). It comprised 128 genes, including 83 protein-coding genes, 37 tRNA genes, and eight rRNA genes. The total GC content was 36.8%. The phylogenetic tree revealed that had a close relationship with , followed by . This study provides a reference for important medicinal plants within the Phyllanthaceae, and we can gain a deeper understanding of how the species adapts to changes in the environment, helping us to identify and protect it.
The complete chloroplast genome of Diels (Apioideae), a traditional medicinal herb in China
Luo X, Qiaohui Z, Zhang Z, Lin L, Zhanghui Q, Zhenxing Z and Fu W
Heracleum hemsleyanum Diels is a traditional medicinal herb in China. We reported its first complete chloroplast genome. The chloroplast genome was 146,775 bp in length with 37.53% GC content, containing a large single copy region (LSC, 93,309 bp), a small single copy region (SSC, 17,502 bp), and a pair of inverted repeat regions (IRs, 17,982 bp). Moreover, the chloroplast genome encoded 130 genes, including 86 protein-coding genes (PCGs), 36 transfer RNA genes (tRNAs), and eight ribosomal RNA genes (rRNAs). Phylogenetic analysis indicated that H. hemsleyanum was closely related to Heracleum moellendorffii and Heracleum yungningense. This assembled chloroplast genome will provide vital information on the genetic resources, phylogenetic relationships, and the species identification of the genus .
The complete mitochondrial genome sequence of (Littorinimorpha: Truncatelloidea: Assimineidae)
Yuan Y, Shao L, He H, Wang X, Wang Y and Fan H
In this study, the complete mitochondrial genome of was sequenced by Illumina high-throughput sequencing and its characteristics were analyzed. The mitogenome of is 16,635 bp long, and it encodes the standard set of 13 PCGs, 22 tRNA genes, and two rRNA genes. The mitogenome has a GC content of 29.3% and a very high AT content of 70.7%. The maximum-likelihood and Bayesian inference phylogenetic trees clearly demonstrated the relationships among the four genera (, , , and ) within the Assimineidae.
Characteristics and phylogenetic analysis of the complete chloroplast genome of Hance 1866 from the family Rosaceae
Li B, Wang W, Liu Y and Wang L
Hance is an important plant owing to its medicinal root and edible fruit, and extensively distributed in China. In this study, we reported the complete chloroplast genome of . The chloroplast genome was 156,335 bp in size with the overall GC content of 37.15%, having a circular and quadripartite structure, which contained a large single-copy (LSC) and a small single-copy (SSC) regions of 85,897 bp and 18,858 bp separated by a pair of 25,790 bp inverted repeat (IR) regions. The complete chloroplast genome comprised 131 unique genes of which 86 and 37 were protein-coding genes and tRNA genes, respectively, and also eight rRNA genes. The phylogenetic analysis revealed that was closely related to . The genome information reported in this paper will be beneficial for further investigation on the evolution of this species.
Structural characterization and phylogenetic analysis of the chloroplast genome of var. balansae (gagnep.) N. Jacobsen 1991
Yu L, Jing YH, Huang YW, Sun CH, Xiao L and He Q
is a popular ornamental aquatic plant for aquarists, although only six species are found in China. Destruction of the natural habitats of for human activities has led to a decline in its numbers. In this report, we sequenced and annotated the chloroplast genome for the first time. Results showed that the length of the chloroplast genome was 182,935 bp and the GC content was 34%. The chloroplast genome encoded 137 genes, including 92 encoded protein genes, 37 tRNA genes, and 8 rRNA genes. Phylogenetic analysis supported the the monophyletic nature of the genus and indicated that it was the first species to be differentiated in the chloroplast genome of and formed a separate branch. These findings offer valuable genomic resources for comparative studies in and Araceae, thereby aiding genetic diversity and phylogenetic analyses.
First mitochondrial genome of _ Peters 1869 (Lutjaniformes: Lutjanidae: Lutjanus) and phylogenetic analysis
Miao Z, Chen S, Wang T, Jin X, Zhang S, Zheng S, Wang Y, Feng T, Gao L and Chen J
The complete mitochondrial genome of the was sequenced by Sanger platform. The circular mitogenome of (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 was closely related to the sister species of and . These studies provided important mitochondrial genome data of , phylogenetic tree analysis revealed the position of in Lutjaniformes.
The complete chloroplast genome of 'Yunqie 9'
Sun M, Yu Y, Yang Y, Gong Y, Gui M, Dong X, Wu L and Du G
'Yunqie 9' was selected by the Horticultural Research Institute of Yunnan Academy of Agricultural Sciences based on the local environment of Yunnan Province. It is excellent in fruit quality and yield, but it is relatively weak in disease resistance. No information on complete chloroplast genome and position in the phylogeny of to restrict its genetic improvement. In this study, the chloroplast genome of 'Yunqie 9' was sequenced using Illumina high-throughput sequencing technology. The size of the complete chloroplast genome was 155,579 bp in length with an GC content of 37.70%, composed of a large single-copy region (86,189 bp), a small single-copy region (18,504 bp), and a pair of inverted repeat regions (25,443 bp). A total of 134 coding genes were annotated in the entire chloroplast genome, including 89 protein-coding genes, 37 transfer RNA genes, and 8 ribosomal RNA genes. Phylogenetic analysis based on chloroplast genome sequences of 20 species in the Solanaceae family indicated that except for the cultivated , 'Yunqie 9' was closely related to × and .
Characterization and phylogenetic analysis of the complete chloroplast genome of F. H. Chen & C. M. Hu (Asteraceae, Inuleae)
Chen H, Li T, Chen X, Qu T, Zheng X, Wang Y, Pang L, Gu X and Fu Z
In this study, we studied the complete chloroplast (cp) genome of 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 is sister to and . For the identification and phylogenetics study of the genus, the chloroplast genome sequence of provides a useful genetic resource.
The complete mitochondrial genome of (Jordan & Snyder, 1901) (Ophidiiformes: Ophidiidae)
Song X, Zhang R, Zhang H, Li S and Ling J
The genus is the most diverse group in the family Ophidiidae. In this study, we assembled and reported the complete mitochondrial genome of for the first time. The mitochondrial genome is 17,316 bp in length and contains 13 PCGs, 2 rRNAs, and 22 tRNAs. Phylogenetic analysis revealed that was the sister species to , and was closer to . This study significantly contributes to the genomic resources available for the family Ophidiidae and the genus , providing a valuable molecular resource for further research on the taxonomy and phylogenetics of this family.
The plastid genome characters and phylogenetic status of the endemic species D. G. Zhang, Z. M. Li, Qun Liu & T. Deng 2021 (Cucurbitaceae) in the Shennongjia forestry district of China
Liu L, Peng J, Liu Q and Di Y
(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 within the Sect. , revealing close relationships with morphologically similar species, and . Our findings will provide a significant foundation for future investigations into the evolution, conservation, and potential utilization of this species.
The mitochondrial genome of H. Lév. & Vaniot, an endemic sedge in Korea
Lee J, Choi SC and Kim S
H. Lév. & Vaniot is an endemic species in Korea and is included in the clade of section in the recent classification system. We present the complete mitochondrial genome sequence of based on the POLAP pipeline with both long- and short-read sequences. The mitochondrial genome is 997,628 bp in length, containing two large regions of 536.94 and 419.04 kbp, respectively, and a pair of direct repeat regions of about 20.25 kbp. The genome contains 57 genes, including 31 protein-coding genes, 20 tRNAs, and 6 rRNAs. Phylogenetic analysis based on mitochondrial proteomes, including those from ten species of related taxa, confirmed a close phylogenetic relationship between and .
The complete chloroplast genome sequence of var. (Solanaceae), a new species of wolfberry from the Yellow River Basin in Ningxia, China
Zhang B, Liu W, Ba D and Jiang Z
var. (2010), is a new variety of in Solanaceae. Here, we sequenced, assembled, and annotated the complete chloroplast (cp) genome of var. . Results showed that the complete cp genome of var. 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 var. was sister to Our results provide useful information for future phylogenetic studies in the family of Solanaceae.
The complete chloroplast genome and phylogenetic analysis of (Meisn.) Migo (Polygonaceae)
Xu P, Yao J, Mao C, Zhu J and Zhao Y
is a plant distributed at meadow or wetland. Our study reports the complete chloroplast genome. The chloroplast genome of is a typical tetrameric structure with a total length of 159,843 bp, containing a large single-copy (LSC) region of 84,350 bp, a small single-copy (SSC) region of 13,151 bp, and two inverted repeat regions (IRs) of 31,171 bp. The total GC content was 38.2%, 36.5% for the LSC region, 33.2% for the SSC region, and 41.5% for the IR region. The chloroplast genome contains 128 genes, including 83 protein-coding genes, 37 tRNA genes, and eight rRNA genes. Phylogenetic analysis based on 36 chloroplast genomes showed similarity to and among the species analyzed. The chloroplast genome provides a valuable genetic resource for phylogenetic studies.