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Metaproteogenomic analysis of microbial communities in the phyllosphere and rhizosphere of rice
Open accessAbstract
The above- and below-ground parts of rice plants create specific habitats for various microorganisms. In this study, we characterized the phyllosphere and rhizosphere microbiota of rice cultivars using a metaproteogenomic approach to get insight into the physiology of the bacteria and archaea that live in association with rice. The metaproteomic datasets gave rise to a total of about 4600 identified proteins and indicated the presence of one-carbon conversion processes in the rhizosphere as well as in the phyllosphere. Proteins involved in methanogenesis and methanotrophy were found in the rhizosphere, whereas methanol-based methylotrophy linked to the genus Methylobacterium dominated within the protein repertoire of the phyllosphere microbiota. Further, physiological traits of differential importance in phyllosphere versus rhizosphere bacteria included transport processes and stress responses, which were more conspicuous in the phyllosphere samples. In contrast, dinitrogenase reductase was exclusively identified in the rhizosphere, despite the presence of nifH genes also in diverse phyllosphere bacteria.
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Cited by
Structure and functions of the bacterial microbiota of plants
Bulgarelli, D., Schlaeppi, K., Spaepen, S., van Themaat, E. V. L., & Schulze-Lefert, P. (2013) · Annual Review of Plant Biology · doi:10.1146/annurev-arplant-050312-120106 · Cited by 3,308
Turner, T. R., James, E. K., & Poole, P. S. (2013) · Genome Biology · doi:10.1186/gb-2013-14-6-209 · Cited by 1,349
Microbiota and Host Nutrition across Plant and Animal Kingdoms
Hacquard, S., Garrido-Oter, R., González, A., Spaepen, S., Ackermann, G., Lebeis, S., McHardy, A. C., Dangl, J. L., Knight, R., Ley, R., et al. (2015) · Cell Host & Microbe · doi:10.1016/j.chom.2015.04.009 · Cited by 779
Functional Soil Microbiome: Belowground Solutions to an Aboveground Problem
Lakshmanan, V., Selvaraj, G., & Bais, H. P. (2014) · Plant Physiology · doi:10.1104/pp.114.245811 · Cited by 400
Ogunade, I. M., Jiang, Y., Pech Cervantes, A. A., Kim, D. H., Oliveira, A. S., Vyas, D., Weinberg, Z. G., Jeong, K. C., & Adesogan, A. T. (2018) · Journal of Dairy Science · doi:10.3168/jds.2017-12876 · Cited by 272
Ikeda-Ohtsubo, W., Brugman, S., Warden, C. H., Rebel, J. M. J., Folkerts, G., & Pieterse, C. M. J. (2018) · Frontiers in Nutrition · doi:10.3389/fnut.2018.00090 · Cited by 115
Impact of Next-Generation Sequencing Technology in Plant–Microbe Interaction Study
Kumari, A., Sumer, S., Jalan, B., Nongbri, P. L., & Laskar, M. A. (2017) · Microbial Applications Vol.1 · doi:10.1007/978-3-319-52666-9_13 · Cited by 13
Metadata
- Authors
- Knief, C., Delmotte, N., Chaffron, S., Stark, M., Innerebner, G., Wassmann, R., von Mering, C., & Vorholt, J. A.
- Venue
- The ISME Journal
- Publisher
- Oxford University Press (OUP)
- Published
- 2011-12-22
- Volume
- 6
- Issue
- 7
- Pages
- 1378-1390
- ISSN
- 1751-7362 (ISSN-L)
- 1751-7370
- OpenAlex
- W2038683125
- Cited by
- 732
- References
- 0
- FWCI
- 26.15
- Type
- journal article
- Language
- en
- Open access
- bronze
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