Second-generation sequencing for gene discovery in the Brassicaceae
Alice Hayward
ARC Centre of Excellence for Integrative Legume Research, School of Agriculture and Food Sciences, University of Queensland, Brisbane, QLD, Australia
Search for more papers by this authorGuru Vighnesh
ARC Centre of Excellence for Integrative Legume Research, School of Agriculture and Food Sciences, University of Queensland, Brisbane, QLD, Australia
Search for more papers by this authorChristina Delay
ARC Centre of Excellence for Integrative Legume Research, School of Agriculture and Food Sciences, University of Queensland, Brisbane, QLD, Australia
Search for more papers by this authorMohd Rafizan Samian
ARC Centre of Excellence for Integrative Legume Research, School of Agriculture and Food Sciences, University of Queensland, Brisbane, QLD, Australia
Search for more papers by this authorSahana Manoli
Australian Centre for Plant Functional Genomics, School of Agriculture and Food Sciences, University of Queensland, Brisbane, QLD, Australia
Search for more papers by this authorJiri Stiller
Australian Centre for Plant Functional Genomics, School of Agriculture and Food Sciences, University of Queensland, Brisbane, QLD, Australia
Search for more papers by this authorMegan McKenzie
ARC Centre of Excellence for Integrative Legume Research, School of Agriculture and Food Sciences, University of Queensland, Brisbane, QLD, Australia
Search for more papers by this authorDavid Edwards
Australian Centre for Plant Functional Genomics, School of Agriculture and Food Sciences, University of Queensland, Brisbane, QLD, Australia
Search for more papers by this authorCorresponding Author
Jacqueline Batley
ARC Centre of Excellence for Integrative Legume Research, School of Agriculture and Food Sciences, University of Queensland, Brisbane, QLD, Australia
(Tel +61 (0)7 334 69534; fax +61 (0)7 336 51188; email [email protected])Search for more papers by this authorAlice Hayward
ARC Centre of Excellence for Integrative Legume Research, School of Agriculture and Food Sciences, University of Queensland, Brisbane, QLD, Australia
Search for more papers by this authorGuru Vighnesh
ARC Centre of Excellence for Integrative Legume Research, School of Agriculture and Food Sciences, University of Queensland, Brisbane, QLD, Australia
Search for more papers by this authorChristina Delay
ARC Centre of Excellence for Integrative Legume Research, School of Agriculture and Food Sciences, University of Queensland, Brisbane, QLD, Australia
Search for more papers by this authorMohd Rafizan Samian
ARC Centre of Excellence for Integrative Legume Research, School of Agriculture and Food Sciences, University of Queensland, Brisbane, QLD, Australia
Search for more papers by this authorSahana Manoli
Australian Centre for Plant Functional Genomics, School of Agriculture and Food Sciences, University of Queensland, Brisbane, QLD, Australia
Search for more papers by this authorJiri Stiller
Australian Centre for Plant Functional Genomics, School of Agriculture and Food Sciences, University of Queensland, Brisbane, QLD, Australia
Search for more papers by this authorMegan McKenzie
ARC Centre of Excellence for Integrative Legume Research, School of Agriculture and Food Sciences, University of Queensland, Brisbane, QLD, Australia
Search for more papers by this authorDavid Edwards
Australian Centre for Plant Functional Genomics, School of Agriculture and Food Sciences, University of Queensland, Brisbane, QLD, Australia
Search for more papers by this authorCorresponding Author
Jacqueline Batley
ARC Centre of Excellence for Integrative Legume Research, School of Agriculture and Food Sciences, University of Queensland, Brisbane, QLD, Australia
(Tel +61 (0)7 334 69534; fax +61 (0)7 336 51188; email [email protected])Search for more papers by this authorSummary
The Brassicaceae contains the most diverse collection of agriculturally important crop species of all plant families. Yet, this is one of the few families that do not form functional symbiotic associations with mycorrhizal fungi in the soil for improved nutrient acquisition. The genes involved in this symbiosis were more recently recruited by legumes for symbiotic association with nitrogen-fixing rhizobia bacteria. This study applied second-generation sequencing (SGS) and analysis tools to discover that two such genes, NSP1 (Nodulation Signalling Pathway 1) and NSP2, remain conserved in diverse members of the Brassicaceae despite the absence of these symbioses. We demonstrate the utility of SGS data for the discovery of putative gene homologs and their analysis in complex polyploid crop genomes with little prior sequence information. Furthermore, we show how this data can be applied to enhance downstream reverse genetics analyses. We hypothesize that Brassica NSP genes may function in the root in other plant–microbe interaction pathways that were recruited for mycorrhizal and rhizobial symbioses during evolution.
Supporting Information
Figure S1 Multiple sequence alignments of Brassicaceae NSP genes from TAGdb. Complete gene sequences from TAGdb assemblies are aligned with the Arabidopsis and Brassica rapa reference sequences. (A) NSP1 (B) NSP2. Br = B. rapa, Dt = Diplotaxis tenuifolia, Hi = Hirschfelida incana, Sa = Sinapis alba.
Table S1 Brassicaceae species used for PCR amplification of NSP1 and NSP2.
Table S2 Primers designed and used in this study.
| Filename | Description |
|---|---|
| PBI_719_sm_FigS1-TableS1-S2.docx1.1 MB | Supporting info item |
Please note: The publisher is not responsible for the content or functionality of any supporting information supplied by the authors. Any queries (other than missing content) should be directed to the corresponding author for the article.
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