AhNGE : A Database for Arachis hypogaea Nodule Developmental Gene Expression

Shaheen, T.; Tembhare, K.; Singh, A.; Raul, B.; Ghosh, A. K.; Torres-Jerez, I.; Clevenger, J.; Udvardi, M.; Scheffler, B.; Ozias-Akins, P.; Bandyopadhyay, K.; Kumar, S.; Sinharoy, S.

doi:10.1101/2021.01.30.428929

bioRxiv · 10.1101/2021.01.30.428929

AhNGE : A Database for Arachis hypogaea Nodule Developmental Gene Expression

Shaheen, T.·Tembhare, K.·Singh, A.·Raul, B.·Ghosh, A. K.·Torres-Jerez, I.·Clevenger, J.·Udvardi, M.·Scheffler, B.·Ozias-Akins, P.·Bandyopadhyay, K.·Kumar, S.·Sinharoy, S.

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Abstract

Symbiotic nitrogen fixation (SNF) inside root-nodules is a primary and sustainable source of soil nitrogen. Understanding nodule development and metabolism in crop legumes may lead to more effective SNF in agriculture. Peanut (Arachis hypogaea) is an economically important allotetraploid legume with non-canonical nodule developmental features. Recent genome sequencing of peanut has opened the possibility of making peanut a model for studying atypical nodule development. To help the community of nodule biologists, we have developed a database called AhNGE (Arachis hypogaea Nodule Developmental Gene Expression: http://nipgr.ac.in/AhNGE/index.php). AhNGE contains RNAseq data from six data points of nodule development in A. hypogagea cv. Tifrunner. This data represents a dynamic view of gene expression during peanut nodule development. Research in model legumes has generated a huge knowledgebase in the last twenty years. To streamline comparative genomics among legumes, we performed ortholog analysis among four legumes (Cicer, Glycine, Lotus, and Medicago) and one non-legume (Arabidopsis). This will facilitate the integration of existing knowledge in nodule development with the Arachis transcriptome. The available data can be retrieved using a single or batch query or searching using gene ID, from above mentioned five species. The output displays the gene expression pattern in graphical as well as tabular form, along with further options to download the sequence data. The database is linked with PeanutBase, the main genomic resource of peanut. Additionally, the expression level of different splicing variants can be retrieved from the database. In summary, AhNGE serves as an important resource for the scientific community working on nodule development.

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Shaheen, T., Tembhare, K., Singh, A., Raul, B., Ghosh, A. K., Torres-Jerez, I., Clevenger, J., Udvardi, M., Scheffler, B., Ozias-Akins, P., Bandyopadhyay, K., Kumar, S., Sinharoy, S.. 2021-02-01. AhNGE : A Database for Arachis hypogaea Nodule Developmental Gene Expression. https://doi.org/10.1101/2021.01.30.428929

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