Mitochondrial DNA. Part B, Resources最新文献

Cathartes melambrotus is the largest member of the genus Cathartes, and soars over the forested areas of Amazonia in search of carrion. The complete mitochondrial genome of C. melambrotus was reported in this study. The 19,232 base pair genome consisted of 16 protein coding genes, 25 tRNAs, two rRNAs, and two control regions. The mitochondrial genome contained the avian ancestral duplicated gene region, with the same rearrangements previously reported in Accipitriformes, Cathartiformes, and Stigiformes. With the publishing of the C. melambrotus genome all seven Cathartiformes species mitochondrial genomes are available and can be included in subsequent phylogenetic and genomic analyses.

The common Baya weaverbird, Ploceus philippinus (Linnaeus, 1766), is best known for its nest construction behaviour. Yet, no genomic studies have been conducted on this species to date. We sequenced the mitochondrial genome of P. philippinus sampled from southern India. The circular mitochondrial genome of 16,867 bp contains 13 protein-coding genes, 22 transfer RNAs, two ribosomal RNAs (12S and 16S subunits), and a non-coding control region. A maximum-likelihood phylogenetic tree analysis placed P. philippinus and P. nigricollis weaverbirds in a separate clade among other bird species. The mitochondrial genome sequence would benefit future genetic studies in weaverbirds.

Macropanax rosthornii (Harms) C.Y.Wu ex G.Hoo 1900 is a small tree or evergreen shrub of the family Araliaceae, mainly distributed in southern China and Vietnam with a small distribution area. M. rosthornii is a kind of high-quality wild ornamental plant resource and is also known for its effective medicinal treatment for fracture, rheumatoid arthritis, traumatic injury, infant malnutrition, etc. In this study, the first complete chloroplast genome of M. rosthornii was reported and phylogenetic analysis was conducted with other 10 species from Araliaceae. The chloroplast genome was 152,831 bp with 39% overall GC content and includes a large single-copy (LSC) region (93,751 bp), a small single-copy (SSC) region (18,930 bp), and a pair of inverted repeats (IR) regions (20,075 bp). There are 109 genes in the chloroplast genome of M. rosthornii, including 78 protein-coding genes, 21 tRNA genes, and 10 rRNA genes. The phylogenetic tree showed that M. rosthornii is closely related to Hydrocotyle vulgaris and Hydrocotyle sibthorpioides. The chloroplast genome reported here will be beneficial for its interspecific identification and evolutionary studies of Macropanax.

Chasmanthium latifolium (Michx.) H.O.Yates is a popular ornamental plant native to southeastern North America. Genomic data and genetic studies related to Chasmanthium latifolium are limited. Therefore, the complete chloroplast genome of Chasmanthium latifolium was sequenced, assembled, and characterized in this study. The complete chloroplast genome was 138,934 bp in length and contained 105 unique genes (77 protein-coding genes, 24 tRNA genes, and 4 rRNA genes). Phylogenetic analyses showed that Chasmanthium latifolium and Chasmanthium laxum clustered into a separate clade with the closest affinity to the clade comprising Zeugites pittieri Hack and Lophatherum gracile Brongn. In conclusion, our study describes the complete chloroplast genome of Chasmanthium latifolium for the first time, contributing to a better understanding of its taxonomy and evolution.

Emilia prenanthoidea (Emilia prenanthoidea DC. Prodr. (DC.), 1838) belongs to the Asteraceae family and is a popular Miao medicinal plant in Guizhou, China. It has anti-inflammatory and antitumor properties. It is often used as a medication for healing injury, clearing heat and detoxifying, boosting blood circulation and eliminating blood stasis, and lowering inflammation and diuresis. This is the first reported study on the complete chloroplast genome of E. prenanthoidea. The E. prenanthoidea chloroplast genome is 151, 406 bp long, contains a pair of inverted repeats (IRs 24,705 bp), and is separated into a large single-copy (84,010 bp) and a short single-copy (17,986 bp) region. One hundred thirty genes were predicted, including 85 protein-coding genes, 37 tRNA genes, and eight rRNA genes. Nine protein-coding genes (rps16, rpoC1, atpF, petB, petD, rpl16, rpl2, ndhB, ndhA) had a single intron, two protein-coding genes (ycf3, clpP) had two, and the remainder had none. The phylogenetic analysis found Emilia prenanthoidea and Emilia sonchifolia clustered on a single branch, with Pericallis hybrida as its sister group. This study enhances our understanding of the evolutionary relationships within the Asteraceae family and provides valuable insights for developing germplasm-specific molecular markers.

This study presents, for the first time, the complete mitochondrial genome of the Common Dace (Leuciscus leuciscus (Linnaeus 1758)), in association with a voucher specimen from the Swedish Natural History Museum. The complete mitogenome length is 16,603 bp and comprises 13 protein-coding-genes (PCGs), 22 tRNAs, 2 rRNAs, and one non-coding control region. A maximum likelihood phylogenetic reconstruction based on 13 PCGs of Leuciscids species confirm the monophyly of the Leuciscus genus. Furthermore, this reconstruction has corroborated the placement of other Leuciscus species in this genus as L. leuciscus is the type species of this genus.

Sinocyclocheilus is a group of cyprinid fishes endemic to China distributed in the karst region of southwest China. In this study, the complete mitogenomes of Sinocyclocheilus guilinensis Ji, 1985 and Sinocyclocheilus huangtianensis Zhu et al. 2011 are reported and characterized. Both genomes contain 13 protein-coding genes, 22 tRNAs, 2 rRNAs, and a non-coding control region, with lengths of 16,576 bp and 16,578 bp, respectively. Phylogenetic analysis shows that S. guilinensis is the earliest branching species in the S. jii group, while S. huangtianensis and S. jii are sister groups. These mitochondrial genomes are valuable for studying systematics of Sinocyclocheilus.

Genomic resources for Barringtonia asiatica (L.) Kurz, a pantropical beach forest species native to the Philippines, have not been published to date, despite its medicinal importance and potential for biomedical applications. In this study, we assembled and characterized the first complete chloroplast genome of B. asiatica using Illumina paired-end sequencing technology. It displayed a typical quadripartite structure with a sequence length of 158,794 bp, comprised of a large single copy of 88,196 bp, small single-copy of 18,448 bp, and a pair of inverted repeat regions of 26,075 bp each. The cp genome contained 35 tRNA genes, eight rRNA genes, and 86 protein-coding genes with an overall GC content of 36.8%. Phylogenetic analysis revealed a close evolutionary relationship between B. racemosa and B. fusicarpa, forming a monophyletic group with B. asiatica with high bootstrap support, thereby enhancing our understanding of the phylogeny, systematics, and genetics of Asian Lecythidaceae species.

Persicaria jucunda is a plant distributed at meadow or wetland. Our study reports the complete chloroplast genome. The chloroplast genome of P. jucunda 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 P. jucunda 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 P. foliosa and P. kawagoeana among the species analyzed. The chloroplast genome provides a valuable genetic resource for phylogenetic studies.

We present a novel mitogenome assembly of the Redlip Shiner, Notropis chiliticus, and assemblies for the Greenhead Shiner, N. chlorocephalus (Cypriniformes: Leuciscidae). Both are charismatic minnows in the taxonomic group Hydrophlox and are endemic to the eastern United States. The N. chiliticus genome contains 16,711bp and N. chlorocephalus 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 Notropis. We provide evidence supporting a monophyletic Hydrophlox, while other phylogenetic relationships within Notropis support convoluted taxonomic revisions throughout the history of the genus.