Butcherpruitt0459

Cuscuta gronovii Willd. ex Roem. & Schult. is a parasitic plant and widely distributed in Europe and North America. Here, we compared the plastome sequences of a C. gronovii plant collected from China and other 16 Cuscuta plastomes, including one C. 6-OHDA gronovii plastome from North America. The plastome was 86,727 bp in size with a pair of inverted repeats (IRs) of 14,354 bp, a large single-copy (LSC) region of 50,956 bp, and a small single-copy (SSC) region of 7,063 bp. We predicted 97 genes in the plastome, including 61 protein-coding genes, eight ribosomal RNA genes, and 28 transfer RNA genes. We detected a total of 21 microsatellite, 16 tandem, and ten interspersed repeats in the genome. Gene contents analysis of 17 Cuscuta plastomes showed the loss of the entire ndh gene family. The phylogenomic analysis using 22 shared protein sequences shows that the two C. gronovii formed a cluster. Thirteen of Cuscuta plastomes showed no rearrangement. The other three showed smaller inversions and smaller numbers of gene deletion. Next, we identified the two INDELs, one SNP site between the two C. gronovii plastomes. And we identified two putative RNA editing sites. Lastly, to distinguish between C. gronovii and two medicinal Cuscuta species, C. chinensis and C. australis, we identified ten molecular markers based on the genome sequences. The overall large-scale gene loss, conserved gene order, low intraspecific divergence are consistent with the adaptation of C. gronovii to a parasitic lifestyle.The complete mitochondrial genome of Mycerobas carnipes was sequenced in this study and the total length is 16,806 bp containing 13 protein-coding genes (PCGs), 22 transfer RNA genes (tRNAs), two ribosomal RNA genes (rRNAs), and one control region. The phylogenetic analysis based on 13 PCGs of five grosbeaks and other Fringillidae birds demonstrated that Mycerobas, Coccothraustes, and Eophona had close phylogenetic relationships for clustering as three sister branches, and supported that Eophona originated earlier in phylogeny.In this study, the complete mitochondrial genome of Asclepios apicalis was sequenced and assembled, which was first reported in Asclepios. The mitogenome of Asclepios apicalis was 15,391 bp in length, and it contained 22 transfer RNA (tRNA) genes, two ribosomal RNA (rRNA) genes, 13 protein-coding genes (PCGs), and a control region (D-loop), the overall base nucleotide compositions encoded was 42.9% A, 14.3% C, 10.0% G, and 32.8% T.Cirsium japonicum (C. japonicum) is a traditional Chinese medicine belonging to the family Asteraceae. The previous studies have indicated that the chemical compound content of C. japonicum from different places was different. To distinguish C. japonicum from different geographies, the chloroplast genome of C. japonicum from China was sequenced and compared with that from Korea. The total length of this genome is 152,602 bp, similar to that of Korea (152,606 bp). It has a conservative quartile structure which is composed of a large single-copy (LSC) region, a small single-copy (SSC) region and a pair of inverted repeats (IRs) regions, with lengths of 83,487 bp, 18,721 bp, and 25,197 bp, respectively. It encodes 79 protein-coding, 27 transfer RNAs, and 4 ribosomal RNA genes. The overall GC content of the genome is 37.70%. A total of 20 single nucleotide polymorphisms and 6 insertions and deletions were identified between the chloroplast genome of C. japonicum from China and Korea. These results can be applied to develop molecular markers to distinguish C. japonicum from different geographical origins.Black-boned chickens (Gallus domesticus, herein abbreviated BBCs) are well known for their unique appearance and medicinal properties and have a long breeding history in China. However, the genetic diversity and demographic history of BBCs remain unclear. In this study, we analyzed 844 mitochondrial DNA D-loop sequences, including 346 de novo sequences and 498 previously published sequences from 20 BBC breeds. We detected a generally high level of genetic diversity among the BBCs, with average haplotype and nucleotide diversities of 0.917 ± 0.0049 and 0.01422, respectively. Nucleotide diversity was highest in populations from Southwest China (0.01549 ± 0.00026), particularly in Yunnan Province (0.01624 ± 0.00025). Significant genetic divergence was detected between most breeds, particularly between Yunnan chickens and those from all other provinces. Haplogroups F and G had the highest levels of genetic diversity and were restricted to Southwest China, particularly Yunnan Province. Based on neutrality tests and mismatch distribution analyses, we did not obtain evidence for rapid population expansions and observed similar demographic histories in BBCs and local non-BBCs. Our results suggest that Chinese BBCs have complex breeding histories and may be selected in situ from local domestic chickens. These results improve our understanding of the genetic heritage and breeding histories of these desirable chickens.Complete plastid genome (plastome) and ribosomal DNA (rDNA) sequences of three Rubus accessions (two Rubus longisepalus and one R. hirsutus) were newly assembled using Illumina whole-genome sequences. Rubus longisepalus Nakai and R. longisepalus var. tozawai, described as different varieties, have identical plastomes and rDNA sequences. The plastomes are 155,957 bp and 156,005 bp and the 45S rDNA transcription unit sizes are 5809 bp and 5811 bp in R. longisepalus and R. hirsutus, respectively. The 5S rDNA transcription unit is an identical 121 bp in three Rubus accessions. We developed three DNA markers to authenticate R. longisepalus and R. hirsutus based on plastome diversity. Phylogenomic analysis revealed that the Rubus species classified as two clades and R. longisepalus, R. hirsutus, and R. chingii are the most closely related species in clade 1.The complete mitochondrial genomes of the Southeast Asian freshwater pufferfishes, Pao abei and Pao suvattii, were reconstructed using the MGISEQ platform. The genomes were 16,448 bp and 16,449 bp in length, each made up of 37 mitochondrial genes (13 CDSs, 22 tRNAs, and two rRNAs) and putative control region. It is suggested that an accumulation of complete mitochondrial genome sequences can contribute to resolve the taxonomic status of Pao species.