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Novel DNA Barcode Sequence Discovery from Transcriptome of Acheta domesticus: A Partial Mitochondrial DNA

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Abstract:

The potential of mitochondrial DNA (mtDNA) genes are well-known for species identification and to establish a phylogenetic relationship. The De-novo transcriptome assembly of Acheta domesticus commonly known as house cricket, is provides important segments of DNA fragments from mitochondrial DNA due to higher abundance of its mRNA. When the reference sequence with gene annotation is absent for assembling and aligning desire gene sequences, like in the present case, the most similar sequence is obtained from online insect mitochondrial genome database to find mitochondrial DNA conserved domains of interested gene from high throughput RNA sequencing (RNA-seq) data. The RNA-seq data of Acheta domesticus transcriptome is used to retrieve single nucleotide fragment out of 50,046 assembled contigs to discover three important genes from mtDNA of the house cricket. Present study provides effective workflow to identify genes like cytochrome c oxidase subunit II (COX2), NADH dehydrogenase subunit 2 (ND2), cytochrome c oxidase subunit I (COX1) from mtDNA in large sequence archive of RNA-seq data. These three novel barcode sequences will be useful for genetic identification and evolution investigation of Acheta domesticus. The partial mtDNA sequence with these genes will be important for mitochondrial genome construction.

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Periodical:

Materials Science Forum (Volume 967)

Pages:

59-64

DOI:

https://doi.org/10.4028/www.scientific.net/MSF.967.59

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Online since:

August 2019

Authors:

Yash Munnalal Gupta, Kittisak Buddhachat, Surin Peyachoknagul, Somjit Homchan*

Keywords:

Acheta domesticus, Cytochrome C Oxidase Subunit I, Cytochrome C Oxidase Subunit II, High Throughput RNA Sequencing, Mitochondrial DNA, NADH Dehydrogenase Subunit 2

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