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.

Four new species of the primitively segmented spider genus Songthela (Mesothelae, Liphistiidae) from Chongqing Municipality, China

Zootaxa ◽  
2022 ◽  
Vol 5091 (4) ◽  
pp. 546-558
Author(s):  
ZHAOYANG CHEN ◽  
FENGXIANG LIU ◽  
DAIQIN LI ◽  
XIN XU
Keyword(s):  
Mitochondrial Dna ◽  
New Species ◽  
Cytochrome C ◽  
Cytochrome C Oxidase ◽  
Dna Barcode ◽  
Morphological Characters ◽  
Oxidase Subunit ◽  
Chongqing Municipality ◽  
Males And Females

This paper reports four new species of the primitively segmented spider genus Songthela from Chongqing Municipality, China, based on morphological characters of both males and females: S. jinyun sp. nov., S. longbao sp. nov., S. serriformis sp. nov. and S. wangerbao sp. nov. We also provide the GenBank accession codes of mitochondrial DNA barcode gene, cytochrome c oxidase subunit I (COI), for the holotype of four new species for future identification.  

scholarly journals Molecular analysis of populations of the invasive species Rhynchophorus ferrugineus Olivier, 1790 (Coleoptera: Curculionidae) in the Region of Murcia (Spain)

2017 ◽  
pp. 155-176
Author(s):  
Miguel Lozano-Terol ◽  
María Juliana Rodríguez-García ◽  
José Galián
Keyword(s):  
Invasive Species ◽  
Phylogenetic Analysis ◽  
Mitochondrial Dna ◽  
Cytochrome C ◽  
Cytochrome C Oxidase ◽  
Molecular Analysis ◽  
Cox1 Gene ◽  
Rhynchophorus Ferrugineus ◽  
Phylogeographic Analysis ◽  
Oxidase Subunit

En este estudio se analizan dos fragmentos del gen de la citocromo c oxidasa subunidad I (COX1) del ADN mitocondrial de 61 individuos del género Rhynchophorus colectados en la Región de Murcia a fin de determinar su procedencia. El análisis filogenético del fragmento 1 de las muestras de la Región de Murcia conjuntamente con las secuencias disponibles en GenBank indica que los individuos corresponden a la especie Rhynchophorus ferrugineus.Las secuencias de Murcia se colapsan en un único haplotipo (H8 mediterráneo) que aparece dentro del clado de R. ferrugineus. De los análisis filogeográficos se infiere que el origen de los individuos de Murcia es Egipto. Adicionalmente, se examinó una región contigua del COX1 (fragmento 2) en la que las secuencias se colapsaron en dos haplotipos. In this research two fragments of the cytochrome c oxidase subunit I (COX1) gene of the mitochondrial DNA were analyzed in 61 individuals of the genus Rhynchophorus collected in the Region of Murcia with the aim of determining their origin. Phylogenetic analysis of fragment 1 of the samples collected in the Region of Murcia together with the available sequences in GenBank, indicated that these individuals correspond to the species R. ferrugineus. Sequences from Murcia collapsed into the H8 Mediterranean haplotype, which cluster into the R. ferrugineus clade. Phylogeographic analysis shows that the origin of the individuals collected in the Region of Murcia is Egypt. Additionally, a contiguous fragment of COX1 (fragment 2) was analyzed and the sequences collapsed into two haplotypes.

scholarly journals Biometric and genetic differences in kelabau (Osteochilus spp.) as revealed using cytochrome c oxidase subunit 1

F1000Research ◽  
2020 ◽  
Vol 8 ◽  
pp. 177
Author(s):  
Nur Asiah ◽  
Junianto Junianto ◽  
Ayi Yustiati ◽  
Sukendi Sukendi ◽  
Melta Rini Fahmi ◽  
...  
Keyword(s):  
Cytochrome C ◽  
Cytochrome C Oxidase ◽  
Dna Sequences ◽  
Phylogenetic Trees ◽  
Similarity Index ◽  
Research Data ◽  
Oxidase Subunit ◽  
Nucleotide Distance ◽  
Fish Samples

Background: Kelabau (Osteochilus spp.) is a freshwater fish commonly found in the rivers of Riau, Indonesia. Researchers believe that these are Osteochilus kelabau; however, accurate taxonomic determination of these fish in Riau waters has not been made. The purpose of this study was to facilitate the identification of the kelabau based on its morphology and genetics using biometric and cytochrome c oxidase subunit 1 (CO1) analyses, respectively. Methods: Fish samples were collected from the Siak, Kampar and Rokan rivers in Riau Province, Indonesia. The DNA of 90 fish was extracted from the caudal fins using a DNA extraction kit, after which it was amplified using primers Fish-F1 and Fish-R1. Sequencing was conducted by Applied Biosystems Macrogen Korea, and the DNA sequences were then edited and aligned using MEGA v. 7. All samples were BLAST-searched for identification using the National Center for Biotechnology Information and BOLD System. Phylogenetic trees were constructed, and the similarity index was calculated using accession numbers AP011385.1 and KC631202.1 in GenBank. Results: Analysis of the consensus barcode sequence for 86 species revealed a high percentage of barcode matches (96%–97% in GenBank and 96.6%–96.76% in the BOLD System). The nucleotide distance between groups of kelabau from the different rivers based on the Kimura 2-parameter model gave the following results: 0.05% between groups from the Siak and Kampar rivers, 0.09% between those from the Siak and Rokan rivers and 0.05% between those from the Kampar and Rokan rivers. The nucleotide distance between the groups in the Siak (0.09%), Kampar (0.00%) and Rokan (0.10%) Rivers indicated that the kelabau in those rivers were related to each other. Conclusions: Based on the results of the research data using CO1 and biometric analyses, the kelabau were confirmed to be O. melanopleurus.

The cosmopolitan spider Cryptachaea blattea (Urquhart 1886) (Araneae: Theridiidae): Redescription, including COI sequence, and new synonymy

Zootaxa ◽  
2009 ◽  
Vol 2133 (1) ◽  
pp. 55-63 ◽  
Author(s):  
COR J. VINK ◽  
NADINE DUPÉRRÉ ◽  
PIERRE PAQUIN ◽  
BRIAN M. FITZGERALD ◽  
PHIL J. SIRVID
Keyword(s):  
Mitochondrial Dna ◽  
Cytochrome C ◽  
Cytochrome C Oxidase ◽  
Dna Sequences ◽  
Mitochondrial Gene ◽  
Junior Synonym ◽  
New Combination ◽  
Morphological Evidence ◽  
Cosmopolitan Species ◽  
New Synonymy

Cryptachaea blattea (Urquhart 1886) new combination, a cosmopolitan species of the spider family Theridiidae, is redescribed, including notes on its distribution and DNA sequences from the mitochondrial gene cytochrome c oxidase subunit 1. Based on morphological evidence and mitochondrial DNA sequences, Cryptachaea acoreensis Berland 1932 is a junior synonym of Cryptachaea blattea.

Novel DNA Barcode Sequence Discovery from Transcriptome of Acheta domesticus: A Partial Mitochondrial DNA

2019 ◽  
Vol 967 ◽  
pp. 59-64
Author(s):  
Yash Munnalal Gupta ◽  
Kittisak Buddhachat ◽  
Surin Peyachoknagul ◽  
Somjit Homchan
Keyword(s):  
Mitochondrial Dna ◽  
Cytochrome C ◽  
Mitochondrial Genome ◽  
Cytochrome C Oxidase ◽  
Acheta Domesticus ◽  
Reference Sequence ◽  
Rna Seq ◽  
House Cricket ◽  
Oxidase Subunit ◽  
Mtdna Sequence

The potential of mitochondrial DNA (mtDNA) genes are well-known for species identification and to establish a phylogenetic relationship. The De-novo transcriptome assembly of Acheta domesticus commonly known as house cricket, is provides important segments of DNA fragments from mitochondrial DNA due to higher abundance of its mRNA. When the reference sequence with gene annotation is absent for assembling and aligning desire gene sequences, like in the present case, the most similar sequence is obtained from online insect mitochondrial genome database to find mitochondrial DNA conserved domains of interested gene from high throughput RNA sequencing (RNA-seq) data. The RNA-seq data of Acheta domesticus transcriptome is used to retrieve single nucleotide fragment out of 50,046 assembled contigs to discover three important genes from mtDNA of the house cricket. Present study provides effective workflow to identify genes like cytochrome c oxidase subunit II (COX2), NADH dehydrogenase subunit 2 (ND2), cytochrome c oxidase subunit I (COX1) from mtDNA in large sequence archive of RNA-seq data. These three novel barcode sequences will be useful for genetic identification and evolution investigation of Acheta domesticus. The partial mtDNA sequence with these genes will be important for mitochondrial genome construction.

Molecular Identification of Necrophagous Dermestes Species in South Korea Using Cytochrome c Oxidase Subunit I Nucleotide Sequences (Genus Dermestes )

2019 ◽  
Vol 65 (1) ◽  
pp. 283-287 ◽  
Author(s):  
Hari Jang ◽  
Sang Eon Shin ◽  
Kyu Jin Youm ◽  
Mustafa Zafer Karagozlu ◽  
Chang Bae Kim ◽  
...  
Keyword(s):  
Cytochrome C ◽  
South Korea ◽  
Cytochrome C Oxidase ◽  
Molecular Identification ◽  
Nucleotide Sequences ◽  
Oxidase Subunit

scholarly journals Molecular Identification of Necrophagous Muscidae and Sarcophagidae Fly Species Collected in Korea by Mitochondrial Cytochrome c Oxidase Subunit I Nucleotide Sequences

2014 ◽  
Vol 2014 ◽  
pp. 1-9 ◽  
Author(s):  
Yu-Hoon Kim ◽  
Sang Eon Shin ◽  
Chan Seon Ham ◽  
Seong Yoon Kim ◽  
Kwang Soo Ko ◽  
...  
Keyword(s):  
Cytochrome C ◽  
Cytochrome C Oxidase ◽  
Sequence Comparison ◽  
Forensic Entomology ◽  
Pcr Amplification ◽  
Distance Matrix ◽  
Nucleotide Sequences ◽  
Species Level ◽  
Coi Gene ◽  
Oxidase Subunit

Identification of insect species is an important task in forensic entomology. For more convenient species identification, the nucleotide sequences of cytochrome c oxidase subunit I (COI) gene have been widely utilized. We analyzed full-length COI nucleotide sequences of 10 Muscidae and 6 Sarcophagidae fly species collected in Korea. After DNA extraction from collected flies, PCR amplification and automatic sequencing of the whole COI sequence were performed. Obtained sequences were analyzed for a phylogenetic tree and a distance matrix. Our data showed very low intraspecific sequence distances and species-level monophylies. However, sequence comparison with previously reported sequences revealed a few inconsistencies or paraphylies requiring further investigation. To the best of our knowledge, this study is the first report ofCOInucleotide sequences fromHydrotaea occulta, Muscina angustifrons, Muscina pascuorum, Ophyra leucostoma, Sarcophaga haemorrhoidalis, Sarcophaga harpax, andPhaonia aureola.

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