A model industrial workhorse: Bacillus subtilis strain 168 and its genome after a quarter of a century.
A model industrial workhorse: Bacillus subtilis strain 168 and its genome after a quarter of a century.
复制标题
一个模型工业主力：枯草芽孢杆菌168及其四分之一世纪后的基因组。
DOI：
10.1111/1751-7915.14257
复制
发表时间：
2023-06
影响因子：
5.7
通讯作者：
Zuniga, Cristal
中科院分区：
文献类型：
--
作者：
Bremer, Erhard;Calteau, Alexandra;Danchin, Antoine;Harwood, Colin;Helmann, John D.;Medigue, Claudine;Palsson, Bernhard O.;Sekowska, Agnieszka;Vallenet, David;Zuniga, Abril;Zuniga, Cristal
绝大多数基因组序列使用各种软件程序自动注释。这些注释的准确性在很大程度上取决于非常少的人工注释工作，这些工作将联合收割机验证的实验数据与来自模式生物的基因组序列相结合。在这里，我们总结了枯草芽孢杆菌菌株168的最新功能注释，在其基因组序列首次公开后的四分之一世纪。自从5年前的最后一次这样的努力以来，已经更新了1168个遗传功能，允许构建这种具有环境和工业利益的生物体的新代谢模型。在这篇评论的重点是新的代谢的见解，金属在代谢和大分子生物合成中的作用，参与生物膜形成的功能，功能控制细胞生长，最后，蛋白质剂，允许类歧视，从而允许维护管理，和所有细胞过程的准确性。新的“基因组对象”和广泛更新的文献综述已被纳入该序列，现在可在国际核苷酸序列数据库协作（INSDC：Accommodal AL009126.4）。枯草芽孢杆菌的参考基因组在25年前首次测序和注释。当时，大约42%的编码序列不能被分配功能。在目前的注释更新中，15%的CDS仍然没有功能。新鉴定的功能的一个重要贡献已被归因于核酸修饰酶和基因作为类判别器，控制生长稳态，并允许细胞显示集体行为。
The vast majority of genomic sequences are automatically annotated using various software programs. The accuracy of these annotations depends heavily on the very few manual annotation efforts that combine verified experimental data with genomic sequences from model organisms. Here, we summarize the updated functional annotation of Bacillus subtilis strain 168, a quarter century after its genome sequence was first made public. Since the last such effort 5 years ago, 1168 genetic functions have been updated, allowing the construction of a new metabolic model of this organism of environmental and industrial interest. The emphasis in this review is on new metabolic insights, the role of metals in metabolism and macromolecule biosynthesis, functions involved in biofilm formation, features controlling cell growth, and finally, protein agents that allow class discrimination, thus allowing maintenance management, and accuracy of all cell processes. New ‘genomic objects’ and an extensive updated literature review have been included for the sequence, now available at the International Nucleotide Sequence Database Collaboration (INSDC: AccNum AL009126.4). The reference genome of Bacillus subtilis was first sequenced and annotated 25 years ago. At that time, some 42% of the coding sequences could not be assigned a function. In the present annotated update, 15% of the CDS remain functionless. An important contribution of newly identitied functions has been attributed to nucleic acid modifying enzymes and genes acting as class discriminators, controlling growth homeostasis and allowing the cells to display a collective behavior.
登录
查看更多内容
影响因子：
3.7
作者：
Perera VR;Lapek JD Jr;Newton GL;Gonzalez DJ;Pogliano K
通讯作者：
Pogliano K
DOI：
10.1016/j.jbc.2021.101384
发表时间：
2022-03
期刊：
The Journal of biological chemistry
影响因子：
--
作者：
Arias-Cartín R;Uzel A;Seduk F;Gerbaud G;Pierrel F;Broc M;Lebrun R;Guigliarelli B;Magalon A;Grimaldi S;Walburger A
通讯作者：
Walburger A
影响因子：
14.9
作者：
Arita M;Karsch-Mizrachi I;Cochrane G
通讯作者：
Cochrane G
影响因子：
7.7
作者：
Breuer, Marian;Earnest, Tyler M.;Luthey-Schulten, Zaida
通讯作者：
Luthey-Schulten, Zaida
影响因子：
14.8
作者：
Bastard, Karine;Perret, Alain;de Berardinis, Veronique
通讯作者：
de Berardinis, Veronique