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Analysis of Sequence from Chloris virgata for Function Classification | Sun | Molecular Soil Biology

Research Article

Analysis of Sequence from Chloris virgata for Function Classification  

Yajun Sun , Xiaoxue Ye , Panpan  Liu , Lee ImShik
Key Laboratory of Saline-Alkali Vegetation Ecology Restoration in Oil Field (SAVER), Ministry of Education, Alkali Soil Natural Environmental Science Center (ASNESC), Northeast Forestry University, No. 26 Hexing Road, Nangang District, Harbin 150040, China; Laboratory of Soybean Molecular Biology and Molecular Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, No. 138 Haping Road, Nangang District, Harbin 150081, China.
Author    Correspondence author
Molecular Soil Biology, 2016, Vol. 7, No. 10   doi: 10.5376/msb.2016.07.0010
Received: 25 Mar., 2016    Accepted: 12 Apr., 2016    Published: 12 Apr., 2016
© 2016 BioPublisher Publishing Platform
This is an open access article published under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
Preferred citation for this article:

Sun Y.J., Ye X.X., Liu P.P. and Lee I., 2016, Analysis of Sequence from Chloris virgata for Function Classification, Molecular Soil Biology, 7(9): 1-8 (doi: 10.5376/msb.2016.07.0010)

Abstract

Chloris virgata Swartz (C. virgata) is an one-year-old herbaceous plant of Gramineae. It has high adaptability and can survive in highly saline soils. We randomly selected 3168 clones from a C. virgata cDNA library from NaHCO3-stressed. By finding Restriction Enzyme cutting site to remove vectors of the sequences and delete the sequences without Restriction Enzyme cutting site, we obtained 3043 clones finally. Gene Ontology (GO) Slim annotations were obtained by BLAST2GO and it was found that 8 genes of them were annotated with GO terms “response to stress” indicating that these genes were likely to function in tolerance mechanism of C. virgata, Setaria italica was the highest homology to sequences of C. virgata. Clusters of Orthologous Group(COG) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis showed that, most of these genes  involved in “cellular process”, “General function prediction only” and “ Ribosome”.

Keywords
Chloris virgate; cDNA library; Gene ontology annotation; Stresses, COG; Pathways
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