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| Codon Bias and Cluster Analysis on Coding Regions of mtDNA in Rock Porgy Oplegnathus punctatus and Rock Bream O. fasciatus |
| MENG Qian, ZHANG Zhiyong, ZHANG Zhiwei, ZHANG Caojin, CHEN Shuyin, ZHU Fei, JIA Chaofeng, CAO Guangyong |
| Jiangsu Key Laboratory for Genetics and Breeding of Marine Fishes, Jiangsu Institute of Oceanology & Marine Fisheries, Nantong 226007, China |
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Abstract mtDNA protein coding gene sequences of rock porgy Oplegnathus punctatus and rock bream O. fasciatus were analyzed with codon programe, and evolutionary relationship between rock porgy, rock bream and other species was analyzed by a hierarchical cluster method in gene sequences and the relative synonymous codon usage frequency in order to provide theoretical basis for the study of the close relationship between rock porgy and rock bream, such as cross breeding and germplasm resources. Searching and downloading the mitochondrial gene sequences of rock porgy, rock bream, Danio rerio, Scatophagus argus, Acanthopagrus schlegelii and red bream Pagrosomus major from the GenBank database of the National Center for Biotechnology Information.The results showed that protein coding genes of mtDNA in rock porgy and rock bream were tending to use the codons ending with A,C, and UUC and ACC were preferable codons of mtDNA protein coding gene sequences in rock porgy and rock bream, and there are similar preferences of codon usage between rock porgy and rock bream, but different from other species.
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Received: 11 July 2019
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