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Arachis hypogaea gene expression atlas for fastigiata subspecies of cultivated groundnut to accelerate functional and translational genomics applications

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Relation http://oar.icrisat.org/11506/
https://doi.org/10.1111/pbi.13374
doi:10.1111/pbi.13374
 
Title Arachis hypogaea gene expression atlas for fastigiata subspecies of cultivated groundnut to accelerate functional and translational genomics applications
 
Creator Sinha, P
Bajaj, P
Pazhamala, L T
Nayak, S N
Pandey, M K
Chitikineni, A
Huai, D
Khan, A W
Desai, A
Jiang, H
Zhuang, W
Guo, B
Liao, B
Varshney, R K
 
Subject Smallholder Farmers
Livelihoods
Groundnut
Oilseeds
Genetics and Genomics
Food and Nutrition
Legume Crops
 
Description Spatio-temporal and developmental stage-specific transcriptome analysis plays a crucial role in
systems biology-based improvement of any species. In this context, we report here the Arachis
hypogaea gene expression atlas (AhGEA) for the world’s widest cultivated subsp. fastigiata based
on RNA-seq data using 20 diverse tissues across five key developmental stages. Approximately
480 million paired-end filtered reads were generated followed by identification of 81 901
transcripts from an early-maturing, high-yielding, drought-tolerant groundnut variety, ICGV
91114. Further, 57 344 genome-wide transcripts were identified with ≥1 FPKM across different
tissues and stages. Our in-depth analysis of the global transcriptome sheds light into complex
regulatory networks namely gravitropism and photomorphogenesis, seed development, allergens
and oil biosynthesis in groundnut. Importantly, interesting insights into molecular basis of
seed development and nodulation have immense potential for translational genomics research.
We have also identified a set of stable expressing transcripts across the selected tissues, which
could be utilized as internal controls in groundnut functional genomics studies. The AhGEA
revealed potential transcripts associated with allergens, which upon appropriate validation could
be deployed in the coming years to develop consumer-friendly groundnut varieties. Taken
together, the AhGEA touches upon various important and key features of cultivated groundnut
and provides a reference for further functional, comparative and translational genomics research
for various economically important traits.
 
Publisher Wiley Open Access
 
Date 2020-04
 
Type Article
PeerReviewed
 
Format application/pdf
 
Language en
 
Identifier http://oar.icrisat.org/11506/1/pbi.13374.pdf
Sinha, P and Bajaj, P and Pazhamala, L T and Nayak, S N and Pandey, M K and Chitikineni, A and Huai, D and Khan, A W and Desai, A and Jiang, H and Zhuang, W and Guo, B and Liao, B and Varshney, R K (2020) Arachis hypogaea gene expression atlas for fastigiata subspecies of cultivated groundnut to accelerate functional and translational genomics applications. Plant Biotechnology Journal (TSI). pp. 1-14. ISSN 1467-7644