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ARS Home » Southeast Area » Raleigh, North Carolina » Soybean and Nitrogen Fixation Research » Research » Publications at this Location » Publication #314272
Title: Identification of soybean proteins and genes differentially regulated in near isogenic lines differing in resistance to aphid infestation

Author
item BRECHENMACHER, LAURENT - University Of Missouri
item NGUYEN, TRAN HON NHA - University Of Missouri
item ZHANG, NING - University Of Missouri
item TAE-HWAN, JUN - Pusan National University
item XU, DONG - University Of Missouri
item Mian, Rouf
item STACEY, GARY - University Of Missouri

Submitted to: Journal of Proteomics
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 9/1/2015
Publication Date: 9/9/2015
Citation: Brechenmacher, L., Nguyen, T., Zhang, N., Tae-Hwan, J., Xu, D., Mian, R.M., Stacey, G. 2015. Identification of soybean proteins and genes differentially regulated in near isogenic lines differing in resistance to aphid infestation. Journal of Proteomics. 10:4137-4146.

Interpretive Summary: The soybean aphid is the most important soybean pest in the USA causing economic yield losses. The Rag2 gene of soybean provides resistance to soybean aphid biotypes 1 and 2. Gene expression and proteomic analyses were performed on near isogenic lines (NILs) with the Rag2 allele for aphid resistance or rag2 for susceptibility at the Rag2 locus. Soybeans were infested with soybean aphids and leaves were collected at 0, 4, 8, 24, and 48 hours after infestation. RNA and proteins were extracted from the same infested leaf tissue for gene expression and proteomic analysis by RNAseq and 1D-LC-MS/MS approaches, respectively. A total of 3445 proteins were detected in Rag2 and/or rag2 lines of which 396 were found differentially regulated between the resistant and susceptible lines, including proteins involved in cell wall metabolism, carbohydrate metabolism, and stress response. In parallel, a high throughput gene expression study was used to examine mRNA expression in Rag2 and rag2 soybean leaves using similar time points. The expression of ~43,000 genes was detected in both the Rag2 and rag2 leaves. Statistical analysis identified 2361 genes significantly regulated between the resistant and susceptible lines at different times after aphid infestation. Genes found up-regulated in the Rag2 line were annotated as involved in the cell wall, secondary and hormone metabolism, as well as in stress, signaling and transcriptional responses. Genes found up-regulated in the rag2 line were annotated as involved in photosynthesis and carbon metabolism. Interestingly, mRNAs of 2 genes (unknown and mitochondrial protease) located within the window of the Rag2 locus were expressed significantly higher in the resistant genotype. The expression of the putative NBS-LRR resistant gene present in the Rag2 locus was not different between the two soybean lines. However, another NBL-LRR gene located just at the border of the Rag2 locus was and, therefore, may be involved in the differential resistance to aphid infestation exhibited by the two NIL genotypes analyzed. These results may lead to better understanding of mechanisms of aphid resistance in soybean.

Technical Abstract: The soybean aphid, a plant sap sucking insect, is an important soybean pest in the USA causing significant yield losses. The Rag2 gene of soybean provides resistance to soybean aphid biotypes 1 and 2. Transcriptomic and proteomic analyses were performed on near isogenic lines (NILs) with the Rag2 allele for aphid resistance or rag2 for susceptibility at the Rag2 locus. Soybeans were infested with soybean aphids and leaves were collected at 0, 4, 8, 24, and 48 hours after infestation. RNA and proteins were extracted from the same infested leaf tissue for transcriptomic and proteomic analysis by RNAseq and 1D-LC-MS/MS approaches, respectively. A total of 3445 proteins were detected in Rag2 and/or rag2 lines of which 396 were found differentially regulated between the resistant and susceptible lines, including proteins involved in cell wall metabolism, carbohydrate metabolism, and stress response. In parallel, a high throughput RNA-seq approach was used to examine mRNA expression in Rag2 and rag2 soybean leaves using similar time points. The expression of ~43,000 genes was detected in both the Rag2 and rag2 leaves. Statistical analysis identified 2361 genes significantly regulated between the resistant and susceptible lines at different times after aphid infestation. Genes found up-regulated in the Rag2 line were annotated as involved in the cell wall, secondary and hormone metabolism, as well as in stress, signaling and transcriptional responses. Genes found up-regulated in the rag2 line were annotated as involved in photosynthesis and carbon metabolism. Interestingly, mRNAs of 2 genes (unknown and mitochondrial protease) located within the window of the Rag2 locus were expressed significantly higher in the resistant genotype. The expression of the putative NBS-LRR resistant gene present in the Rag2 locus was not different between the two soybean lines. However, another NBL-LRR gene located just at the border of the Rag2 locus was and, therefore, may be involved in the differential resistance to aphid infestation exhibited by the two NIL genotypes analyzed.