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학술연구/단체지원/교육 등 연구자 활동을 지속하도록 DBpia가 지원하고 있어요.
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연구자들이 자신의 연구와 전문성을 널리 알리고, 새로운 협력의 기회를 만들 수 있는 네트워킹 공간이에요.
논문 기본 정보
- 자료유형
- 학술저널
- 저자정보
- 발행연도
- 2016.12
- 수록면
- 751 - 758 (8page)
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초록· 키워드
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This study aimed at constructing a draft genome of the adult female worm Toxocara canis using next-generation sequencing (NGS) and de novo assembly, as well as to find new genes after annotation using functional genomics tools. Using an NGS machine, we produced DNA read data of T. canis. The de novo assembly of the read data was performed using SOAPdenovo. RNA read data were assembled using Trinity. Structural annotation, homology search, functional annotation, classification of protein domains, and KEGG pathway analysis were carried out. Besides them, recently developed tools such as MAKER, PASA, Evidence Modeler, and Blast2GO were used. The scaffold DNA was obtained, the N50 was 108,950 bp, and the overall length was 341,776,187 bp. The N50 of the transcriptome was 940 bp, and its length was 53,046,952 bp. The GC content of the entire genome was 39.3%. The total number of genes was 20,178, and the total number of protein sequences was 22,358. Of the 22,358 protein sequences, 4,992 were newly observed in T. canis. Following proteins previously unknown were found: E3 ubiquitin-protein ligase cbl-b and antigen T-cell receptor, zeta chain for T-cell and B-cell regulation; endoprotease bli-4 for cuticle metabolism; mucin 12Ea and polymorphic mucin variant C6/1/40r2.1 for mucin production; tropomodulin-family protein and ryanodine receptor calcium release channels for muscle movement. We were able to find new hypothetical polypeptides sequences unique to T. canis, and the findings of this study are capable of serving as a basis for extending our biological understanding of T. canis.
목차
Abstract
INTRODUCTION
MATERIALS AND METHODS
RESULTS
DISCUSSION
REFERENCES
참고문헌 (24)
참고문헌 신청
김용헌 / 2008 / Seroprevalence of Toxocariasis among Healthy People with Eosinophilia / The Korean Journal of Parasitology 46(1):29~32
Zhu XQ / 2015 / Genetic blueprint of the zoonotic pathogen Toxocara canis / Nat Commun 6:6145
Melsted P / 2011 / Efficient counting of k-mers in DNA sequences using a bloom filter / BMC Bioinformatics 12:333
Marcais G / 2011 / A fast, lock-free approach for efficient parallel counting of occurrences of k-mers / Bioinformatics 27:764~770
Beijing Genomics Institute / SOAPec
Zhu XQ / 2015 / Genetic blueprint of the zoonotic pathogen Toxocara canis / Nat Commun 6:6145
Melsted P / 2011 / Efficient counting of k-mers in DNA sequences using a bloom filter / BMC Bioinformatics 12:333
Marcais G / 2011 / A fast, lock-free approach for efficient parallel counting of occurrences of k-mers / Bioinformatics 27:764~770
Beijing Genomics Institute / SOAPec
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UCI(KEPA) : I410-ECN-0101-2017-513-002126497