De novo tanscriptome sequencing and functional annotation of differentially expressed genes in large and small seeds of common cocklebur (Xanthium strumarium L.) during seed development

Nemati, Iman; Sedghi, Mohammad; Hoseini Salekdeh, Ghasem; Tavakkol Afshari, Reza; Naghavi, Mohammadreza

doi:10.22034/ijsst.2019.122712.1220

Document Type : Original Article

Authors

¹ PhD student, seed science and technology, university of Mohaghegh Ardabili

² University of Mohaghegh Ardabili, Faculty of Agriculture and Natural Resources, Department of Agronomy and Plant Breeding

³ Agricultural Biotechnology Institute of Iran

⁴ Professor/ Dept. of Agrotechnology, Faculty of Agriculture, Ferdowsi University of Mashhad. Iran.

⁵ Prof./Dept. of Agronomy and Breeding, College of Agriculture and Natural Resources, University of Tehran, Iran.

https://doi.org/10.22034/ijsst.2019.122712.1220

Abstract

Common cocklebur (Xanthium strumarium L.) is a widespread weed with high medical value and interested for researchers because of deep dormancy in one of its two seeds in one bur. However, lack of genomic data has led to low information about it. Transcriptome large and small seeds were sequenced using Illumina platform to identify and functional analysis of differentially expressed transcripts in two seeds. Identified sequences in each seeds were compared and differentially expressed genes were functionally annotated. In this research 191192 sequence with a mean of 989.69 bp were detected. Sequence similarity analysis and functional analysis was carried out aginst nr, GO and KEGG databases. Differentially expressed genes had the most similarity with sunflower (83.41 per cent) in terms of top hits. GO analysis led to identify 615 functional annotation distributed in 36 categories. The most abomdant GO in biological process was biosynthesis. Results of our research shows the higher biosynthetic and metabolic processes in large seed of certain bur rather than the small one and also key regulatory role of transcription during seed development.

Keywords

References

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Iranian Journal of Seed Science and Technology

De novo tanscriptome sequencing and functional annotation of differentially expressed genes in large and small seeds of common cocklebur (Xanthium strumarium L.) during seed development

References

References

Volume 8, Issue 2 - Serial Number 16
December 2019
Pages 211-227

De novo tanscriptome sequencing and functional annotation of differentially expressed genes in large and small seeds of common cocklebur (Xanthium strumarium L.) during seed development

References

References

Volume 8, Issue 2 - Serial Number 16December 2019Pages 211-227

Volume 8, Issue 2 - Serial Number 16
December 2019
Pages 211-227