Culturomics of the plant prokaryotic microbiome and the dawn of plant-based culture media - A review.

Autor:	Sarhan MS; Environmental Studies and Research Unit (ESRU), Department of Microbiology, Faculty of Agriculture, Cairo University, Giza 12613, Egypt., Hamza MA; Environmental Studies and Research Unit (ESRU), Department of Microbiology, Faculty of Agriculture, Cairo University, Giza 12613, Egypt., Youssef HH; Environmental Studies and Research Unit (ESRU), Department of Microbiology, Faculty of Agriculture, Cairo University, Giza 12613, Egypt., Patz S; Algorithms in Bioinformatics, Center for Bioinformatics, University of Tübingen, Tübingen 72076, Germany., Becker M; Institute for National and International Plant Health, Julius Kühn-Institute - Federal Research Centre for Cultivated Plants, 38104 Braunschweig, Germany., ElSawey H; Environmental Studies and Research Unit (ESRU), Department of Microbiology, Faculty of Agriculture, Cairo University, Giza 12613, Egypt., Nemr R; Environmental Studies and Research Unit (ESRU), Department of Microbiology, Faculty of Agriculture, Cairo University, Giza 12613, Egypt., Daanaa HA; Department of Genetics, School of Life Science, The Graduate University for Advanced Studies (SOKENDAI), Shizuoka 411-8540, Japan., Mourad EF; Environmental Studies and Research Unit (ESRU), Department of Microbiology, Faculty of Agriculture, Cairo University, Giza 12613, Egypt., Morsi AT; Environmental Studies and Research Unit (ESRU), Department of Microbiology, Faculty of Agriculture, Cairo University, Giza 12613, Egypt., Abdelfadeel MR; Environmental Studies and Research Unit (ESRU), Department of Microbiology, Faculty of Agriculture, Cairo University, Giza 12613, Egypt., Abbas MT; Department of Microbiology, Faculty of Agriculture & Natural Resources, Aswan University, Aswan, Egypt., Fayez M; Environmental Studies and Research Unit (ESRU), Department of Microbiology, Faculty of Agriculture, Cairo University, Giza 12613, Egypt., Ruppel S; Leibniz Institute of Vegetable and Ornamental Crops (IGZ), Großbeeren, 14979, Germany., Hegazi NA; Environmental Studies and Research Unit (ESRU), Department of Microbiology, Faculty of Agriculture, Cairo University, Giza 12613, Egypt.
Jazyk:	angličtina
Zdroj:	Journal of advanced research [J Adv Res] 2019 Apr 19; Vol. 19, pp. 15-27. Date of Electronic Publication: 2019 Apr 19 (Print Publication: 2019).
DOI:	10.1016/j.jare.2019.04.002
Abstrakt:	Improving cultivability of a wider range of bacterial and archaeal community members, living natively in natural environments and within plants, is a prerequisite to better understanding plant-microbiota interactions and their functions in such very complex systems. Sequencing, assembling, and annotation of pure microbial strain genomes provide higher quality data compared to environmental metagenome analyses, and can substantially improve gene and protein database information. Despite the comprehensive knowledge which already was gained using metagenomic and metatranscriptomic methods, there still exists a big gap in understanding in vivo microbial gene functioning in planta , since many differentially expressed genes or gene families are not yet annotated. Here, the progress in culturing procedures for plant microbiota depending on plant-based culture media, and their proficiency in obtaining single prokaryotic isolates of novel and rapidly increasing candidate phyla are reviewed. As well, the great success of culturomics of the human microbiota is considered with the main objective of encouraging microbiologists to continue minimizing the gap between the microbial richness in nature and the number of species in culture, for the benefit of both basic and applied microbiology. The clear message to fellow plant microbiologists is to apply plant-tailored culturomic techniques that might open up novel procedures to obtain not-yet-cultured organisms and extend the known plant microbiota repertoire to unprecedented levels.
Databáze:	MEDLINE
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