가지검은마름병 병징을 보이는 사과나무 가지에서 분리한 식물병원세균인 Erwinia pyrifoliae EpK1/15 균주의 유전체 해독 Draft genome sequence of a bacterial plant pathogen Erwinia pyrifoliae strain EpK1/15 isolated from an apple twig showing black shoot blight원문보기
Erwinia pyrifoliae는 그람 음성 세균으로 사과와 배에 가지검은마름병을 일으킨다. E. pyrifoliae EpK1/15 균주가 병징을 보이는 경기도 포천지역의 사과나무 가지에서 2014년도에 분리되었다. 본 논문에서는 PacBio RS II 플랫폼을 이용하여 E. pyrifoliae EpK1/15 균주의 전체 유전체를 분석하여 보고한다. 본 균주는 G + C 비율이 53.4%이며, 4,027,225 bp로 구성된 염색체와 G + C 비율이 50.3%이며, 48,456 bp로 구성된 plasmid를 지니고 있다. 이들 염색체와 plasmid DNA에서 3,798개의 단백질 코딩 유전자, 22개의 rRNA, 77개의 tRNA, 13개의 non-coding RNA 및 231개의 위유전자(pseudo gene)가 확인되었다.
Erwinia pyrifoliae는 그람 음성 세균으로 사과와 배에 가지검은마름병을 일으킨다. E. pyrifoliae EpK1/15 균주가 병징을 보이는 경기도 포천지역의 사과나무 가지에서 2014년도에 분리되었다. 본 논문에서는 PacBio RS II 플랫폼을 이용하여 E. pyrifoliae EpK1/15 균주의 전체 유전체를 분석하여 보고한다. 본 균주는 G + C 비율이 53.4%이며, 4,027,225 bp로 구성된 염색체와 G + C 비율이 50.3%이며, 48,456 bp로 구성된 plasmid를 지니고 있다. 이들 염색체와 plasmid DNA에서 3,798개의 단백질 코딩 유전자, 22개의 rRNA, 77개의 tRNA, 13개의 non-coding RNA 및 231개의 위유전자(pseudo gene)가 확인되었다.
Erwinia pyrifoliae is a Gram-negative bacterium causing black shoot blight in apple and Asian pear trees. E. pyrifoliae strain EpK1/15 was isolated in 2014 from an apple twig from the Pocheon, Gyeonggi-do, South Korea. In this study, we report the draft genome sequence of E. pyrifoliae EpK1/15 using...
Erwinia pyrifoliae is a Gram-negative bacterium causing black shoot blight in apple and Asian pear trees. E. pyrifoliae strain EpK1/15 was isolated in 2014 from an apple twig from the Pocheon, Gyeonggi-do, South Korea. In this study, we report the draft genome sequence of E. pyrifoliae EpK1/15 using PacBio RS II platform. The draft genome is comprised of a circular chromosome with 4,027,225 bp and 53.4% G + C content and a plasmid with 48,456 bp and 50.3% G + C content. The draft genome includes 3,798 protein-coding genes, 22 rRNA genes, 77 tRNA genes, 13 non-coding RNA genes, and 231 pseudo genes.
Erwinia pyrifoliae is a Gram-negative bacterium causing black shoot blight in apple and Asian pear trees. E. pyrifoliae strain EpK1/15 was isolated in 2014 from an apple twig from the Pocheon, Gyeonggi-do, South Korea. In this study, we report the draft genome sequence of E. pyrifoliae EpK1/15 using PacBio RS II platform. The draft genome is comprised of a circular chromosome with 4,027,225 bp and 53.4% G + C content and a plasmid with 48,456 bp and 50.3% G + C content. The draft genome includes 3,798 protein-coding genes, 22 rRNA genes, 77 tRNA genes, 13 non-coding RNA genes, and 231 pseudo genes.
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이론/모형
pyrifoliae EpK1/15 was extracted with the DNeasy Blood & Tissue Kit(Qiagen), and the extracted DNA was used to generate 20 kb SMRTbellTM template libraries. Genome sequencing was performed at ChunLab, Inc. using the Pacific Biosciences RSII sequencing method. The sequencing depth was 272.
성능/효과
3% G + C content). A total of 3,798 protein-coding genes, 22 rRNA genes (5S, 23S, and 16S), 77 tRNA genes, 13 non-coding RNA, and 231 pseudo genes were predicted. It carries one intact hrp gene cluster to form a Hrp type III secretion system and to encode important effector genes, dspA/E and eopB, and two harpin genes, hrpN and hrpW, in its chromosome for virulence in host plants.
후속연구
Interestingly, the plasmid in EpK1/15 strain is larger than the largest plasmids in both Ep1/96 and DSM12163 and also three small plasmids reported in Ep1/96 and DSM12163 strains were missing in this draft genome sequence of EpK1/16 strain. Because E. pyrifoliae strain EpK1/15 was isolated 20 years later than the first sequenced strain Ep1/96, further in-depth comparative analysis of the EpK1/15 genome would provide insights on the evolution of E. pyrifoliae species in field conditions.
참고문헌 (8)
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Rhim, S.L., Volksch, B., Gardan, L., Paulin, J.P., Langlotz, C., Kim, W.S., and Geider, K. 1999. Erwinia pyrifoliae, an Erwinia species different from Erwinia amylovora, causes a necrotic disease of Asian pear trees. Plant Pathol. 48, 514-520.
Smits, T.H., Jaenicke, S., Rezzonico, F., Kamber, T., Goesmann, A., Frey, J.E., and Duffy, B. 2010. Complete genome sequence of the fire blight pathogen Erwinia pyrifoliae DSM $12163^T$ and comparative genomic insights into plant pathogenicity. BMC Genomics 11, 2.
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