Comparison of the rhizospheric soil bacteriomes of Oryza sativa and Solanum melongena crop cultivars reveals key genes and pathways involved in biosynthesis of ectoine, lysine, and catechol meta-cleavage

IF 3.9 4区 生物学 Q1 GENETICS & HEREDITY
Manisha Mandal, Biswajit Ghosh, Shyamapada Mandal
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引用次数: 0

Abstract

Rice (Oryza sativa L.), Poaceae family, forms staple diet of half of world’s population, and brinjal (Solanum melongena L.), an important solanaceous crop, are consumed worldwide. Rhizosphere research is gaining importance towards application of knowledge for improving productivity, sustainable agricultural practice, and rhizoremediation for nature restoration. While there are reports on rhizobacteriome of rice, studies comparing structural, functional and metabolomic traits of microbial communities in rhizospheres of rice and brinjal are not yet available. We demonstrated, in Oryza sativa (1144-Hybrid, Dhiren, Local Saran cultivars) and Solanum melongena (Jhiloria, Chandtara, Jotshna cultivars) rhizospheres from Malda, India, using integrated approach of 16 S ribosomal sequencing, shotgun metagenomics, and microbial metabolomics to decipher microbial diversity, association with soil physicochemical characteristics, key genes and pathways. Ectoine biosynthesis was significantly expressed in brinjal (Jhiloria), but not in rice rhizosphere. The dominant brinjal rhizobacteriome-specific bacteria comprised Thermus sp., Petrobacter succinatimandens, Thermoanaerobacter sp., and Diaphorobacter sp., that were involved in house-keeping functions including pentose phosphate pathway, biosynthesis of amino acids, lipopolysaccharide, and photosynthesis. The dominant bacteria unique to rice rhizobacteriome (Local Saran) consisted of Aeromonas sp., associated with catechol meta-cleavage, while Clostridium sp., Faecalibacterium prausnitzii, and Roseburia sp. were involved with lysine biosysnthesis in rice (1144-Hybrid). Our results imply novel information for improved breeding of brinjal specific cultivar with enhanced ectoine production associated with osmotic stress tolerance, rice specific cultivars with enhanced lysine production significant to human nutrition and catechol removal for the maintenance of environmental quality.

水稻和茄根际土壤细菌组的比较揭示了参与外托因、赖氨酸和儿茶酚元裂解生物合成的关键基因和途径
水稻(Oryza sativa L.)是世界上一半人口的主食,茄子(Solanum melongena L.)是世界上重要的茄类作物。根际研究对于提高生产力、可持续农业实践和根际修复在自然恢复中的应用越来越重要。虽然有关于水稻根际细菌组的报道,但比较水稻和茄子根际微生物群落结构、功能和代谢组学特征的研究还没有。利用16s核糖体测序、shotgun宏基因组学和微生物代谢组学等综合方法,对印度Malda地区的水稻(1144-Hybrid、Dhiren、Local Saran品种)和茄(Jhiloria、Chandtara、Jotshna品种)根际微生物多样性、土壤理化特征、关键基因和途径进行了分析。外托碱生物合成在茄子(Jhiloria)中显著表达,而在水稻根际中不显著表达。优势菌群包括热杆菌(Thermus sp.)、琥珀酸酯油杆菌(Petrobacter succinatimandens)、热厌氧杆菌(Thermoanaerobacter sp.)和透藻杆菌(Diaphorobacter sp.),它们参与了戊糖磷酸途径、氨基酸、脂多糖的生物合成和光合作用等调控功能。水稻根瘤菌组(Local Saran)的优势菌为气单胞菌(Aeromonas sp.),与儿茶酚元裂解有关,而梭状芽胞菌(Clostridium sp.)、prausnitzii Faecalibacterium和Roseburia sp.参与水稻赖氨酸的生物合成(1144-Hybrid)。我们的研究结果为改进培育具有增强外托氨酸产量与渗透胁迫耐受性相关的茄子特定品种、具有增强赖氨酸产量对人类营养重要的水稻特定品种和去除儿茶酚以维持环境质量提供了新的信息。
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来源期刊
CiteScore
3.50
自引率
3.40%
发文量
92
审稿时长
2 months
期刊介绍: Functional & Integrative Genomics is devoted to large-scale studies of genomes and their functions, including systems analyses of biological processes. The journal will provide the research community an integrated platform where researchers can share, review and discuss their findings on important biological questions that will ultimately enable us to answer the fundamental question: How do genomes work?
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