Population structure of Japanese spiny lobster Panulirus japonicus inferred by nucleotide sequence analysis of mitochondrial COI gene

2007 ◽  
Vol 73 (3) ◽  
pp. 550-556 ◽  
Author(s):  
Nariaki INOUE ◽  
Hiromi WATANABE ◽  
Shigeaki KOJIMA ◽  
Hideo SEKIGUCHI
Keyword(s):  
Population Structure ◽  
Sequence Analysis ◽  
Nucleotide Sequence ◽  
Spiny Lobster ◽  
Coi Gene ◽  
Nucleotide Sequence Analysis ◽  
Mitochondrial Coi ◽  
Mitochondrial Coi Gene ◽  
Panulirus Japonicus

scholarly journals GENETIC DIFFERENTIATION OF THE KAMPAR RIVER'S GIANT FEATHERBACK (Chitala lopis BLEEKER 1851) BASE ON MITOCHONDRIAL DNA ANALYSIS

2017 ◽  
Vol 16 (2) ◽  
pp. 49 ◽  
Author(s):  
Arif Wibowo ◽  
Ridwan Affandi ◽  
Kadarwan Soewardi ◽  
Sudarto Sudarto
Keyword(s):  
Genetic Diversity ◽  
Mitochondrial Dna ◽  
Population Structure ◽  
Sequence Analysis ◽  
Nucleotide Sequence ◽  
Dna Analysis ◽  
Nucleotide Sequence Analysis ◽  
Mitochondrial Dna Control Region ◽  
Mitochondrial Dna Analysis ◽  
Important Fish

Although the giant featherback Chitala lopis is an important fish in Kampar River, the population structure has not been investigated. In this study, genetic diversity and population structure of giant featherback were examined using nucleotide sequence analysis of mitochondrial DNA control region for 54 fish collected from Kampar River.

scholarly journals Revision of the genus Spilopteron Townes, 1965 (Hymenoptera: Ichneumonidae: Acaenitinae) from Japan

2017 ◽  
Author(s):  
Masato Ito ◽  
Kaoru Maeto
Keyword(s):  
New Species ◽  
Sequence Analysis ◽  
East Asia ◽  
Coi Gene ◽  
Japanese Species ◽  
Mitochondrial Coi ◽  
Mitochondrial Coi Gene ◽  
Center Of Diversity

Ten Japanese species of the genus Spilopteron Townes, 1965 are recognized. Five new species, S. albiventre sp. nov., S. brachyurum sp. nov., S. nigrum sp. nov., S. oblongulum sp. nov. and S. pseudonigrum sp. nov., are described from Japan. Morphological discrimination between most Japanese species is confirmed by sequence analysis of the mitochondrial COI gene, which indicates the following relationships: S. oblongulum sp. nov. + S. apicale (Matsumura, 1912), S. brachyurum sp. nov. + S. nigrum sp. nov. + S. pseudonigrum sp. nov., and S. tosaense (Uchida, 1934) + S. luteum (Uchida, 1930). A key to the Japanese species of Spilopteron is provided. This genus seems to have its center of diversity in the mid-latitude area of East Asia.

Nucleotide sequence variation of the mitochondrial COI gene in several eelpout species of the genus Zoarces (Zoarcidae, Pisces)

2008 ◽  
Vol 44 (7) ◽  
pp. 799-807 ◽  
Author(s):  
O. A. Radchenko ◽  
I. A. Chereshnev ◽  
A. V. Petrovskaya ◽  
M. V. Nazarkin ◽  
E. A. Chegodaeva
Keyword(s):  
Nucleotide Sequence ◽  
Sequence Variation ◽  
Coi Gene ◽  
Mitochondrial Coi ◽  
Mitochondrial Coi Gene ◽  
Nucleotide Sequence Variation

Genetic Diversity and Population Structure of Panonychus citri (Acari: Tetranychidae), in China Based on Mitochondrial COI Gene Sequences

2010 ◽  
Vol 103 (6) ◽  
pp. 2204-2213 ◽  
Author(s):  
Ming-Long Yuan ◽  
Dan-Dan Wei ◽  
Kun Zhang ◽  
Yu-Zhen Gao ◽  
Yong-Hua Liu ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Coi Gene ◽  
Gene Sequences ◽  
Panonychus Citri ◽  
Mitochondrial Coi ◽  
Mitochondrial Coi Gene

scholarly journals Sequence analysis of mtDNA COI gene and molecular Phylogeny of Parasitic Unionicolid Mites (Acari: Unionicolidae: Unionicola) in China

2020 ◽  
Vol 185 ◽  
pp. 04024
Author(s):  
Jian Cheng ◽  
Xin Huang ◽  
Liangliang Huang ◽  
Chungen Wen
Keyword(s):  
Maximum Likelihood ◽  
Sequence Analysis ◽  
Nucleotide Sequence ◽  
Phylogenetic Trees ◽  
Coi Gene ◽  
Nucleotide Sequence Analysis ◽  
Gene Fragment ◽  
Neighbor Joining ◽  
Mtdna Coi ◽  
The Relationship

A nucleotide sequence analysis of cytochrome oxidase I (COI) gene fragment from parasitic unionicolid mites is performed in this paper. The aligned nucleotide fragment is 664bp (including gaps) in length, including 374 conserved sites, 284 variable sites, 73 conversion sites, 51 transpose sites. The conversion sites are much higher than the transpose sites with a conversion transpose ratio (si/sv) of 1.4. The percentages of A+T and G+C are 64.6% and 35.4% in the nucleotide sequence which indicates a strong AT bias. From the sequence analysis of COI gene, the relationship between Unionicola chelata and Unionicola arcuate are the farthest among all the parasitic unionicolid mites while the relationship between Unionicola ischyropalpus and U.arcuata are the closest. Using U.crassipes as an outgroup, the phylogenetic trees are reconstructed with maximum likelihood(ML) and neighbor-joining(NJ) inferences (PAUP4.0b10 tool), and the results show that U.arcuata is the more evoluted speciesand Unionicola agilex might be the first separated from ancestral species.

scholarly journals Demographic history and population structure of Anopheles pseudopunctipennis in Argentina based on the mitochondrial COI gene

2014 ◽  
Vol 7 (1) ◽  
pp. 423 ◽  
Author(s):  
María J Dantur Juri ◽  
Marta Moreno ◽  
Mónica J Prado Izaguirre ◽  
Juan C Navarro ◽  
Mario O Zaidenberg ◽  
...  
Keyword(s):  
Population Structure ◽  
Demographic History ◽  
Coi Gene ◽  
Mitochondrial Coi ◽  
Mitochondrial Coi Gene

scholarly journals Detection of heteroplasmy and nuclear mitochondrial pseudogenes in the Japanese spiny lobster Panulirus japonicus

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Seinen Chow ◽  
Takashi Yanagimoto ◽  
Haruko Takeyama
Keyword(s):  
Nucleotide Sequence ◽  
Direct Sequencing ◽  
Spiny Lobster ◽  
Nuclear Genome ◽  
Sequence Divergence ◽  
Nucleotide Sequences ◽  
Nucleotide Sequence Analysis ◽  
Nucleotide Sequencing ◽  
Mtdna Sequence ◽  
Panulirus Japonicus

AbstractPartial mtDNA cytochrome oxidase subunit I (COI) fragments and near entire stretch of 12S rDNA (12S) and control region (Dloop) of the Japanese spiny lobster (Panulirus japonicus) (n = 3) were amplified by PCR and used for direct nucleotide sequencing and for clone library-based nucleotide sequence analysis. Nucleotide sequences of a total of 75 clones in COI, 77 in 12S and 92 in Dloop were determined. Haplotypes of the clones matched with those obtained by direct sequencing were determined to be genuine mtDNA sequence of the individual. Phylogenetic analysis revealed several distinct groups of haplotypes in all three regions. Genuine mtDNA sequences were observed to form a group with their closely related variables, and most of these variables may be due to amplification error but a few to be heteroplasmy. Haplotypes determined as nuclear mitochondrial pseudogenes (NUMTs) formed distinct groups. Nucleotide sequence divergence (K2P distance) between genuine haplotypes and NUMTs were substantial (7.169–23.880% for COI, 1.336–23.434% for 12S, and 7.897–71.862% for Dloop). These values were comparable to or smaller than those between species of the genus Panulirus, indicating that integration of mtDNA into the nuclear genome is a continuous and dynamic process throughout pre- and post-speciation events. Double peaks in electropherograms obtained by direct nucleotide sequencing were attributed to common nucleotides shared by multiple NUMTs. Information on the heteroplasmy and NUMTs would be very important for addressing their impact on direct nucleotide sequencing and for quality control of nucleotide sequences obtained.

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