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Genomics and transcriptomics of plant beneficial Serratia spp.

Neupane, Saraswoti (2013). Genomics and transcriptomics of plant beneficial Serratia spp. Diss. (sammanfattning/summary) Uppsala : Sveriges lantbruksuniv., Acta Universitatis agriculturae Sueciae, 1652-6880 ; 2013:44
ISBN 978-91-576-7826-3
eISBN 978-91-576-7827-0
[Doctoral thesis]

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Abstract

Plant growth stimulation and antagonism against phytopathogens by rhizobacteria are widely recognised phenomena, but the variation in the underlying causal mechanisms between and within different bacterial taxa is still poorly understood. Some bacteria of the genus Serratia are known to be associated with plant roots, and have potential as possible biocontrol agents in agriculture. This thesis provides the detailed genomic structure of three Serratia plymuthica and one S. proteamaculans isolates with their ability to promote oilseed rape plant growth and to inhibit its fungal pathogen, Rhizoctonia solani AG 2-1. Differences in the composition of these genomes were reflected in different phenotypes associated with antagonism and plant growth stimulation observed in different experiments. Their genomes contain the basic genetic traits required for survival in the rhizosphere, root colonisation, antibiosis, induced systemic resistance and production of phytohormones and other factors involved in plant growth promotion. Genetically S. proteamaculans is highly diverged from S. plymuthica isolates and was a better plant growth promoter. The three S. plymuthica genomes are almost identical, however significant variation was observed in plant growth promotion and antagonism by these three isolates. A possible explanation could be due to mutation in one or more putative genes.

Genome-wide expression profiling of S. plymuthica and S. proteamaculans revealed that they responded to R. solani by activating genes associated with antibiosis, competition and defence mechanisms. Antibiosis seems to be a major mode of action in S. plymuthica AS13 since genes for pyrrolnitrin biosynthesis and transporters were highly up-regulated while in S. proteamaculans S4, combination of competition, defense mechanism and antibiosis play a role in antagonism. The results suggest that there is much variation in bacterial antagonism at the species level.

Authors/Creators:Neupane, Saraswoti
Title:Genomics and transcriptomics of plant beneficial Serratia spp.
Series/Journal:Acta Universitatis agriculturae Sueciae (1652-6880)
Year of publishing :2013
Volume:2013:44
Number of Pages:50
Papers/manuscripts:
NumberReferences
I.Neupane, S., Högberg, N., Alström, S., Lucas, S., Han, J., Lapidus, A., Cheng, J.F., Bruce, D., Goodwin, L., Pitluck, S., et al., (2012a). Complete genome sequence of the rapeseed plant-growth promoting Serratia plymuthica strain AS9. Stand Genomic Sci 6: 54-62.
II.Neupane, S., Finlay, R.D., Alström, S., Goodwin, L., Kyrpides, N.C., Lucas, S., Lapidus, A., Bruce, D., Pitluck, S., Peters, L., et al., (2012b). Complete genome sequence of Serratia plymuthica strain AS12. Stand Genomic Sci 6: 165-173.
III.Neupane, S., Finlay, R.D., Kyrpides, N.C., Goodwin, L., Alström, S., et al., (2012c). Complete genome sequence of the plant-associated Serratia plymuthica strain AS13. Stand Genomic Sci 7: 22-30.
IV.Neupane, S., Finlay, R.D., Kyrpides, N.C., Goodwin, L., Alström, S., et al., (2013). Non-contiguous complete genome sequence of the plant-associated Serratia proteamaculans S4. (submitted)
V.Neupane, S., Guy, L., Högberg, N., Alström, S., Andersson, S. and Finlay, R.D. (2013). Comparative genomics of plant associated Serratia species. (manuscript).
VI.Neupane, S., Finlay, R.D., Alström, S., Elfstrand, M. and Högberg, N., (2013). Genome-wide transcriptome profiling of Serratia spp. reveals species-specific response to Rhizoctonia solani. (manuscript)
Place of Publication:Uppsala
Publisher:Dept. of Forest Mycology and Plant Pathology, Swedish University of Agricultural Sciences
ISBN for printed version:978-91-576-7826-3
ISBN for electronic version:978-91-576-7827-0
ISSN:1652-6880
Language:English
Publication Type:Doctoral thesis
Full Text Status:Public
Agris subject categories.:F Plant production > F30 Plant genetics and breeding
F Plant production > F62 Plant physiology - Growth and development
H Protection of plants and stored products > H01 Protection of plants - General aspects
Subjects:(A) Swedish standard research categories 2011 > 1 Natural sciences > 106 Biological Sciences (Medical to be 3 and Agricultural to be 4) > Microbiology (Microbiology in the medical area to be 30109)
(A) Swedish standard research categories 2011 > 1 Natural sciences > 107 Other Natural Sciences > Other Natural Sciences
Agrovoc terms:serratia, genomes, genetic variation, brassica napus, plant growth substances, rhizoctonia solani, pathogens, host pathogen relations, biological control
Keywords:Serratia, genome, transcriptome, plant growth promotion, biocontrol
URN:NBN:urn:nbn:se:slu:epsilon-e-1478
Permanent URL:
http://urn.kb.se/resolve?urn=urn:nbn:se:slu:epsilon-e-1478
ID Code:10465
Department:(NL, NJ) > Dept. of Forest Mycology and Plant Pathology
(S) > Dept. of Forest Mycology and Plant Pathology
Deposited By: Saraswoti Neupane
Deposited On:23 May 2013 12:48
Metadata Last Modified:14 Dec 2014 05:15

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