RNA-Seq a powerful tool for Transcriptome analysis in any species

The transcriptome of the human pathogen Trypanosoma brucei at single-nucleotide resolution.
Kolev NG, Franklin JB, Carmi S, Shi H, Michaeli S, Tschudi C. (2010)
PLoS Pathog. 2010 Sep 9;6(9). pii: e1001090.

Comprehensive annotation of the transcriptome of the human fungal pathogen Candida albicans using RNA-seq.
Bruno VM, Wang Z, Marjani SL, Euskirchen GM, Martin J, Sherlock G, Snyder M. (2010)
Genome Res. 2010 Sep 1. [Epub ahead of print].

RNA-Seq Atlas of Glycine max: a guide to the soybean transcriptome.
Severin AJ, Woody JL, Bolon YT, Joseph B, Diers BW, Farmer AD, Muehlbauer GJ, Nelson RT, Grant D, Specht JE, Graham MA, Cannon SB, May GD, Vance CP, Shoemaker RC. (2010)
BMC Plant Biol. 2010 Aug 5;10:160.

Function annotation of the rice transcriptome at single-nucleotide resolution by RNA-seq.
Lu T, Lu G, Fan D, Zhu C, Li W, Zhao Q, Feng Q, Zhao Y, Guo Y, Li W, Huang X, Han B. (2010)
Genome Res. 2010 Sep;20(9):1238-49.

 Using deep RNA sequencing for the structural annotation of the Laccaria bicolor mycorrhizal transcriptome.
Larsen PE, Trivedi G, Sreedasyam A, Lu V, Podila GK, Collart FR. (2010)
PLoS One. 2010 Jul 6;5(7):e9780.