Laura McCoy
 rRNA
genes are a multi-gene family
 Located in the nucleolus of the cell
 Genes are found in tandem arrays
 rRNA plus ribosomal proteins form
ribosomes
 Mitochondria and chloroplasts have their
own rRNA genes


In prokaryotes: 23S, 5S,16S
In eukaryotes: 28S, 5.8S, 5S, 18S
http://www.mun.c
a/biology/scarr/M
GA2_03-23.html
1.
2.
3.
Find orthologs in closely related
species (Vitis Vinifera and Fragaria
Vesca)
Blast ortholog sequences against
blueberry genome
Analyze hits
 18S (partial sequence)
• GQ849399: 6 hits (454 sequence)
 16S- most likely chloroplast rRNA
• AJ639615: 20 hits (454 sequence)
• AF143264: 6 hits (454 sequence)
 Mitochondria (complete genome)
• FM1798380: 500 hits (454 sequence)
**note: sequences found on rRNA database: http://www.arbsilva.de/search/
 EU024825: working
draft sequence
• 8 unordered unordered pieces
• 43 hits (454 sequence)
**note: sequence found on rRNA database: http://www.arbsilva.de/search/
 5S
• No hits found (454 or Illumina sequences)
 23S
• No hits found (454 or Illumina sequences)
**note: sequences found on http://www.strawberrygenome.org/
 Conservation
of rRNA gene sequences
between closely related species
• 18S, chloroplast, mitochondria
 Sequences
of all rRNA genes in
strawberry and grape are not available
• 28S, 5S, 5.8S
 Stutz, E., and
Noll, H. 1967.
Characterization of cytoplasmic and
chloroplast polysomes in plants:
evidence for three classes of ribosomal
RNA in nature. Biochemistry. 57: 774-781.
 Velasco et al. 2007. A High Quality Draft
Consensus Sequence of the Genome of a
Heterozygous Grapevine Variety.