e-infrastructure Roadmap for Open Science in Agriculture

A bibliometric study

The e-ROSA project seeks to build a shared vision of a future sustainable e-infrastructure for research and education in agriculture in order to promote Open Science in this field and as such contribute to addressing related societal challenges. In order to achieve this goal, e-ROSA’s first objective is to bring together the relevant scientific communities and stakeholders and engage them in the process of coelaboration of an ambitious, practical roadmap that provides the basis for the design and implementation of such an e-infrastructure in the years to come.

This website highlights the results of a bibliometric analysis conducted at a global scale in order to identify key scientists and associated research performing organisations (e.g. public research institutes, universities, Research & Development departments of private companies) that work in the field of agricultural data sources and services. If you have any comment or feedback on the bibliometric study, please use the online form.

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Subtractive transcriptomes of fruit and leaf reveal differential representation of transcripts in Azadirachta indica


Azadirachta indica produces a wide array of secondary metabolites of medicinal and agricultural importance in an organ-specific or abundant manner. We used suppression subtractive hybridization strategy to clone and identify the rare and differentially expressed transcripts in fruit and leaf which could be missed out by high-throughput sequencing. Subtractive ESTs were generated, assembled and their comparison showed that around 61.8 % and 33.9 % unigenes were unique to A. indica fruit and leaf, respectively. Around 12.3 % and 16.5 % of our unigenes were not represented in the available A. indica draft genome and transcriptomes sequences, respectively, indicating a significant fraction of novel and rare expressing transcripts. Blast2GO functional annotation could assign 721 Gene Ontology (GO) terms to 50 % of the assembled unigenes, and Kyoto Encyclopedia of Genes and Genomes (KEGG) mapping mapped 66 (27.96 %) unigenes onto 39 different pathways among which 26 (11 %) were metabolism-related. Ten cytochrome p450s were identified, and their KEGG and phylogenetic analysis indicated that five of them were secondary metabolism-related which could be functioning at specific pathway steps to synthesize organ-specific compounds. For reverse transcription-quantitative polymerase chain reaction (RT-qPCR) analysis, we tested three housekeeping genes to be used as internal reference, among which elongation initiation factor 4A was found to be most stable. Expression analysis of secondary metabolism-related candidates showed their variable and tissue-preferential expression indicating their relative enzymatic activities and roles in partitioning of secondary metabolites in different organs. Our small-scale subtractive ESTs being longer in read length provide a useful resource for studying organ-preferential secondary metabolic pathways operating in A. indica and would complement the available draft genome/transcriptome(s).

  • IN
  • CSIR_Council_Sci_&_Ind_Res (IN)
Data keywords
  • ontology
Agriculture keywords
  • agriculture
Data topic
  • big data
  • semantics
Document type

Inappropriate format for Document type, expected simple value but got array, please use list format

Institutions 10 co-publis
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    e-ROSA - e-infrastructure Roadmap for Open Science in Agriculture has received funding from the European Union’s Horizon 2020 research and innovation programme under grant agreement No 730988.
    Disclaimer: The sole responsibility of the material published in this website lies with the authors. The European Union is not responsible for any use that may be made of the information contained therein.