Bioinformatics prediction and annotation of cherry (Prunus avium L.) microRNAs and their targeted proteins

İftekhar Ahmed BALOCH; Muhammad Younas Khan BAROZAI; Muhammad DIN

Makale detayları

Bioinformatics prediction and annotation of cherry (Prunus avium L.) microRNAs and their targeted proteins

Yazarlar:

İftekhar Ahmed BALOCH | Muhammad Younas Khan BAROZAI | Muhammad DIN

Yayıncı:

TUBITAK

Dergi:

Turkish Journal of Botany 2018 Vol.42 Issue 4, pp.382-399

Belge Tipi:

Makale

Yayın Tarihi:

7/2018

Belge Dili:

İngilizce

Document ID (Org No.):

2000815049

Sıklık:

İki Aylık

eISSN:

1303-6106

pISSN:

1300-008X

Özet:

 

                 
                        MicroRNAs (miRNAs) are important noncoding 
regulatory RNAs. They are expressed endogenously and are 18-26 
nucleotides in length. These small molecules are conserved 
evolutionarily within the same kingdom and their conserved nature 
becomes an important logical tool for the quest of conserved miRNAs in 
other species by homology search using bioinformatics tools. Cherry (Prunus avium
 L.) is one of the important and nutritious species of the family 
Rosaceae, mainly distributed in temperate climate. This research is an 
attempt to identify and characterize conserved miRNAs in cherry from 
express sequence tags (ESTs). Bioinformatics analysis of cherry ESTs 
resulted in the identification of 91 conserved miRNAs belonging to 88 
miRNA families. Among the identified miRNAs, two of the conserved miRNAs
 (pav-miR482 and pav-miR535) were found to be transcribed in the 
opposite direction of the same genomic locus (sense/antisense 
orientation). A miRNA (pav-miR482a) was identified as a precursor miRNA 
(pre-miRNA) cluster while another (pav-mir161) was identified with two 
overlapping mature miRNA sequences. In addition, highly conserved 
pre-miRNA was also found, i.e. pav-mir535, which showed 100% query 
coverage and 98% identity with the peach pre-miRNA ppe-miR535a. 
Moreover, 14 predicted miRNAs were selected randomly for experimental 
validation through RT-PCR. Experimental validation of these 14 microRNAs
 endorses the powerfulness of bioinformatics prediction of miRNAs. The 
91 miRNAs were also subjected to study of their 211 protein targets. 
These were involved in various biological processes including cell 
signaling, growth and development, transcription factors, and stress 
management. The results of this research will contribute in 
understanding the miRNA-mediated life processes in cherry.

Makale detayları

Bioinformatics prediction and annotation of cherry (Prunus avium L.) microRNAs and their targeted proteins

Yazarlar: İftekhar Ahmed BALOCH | Muhammad Younas Khan BAROZAI | Muhammad DIN

Yayıncı: TUBITAK

Dergi: Turkish Journal of Botany 2018 Vol.42 Issue 4, pp.382-399

Belge Tipi: Makale

Yayın Tarihi: 7/2018

Belge Dili: İngilizce

Document ID (Org No.): 2000815049

Sıklık: İki Aylık

eISSN: 1303-6106

pISSN: 1300-008X

Sayı

Yazarlar:

İftekhar Ahmed BALOCH | Muhammad Younas Khan BAROZAI | Muhammad DIN

Yayıncı:

TUBITAK

Dergi:

Turkish Journal of Botany 2018 Vol.42 Issue 4, pp.382-399

Belge Tipi:

Makale

Yayın Tarihi:

7/2018

Belge Dili:

İngilizce

Document ID (Org No.):

2000815049

Sıklık:

İki Aylık

eISSN:

1303-6106

pISSN:

1300-008X