■本研究旨在确定,发现和探索Cemani鸡(Gallusgallus)的mtDNA基因组特征。
■本研究使用从肝组织分离的Cemani鸡的gDNA。mtDNA测序使用WGSmtDNA分析与牛津纳米孔技术GridION的纳米孔技术进行。然后进行生物信息学和数据分析。
■这项研究表明,mtDNA基因组的长度为16,789bp,由两个核糖体RNA(12SrRNA,16SrRNA),22个转移RNA基因(trnR,trnG,trnK,trnD,trnS,trnY,trnC,trnN,trnA,trnW,trnM,trnQ,trnl,trnL,trnV,trnF,trnP,trnT,trnE,trnL,trnS,trnH),13个蛋白质编码基因(PCGs)(ND4l,ND3,COX3,ATP6,ATP8,COX2,COX1,ND2,ND1,CYTB,ND6,ND5,ND4),和非编码控制区(Dloop)。此外,分析表明,当mtDNACemani鸡与GenBank的参考文献进行比对时,存在多态性位点和氨基酸改变。
■Dloop基因中的Site(988T>*)和ND3基因中的Site(328A>G)改变甘氨酸为终止密码子,是仅在Cemani鸡肉中发现的特定标记。
OBJECTIVE: This study aimed to identify, discover and explore the characteristics of the mtDNA genomes of Cemani chicken (Gallus gallus).
METHODS: This study used gDNA of Cemani chicken isolated from liver tissue. mtDNA sequencing was performed using WGS mtDNA analysis with nanopore technology by Oxford Nanopore Technologies GridION. Bioinformatics and data analysis were then performed.
RESULTS: This study showed that the length of the mtDNA genome is 16,789 bp, consisting of two ribosomal RNA (12S rRNA, 16S rRNA), 22 transfer RNA genes (trnR, trnG, trnK, trnD, trnS, trnY, trnC, trnN, trnA, trnW, trnM, trnQ, trnl, trnL, trnV, trnF, trnP, trnT, trnE, trnL, trnS, trnH), 13 protein-coding genes (PCGs) (ND4l, ND3, COX3, ATP6, ATP8, COX2, COX1, ND2, ND1, CYTB, ND6, ND5, ND4), and a noncoding control region (Dloop). Furthermore, analysis showed there were polymorphic sites and amino acid alterations when mtDNA Cemani chicken was aligned with references from GenBank.
CONCLUSIONS: Site (988T>*) in Dloop genes and (328A>G) in ND3 genes which alter glycine to stop codon, were specific markers found only in Cemani chicken.