Isolation, biochemical characterization, and genome sequencing of two high-quality genomes of a novel chitinolytic Jeongeupia species

IF 3.9 3区 生物学 Q2 MICROBIOLOGY
MicrobiologyOpen Pub Date : 2023-08-06 DOI:10.1002/mbo3.1372
Nathanael D. Arnold, Daniel Garbe, Thomas B. Brück
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引用次数: 1

Abstract

Chitin is the second most abundant polysaccharide worldwide as part of arthropods' exoskeletons and fungal cell walls. Low concentrations in soils and sediments indicate rapid decomposition through chitinolytic organisms in terrestrial and aquatic ecosystems. The enacting enzymes, so-called chitinases, and their products, chitooligosaccharides, exhibit promising characteristics with applications ranging from crop protection to cosmetics, medical, textile, and wastewater industries. Exploring novel chitinolytic organisms is crucial to expand the enzymatical toolkit for biotechnological chitin utilization and to deepen our understanding of diverse catalytic mechanisms. In this study, we present two long-read sequencing-based genomes of highly similar Jeongeupia species, which have been screened, isolated, and biochemically characterized from chitin-amended soil samples. Through metabolic characterization, whole-genome alignments, and phylogenetic analysis, we could demonstrate how the investigated strains differ from the taxonomically closest strain Jeongeupia naejangsanensis BIO-TAS4-2T (DSM 24253). In silico analysis and sequence alignment revealed a multitude of highly conserved chitinolytic enzymes in the investigated Jeongeupia genomes. Based on these results, we suggest that the two strains represent a novel species within the genus of Jeongeupia, which may be useful for environmentally friendly N-acetylglucosamine production from crustacean shell or fungal biomass waste or as a crop protection agent.

Abstract Image

一个新的溶壳Jeongeupia物种的两个高质量基因组的分离、生化表征和基因组测序。
几丁质是世界上第二丰富的多糖,是节肢动物外骨骼和真菌细胞壁的一部分。土壤和沉积物中的低浓度表明,在陆地和水生生态系统中,通过壳溶生物快速分解。生成酶,即所谓的几丁质酶,及其产物壳寡糖,在从作物保护到化妆品、医疗、纺织和废水处理行业的应用中表现出了很有前途的特性。探索新的几丁质分解生物对于扩展生物技术几丁质利用的酶工具包和加深我们对各种催化机制的理解至关重要。在这项研究中,我们提出了两个基于长读测序的高度相似的Jeongeupia物种基因组,这些基因组已经从几丁质改良的土壤样本中筛选、分离并进行了生化表征。通过代谢特征、全基因组比对和系统发育分析,我们可以证明所研究的菌株与分类上最接近的菌株Jeongeupia naejangsanensis BIO-TAS4-T(DSM 24253)有何不同。计算机分析和序列比对显示,在所研究的Jeongeupia基因组中存在大量高度保守的壳溶酶。基于这些结果,我们认为这两个菌株代表了Jeongeupia属中的一个新物种,它可能有助于从甲壳类动物外壳或真菌生物质废物中生产环境友好的N-乙酰葡糖胺,或作为作物保护剂。
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来源期刊
MicrobiologyOpen
MicrobiologyOpen MICROBIOLOGY-
CiteScore
8.00
自引率
0.00%
发文量
78
审稿时长
20 weeks
期刊介绍: MicrobiologyOpen is a peer reviewed, fully open access, broad-scope, and interdisciplinary journal delivering rapid decisions and fast publication of microbial science, a field which is undergoing a profound and exciting evolution in this post-genomic era. The journal aims to serve the research community by providing a vehicle for authors wishing to publish quality research in both fundamental and applied microbiology. Our goal is to publish articles that stimulate discussion and debate, as well as add to our knowledge base and further the understanding of microbial interactions and microbial processes. MicrobiologyOpen gives prompt and equal consideration to articles reporting theoretical, experimental, applied, and descriptive work in all aspects of bacteriology, virology, mycology and protistology, including, but not limited to: - agriculture - antimicrobial resistance - astrobiology - biochemistry - biotechnology - cell and molecular biology - clinical microbiology - computational, systems, and synthetic microbiology - environmental science - evolutionary biology, ecology, and systematics - food science and technology - genetics and genomics - geobiology and earth science - host-microbe interactions - infectious diseases - natural products discovery - pharmaceutical and medicinal chemistry - physiology - plant pathology - veterinary microbiology We will consider submissions across unicellular and cell-cluster organisms: prokaryotes (bacteria, archaea) and eukaryotes (fungi, protists, microalgae, lichens), as well as viruses and prions infecting or interacting with microorganisms, plants and animals, including genetic, biochemical, biophysical, bioinformatic and structural analyses. The journal features Original Articles (including full Research articles, Method articles, and Short Communications), Commentaries, Reviews, and Editorials. Original papers must report well-conducted research with conclusions supported by the data presented in the article. We also support confirmatory research and aim to work with authors to meet reviewer expectations. MicrobiologyOpen publishes articles submitted directly to the journal and those referred from other Wiley journals.
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