scholarly journals Sequence analysis of the cytochrome c oxidase subunit 1 gene of Sarcoptes scabiei isolated from goats and rabbits in East Java, Indonesia

2019 ◽  
Vol 12 (7) ◽  
pp. 959-964
Author(s):  
Nunuk Dyah Retno Lastuti ◽  
Ali Rohman ◽  
Didik Handiyatno ◽  
Dony Chrismanto ◽  
Kurnia Desiandura
Keyword(s):  
Cytochrome C ◽  
Cytochrome C Oxidase ◽  
Dna Sequences ◽  
Educational Software ◽  
Sarcoptes Scabiei ◽  
Pcr Products ◽  
Reverse Primer ◽  
Polymerase Chain ◽  
Cox 1 ◽  
Forward Primer

Aim: This study aimed to sequence the Cytochrome c oxidase (COX-1) gene sequence from mitochondrial DNA of Sarcoptes scabiei isolated from Lamongan goats and Mojokerto rabbits, align it with DNA isolated from Zi'gong rabbit (GenBank accession No. EU256389.1), and produce a phylogenetic analysis of S. scabiei COX-1 gene. Materials and Methods: S. scabiei mites were obtained from goats and rabbits, and DNA was extracted using QIAamp DNA Mini Kit. The forward and reverse primer sequences were designed based on the DNA sequence of an S. scabiei COX-1 gene isolated from the Zi'gong rabbit (5'-TCTTAGGGGCTGGATTTAGTATG-3' and 5'-AGTTCCTCTACCAGTTCCAC-3', respectively). To confirm sequencing output, the sequence resulting from the reverse primer was inverted and aligned to the sequence from the forward primer using Clone Manager Professional Version 9 for Windows (Scientific & Educational Software; http://www.scied.com). This alignment was subsequently used to build a phylogenetic tree, using the Neighbor- Joining method, in the MEGA6 program (https://www.megasoftware.net/). Results: Polymerase chain reaction (PCR) products from S. scabiei isolates from Lamongan goats and Mojokerto rabbits produced bands of around 290 bp with 2% agarose gel electrophoresis. Comparing the DNA sequences of the S. scabiei COX-1 gene with those isolated from Lamongan goats and Mojokerto rabbits showed 99% homology. Conclusion: PCR products of the S. scabiei COX-1 gene isolated from Lamongan goats and Mojokerto rabbits were around 290 bp long. The sequences had more than 99% homology. The sequences of the COX-1 gene of S. scabiei from Lamongan goats and Mojokerto rabbits were relatively close to the sequence of the gene in S. scabiei obtained from various hosts according to National Center for Biotechnology Information data.

Nine new species of the subgenus Stegana (Steganina) from China, with DNA barcoding information (Diptera: Drosophilidae)

Zootaxa ◽  
2019 ◽  
Vol 4576 (1) ◽  
pp. 81
Author(s):  
BINGXUE LI ◽  
YUAN ZHANG ◽  
HONGWEI CHEN
Keyword(s):  
New Species ◽  
Cytochrome C ◽  
Dna Barcoding ◽  
Cytochrome C Oxidase ◽  
Molecular Analysis ◽  
Dna Sequences ◽  
Mitochondrial Cytochrome ◽  
Neighbor Joining ◽  
Species Groups ◽  
Mtcoi Gene

Eleven (two known and nine new) species of the subgenus Stegana (Steganina) from China are described or redescribed: S. (S.) longifibula Takada, 1968, S. (S.) toyaensis Okada & Sidorenko, 1992, S. (S.) biflava sp. nov., S. (S.) flavivittata sp. nov., S. (S.) hirtifoliacea sp. nov., S. (S.) latitabula sp. nov., S. (S.) panda sp. nov., S. (S.) pinguifoliacea sp. nov., S. (S.) spatulata sp. nov., S. (S.) stachydifolia sp. nov. and S. (S.) unguiculata sp. nov.; they are assigned into the coleoptrata, ornatipes and undulata species groups, respectively. A total of 130 DNA sequences of partial mitochondrial cytochrome c oxidase subunit I (mtCOI) gene of 38 species (including the 11 species) of above-mentioned three groups are newly obtained in this study. These sequences and other available barcoding sequences of the three groups are involved in a molecular analysis using neighbor-joining (NJ) method, in order to assess the availability of DNA barcoding for delimiting the Steganina species. The result indicates that all the sampled Steganina morphospecies within the three groups are monophyletic.  

Molecular biology can differentiate morphologically indistinguishable myxosporean species: Myxobolus elegans and M. hungaricus (Short communication)

2002 ◽  
Vol 50 (1) ◽  
pp. 59-62 ◽  
Author(s):  
Edit Eszterbauer
Keyword(s):  
Ribosomal Rna ◽  
Dna Sequences ◽  
Valid Species ◽  
Base Pairs ◽  
The Family ◽  
Pcr Rflp ◽  
Pcr Products ◽  
Polymerase Chain ◽  
Biological Methods ◽  
Myxosporean Species

Two, morphologically indistinguishable myxosporean species, Myxobolus elegans Kashkovsky, 1966 and M. hungaricus Jaczó, 1940 were differentiated using molecular biological methods. Polymerase chain reaction (PCR) with primers specific for the family Myxobolidae was used to amplify an approximately 1600 base pairs (bp) long fragment of the 18S ribosomal RNA gene. In restriction fragment length polymorphism (RFLP) study with HinfI, MspI and TaqI enzymes, the two parasite species were easily distinguishable. The genetic distinctness was also confirmed by the DNA sequence of their PCR products. Although M. elegans and M. hungaricus are morphologically very similar, based on the results of the PCR-RFLP and the DNA sequences, we concluded that they are valid species.

Comparative study on DNA sequences of ribosomal DNA and cytochrome c oxidase subunit 1 of mitochondrial DNA among five species of gnathostomes

2006 ◽  
Vol 80 (1) ◽  
pp. 7-13 ◽  
Author(s):  
K. Ando ◽  
M. Tsunemori ◽  
H. Akahane ◽  
S. Tesana ◽  
H. Hasegawa ◽  
...  
Keyword(s):  
Mitochondrial Dna ◽  
Cytochrome C ◽  
Cytochrome C Oxidase ◽  
Ribosomal Dna ◽  
Dna Sequences ◽  
Nucleotide Sequences ◽  
Internal Transcribed Spacer Region ◽  
Cycle Sequencing ◽  
Oxidase Subunit ◽  
Species Being

AbstractThe nucleotide sequences of partial 18S, complete internal transcribed spacer region 1 (ITS1), complete 5.8S, complete ITS2 and partial 28S of ribosomal DNA (rDNA) and cytochrome c oxidase subunit 1 of mitochondrial DNA (MCOI) from five species of gnathostomes (G. spinigerum, G. doloresi, G. nipponicum, G. hispidum and G. binucleatum with the former four species being distributed in Japan and Asia) that cause human gnathostomiasis were compared by direct polymerase chain reaction cycle-sequencing. The nucleotide sequences of each region of the18S (613 bp), 5.8S (158 bp) and 28S (598 bp) rDNA from the five species were almost identical. The ITS1 region was different in length for the five species. The nucleotide sequences of each region of ITS2 and partial MCO1 regions were different among the five species. Therefore, these two regions can be used as genetic markers for identification of worms.

scholarly journals Barcode DNA Edelweis (Anaphalis javanica) Berdasarkan Gen matK

Jurnal MIPA ◽  
2015 ◽  
Vol 4 (2) ◽  
pp. 131
Author(s):  
Muzakir Rahalus ◽  
Maureen Kumaunang ◽  
Audy Wuntu ◽  
Julius Pontoh
Keyword(s):  
Polymerase Chain Reaction ◽  
Dna Sequences ◽  
Dna Barcode ◽  
Living Organism ◽  
Chain Reaction ◽  
Base Pairs ◽  
Barcode Dna ◽  
Reverse Primer ◽  
Total Dna ◽  
Polymerase Chain

DNA barcode merupakan metode identifikasi organisme hidup dengan menggunakan urutan DNA pendek (± 500 pasang basa). Tujuan dari penelitian ini adalah memperoleh barcode DNA Edelweis dan menganalisis kemiripan gen matK Edelweis (Anaphalis javanica) dengan kerabat terdekatnya. Isolasi DNA total Edelweis berhasil dilakukan dengan menggunakan  manual prosedur dari InnuPrep Plant DNA Kit yang dimodifikasi. Gen matK parsial telah diisolasi dengan metode Polymerase Chain Reaction (PCR) menggunakan Primer forward matK-1RKIM-f dan Primer Reverse matK-3FKIM-r. Hasil analisis sekuens menghasilkan barcode DNA edelweis berukuran 843 bp. Hasil analisis kemiripan menunjukkan tingkat kekerabatan terdekat dengan A. margaritaceae yaitu 99.86% pada BOLD System dan 100 % pada NCBI.DNA barcode is a method to identify living organism by using several short sequences of DNA (± 500 base pairs). The purpose of this study was to obtain a DNA barcode and analyze the similarity of matK genes of edelweis (Anaphalis javanica) with its closest relatives. Isolation of total DNA of edelweis has been succesfully done by using modified manual procedures of InnuPrep Plant Kit. matK partial gene has been isolated by the method of Polymerase Chain Reaction (PCR) using forward primer MATK-1RKIM-f and reverse primer MATK-3FKIM-r. Analysis of DNA sequences of edelweis confirmed its DNA barcode size was 843 bp. Furthermore, A. javanica showed similarity 99.86% in BOLD system and 100% in NCBI with A. margaritaceae.

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