Details

Autor(en) / Beteiligte

• Susanti, R
• Iswari, Retno Sri
• Fibriana, Fidia
• Sari, Retno Ika

Titel

Mitochondrial D-loop sequence variation among Central Javanese Duck in Indonesia/Variacao de sequencias de D-Loop Mitocondrial entre Pato Central Java na Indonesia

Ist Teil von

• Acta scientiarum. Animal sciences, 2017-10, Vol.39 (4), p.449

Ort / Verlag

Universidade Estadual de Maringa

Erscheinungsjahr

2017

Quelle

Alma/SFX Local Collection

Beschreibungen/Notizen

• This study was realized to determine the genetic variation of Central Javanese duck based on the D-Loop mtDNA gene. D-loop gene was amplified using PCR technique by specific primer and sequenced using dideoxy termination method with ABI automatic sequencer. ClustalW from MEGA-6.06 software program was employed for multiple alignments of nucleotide sequences. Nucleotide sequences of D-loop gene of mtDMA from the Central Javanese duck were aligned together with other Anas isolates from Genbank using ClustalW of MEGA-6.06 program. The estimation of genetic distance and phylogenetic tree construction were analyzed by Neighbor-Joining method, whereas the calculation of distance matrix was performed using Kimura 2-parameter. Multiple alignments obtained were 720 nucleotides at position 56 to 779 at the 5 'end. The results of the polymorphism analysis on D-loop sequences produced 23 haplotypes. However, this haplotype information does not represent the relationship among the geographical origins of duck with the certain duck species name. Moreover, a total number of 32 variable sites were identified. Insertions were detected in four sequences (126, 155, 771 and 779 nucleotide number). In the phylogenetic analysis, it is safe to conclude that the Central Javanese duck is closely related to Anas platyrhynchos and Anas zonorynchos. Keywords: mtDNA, D-loop, Central Javanese duck, genetic variation. Este estudo foi realizado para determinar a variacao genetica do pato de Java Central baseado no D-Loop mtDNA. A D-Loop foi amplificada utilizando a tecnica de PCR com primer especifico e sequenciado usando o metodo de terminacao dideoxi com sequenciador ITB automatico. ClustalW do programa software de MEGA-6.06 foi utilizado para alinhamentos de algumas sequencias de nucleotidos. Sequencias de nucleotidos de D-loop gene da mtDMA do pato de Java Central foram alinhados em conjunto com alguns isolados de Anas que foram obtidos de Genbank utilizando o programa ClustalW do programa MEGA-6.06. A estimativa da distancia genetica e a estrutura da arvore filogenetica foram analisadas com o metodo Neighbor-Joining, enquanto que o calculo da matriz de distancia foi utilizado o parametro-2 Kimura. Os alinhamentos multiplos obtidos foram 720 nucleotideos na posicao 56 a 779 na extremidade 5'. As analises do polimorfismo sequencial do D-loop resultaram em 23 haplotipos. No entanto, esta informacao haplotipo nao representa a relacao entre a origem geografica de pato com o nome de determinadas especies do pato. Alem disso, num total de 32 sites favoraveis foram identificados. As insercoes foram detectadas em quatro sequencias (126, 155, 771 e 779 numeros de nucleotideos). Na analise filogenetica e seguro concluir que o pato de Java Central esta estreitamente relacionada com a Anas platyrhynchos e Anas zonorynchos. Palavras-chave: mtDNA, D-loop, javanes duck, variacao genetica.