Twelve novel C. elegans RNA candidates isolated by two-dimensional polyacrylamide gel electrophoresis.
C. elegans small RNAs (<50 nt) were separated by two-dimensional gel electrophoresis (2D-PAGE). cDNAs were prepared from the RNAs extracted from randomly chosen 2D-PAGE spots. Although many cDNA sequences corresponded to parts of known RNAs, twelve novel small RNA candidates were identified: eleven from 2D-PAGE spots of the mixed-stage worm RNA preparation and one from those of the embryonic RNA preparation. These are encoded in the intergenic regions, in the introns of protein-coding genes, in the anti-sense strand of protein-coding sequences and repetitive sequence regions of the genome. None of them showed a characteristic structure of miRNAs, suggesting that they are candidates of other or new classes of RNAs.
Hokii
Yusuke
Y
Department of Biochemistry and Biotechnology, Faculty of Agriculture and Life Science, Hirosaki University, Hirosaki, Aomori, 036-8561, Japan.
Kubo
Akiyoshi
A
Ogasawara
Takahiro
T
Nogi
Yuhkou
Y
Taneda
Akito
A
Arai
Risa
R
Muto
Akira
A
Ushida
Chisato
C
D000818:Animals; D001483:Base Sequence; D017173:Caenorhabditis elegans / Q000196:embryology / Q000235:genetics* / Q000254:growth & development; D029742:Caenorhabditis elegans Proteins / Q000235:genetics; D002875:Chromosomes; D003001:Cloning, Molecular; D018076:DNA, Complementary / Q000235:genetics; D015180:Electrophoresis, Gel, Two-Dimensional / Q000379:methods*; D004625:Embryo, Nonmammalian; D005091:Exons; D017238:Genes, Helminth; D016678:Genome; D007438:Introns; D035683:MicroRNAs / Q000737:chemistry / Q000235:genetics / Q000302:isolation & purification; D008969:Molecular Sequence Data; D009690:Nucleic Acid Conformation; D016372:RNA, Antisense / Q000737:chemistry / Q000235:genetics / Q000302:isolation & purification; D018510:RNA, Helminth / Q000737:chemistry / Q000235:genetics* / Q000302:isolation & purification; D034741:RNA, Small Interfering / Q000737:chemistry / Q000235:genetics / Q000302:isolation & purification; D012091:Repetitive Sequences, Nucleic Acid; D017423:Sequence Analysis, RNA
D029742:Caenorhabditis elegans Proteins; D018076:DNA, Complementary; D035683:MicroRNAs; D016372:RNA, Antisense; D018510:RNA, Helminth; D034741:RNA, Small Interfering