Mitochondrial genome composition, base content and codon preference of Cyprinus acutidorsalis from Hainan

Shanghai Lingen Biotechnology Co., Ltd. was entrusted to sequence the Mitochondrial genome of Cyprinus acutidorsalis. Using SPAdes v3.14.1（ http://bioinf.spbau.ru/spades ）The software splices Clean Data. Select the sequences with high enough coverage depth and long assembly length as candidate sequences, compare the NT library to confirm the mitochondrial Scaffold sequence, and connect the sequences according to the overlap. According to the reference genome, the starting position and direction of the mitochondrial assembly sequence were determined, and the Mitochondrial genome sequence of Cyprinus acutidorsalis was obtained. Using MITOS（ http://mitos.bioinf.uni-leipzig.de/index.py ）The software predicts the coding protein, tRNA and rRNA genes of the Mitochondrial genome. Then, the initial gene predicted by MITOS is de redundant, and the position of the start and Stop codon of the gene is manually corrected to obtain a highly accurate conservative gene set. Use cusp (EMBOSS v6.6.0.0) software to obtain the preference values of codons. Utilizing software CGView（ http://stothard.afns.ualberta.ca/cgview_server/ ）Display the sample genome in a circle diagram. The mitochondrial gene protein sequence of Cyprinus acutidorsalis was compared with the known protein database by blastp (value<1e-5), and the annotation analysis of NR, GO, Swiss Prot was carried out.