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Research reports on RNA research from W.B. Barbazuk and colleagues provide new insights



November 28th, 2007

   2007 NOV 28 -- According to recent research from the United States, "A massively parallel pyro-sequencing technology commercialized by 454 Life Sciences Corporation was used to sequence the transcriptomes of shoot apical meristems isolated from two inbred lines of maize using laser capture microdissection (LCM). A computational pipeline that uses the POLYBAYES polymorphism detection system was adapted for 454 ESTs and used to detect SNPs (single nucleotide polymorphisms) between the two inbred lines."

   "Putative SNPs were computationally identified using 260 000 and 280 000 454 ESTs from the B73 and Mo17 inbred lines, respectively. Over 36 000 putative SNPs were detected within 9980 unique B73 genomic anchor sequences (MAGIs). Stringent post-processing reduced this number to > 7000 putative SNPs. Over 85% (94/110) of a sample of these putative SNPs were successfully validated by Sanger sequencing. Based on this validation rate, this pilot experiment conservatively identified > 4900 valid SNPs within > 2400 maize genes," wrote W.B. Barbazuk and colleagues.

   The researchers concluded: "These results demonstrate that 454-based transcriptome sequencing is an excellent method for the high-throughput acquisition of gene-associated SNPs."

   Barbazuk and colleagues published their study in Plant Journal (SNP discovery via 454 transcriptome sequencing. Plant Journal, 2007;51(5):910-918).

   For additional information, contact P.S. Schnable, Donald Danforth Plant Science Center, St. Louis, MO 63132, USA.

   Publisher contact information for the Plant Journal is: Blackwell Publishing, 9600 Garsington Rd., Oxford OX4 2DQ, Oxon, England.

   Keywords: United States, St. Louis, RNA Research.

   This article was prepared by Genetics & Environmental Health Week editors from staff and other reports. Copyright 2007, Genetics & Environmental Health Week via NewsRx.com.

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