De Novo RNA Seq Assembly and Annotation of Trigonella foenum-graecum L. (SRR066197)
Dipti B. Shah1
Hetalkumar J. Panchal2
1.G. H. Patel Post Graduate Department of Computer Science and Technology, Sardar Patel University, Vallabh Vidyanagar, Gujarat-388120, India
2.Gujarat Agricultural Biotechnology Institute, Navsari Agricultural University, Surat, Gujarat-395007, India
Legume Genomics and Genetics, 2014, Vol. 5, No. 7 doi: 10.5376/lgg.2014.05.0007
Received: 23 Oct., 2014 Accepted: 18 Dec., 2014 Published: 24 Dec., 2014
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Preferred citation for this article:
Patel et al., 2014, De Novo RNA Seq Assembly and Annotation of Trigonella foenum-graecum L. (SRR066197), Legume Genomics and Genetics, Vol.5, No.7 1-7 (doi: 10.5376/lgg.2014.05.0007)
Trigonella foenum-graecum commonly known as fenugreek, is a small seeded annual dicotyledonous legume belonging to the subfamily Fabaceae, family Leguminosae. Different parts of the plant such as leaves and seeds are consumed in India. Recently, next-generation sequencing technology, termed RNA-seq, has provided a powerful approach for analysing the Transcriptome. This study is focus on RNA-seq of Trigonella foenum-graecum L. of SRR066197 from NCBI database for de novo Transcriptome analysis. A total of 627,117 million single reads were generated with N50 of 470 bp. Sequence assembly contained total 7256 contigs which is further search with known proteins, a total of 2258 genes were identified. Among these, only 192 unigenes were annotated with 10179 gene ontology (GO) functional categories and sequences mapped to 87 pathways by searching against the Kyoto Encyclopedia of Genes and Genomes pathway database (KEGG). These data will be useful for gene discovery and functional studies and the large number of transcripts reported in the current study will serve as a valuable genetic resource of the Trigonella foenum-graecum L..
Transcriptome; Bioinformatics; Trigonella foenum-graecum L.
Legume Genomics and Genetics
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