Synthetic Biology Open Language (SBOL) Version 2.3
Synthetic Biology Open Language (SBOL) Version 2.3
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DOI：
10.1515/jib-2019-0025
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发表时间：
2019-06-01
影响因子：
1.9
通讯作者：
Wipat, Anil
中科院分区：
文献类型：
--
作者：
Madsen, Curtis;Moreno, Angel Goni;Wipat, Anil
合成生物学建立在遗传学、分子生物学和代谢工程的技术和成功之上，将工程原理应用于生物系统的设计。该领域仍然面临着巨大的挑战，包括开发时间长、失败率高和可重复性差。改善这些问题的一种方法是改善实验室之间设计系统的信息交换。合成生物学开放语言（SBOL）已被开发为支持合成生物学中生物设计信息的规范和交换的标准，填补了其他现有标准无法满足的需求。本文档详细介绍了 SBOL 2.3.0 版本，该版本建立在去年的 JIB 系统生物学标准特刊中发布的 2.2.0 版本之上。特别是，SBOL 2.3.0 包括简洁表示序列修改（例如插入、删除和替换）的方法、支持组织和附加源自设计的实验数据的扩展，以及用于描述设计元素的数值参数的扩展。新版本还包括指定合成生物学活动的类型、具有多种编码的序列的明确位置、细化许多验证规则、改进的图形和示例，以及澄清与使用外部本体术语相关的许多问题。
Synthetic biology builds upon the techniques and successes of genetics, molecular biology, and metabolic engineering by applying engineering principles to the design of biological systems. The field still faces substantial challenges, including long development times, high rates of failure, and poor reproducibility. One method to ameliorate these problems is to improve the exchange of information about designed systems between laboratories. The synthetic biology open language (SBOL) has been developed as a standard to support the specification and exchange of biological design information in synthetic biology, filling a need not satisfied by other pre-existing standards. This document details version 2.3.0 of SBOL, which builds upon version 2.2.0 published in last year's JIB Standards in Systems Biology special issue. In particular, SBOL 2.3.0 includes means of succinctly representing sequence modifications, such as insertion, deletion, and replacement, an extension to support organization and attachment of experimental data derived from designs, and an extension for describing numerical parameters of design elements. The new version also includes specifying types of synthetic biology activities, unambiguous locations for sequences with multiple encodings, refinement of a number of validation rules, improved figures and examples, and clarification on a number of issues related to the use of external ontology terms.