||SRR015436 type VI glands from leaves, 454 library
||Type VI glands from leaves
||454 run ID in NCBI: SRR015436, by the Michigan State University on 2009-05-06 13:55:48
SRX004022: type 6 glands from S. lycopersicum LA3475
Total RNA was extracted from type VI trichomes isolated from stem and petiole tissues of 3-week-old Solanum lycopersicum cv M82 plants and used directly for cDNA synthesis using the Clontech SMART cDNA synthesis kit with slight modification to kit protocols. Reverse transcription of RNA was performed using a modified primer with sequence: 5'-TAGAGACCGAGGCGGCCGACATGTTTTGTTTTTTTTTCTTTTTTTTTTVN-3'. After PCR amplication, cDNA was purified using the Qiagen QIAquick PCR purification kit. 5ug of cDNA was submitted for sequencing by the Michigan State University sequencing facility according to the standard Roche 454 GS-FLX protocol.
Glandular trichomes play important roles in protecting plants from biotic attack by producing defensive compounds. We investigated the metabolic profiles and transcriptomes to characterize the differences between different glandular trichome types in several domesticated and wild Solanum species: Solanum lycopersicum (glandular trichome types 1, 6 and 7), S. habrochaites (types 1, 4, and 6), S. pennellii (types 4 and 6), S. arcanum (type 6) and S. pimpinellifolium (type 6). Substantial chemical differences in and between Solanum species and glandular trichome types are likely determined by regulation of metabolism at several levels. Comparison of S. habrochaites type 1 and 4 glandular trichomes revealed few differences in chemical content or transcript abundance, leading to the conclusion that these two glandular trichome types are the same and differ perhaps only in stalk length. The observation that all the other species examined here contain either type 1 or 4 trichomes (not both) supports the conclusion that these two trichome types are the same. Most differences in metabolites between type 1 and 4 glands on the one hand and type 6 glands on the other are quantitative but not qualitative. Several glandular trichome types express genes associated with photosynthesis and carbon fixation, indicating that some carbon destined for specialized metabolism is likely fixed within the trichome secretory cells. Finally, Solanum type 7 glandular trichomes do not appear to be involved in the biosynthesis and storage of specialized metabolites and thus likely serve another unknown function, perhaps as the site of synthesis of protease inhibitors.
Strategy: EST; Source: TRANSCRIPTOMIC; Selection: RANDOM; Layout: SINGLE; Construction protocol: Standard 454 library construction protocol; Platform: LS454; Instrument model: 454 GS FLX
|# of EST/cDNA
|# of Unigene
Of them, 185387 singletons and 10728 TCs.
||May 06, 2009
||the Michigan State University
||Plant Physiol. 2010 Jul;153(3):1212-23. Epub 2010 Apr 29.Studies of a biochemical factory: tomato trichome deep expressed sequence tag sequencing and proteomics.
Plant Physiol. 2011 Jan;155(1):524-39. Epub 2010 Nov 19.Comparative functional genomic analysis of Solanum glandular trichome types.