Revealing the complete mtDNA genome sequence of Cemani chicken () by using Nanopore sequencing analysis
| Autor: | Sutopo Sutopo, Dela Ayu Lestari, Asep Setiaji, Sri Rachma Aprilita Bugiwati, Muhammad Ihsan Andi Dagong, Nena Hilmia, Dani Garnida, Indrawati Yudha Asmara, Edy Kurnianto |
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| Jazyk: | angličtina |
| Rok vydání: | 2024 |
| Předmět: | |
| Zdroj: | Animal Bioscience, Vol 37, Iss 10, Pp 1664-1672 (2024) |
| Druh dokumentu: | article |
| ISSN: | 2765-0189 2765-0235 |
| DOI: | 10.5713/ab.23.0513 |
| Popis: | 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. Conclusion 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. |
| Databáze: | Directory of Open Access Journals |
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