今天笔者和各位科研同仁分享如何使用细菌属水平泛基因组学、生物合成基因簇(Biosynthetic gene cluster)预测和代谢产物分类、评估BGC催化合成的已知产物和新的产物。 微生物(例如细菌)和高等真核生物之间的相互作用无处不在,这些相互作用具有重要的医学、环境和进化意义。微生物提供营养、塑造免疫系统、维持多样化和多产的...
Methods and classes to support Biosynthetic Gene Cluster analysis bioinformaticssecondary-metabolitesbgcbiosynthetic-gene-clusters UpdatedMar 12, 2025 Python File conversion scripts for DNA sequence data convertervcffastadna-sequencessequence-alignmentconversion-scriptlociphylippyradbgcfileconversionsvdquartetsbayesian...
Their production is encoded in biosynthetic gene clusters (BGCs), groups of genes collectively directing their biosynthesis. The advent of metagenomics has allowed researchers to study BGCs directly from environmental samples, identifying numerous previously unknown BGCs encoding unprecedente...
Fungal Biosynthetic Gene Cluster eXtractor. Contribute to ydmatsd/funbgcex development by creating an account on GitHub.
以往对不同环境样品的PCR扩增分析和短读长测序(short-read sequencing)研究表明,宏基因组数据中存在多种生物合成基因簇(BGCs,biosynthetic gene cluster),表明它们有可能合成新的功能化合物。然而,由于短读长测序的技术限制,从未培养的细菌中复原全长BGC序列仍然是一个挑战,因而很难完整评估BGCs的多样性。在这项研究...
意识到上述限制,我们着手开发一种算法,允许直接在人类微生物组衍生的宏基因组测序数据中识别小分子 BGC,而无需细菌培养或测序;我们称这个算法为MetaBGC(生物合成基因簇的宏基因组标识符,metagenomic identifier of biosynthetic gene clusters)。我们的算法需要满足三个主要标准: ...
1.本技术实施例涉及人工智能领域,特别涉及一种基因组序列中潜在bgc的预测方法、装置、设备及介质。 背景技术: 2.生物合成基因簇(biosynthetic gene clusters,bgc)是指具有生物合成功能的一组基因,能够编码合成次级代谢产物(小分子化合物),而微生物的次级代谢产物则是药物开发的重要源泉。
and conferred the presence of prodigiosin gene cluster in the bacterial genome. "Prodigiosin NRPS", among the 10 analyzed gene clusters, showed 100% similarity with query sequences where pigC, pigH, pigI, and pigJ were identified as fundamental genes for prodigiosin bio...
Deep-BGCpred: A unified deep learning genome-mining framework for biosynthetic gene cluster predictiondoi:10.1101/2021.11.15.468547Ziyi YangBenben LiaoChangyu HsiehShengyu Zhang
TaxiBGC: a Taxonomy-guided Approach for the Identification of Experimentally Verified Microbial Biosynthetic Gene Clusters in Shotgun Metagenomic Datadoi:10.1101/2021.07.30.454505Utpal BakshiVinod GuptaAileen R LeeJaeyun SungCold Spring Harbor Laboratory...