[DEBUG-WINDOW 처리영역 보기]
즐겨찾기  |  뉴스레터  |  오늘의 정보  |  e브릭몰e브릭몰 sale 회원가입   로그인
BRIC홈 한국을 빛내는 사람들
검색광고안내
스폰서배너광고 안내  배너1 배너2 배너3 배너4
과학으로 본 코로나19 (COVID-19)
전체보기 한빛사논문 추천논문 인터뷰 그이후 한빛사통계
사진없음
김옥선 (Ok-Sun Kim)
서울대학교, 현 극지연구소
조회 3209  인쇄하기 주소복사 트위터 공유 페이스북 공유 
Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species

Ok-Sun Kim1,†‡, Yong-Joon Cho1,†, Kihyun Lee1, Seok-Hwan Yoon1, Mincheol Kim1, Hyunsoo Na1, Sang-Cheol Park2, Yoon Seong Jeon2, Jae-Hak Lee2, Hana Yi1, Sungho Won3 and Jongsik Chun1,2,*

1School of Biological Sciences, Seoul National University, Seoul, Republic of Korea
2Interdisciplinary Program in Bioinformatics, Seoul National University, Seoul, Republic of Korea
3Department of Statistics, Chung-Ang University, Seoul, Republic of Korea

Present address: Division of Polar Biological Sciences, Korea Polar Research Institute, Incheon 406-840, Republic of Korea.

*Correspondence : Jongsik Chun

Abstract
Despite recent advances in commercially optimized identification systems, bacterial identification remains a challenging task in many routine microbiological laboratories, especially in situations where taxonomically novel isolates are involved. The 16S rRNA gene has been used extensively for this task when coupled with a well-curated database, such as EzTaxon, containing sequences of type strains of prokaryotic species with validly published names. Although the EzTaxon database has been widely used for routine identification of prokaryotic isolates, sequences from uncultured prokaryotes have not been considered. Here, the next generation database, named EzTaxon-e, is formally introduced. This new database covers not only species within the formal nomenclatural system but also phylotypes that may represent species in nature. In addition to an identification function based on Basic Local Alignment Search Tool (blast) searches and pairwise global sequence alignments, a new objective method of assessing the degree of completeness in sequencing is proposed. All sequences that are held in the EzTaxon-e database have been subjected to phylogenetic analysis and this has resulted in a complete hierarchical classification system. It is concluded that the EzTaxon-e database provides a useful taxonomic backbone for the identification of cultured and uncultured prokaryotes and offers a valuable means of communication among microbiologists who routinely encounter taxonomically novel isolates. The database and its analytical functions can be found at http://eztaxon-e.ezbiocloud.net/.

These authors contributed equally to this work.

논문정보
- 형식: Research article
- 게재일: 2012년 03월 (BRIC 등록일 2013-02-22)
- 연구진: 국내연구진태극기
- 분야: Microbiology, Evolution
- 피인용횟수: 최근 3년간 60회 이상 인용된 논문
Dot/Icm 제 4 유형 커플링 단백질 복합체의 선택적 이펙터 단백질 인식[Nat. Commun.]
김현민
발표: 김현민 (KAIST)
일자: 2020년 9월 29일 (화) 오후 02시 (한국시간)
언어: 한국어
참석자 접수신청하기

  댓글 0
등록
 
목록
Terumo bct
관련링크
김옥선 님 전체논문보기 >
관련인물
관련분야 논문보기
Microbiology

Evolution

외부링크
Google (by Ok-Sun Kim)
Pubmed (by Ok-Sun Kim)
프리미엄 Bio일정 Bio일정 프리미엄 안내
대구경북과학기술원 (DGIST) 뇌·인지과학전공 온라인 전공설명회 개최
위로가기
한빛사 홈  |  한빛사FAQ  |  한빛사 문의 및 제안
 |  BRIC소개  |  이용안내  |  이용약관  |  개인정보처리방침  |  이메일무단수집거부
Copyright © BRIC. All rights reserved.  |  문의 member@ibric.org
트위터 트위터    페이스북 페이스북   유튜브 유튜브    RSS서비스 RSS
에펜도르프코리아 광고