In-silico analysis and expression profiling implicate diverse role of EPSPS family genes in regulating developmental and metabolic processes.
BACKGROUND
The EPSPS, EC 2.5.1.19 (5-enolpyruvylshikimate -3-phosphate synthase) is considered as one of the crucial enzyme in the shikimate pathway for the biosynthesis of essential aromatic amino acids and secondary metabolites in plants, fungi along with microorganisms. It is also proved as a specific target of broad spectrum herbicide glyphosate.


RESULTS
On the basis of structure analysis, this EPSPS gene family comprises the presence of EPSPS I domain, which is highly conserved among different plant species. Here, we followed an in-silico approach to identify and characterize the EPSPS genes from different plant species. On the basis of their phylogeny and sequence conservation, we divided them in to two groups. Moreover, the interacting partners and co-expression data of the gene revealed the importance of this gene family in maintaining cellular and metabolic functions in the cell. The present study also highlighted the highest accumulation of EPSPS transcript in mature leaves followed by young leaves, shoot and roots of tobacco. In order to gain the more knowledge about gene family, we searched for the previously reported motifs and studied its structural importance on the basis of homology modelling.


CONCLUSIONS
The results presented here is a first detailed in-silico study to explore the role of EPSPS gene in forefront of different plant species. The results revealed a great deal for the diversification and conservation of EPSPS gene family across different plant species. Moreover, some of the EPSPS from different plant species may have a common evolutionary origin and may contain same conserved motifs with related and important molecular function. Most importantly, overall analysis of EPSPS gene elucidated its pivotal role in immense function within the plant, both in regulating plant growth as well its development throughout the life cycle of plant. Since EPSPS is a direct target of herbicide glyphosate, understanding its mechanism for regulating developmental and cellular processes in different plant species would be a great revolution for developing glyphosate resistant crops.
Bharti
B
Garg
Neha
N
Vaid
International Centre Genetic Engineering and Biotechnology, Aruna Asaf Ali Marg, New Delhi 110 067, India. narendra@icgeb.res.in.
Narendra
N
Tuteja
D051229:3-Phosphoshikimate 1-Carboxyvinyltransferase / Q000037:antagonists & inhibitors / Q000737:chemistry / Q000235:genetics* / Q000502:physiology; D020816:Amino Acid Motifs; D000595:Amino Acid Sequence; D000596:Amino Acids / Q000096:biosynthesis; D003198:Computer Simulation; D016384:Consensus Sequence; D017124:Conserved Sequence; D020869:Gene Expression Profiling; D018506:Gene Expression Regulation, Plant; D017343:Genes, Plant; D055106:Genome-Wide Association Study; D005998:Glycine / Q000031:analogs & derivatives / Q000494:pharmacology; D006540:Herbicides / Q000494:pharmacology; D008969:Molecular Sequence Data; D008970:Molecular Weight; D015388:Organelles / Q000201:enzymology; D010802:Phylogeny; D035261:Plant Components, Aerial / Q000201:enzymology; D010940:Plant Proteins / Q000037:antagonists & inhibitors / Q000737:chemistry / Q000235:genetics* / Q000502:physiology; D018517:Plant Roots / Q000201:enzymology; D010944:Plants / Q000145:classification / Q000201:enzymology / Q000235:genetics*; D017434:Protein Structure, Tertiary; D012333:RNA, Messenger / Q000235:genetics; D018749:RNA, Plant / Q000235:genetics; D016415:Sequence Alignment; D017386:Sequence Homology, Amino Acid; D013045:Species Specificity; D013312:Stress, Physiological / Q000235:genetics; D000097797:Glyphosate
D051229:3-Phosphoshikimate 1-Carboxyvinyltransferase; D000596:Amino Acids; D005998:Glycine; D006540:Herbicides; D010940:Plant Proteins; D012333:RNA, Messenger; D018749:RNA, Plant; D000097797:Glyphosate