RGMIMS: a web-based Laboratory Information Management System for plant functional genomics research |
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Authors: | Leakha Henry Kerrie Ramm Qian-Hao Zhu Narayana M. Upadhyaya |
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Affiliation: | (1) CSIRO Mathematical and Information Sciences, ANU Campus, Canberra, ACT, 2601, Australia;(2) CSIRO Plant Industry, Cnr. Clunies Ross Street and Barry Drive, GPO Box 1600, Canberra, ACT, 2601, Australia;(3) New South Wales Agricultural Genomics Centre, Wagga Wagga, NSW, 2678, Australia |
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Abstract: | A robust Laboratory Information Management System (LIMS) is required for the efficient handling of data generated from large-scale insertional mutagenesis projects. The Rice Gene Machine Information Management System (RGMIMS), a web-based modular LIMS, developed in a rice functional genomics laboratory at CSIRO, currently has four core modules: Seed Management, Transformation Management, Plant/Progeny Management, Phenotype Management, and an ad hoc querying module. RGMIMS manages, preserves and tracks large inventories of transgenic germplasm and enables efficient and accurate record keeping of the large quantities of experimental data. RGMIMS automates and seamlessly integrates multi-step experimental processes. A web user interface, incorporating barcoding utilities, enables rapid data capture and tracking of biological resources. Ontologies from Gramene and Plant Ontology consortium are used to describe mutant phenotypes. RGMIMS supports generic research processes in plant mutagenesis and could readily be adapted to general LIMS for high-throughput plant research. |
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Keywords: | Insertional mutagenesis Laboratory Information Management System (LIMS) Ontology Phenotype Rice Gene Machine Information Management System (RGMIMS) Rice Transformation Web application |
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