Transcriptomics

Dataset Information

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Transcrition profiling of shoots from related model and cultivated Lotus plant species following salt acclimation


ABSTRACT: Many plant researchers have applied genomic tools to model species to identify abiotic stress responsive genes that might be useful for improving stress tolerance in crops. However, it is unclear whether this translational approach will be successful given the complexity of abiotic stress tolerance. We carried out a functional genomic (ionomic, transcriptomic and metabolomic) comparison of three model and three forage species of the genus Lotus with varying tolerance to salinity. Transcriptome analysis showed that about 60 % of expressed genes were responsive to salt treatment in one or more of the six species tested, but less than 1 % was responsive in all genotypes. Therefore, genotype-specific responses overshadowed conserved transcriptional responses to salinity and represent an impediment to translational genomics. Fortunately, 'triangulation' from multiple species enabled the identification of a core set of conserved and tolerant-specific responses that could provide durable tolerance across genotypes.

OTHER RELATED OMICS DATASETS IN: MTBLS15MTBLS16MTBLS14

INSTRUMENT(S): 418 [Affymetrix]

SUBMITTER: Diego Sanchez  

PROVIDER: E-MEXP-2344 | ArrayExpress | 2010-08-10

REPOSITORIES: ArrayExpress

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Publications

Comparative functional genomics of salt stress in related model and cultivated plants identifies and overcomes limitations to translational genomics.

Sanchez Diego H DH   Pieckenstain Fernando L FL   Szymanski Jedrzey J   Erban Alexander A   Bromke Mariusz M   Hannah Matthew A MA   Kraemer Ute U   Kopka Joachim J   Udvardi Michael K MK  

PloS one 20110214 2


One of the objectives of plant translational genomics is to use knowledge and genes discovered in model species to improve crops. However, the value of translational genomics to plant breeding, especially for complex traits like abiotic stress tolerance, remains uncertain. Using comparative genomics (ionomics, transcriptomics and metabolomics) we analyzed the responses to salinity of three model and three cultivated species of the legume genus Lotus. At physiological and ionomic levels, models r  ...[more]

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