Background: Wheat is the most widely grown crop in temperate climates for food and animal feed. In order to meet the demands of the predicted population increase in an ever-changing climate, wheat production needs to dramatically increase. Spike and grain traits are critical determinants of final yield and grain uniformity a commercially desired trait, but their analysis is laborious and often requires destructive harvest. One of the current challenges is to develop an accurate, non-destructive method for spike and grain trait analysis capable of handling large populations. Results: In this study we describe the development of a robust method for the accurate extraction and measurement of spike and grain morphometric parameters from images acquired by X-ray micro-computed tomography (?CT). The image analysis pipeline developed automatically identiies plant material of interest in ?CT images, performs image analysis, and extracts morphometric data. As a proof of principle, this integrated methodology was used to analyse the spikes from a population of wheat plants subjected to high temperatures under two diferent water regimes. Temperature has a negative efect on spike height and grain number with the middle of the spike being the most afected region. The data also conirmed that increased grain volume was correlated with the decrease in grain number under mild stress. Conclusions: Being able to quickly measure plant phenotypes in a non-destructive manner is crucial to advance our understanding of gene function and the efects of the environment. We report on the development of an image analysis pipeline capable of accurately and reliably extracting spike and grain traits from crops without the loss of positional information. This methodology was applied to the analysis of wheat spikes can be readily applied to other economically important crop species.publishersversionPeer reviewe
