title: Preliminary exploration of Oryza sativa small RNAs - Run 1 and 2
status: Public on Jun 08 2009
contact.city: Davis
contact.first: Venkatesan
contact.last: Sundaresan
contact.state: CA
contact.address: One Shields Ave
contact.department: Plant Biology
contact.country: USA
contact.institute: University of California Davis
organism: Oryza sativa
description: The datasets contain Oryza sativa var Nipponbar endogenous small RNA sequences in the size range 18 to 34 nt. High-throughput sequencing was performed at 454 Life Sciences using the 454 pyrosequencing method (Margulies et al., 2005) using 5' and 3' adapter oligonucleotides.  Plants were grown in a Conviron Environmental Chamber at high light intensity using both high pressure sodium and metal halide lamps for 10.5 hr at 28 degrees C and for 13.5 hr at 26 degrees C in the dark. RNA was extracted from rice tissues at various stages of development and under different abiotic and biotic stresses. The small RNAs presented here were all mapped to the rice genome TIGR version 5. The total number of distinct mapped sequences are 12879 for Run 1 and 88508 for Run 2.  The total number of sequence reads were respectively 70406 and 191682.
manufacture_protocol: see manufacturer website www.454.com