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In silico identification of NaCl responsive genes in apple

By: Pouya Gharbi, Nasser Mahna, Nader Farsad-Akhtar, Majid Norouzi

Key Words: Apple, Arabidopsis thaliana, Gene, In silico, Salinity

Int. J. Agron. Agri. Res. 11(3), 88-96, September 2017.

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Salinity is one of the major abiotic stresses, limiting the productivity of agricultural crops. The present research designed to find and evaluate sodium chloride-responding genes in Malus domestica which have homologs in Arabidopsis thaliana. We found in the literature that there are 112 Arabidopsis proteins categorized in 28 osmotic stress responsive groups and performed a comparative analysis against Malus domestica database in GDR and eventually could identify 212 Malus domestica sequences. These genes were identified according to the high similarity percentage, high consequently alignment score, low E-value and the pattern sequence coverage. The analysis indicated a high number of sequences and diverse genes from all mentioned categories in apple. One of the most frequent ones came up with unknown function. Analyzing these sequences with an unknown function lead to the annotation of 45 Malus domestica sequences. By collecting a bunch of genes probably having a function in salt or osmotic stress responses in apple, we could have a better understanding about how a plant in Rosaceae can survive in salt stress condition.

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In silico identification of NaCl responsive genes in apple

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Pouya Gharbi, Nasser Mahna, Nader Farsad-Akhtar, Majid Norouzi.
In silico identification of NaCl responsive genes in apple.
Int. J. Agron. Agri. Res. 11(3), 88-96, September 2017.
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