|本期目录/Table of Contents|

[1]彭司华** 孙 丹 袁文亮 卫 偲.通过宏基因组学发现生物催化剂*[J].应用与环境生物学报,2019,25(02):1-16.[doi:10.19675/j.cnki.1006-687x.2018.05003]
 PENG Sihua*SUN DanYUAN Wenliang& WEI Cai.Discovering biocatalysts through metagenomics*[J].Chinese Journal of Applied & Environmental Biology,2019,25(02):1-16.[doi:10.19675/j.cnki.1006-687x.2018.05003]
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通过宏基因组学发现生物催化剂*()
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《应用与环境生物学报》[ISSN:1006-687X/CN:51-1482/Q]

卷:
25卷
期数:
2019年02期
页码:
1-16
栏目:
综 述
出版日期:
2019-04-25

文章信息/Info

Title:
Discovering biocatalysts through metagenomics*
文章编号:
201805003
作者:
彭司华1234** 孙 丹1234 袁文亮5 卫 偲1234
1上海海洋大学水产与生命学院发育生物学系 上海 201306 2水产种质资源发掘与利用教育部重点实验室(上海海洋大学)
Author(s):
PENG Sihua1234*SUN Dan1234YUAN Wenliang5& WEI Cai 1234
1 Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources (Shanghai Ocean University), Ministry of Education, Shanghai 201306, China 2 National Pathogen Collection Center for Aquatic AnimalsMinistry of Agriculture, , Shanghai 201306,China 3 International Research Center for Marine Biosciences at Shanghai Ocean University, Ministry of Science and Technology , Shanghai 201306, China 4 Department of Developmental Biology, College of Fisheries and Life Science, Shanghai Ocean University , Shanghai 201306, China 5 School of Optical-Electric and Computer Engineering, University of Shanghai for Science and Technology , Shanghai 200093, China
关键词:
宏基因组学 生物催化剂 微生物 二代测序 三代测序
Keywords:
metagenomics biocatalyst enzymes microorganisms next generation sequencing third generation sequencing
DOI:
10.19675/j.cnki.1006-687x.2018.05003
摘要:
现在大多数化学合成使用对环境有害的有机溶剂。如果用酶作为生物催化剂,则可在化学合成反应中少使用或不使用有机溶剂,所以使用酶作为催化剂更环保。随着宏基因组学的发展,以及二代测序成本的持续大幅度下降,基于宏基因组学获得生物催化剂已经成为最重要的方法。本文综述了基于宏基因组学发现生物催化剂的各种方法,对目前世界上采用的各种筛选方法进行了归纳,共总结出两大类方法。一是基于宏基因组文库的筛选方法,另一种是基于序列的遗传筛选方法。进一步对这两类方法细分为具体的7种筛选方法,并对各种方法的优缺点逐一进行了回顾和评述。同时,对各种基于宏基因组学筛选生物催化剂的方法得到的结果进行了统计分析,指出表型选择法筛选是采用最多的方法,有很大的实用价值。本文认为直接二代测序进行生物信息学筛选的方法也是有潜力的一种筛选方法。最后,对基于宏基因组学筛选生物催化剂的未来发展进行了展望,认为三代测序技术将在基于宏基因组学的生物催化剂筛选中发挥重要作用。
Abstract:
Most chemical synthesis now uses organic solvents that are harmful to the environment. If an enzyme is used as the biocatalyst, the organic solvent can be used little or no in the chemical synthesis reaction, so the use of the enzyme as a catalyst is more environmentally friendly. With the development of metagenomics, and the continuous decline in the cost of next generation sequencing, biocatalysts based on metagenomics have become the most important method in chemical synthesis reactions. This article reviews various methods for discovering biocatalysts based on metagenomics, and summarizes the various screening methods currently used in the world, summing up two major methods. One is a screening method based on metagenomic libraries, and the other is a sequence-based genetic screening method. Further, these two methods were subdivided into seven specific screening methods. The advantages and disadvantages of various methods were reviewed one by one. Various methods based on metagenomics for screening biocatalysts have been statistically analyzed. It is pointed out that phenotypic screening method is the most used method and has great practical value. it is considered that the direct next generation sequencing method for bioinformatics screening is also a potential screening method. Finally, the prospects for the future development of biocatalyst screening based on metagenomics are forecasted, and it is believed that the third generation sequencing technology will play an important role in the screening of biocatalysts based on metagenomics.

相似文献/References:

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 CHEN Dandan,GU Shenghua,ZHANG Jinna,et al.Effect of Intestinal Microbes on the Immune System and the Latest Research Methods[J].Chinese Journal of Applied & Environmental Biology,2013,19(02):542.[doi:10.3724/SP.J.1145.2013.00542]
[2]陈剑,李君文,邱志刚,等.CTX-M型产ESBLs耐药基因在城市典型河流中的生态分布[J].应用与环境生物学报,2014,20(01):40.[doi:10.3724/SP.J.1145.2014.00040]
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[3]张冬寒 曹明明 李延清 王绍琛 郝 鹏 冯治洋**.基于序列筛选发掘宏基因组文库中的新颖卤化酶基因*[J].应用与环境生物学报,2018,24(06):1.[doi:10.19675/j.cnki.1006-687x.2017.12031]
 ZHANG Donghan,CAO Mingming,LI Yanqing,et al.Discovery of novel halogenase genes using sequence-driven metagenomics approach *[J].Chinese Journal of Applied & Environmental Biology,2018,24(02):1.[doi:10.19675/j.cnki.1006-687x.2017.12031]

备注/Memo

备注/Memo:
收稿日期: 2018-05-03 接受日期 Accepted: 2018-08-22
*上海市自然科学基金项目(15ZR1420800) 、上海海洋大学博士科研启动项目(A2-0203-00-100313)资助?
**通讯作者(E-mail: shpeng@shou.edu.cn)
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更新日期/Last Update: 2018-11-12