Progress 10/01/09 to 09/30/10
Outputs
Progress Report Objectives (from AD-416) Determine the genes that are differential expressed in brown midrib sorghum relative to non-brown midrib plants in order to identify potential mechanism involved in cell wall formation, lignification and bioenergy availability. Approach (from AD-416) The internodes of the sorghum lines (twelve) grown under greenhouse conditions will be harvested and total RNA will be extracted. Gene expression will be characterized through massively parallel sequencing (Solexa) from the reverse-transcribed RNA samples. Single nucleotide polymorphisms (SNPs) were detected within the transcripts sequenced from wild-type, bmr6, bmr12, and bmr6, 12 stalks in three sorghum varieties; Atlas, RTX430 and BWheatland. The SNPs were detected between the bmr mutants wild-type (WT), and also between three varieties. Analysis of the 192 million sequencing reads is underway to determine differences in gene expression between the mutants and WT. The ADODR and cooperator are in frequent contact via email. The project was also monitored through a site visit by a USDA Lincoln, NE scientist to the National Center for Genome Resources in New Mexico.
Impacts
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Publications
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Progress 09/15/08 to 09/15/10
Outputs
Progress Report Objectives (from AD-416) Determine the genes that are differential expressed in brown midrib sorghum relative to non-brown midrib plants in order to identify potential mechanism involved in cell wall formation, lignification and bioenergy availability. Approach (from AD-416) The internodes of the sorghum lines (twelve) grown under greenhouse conditions will be harvested and total RNA will be extracted. Gene expression will be characterized through massively parallel sequencing (Solexa) from the reverse-transcribed RNA samples. During the duration of this agreement, the genes whose activity was altered in brown midrib sorghum compared to non-brown midrib plants were identified. The information generated through these cutting edge techniques provide evidence for the involvement specific genes in cell wall formation and cell wall lignification in sorghum stalks, while excluding a greater number of genes from potentially these roles within the cell wall. Eleven genes identified through this agreement are currently being investigated for their ability to affect cell wall lignification using biotechnology approaches in another Specific Cooperative Agreement, 5440-21220-027-018S and a USDA NIFA-AFRI competitively funded project 5440-21220-027-22G. The end result is that the genes identified through this agreement laid a foundation for new research on the ways to manipulate cell wall formation and bioenergy availability. This information will in turn unlock biological potential for the U.S. sorghum and bioenergy industries. Progress was monitored through regular emails and telephone conferences with the cooperator.
Impacts
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Publications
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Progress 10/01/08 to 09/30/09
Outputs
Progress Report Objectives (from AD-416) Determine the genes that are differential expressed in brown midrib sorghum relative to non-brown midrib plants in order to identify potential mechanism involved in cell wall formation, lignification and bioenergy availability. Approach (from AD-416) The internodes of the sorghum lines (twelve) grown under greenhouse conditions will be harvested and total RNA will be extracted. Gene expression will be characterized through massively parallel sequencing (Solexa) from the reverse-transcribed RNA samples. Significant Activities that Support Special Target Populations Sequencing has been completed on the transcriptomes of wild-type, bmr-6, bmr-12, and bmr6+12 stalks in four backgrounds. Analysis of the 192 million sequencing reads is underway to determine differences in gene expression. The ADODR and cooperator are in frequent contact via email. The project was also monitored through a site visit by a USDA Lincoln, NE scientist to the National Center for Genome Resources in New Mexico.
Impacts
(N/A)
Publications
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