干旱区生态环境知识资源中心(Arid): Comparative Analysis of the Cultured and Total Bacterial Community in the Wheat Rhizosphere Microbiome Using Culture-Dependent and Culture-Independent Approaches

Arid

DOI	10.1128/Spectrum.00678-21
	Comparative Analysis of the Cultured and Total Bacterial Community in the Wheat Rhizosphere Microbiome Using Culture-Dependent and Culture-Independent Approaches
	Youseif, Sameh H.; Abd El-Megeed, Fayrouz H.; Humm, Ethan A.; Maymon, Maskit; Mohamed, Akram H.; Saleh, Saleh A.; Hirsch, Ann M.
通讯作者	Hirsch, AM (corresponding author), Univ Calif Los Angeles UCLA, Dept Mol Cell & Dev Biol, Los Angeles, CA 90095 USA. ; Hirsch, AM (corresponding author), Univ Calif Los Angeles UCLA, Mol Biol Inst, Los Angeles, CA 90095 USA.
来源期刊	MICROBIOLOGY SPECTRUM
ISSN	2165-0497
出版年	2021
卷号	9 期号:2
英文摘要	Rhizosphere and root-associated bacteria are key components of crop production and sustainable agriculture. However, utilization of these beneficial bacteria is often limited by conventional culture techniques because a majority of soil microorganisms cannot be cultured using standard laboratory media. Therefore, the purpose of this study was to improve culturability and investigate the diversity of the bacterial communities from the wheat rhizosphere microbiome collected from three locations in Egypt with contrasting soil characteristics by using metagenomic analysis and improved culture-based methods. The improved strategies of the culture-dependent approach included replacing the agar in the medium with gellan gums and modifying its preparation by autoclaving the phosphate and gelling agents separately. Compared to the total operational taxonomic units (OTUs) observed from the metagenomic data sets derived from the three analyzed soils, 1.86 to 2.52% of the bacteria were recovered using the modified cultivation strategies, whereas less than 1% were obtained employing the standard cultivation protocols. Twenty-one percent of the cultivable isolates exhibited multiple plant growth-promoting (PGP) properties, including P solubilization activity and siderophore production. From the metagenomic analysis, the most abundant phyla were Proteobacteria, Actinobacteria, Chloroflexi, Bacteroidetes, and Firmicutes. Moreover, the relative abundance of the specific bacterial taxa was correlated with the soil characteristics, demonstrating the effect of the soil in modulating the plant rhizosphere microbiome. IMPORTANCE Bacteria colonizing the rhizosphere, a narrow zone of soil surrounding the root system, are known to have beneficial effects in improving the growth and stress tolerance of plants. However, most bacteria in natural environments, especially those in rhizosphere soils, are recalcitrant to cultivation using traditional techniques, and thus their roles in soil health and plant growth remain unexplored. Hence, investigating new culture media and culture conditions to bring not-yet-cultured species into cultivation and to identify new functions is still an important task for all microbiologists. To this end, we describe improved cultivation protocols that increase the number and diversity of cultured bacteria from the rhizosphere of wheat plants. Using such approaches will lead to new insights into culturing more beneficial bacteria that live in the plant rhizosphere, in so doing creating greater opportunities not only for field application but also for promoting sustainability.
英文关键词	rhizosphere microbiome culturability OTU wheat bacterial community arid soils microbial communities rhizosphere-inhabiting microbes
类型	Article
语种	英语
开放获取类型	hybrid, Green Published, Green Submitted
收录类别	SCI-E
WOS记录号	WOS:000728629300083
WOS关键词	SOIL ; CULTIVATION
WOS类目	Microbiology
WOS研究方向	Microbiology
资源类型	期刊论文
条目标识符	http://119.78.100.177/qdio/handle/2XILL650/373632
作者单位	[Youseif, Sameh H.; Abd El-Megeed, Fayrouz H.; Mohamed, Akram H.] Agr Res Ctr ARC, Dept Microbial Genet Resources, Natl Gene Bank NGB, Giza, Egypt; [Humm, Ethan A.; Maymon, Maskit; Hirsch, Ann M.] Univ Calif Los Angeles UCLA, Dept Mol Cell & Dev Biol, Los Angeles, CA 90095 USA; [Saleh, Saleh A.] Agr Res Ctr ARC, Soils Water & Environm Res Inst, Agr Microbiol Res Dept, Giza, Egypt; [Hirsch, Ann M.] Univ Calif Los Angeles UCLA, Mol Biol Inst, Los Angeles, CA 90095 USA
推荐引用方式 GB/T 7714	Youseif, Sameh H.,Abd El-Megeed, Fayrouz H.,Humm, Ethan A.,et al. Comparative Analysis of the Cultured and Total Bacterial Community in the Wheat Rhizosphere Microbiome Using Culture-Dependent and Culture-Independent Approaches[J],2021,9(2).
APA	Youseif, Sameh H..,Abd El-Megeed, Fayrouz H..,Humm, Ethan A..,Maymon, Maskit.,Mohamed, Akram H..,...&Hirsch, Ann M..(2021).Comparative Analysis of the Cultured and Total Bacterial Community in the Wheat Rhizosphere Microbiome Using Culture-Dependent and Culture-Independent Approaches.MICROBIOLOGY SPECTRUM,9(2).
MLA	Youseif, Sameh H.,et al."Comparative Analysis of the Cultured and Total Bacterial Community in the Wheat Rhizosphere Microbiome Using Culture-Dependent and Culture-Independent Approaches".MICROBIOLOGY SPECTRUM 9.2(2021).