ABSTRACT
In this study, we report the assembly and annotation of the mitochondrial genome (mitogenome) of Acheta domesticus from breeding facility, a species commonly known as the house cricket. This species is considered to be an important edible cricket. The mitogenome was assembled using a reproducible protocol implemented on the Galaxy Europe Server, which involved uploading paired-end fastq reads for bioinformatic analysis. The resulting mitogenome is 15,784 base pairs in length and has a GC content of 29.05%. The nucleotide composition of this mitogenome is similar to that of other insect mitogenomes, with A, T, C, and G nucleotides comprising 39.2%, 31.7%, 19.6%, and 9.5% of the mitogenome, respectively. The gene organization of the A. domesticus mitogenome is identical to that of other cricket species. The mitogenome consists of 37 genes, including 13 protein-coding genes, 22 tRNA genes, and two rRNA genes. The congruence between PCA and Bayesian evolutionary tree analysis in clustering the divergent A. domesticus sequences highlights these genomes as candidates for further study to elucidate their distinct features and evolutionary history.
ABSTRACT
The COVID-19 pandemic has forced the Bioinformatics course to switch from on-site teaching to remote learning. This shift has prompted a change in teaching methods and laboratory activities. Students need to have a basic understanding of DNA sequences and how to analyze them using custom scripts. To facilitate learning, we have modified the course to use Jupyter Notebook, which offers an alternative approach to writing custom scripts for basic DNA sequence analysis. This approach allows students to acquire the necessary skills while working remotely. It is a versatile and user-friendly platform that can be used to combine explanations, code, and results in a single document. This feature enables students to interact with the code and results, making the learning process more engaging and effective. Jupyter Notebook provides a hybrid approach to learning basic Python scripting and genomics that is effective for remote teaching and learning during the COVID-19 pandemic.
ABSTRACT
Tarbinskiellus portentosus, commonly known as giant cricket one of the important edible cricket species. However, the genetic information of these species is still limited. Therefore, we have assembled and annotated the first mitochondrial genome of T. portentosus. The mitogenome is 15710 bp long and has GC content of 27.19%. The nucleotide composition is similar with other insect mitogenomes (A 40.6%; T 32.2%; C 17.3%; G 9.9%). The gene organization in the mitogenome of T. portentosus is identical to the mitogenome of other cricket species. The complete mitogenome of T. portentosus consisted 37 genes including 13 protein coding genes, 22 tRNA genes, and two rRNA genes. The newly assembled mitogenome will help molecular biology research on edible crickets. Since mitogenome genes are traditionally used for DNA barcoding and phylogenetic analysis, comparative analysis of T. portentosus mitogenome with other related cricket species will also aid researchers in developing universal primers for species identification toward food security. Apart from the main goal of providing full mitogenome of T. portentosus, paper also provides conceptual workflow based on de novo assembly and its correction for final mitogenome construction.
