Metagenomics as a Tool to Explore New Insights from Plant-Microbe Interface
Microbial communities colonizing in and around the plants are essential for their survival and act as key determinants for plant’s holistic health to make the dynamic plant microbiome. The microbiome comprises of trillions of bacteria, fungi, viruses and other microorganisms interacting with each other as well as with the plants. Metagenomics is a powerful tool that enables rapid analysis of microbial heterogenicity, thus helping us to understand the association of microorganisms within their environment and the overall functioning of microbiome. Herein, an overview of culture-independent methods to explore the unculturable/yet to culture microbial diversity of plant microbiome is addressed. This chapter focuses on the different constituents of plant-microbe interface and the metagenomic studies related to them.
KeywordsSustainable agriculture Bacterial diversity Phyllosphere Endosphere Rhizosphere Metagenomics
PB thanks DST-SERB: SB/YS/LS-213/2013 for financial support.
- El-Badry MA (2016) Bacterial community metagenomic and variation of some medicinal plant rhizosphere collected form Sinai. SCIREA J Agric 1(1):16Google Scholar
- Fahimipour AK, Kardish MR, Lang JM, Green JL, Eisen JA, Stachowicz JJ (2017) Global-scale structure of the eelgrass microbiome. Appl Environ Microbiol. https://doi.org/10.1128/AEM.03391-16
- Gkarmiri K, Mahmood S, Ekblad A, Alström S, Högberg N, Finlay R (2017) Identifying the active microbiome associated with roots and rhizosphere soil of oilseed rape. Appl Environ Microbiol. https://doi.org/10.1128/AEM.01938-17
- Leveau JHJ, Tech JJ (2010) Grapevine microbiomics: bacterial diversity on grape leaves and berries revealed by high-throughput sequence analysis of 16S rRNA amplicons. In: International symposium on biological control of postharvest diseases: challenges and opportunities, vol 90, pp 31–42Google Scholar
- Padhi L, Mohanta YK, Panda SK (2013) Endophytic fungi with great promises: a review. J Adv Pharm Educ Res 3:152–170Google Scholar
- Thomas P (2017) Potential applications of endophytic microorganisms in agriculture. Biotechnol Dev 19:3–23Google Scholar
- Yadav AN, Kumar V, Dhaliwal HS, Prasad R, Saxena AK (2018) Microbiome in crops: diversity, distribution, and potential role in crop improvements. In: Prasad R, Gill SS, Tuteja N (eds) Crop improvement through microbial biotechnology. Elsevier, pp 303–327Google Scholar