Sequence data mining in search of hookworm (Necator americanus) microRNAs.
The new world hookworm, Necator americanus is a soil-transmitted nematode responsible for Necatoriasis (a type of helminthiasis) in hosts such as humans, dogs, and cats. N. americanus genome and transcriptome has been sequenced and a draft assembly analysis has been published highlighting protein coding genes and possible drug target proteins. Hookworm microRNA identification, annotations and their public release is yet to be attempted. The same is evident from lack of hookworm miRNA information in related popular public nucleotide sequence repositories such as miRBase, GenBank, WormBase etc. Therefore, in the present study we addressed these issues using EST and assembled transcript sequence information of hookworm. Using computational approaches, we identified three miRNAs precursor sequences and their mature forms. We also identified their potential targets from hookworm ESTs and transcripts, and from human transcriptome. Overall, the results indicate presence of nematode specific miRNA homologs in N. americanus and shades light on their putative targets in worm itself and the human host.
Bioinformatics Centre, Savitribai Phule Pune University, Pune 411007, Maharashtra, India. Electronic address: abhijeet@bioinfo.net.in.
Abhijeet P
AP
Kulkarni
Department of Zoology, Savitribai Phule Pune University, Pune 411007, Maharashtra, India.
Smriti P K
SP
Mittal
D000818:Animals; D001483:Base Sequence; D057225:Data Mining; D035683:MicroRNAs / Q000235:genetics* / Q000378:metabolism; D017221:Necator americanus / Q000235:genetics*; D009690:Nucleic Acid Conformation; D010802:Phylogeny; D016415:Sequence Alignment
D035683:MicroRNAs
Computational prediction; ESTs; Hookworm; microRNAs