Satellitome Analysis in the Ladybird Beetle <i>Hippodamia variegata</i> (Coleoptera, Coccinellidae)

• Main Authors: Pablo Mora, Jesús Vela, Francisco J. Ruiz-Ruano, Areli Ruiz-Mena, Eugenia E. Montiel, Teresa Palomeque, Pedro Lorite
• Format: Article
• Language: English
• Published: MDPI AG 2020-07-01
• Series: Genes
• Subjects: Coleoptera; Coccinellidae; <i>Hippodamia variegata</i>; ladybird beetle; RepeatExplorer; satellite DNA
• Online Access: https://www.mdpi.com/2073-4425/11/7/783

<i>Hippodamia variegata</i> is one of the most commercialized ladybirds used for the biological control of aphid pest species in many economically important crops. This species is the first Coccinellidae whose satellitome has been studied by applying new sequencing technologies and bioinformatics tools. We found that 47% of the <i>H. variegata</i> genome is composed of repeated sequences. We identified 30 satellite DNA (satDNA) families with a median intragenomic divergence of 5.75% and A+T content between 45.6% and 74.7%. This species shows satDNA families with highly variable sizes although the most common size is 100–200 bp. However, we highlight the existence of a satDNA family with a repeat unit of 2 kb, the largest repeat unit described in Coleoptera. PCR amplifications for fluorescence in situ hybridization (FISH) probe generation were performed for the four most abundant satDNA families. FISH with the most abundant satDNA family as a probe shows its pericentromeric location on all chromosomes. This location is coincident with the heterochromatin revealed by C-banding and DAPI staining, also analyzed in this work. Hybridization signals for other satDNA families were located only on certain bivalents and the X chromosome. These satDNAs could be very useful as chromosomal markers due to their reduced location.