• Title/Summary/Keyword: Mitochondrial ND1/tRNA

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Description of Nearly Completed Mitochondrial Genome Sequences of the Garden Chafer Polyphylla laticollis manchurica, Endangered in Korea (Insecta: Coleoptera)

  • Kim, Min Jee;Kim, Ki-Gyoung;Kim, Iksoo
    • International Journal of Industrial Entomology and Biomaterials
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    • v.27 no.1
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    • pp.185-202
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    • 2013
  • In this study, we present the nearly complete mitogenome sequences of the garden chafer, Polyphylla laticollis manchurica, which is listed as an endangered species in Korea. The P. l. manchurica mitogenome, which includes unfinished whole A+T-rich region and a partial srRNA was 14,473-bp long, possessing typical sets of genes (13 PCGs, 22 tRNA genes, and 2 rRNA genes). Gene arrangement of the P. l. manchurica mitogenome was identical to the common one found in the majority of insects. The 5 bp-long motif sequence (TAGTA) that has been suggested to be the possible binding site for the transcription termination peptide for the major-strand was also found in the P. l. manchurica mitogenome between $tRNA^{Ser}$(UCN) and ND1. The start codon for COI gene and ATPase8 was designated as a typical TTG. All tRNAs of the P. l. manchurica showed a stable canonical clover-leaf structure of other mt tRNAs, except for $tRNA^{Ser}$(AGN), DHU arm of which could not form stable stemloop structure. As has been previously determined, the high A/T content was unanimously observed in P. l. manchurica in terms of A/T bias in the third codon position (73.5%) compared with the first (66.4%) and second codon position (66.2%). The PCGs encoded in major-strands are slightly T-skewed, whereas those of the minor-strand are A-skewed, indicating strand asymmetry in nucleotide composition in the Coleoptera including P. l. manchurica.

Complete Mitochondrial Genome Sequence of the Yellow-Spotted Long-Horned Beetle Psacothea hilaris (Coleoptera: Cerambycidae) and Phylogenetic Analysis among Coleopteran Insects

  • Kim, Ki-Gyoung;Hong, Mee Yeon;Kim, Min Jee;Im, Hyun Hwak;Kim, Man Il;Bae, Chang Hwan;Seo, Sook Jae;Lee, Sang Hyun;Kim, Iksoo
    • Molecules and Cells
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    • v.27 no.4
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    • pp.429-441
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    • 2009
  • We have determined the complete mitochondrial genome of the yellow-spotted long horned beetle, Psacothea hilaris (Coleoptera: Cerambycidae), an endangered insect species in Korea. The 15,856-bp long P. hilaris mitogenome harbors gene content typical of the animal mitogenome and a gene arrangement identical to the most common type found in insect mitogenomes. As with all other sequenced coleopteran species, the 5-bp long TAGTA motif was also detected in the intergenic space sequence located between $tRNA^{Ser}$(UCN) and ND1 of P. hilaris. The 1,190-bp long non-coding A+T-rich region harbors an unusual series of seven identical repeat sequences of 57-bp in length and several stretches of sequences with the potential to form stem-and-loop structures. Furthermore, it contains one $tRNA^{Arg}$-like sequence and one $tRNA^{Lys}$-like sequence. Phylogenetic analysis among available coleopteran mitogenomes using the concatenated amino acid sequences of PCGs appear to support the sister group relationship of the suborder Polyphaga to all remaining suborders, including Adephaga, Myxophaga, and Archostemata. Among the two available infraorders in Polyphaga, a monophyletic Cucujiformia was confirmed, with the placement of Cleroidea as the basal lineage for Cucujiformia. On the other hand, the infraorder Elateriformia was not identified as monophyletic, thereby indicating that Scirtoidea and Buprestoidea are the basal lineages for Cucujiformia and the remaining Elateriformia.

Complete Mitochondrial Genome Sequences of Chinese Indigenous Sheep with Different Tail Types and an Analysis of Phylogenetic Evolution in Domestic Sheep

  • Fan, Hongying;Zhao, Fuping;Zhu, Caiye;Li, Fadi;Liu, Jidong;Zhang, Li;Wei, Caihong;Du, Lixin
    • Asian-Australasian Journal of Animal Sciences
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    • v.29 no.5
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    • pp.631-639
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    • 2016
  • China has a long history of sheep (Ovis aries [O. aries]) breeding and an abundance of sheep genetic resources. Knowledge of the complete O. aries mitogenome should facilitate the study of the evolutionary history of the species. Therefore, the complete mitogenome of O. aries was sequenced and annotated. In order to characterize the mitogenomes of 3 Chinese sheep breeds (Altay sheep [AL], Shandong large-tailed sheep [SD], and small-tailed Hulun Buir sheep [sHL]), 19 sets of primers were employed to amplify contiguous, overlapping segments of the complete mitochondrial DNA (mtDNA) sequence of each breed. The sizes of the complete mitochondrial genomes of the sHL, AL, and SD breeds were 16,617 bp, 16,613 bp, and 16,613 bp, respectively. The mitochondrial genomes were deposited in the GenBank database with accession numbers KP702285 (AL sheep), KP981378 (SD sheep), and KP981380 (sHL sheep) respectively. The organization of the 3 analyzed sheep mitochondrial genomes was similar, with each consisting of 22 tRNA genes, 2 rRNA genes (12S rRNA and 16S rRNA), 13 protein-coding genes, and 1 control region (D-loop). The NADH dehydrogenase subunit 6 (ND6) and 8 tRNA genes were encoded on the light strand, whereas the rest of the mitochondrial genes were encoded on the heavy strand. The nucleotide skewness of the coding strands of the 3 analyzed mitogenomes was biased toward A and T. We constructed a phylogenetic tree using the complete mitogenomes of each type of sheep to allow us to understand the genetic relationships between Chinese breeds of O. aries and those developed and utilized in other countries. Our findings provide important information regarding the O. aries mitogenome and the evolutionary history of O. aries inside and outside China. In addition, our results provide a foundation for further exploration of the taxonomic status of O. aries.

The Complete Mitochondrial Genome of Nysius plebeius Distant, 1883 (Heteroptera: Lygaeidae) from Korea (한국에 서식하는 애긴노린재(노린재목: 긴노린재과)의 미토콘드리아 전장 유전체)

  • Jiyeong Shin;Rameswor Maharjan;Hwijong Yi;Minkyu Jeong;Juil Kim
    • Korean journal of applied entomology
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    • v.62 no.2
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    • pp.83-87
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    • 2023
  • Nysius plebeius is a major lygaeid pest of various cereal crops and ornamental plants in East Asian countries, including Korea. The complete mitochondrial genome of N. plebeius was characterized and found to comprise a total of 17,367 bp, which included 13 protein-coding genes, NADH dehydrogenase components (complex I, ND), cytochrome oxidase subunits (complex VI, COX), cytochrome oxidase b (CYPB), two ATP synthases, two ribosomal RNA genes, and 22 transfer RNAs. The GC content of 23%. It showed high sequence similarity to other Lygaeidae species, such as N. cymoides (94.5%), N. fuscovittatus (91.7%), and an unknown Nysius species (94.1%). This new N. plebeius mitochondrial genome can be widely used for evolutionary studies of Lygaeidae and to improve pest management practices.

Genetic Variation and Population Specific Mitochondrial DNA Haplotype Found in the Jeju Native Pig Population (제주재래돼지 집단서 집단특이적 mtDNA Haplotype과 유전적 다양성)

  • Han, S.H.;Cho, I.C.;Lee, C.E.;Lee, S.S.;Kang, S.Y.;Choi, Y.L.;Oh, W.Y.;Sung, P.N.;Ko, S.B.;Oh, M.Y.;Ko, M.S.
    • Journal of Animal Science and Technology
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    • v.46 no.6
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    • pp.917-924
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    • 2004
  • Using PCR-RFLP haplotyping for the mitochondrial DNA(mtDNA) fragment containing the NADH dehydrogenase 2 gene(ND2) and three tRNA genes(tRNA-Met, tRNA-Trp and tRNA-Ala), we characterized the genetic diversity of five pig breeds including Jeju native pigs. mtDNA polymorphisms showing distinct cleavage patterns were found in the pig breeds. Two digestion patterns were detected when HaeIII- and Hinfl-RFLP, and four in the Tsp5091-RFLP analyses. Combining the three restriction enzyme digestion patterns found in five different pig breeds, four mtDNA haplotypes were observed and the haplotype frequencies were significantly different by the pig breeds. A monomorphic haplotype, mtWB, was observed in both Korean wild boars and Large White pigs. Both Duroc and Landrace pigs contained two haplotypes suggesting their multiple maternal lineages. Jeju native pig has two haplotypes(mtJN and mtJD). Of these, mtJN is identified as a Jeju native pig specific haplotype. This study suggested that more than two progenitor populations have been taken part in the domestication process of the Jeju native pig population, and/or probably subsequent crossing with other pig breeds from near east Asia. Unlike with our prediction, there was no direct evidence under molecular levels on the maternal introgression of Korean wild boar in the domestication of Jeju native pigs. In conclusion, specificity of mtDNA haplotypes related to pig breeds win be useful for identifying the maternal lineage as wen as constructing the genealogical pedigree in pigs.

Genetic Diversity of Rana catesbiana Captured on various sites in Korea based on mitochondrial ND1 sequence (미토콘드리아 ND1 유전자 염기서열 비교를 통한 국내 서식 황소개구리의 유전적 다양성 조사)

  • Lee Ji-Young;Shim Jae-Man;Joung Insil
    • Proceedings of the KAIS Fall Conference
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    • 2005.05a
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    • pp.297-300
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    • 2005
  • 1970년대 식용을 위한 양식을 목적으로 일본에서 수입된 황소개구리가 국내 하천과 호서생태계에 큰 피해를 주었으나, 최근 급속히 그 개체수가 줄어든 것으로 추정되므로 이번 연구에서는 국내에 서식하는 북미산 황소개구리의 유전자 분석을 통하여 개체동태군에 대한 유전적 연관을 조사하였다. 이를 위하여 전라남도 지역에서 서식하는 황소개구리를 채집하여 이미 발표된 북미산 황소개구리와 미토콘드리아 ND1/tRNA 유전자 1215bp의 염기서열을 비교, 분석하였다. 북미산과 비교하였을 때 조사한 국내 서식 개체 모두에게 ND1/tRNA 유전자 1개 위치에서 염기변화가 발견되었으나 이는 도입 개체군의 유전자인지 국내 특이변이가 진행된 것인지 확실하지 않다. 또한 조사한 개체 일부에서 유전자 염기서열의 6위치에서의 변이가 발견되었으나 국내 서식 황소개구리는 미국산 황소개구리와의 유전적 차이가 거의 없으며, Kimura-2-parameter 분석결과 국내 서식 황소개구리 개체 내에서 $98.7\%\~100\%$의 높은 유사성을 보여 종내 유전적 차이가 거의 없는 것으로 보인다. Neighbor-Joining과 Maximum Parsimony 분석 결과, cluster를 이루는 개체군의 차이를 보였으므로 개체들이 분화되어 나온 시점과 위치가 다른 것으로 확인되었지만 장흥, 영암, 고흥의 개체가 국내 도입시기의 개체군에 속하며 광주, 남평 지역의 개체군이 고흥의 한 개체로부터 분화되어 나왔음을 추정할 수 있다. 이러한 결과로부터 국내에 서식하는 황소개구리가 도입 후 지역 특이적 분화가 일어났다고 결정하기는 무리가 있으며, 이와 같이 유전적 유전도가 높은 개체들간의 교배에 따른 유전적유전적 다양성의 감소가 최근에 관찰되는 국내산 황소개구리의 급격한 감소원인들 중의 하나일 가능성을 시사한다.년도) 18,756, 2045(년도) 22,595, 시장점유율 증가로 인한 수출액 증가분 누적(억원) : 2015(년도) 3,411, 2025(년도) 8,847, 2035(년도) 14,433, 2045(년도) 18,005 또한 시나리오 비교평가를 실시하여 본 결과, 본 연구에서 정의한 순편익 누적(Cumulative Net Profit) 변수를 적용하면 현재 연구비 추세 대비 $30\%$ 까지 연구비를 증가 시키는 것이 효율적임을 알 수 있었다.성, 생산 용이성, 제품 디자인의 우수한 정도가 a=0.01 수준 하에서 유의적으로 추정되었다. 이들 변수들 중에서 품질경쟁력에 가장 큰 영향을 미치는 측정변수는 제품의 기본 성능, 수명(내구성), 신뢰성, 제품 디자인의 순서로 추정되었다. 이것은 한국 제조업이 아직 산업 디자인이 품질경쟁력에 크게 영향을 미치는 성숙단계에 이르지 못하였음을 의미한다. (2) 제품 디자인에게 영향을 끼치는 유의적인 변수는 연구개발력, 연구개발투자 수준, 혁신활동 수준(5S, TPM, 6Sigma 운동, QC 등)이며, 제품 디자인은 우선 품질경쟁력을 높여 간접적으로 고객만족과 고객 충성을 유발하는 것으로 추정되었다. 상기의 분석결과로부터, 본 연구는 다음과 같은 정책적 함의를 도출하였다. 첫째, 신상품 개발과 혁신을 위한 포괄적인 연구개발 프로젝트를 품질 경쟁력의 주요 결정요인(제품의 기본성능, 신뢰성, 수명(내구성) 및 제품 디자인)과 연계하여 추진해야 할 것이다. 둘째, 기업은 디자인 경영 마인드 제고와 디자인 전문인력 양성을, 대학은 디자인 현장 업무를 통하여 창의력 증진과 기획 및 마케팅 능력 교육을, 정부는 디자인 기술개발 및 디자인 교육지원의 강화를 통하여 각각 디자인 경쟁력$\rightarrow$품질경쟁력을 제고시켜야 할 것이

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