Insights into Genomic Evolution and the Potential Genetic Basis of Klebsiella variicola subsp. variicola ZH07 Reveal Its Potential for Plant Growth Promotion and Autotoxin Degradation.
Insights into Genomic Evolution and the Potential Genetic Basis of Klebsiella variicola subsp. variicola ZH07 Reveal Its Potential for Plant Growth Promotion and Autotoxin Degradation.
复制标题
深入了解水痘克雷伯氏菌亚种的基因组进化和潜在遗传基础。
DOI：
10.1128/spectrum.00846-22
复制
发表时间：
2022-12-21
影响因子：
3.7
通讯作者：
Xie, Zhihong
中科院分区：
文献类型：
--
作者：
Wang, Dandan;Sun, Li;Yin, Zhiqiu;Cui, Shiyu;Huang, Weiwei;Xie, Zhihong
自毒素在土壤中的积累会引起作物的连作障碍胁迫，利用微生物对自毒素进行生物修复是一种有效的方法。本研究从花生根际分离到一株能利用多种自毒素作为碳源的菌株ZH07。根据基因组特征和系统发育分析，ZH07为变孢克雷伯氏菌（Klebsiella varicola subsp.）天花。比较基因组分析表明，该菌具有移动的遗传元件（MGEs）、株系特异性基因、潜在水平基因和纯化选择驱动的进化限制，这些进化动力学特征促进了该菌对根际土壤的适应。基因组挖掘揭示了与植物生长促进相关的潜在基因组特性，如固氮、吲哚乙酸合成、膦酸盐溶解和同化、铁载体产生和次生代谢产物合成。此外，在ZH07基因组中还发现了丰富的芳香族外源物质降解相关基因，包括苯甲酸、肉桂酸、香草酸、原儿茶酸、苯乙酸和对羟基苯甲酸。与单独施用自毒胁迫相比，ZH07处理对花生种子萌发和幼苗生长均有促进作用。我们的分析揭示了ZH07对根际环境的遗传适应性，以及该菌株作为植物生长刺激剂的潜在遗传基础和有效性。连作障碍降低了农产品的产量和品质，根际有益微生物的应用是重要的策略。菌株ZH07具有降解自毒和促进植物生长的能力。本研究的目的是描述其基因组进化和潜在的遗传基础的自毒素降解和植物生长促进。ZH07代表变孢克雷伯氏菌亚种（Klebsiella varicola subsp.）variicola，基于基因组和系统发育分析。其基因组成分经历了不同程度的纯化选择，进化速度的差异可能与其生态位适应有关。对ZH07基因组的系统分析确定了促进植物生长和芳香族异生物质生物降解的潜在遗传基础。本研究表明，植物根际促生菌（PGPR）在花生自毒降解中发挥重要作用，可作为生物肥料促进花生在连作障碍胁迫下的生长。
The accumulation of autotoxins in soil causes continuous cropping obstacle stress in crops, and the bioremediation of autotoxins by microorganisms is an efficient process. In this study, strain ZH07 was isolated from the peanut rhizosphere and was found to be utilizing multiple autotoxins as its carbon sources. Based on its genomic characteristics and a phylogenetic analysis, ZH07 represents a member of Klebsiella variicola subsp. variicola. A comparative genomic analysis exhibited evolutionary dynamics exhibited by mobile genetic elements (MGEs), strain-specific genes, potential horizontal genes, and evolutionary constraints driven by purifying selection, which facilitated its genomic adaptation to rhizosphere soil. Genome mining revealed the potential genomic properties associated with plant growth promotion, such as nitrogen fixation, indole acetic acid synthesis, phosphonate solubilization and assimilation, siderophore production, and secondary metabolite synthesis. Moreover, abundant genes putatively responsible for the biodegradation of aromatic xenobiotics, including benzoic acid, cinnamic acid, vanillic acid, protocatechuic acid, phenylacetic acid, and p-hydroxybenzoic acid were also observed in the ZH07 genome. Compared to autotoxin stress alone, the combination of ZH07 application promoted peanut germination and seedling growth. Our analysis revealed the genetic adaptation of ZH07 to the rhizosphere environment and the potential genetic basis and effectiveness of the isolate to serve as a plant growth stimulator. IMPORTANCE Continuous cropping obstacles reduce the production and quality of agricultural products, and the application of rhizosphere beneficial microbes is an important strategy. Strain ZH07 showed autotoxin-degrading and plant growth-promoting capacities. The objectives of this study were to characterize its genomic evolution and the potential genetic basis of the autotoxin degradation and plant growth promotion. ZH07 represents a member of Klebsiella variicola subsp. variicola, based on genomic and phylogenetic analyses. Its genomic components have undergone different degrees of purifying selection, and the disparity in the evolutionary rate may be associated with its niche adaptation. A systematic analysis of the ZH07 genome identified the potential genetic basis that contributes to plant growth promotion and to aromatic xenobiotic biodegradation. This study demonstrates that plant growth-promoting rhizobacteria (PGPR) play important roles in autotoxin biodegradation and can be used as biofertilizers to enhance the growth of peanuts in response to continuous cropping obstacle stress.
登录
查看更多内容
Islandviewer 4：扩展了大规模数据集基因组岛的预测。
影响因子：
14.9
作者：
Bertelli C;Laird MR;Williams KP;Simon Fraser University Research Computing Group;Lau BY;Hoad G;Winsor GL;Brinkman FSL
通讯作者：
Brinkman FSL
影响因子：
3.4
作者：
Khalid M;Hassani D;Bilal M;Asad F;Huang D
通讯作者：
Huang D
副地衣芽孢杆菌 MDJK30 及其密切相关物种的比较基因组分析揭示了副地衣芽孢杆菌和地衣芽孢杆菌之间的进化关系
影响因子：
4.4
作者：
Du, Yuhui;Ma, Jinjin;Wang, Chengqiang
通讯作者：
Wang, Chengqiang
影响因子：
2.3
作者：
BAZIRAMAKENGA, R;LEROUX, GD;SIMARD, RR
通讯作者：
SIMARD, RR
影响因子：
3.5
作者：
KOWALCHUK, GA;HARTNETT, GB;ORNSTON, LN
通讯作者：
ORNSTON, LN