Elucidating the role of "dark matter" in the functioning of the genome of the economically important beetle Tenebrio molitor

Principal investigator

Project type
Znanstveno-istraživački projekti
Programme
Program Znanje i otkrića
Financier
Adris grupa
Start date
Jan 1st 2025
End date
Jan 31st 2027
Status
Active
Total cost
13000 EUR

The yellow mealworm beetle, Tenebrio molitor (Coleoptera, Tenebrionidae), has a dual economic significance. On one hand, it causes considerable economic losses as a pest in stored food products, while on the other, it has increasing commercial value in animal nutrition. Following its introduction to the human food market, expanding our knowledge of this species has become increasingly important. T. molitor has emerged as an important model organism for diverse biological studies due to its ease of rearing, rapid reproduction, and short life cycle. The importance of studying this organism is further reflected in the continuous efforts of the scientific community to improve the quality and completeness of its genome assembly, in which repetitive regions pose substantial technical challenges. Although sometimes referred to as the “dark matter of the genome,” repetitive sequences are considered key architects of genome organization and major drivers of genome evolution. Increasing evidence points to the active and tightly regulated transcription of tandemly repeated satellite DNA (satDNA) sequences, for example in heterochromatin establishment, stress-response gene regulation, environmental adaptation, and carcinogenesis. A dominant portion of the T. molitor genome is composed of a single satDNA family accounting for approximately 60% of the genome. In the course of improved genome assembly efforts, ten additional satDNA families were identified; however, the localization, distribution patterns, and transcriptional dynamics of these sequences remain unknown. The objectives of this project are: (i) to determine the genomic localization of the 11 satDNAs in T. molitor using both experimental and bioinformatic approaches; (ii) to identify and analyze related satDNAs in the genomes of other insect species; (iii) to investigate the transcription of the 11 T. molitor satDNAs using RNA-seq datasets from male and female individuals across all developmental stages; and (iv) to examine the presence of T. molitor satDNAs in transcriptomic datasets of other species. Through this integrative approach, we aim to elucidate the transcriptional potential of satDNA sequences and relate it to the type and sequence characteristics of individual satDNAs, their genomic abundance and chromosomal localization, as well as developmental stages of T. molitor. In doing so, we seek to establish a foundation for understanding the impact and functional role of the genomic “dark matter” in the biology and genome regulation of this economically and ecologically important insect, as well as in other species in which these sequences occur.