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United States Department of Agriculture

Agricultural Research Service

Title: Peanut gene expression profiling in developing seeds at different reproduction stages during Aspergillus parasiticus infection

Authors
item Guo, Baozhu
item Chen, Xiaoping - UNIV OF GA,TIFTON,GA
item Dang, Phat
item Scully, Brian
item Liang, Xianquiang - GUANGDONG UNIV, CHINA
item Holbrook, C
item Yu, Jiujiang
item Culbreath, Albert - UNIV OF GA,TIFTON,GA

Submitted to: BioMed Central Developmental Biology
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: December 19, 2007
Publication Date: February 4, 2008
Citation: Guo, B., Chen, X., Dang, P.M., Scully, B.T., Liang, X., Holbrook Jr, C.C., Yu, J., Culbreath, A.K. 2008. Peanut gene expression profiling in developing seeds at different reproduction stages during Aspergillus parasiticus infection. BMC Dev. Biol. 8:12. DOI:10.1186/1471-213X-8-12.

Interpretive Summary: Peanut is one of the most susceptible host crops to colonization of aflatoxin producing fungi. Knowledge from molecular genetic studies could help to devise strategies in alleviating this problem; however, there are few peanut DNA sequences available in the public database. We constructed six different cDNA libraries derived from developing peanut seeds at three reproduction stages from a resistant and a susceptible cultivated peanut ‘‘Tifrunner’’ (susceptible to Aspergillus infection with higher aflatoxin contamination and resistant to TSWV) and ‘‘GT-C20’’ (resistant to Aspergillus with reduced aflatoxin contamination and susceptible to TSWV). A total of 24,192 randomly selected cDNA clones were sequenced, resulting in 21,777 high-quality sequences and 8,689 unique EST sequences with 1,741 tentative consensus EST sequences (TCs) and 6,948 singleton ESTs. In order to identify resistance-related genes with significantly differential expression, a statistical analysis to estimate the relative abundance (R) was used to compare the relative abundance of each gene transcripts in each cDNA library. Nine and eight resistance-related genes with significant up-regulation were obtained in ‘GT-C20’ and ‘Tifrunner’ libraries, respectively. The developed ESTs can be used to discover novel sequences or genes, to identify resistance-related genes and to detect the differences among alleles or markers between these resistant and susceptible peanut genotypes. It will be a valuable genomic resource for the peanut community.

Technical Abstract: Peanut is an important crop economically and nutritionally, and is one of the most susceptible host crops to colonization of Aspergillus parasiticus and subsequent aflatoxin contamination. Knowledge from molecular genetic studies could help to devise strategies in alleviating this problem; however, few peanut DNA sequences are available in the public database. We constructed six different cDNA libraries derived from developing peanut seeds at three reproduction stages (R5, R6 and R7) from a resistant and a susceptible cultivated peanut genotypes, ‘‘Tifrunner’’ (susceptible to Aspergillus infection with higher aflatoxin contamination and resistant to TSWV) and ‘‘GT-C20’’ (resistant to Aspergillus with reduced aflatoxin contamination and susceptible to TSWV). A total of 24,192 randomly selected cDNA clones from six libraries were sequenced. After removing vector sequences and quality trimming, 21,777 high-quality EST sequences were generated. Sequence clustering and assembling resulted in 8,689 unique EST sequences with 1,741 tentative consensus EST sequences (TCs) and 6,948 singleton ESTs. A number of sequences were expressed throughout all of the libraries, representing constitutive expressed sequences. In order to identify resistance-related genes with significantly differential expression, a statistical analysis to estimate the relative abundance (R) was used to compare the relative abundance of each gene transcripts in each cDNA library. Nine and eight resistance-related genes with significant up-regulation were obtained in ‘GT-C20’ and ‘Tifrunner’ libraries, respectively. The developed ESTs can be used to discover novel sequences or genes, to identify resistance-related genes and to detect the differences among alleles or markers between these resistant and susceptible peanut genotypes. It will be a valuable genomic resource for the peanut community. The 21,777 ESTs have been deposited to the NCBI GenBank database with accession numbers ES702769 to ES724546.

Last Modified: 4/17/2014
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