DNA barcoding of five economically important freshwater fish species from the Nile River, Sudan

Abstract

The study was conducted to barcode five freshwater fish species obtained from Nile River tributaries (the Atbara River and the Blue Nile),  in March 2019, using analysis of partial CO1 gene sequences. Fish samples were identified morphologically as Nile perch Lates niloticus,  Nile labeo Labeo vulgaris, North African catfish Clarias gariepinus, Cornish jack Mormyrops anguilloides and bebe mormyrid Hyperopisus  bebe. Following DNA extraction, universal primers were used for amplification of the CO1 barcode region. The PCR products were  sequenced and used for molecular identification. Each sequence was matched to corresponding GenBank sequences using the BLAST technique. Sequences of all specimens were aligned along with the GenBank published sequences and polymorphic sites were identified.  The analysed sequences were uploaded to GenBank under the accession numbers OL804282–OL804286. The analysed partial CO1  barcode gene showed a readable length of ~548–669 base pairs. Sequence comparison of CO1 gene sequences with sequences published  in GenBank revealed 99.27–100% identities at the species level. Therefore, the CO1 barcodes accurately identified all the  studied freshwater fishes. This is the first molecular DNA barcode characterisation of freshwater fish species found in Sudan. The fish CO1  gene sequences revealed in this study will serve as barcode references for future characterisations of Nile River fishes.