Conserved miRNA analysis in Gossypium hirsutum through small RNA sequencing.
Several miRNA family and their targets in cotton had been identified by computational methods based on the conserved characterization of miRNAs. So far, there are no experiments to validate the existence of miRNAs in cotton. In this study, to analyze the miRNAs in cotton, a small RNA library of sequences from 18 to 26 nt of Gossypium hirsutum seedling has been built by high-throughput sequencing. In this library, 34 conserved miRNA families were identified by homology search and the miRNA sequences of them were also found in the library. Furthermore, potential targets of these conserved miRNA families were predicted in cotton TC library. However, based on the mature miRNAs and their miR sequences, only 8 conserved miRNA encoding loci (miR156, miR157a, miR157b, miR162, miR164, miR393, miR399, miR827) were identified from cotton EST sequences. Multiple encoding loci of some miRNAs were identified by comparing the cloned miRNA and miR sequences.
Ruan
Meng-Bin
MB
Key Laboratory of Molecular and Developmental Biology, National Center for Plant Gene Research (Beijing), Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100080, China.
Zhao
Ying-Tao
YT
Meng
Zhao-Hong
ZH
Wang
Xiu-Jie
XJ
Yang
Wei-Cai
WC
D001483:Base Sequence; D003001:Cloning, Molecular; D017124:Conserved Sequence; D020224:Expressed Sequence Tags; D020869:Gene Expression Profiling; D015723:Gene Library; D014644:Genetic Variation; D018745:Genome, Plant; D003368:Gossypium / Q000235:genetics*; D035683:MicroRNAs / Q000032:analysis* / Q000235:genetics; D008969:Molecular Sequence Data; D009690:Nucleic Acid Conformation; D018749:RNA, Plant / Q000235:genetics; D016415:Sequence Alignment; D017423:Sequence Analysis, RNA
D035683:MicroRNAs; D018749:RNA, Plant