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Satellitome Analysis in the Ladybird Beetle Hippodamia variegata (Coleoptera, Coccinellidae)

Hippodamia variegata 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...

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Autores principales: Mora, Pablo, Vela, Jesús, Ruiz-Ruano, Francisco J., Ruiz-Mena, Areli, Montiel, Eugenia E., Palomeque, Teresa, Lorite, Pedro
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7397073/
https://www.ncbi.nlm.nih.gov/pubmed/32668664
http://dx.doi.org/10.3390/genes11070783
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author Mora, Pablo
Vela, Jesús
Ruiz-Ruano, Francisco J.
Ruiz-Mena, Areli
Montiel, Eugenia E.
Palomeque, Teresa
Lorite, Pedro
author_facet Mora, Pablo
Vela, Jesús
Ruiz-Ruano, Francisco J.
Ruiz-Mena, Areli
Montiel, Eugenia E.
Palomeque, Teresa
Lorite, Pedro
author_sort Mora, Pablo
collection PubMed
description Hippodamia variegata 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 H. variegata 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.
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spelling pubmed-73970732020-08-05 Satellitome Analysis in the Ladybird Beetle Hippodamia variegata (Coleoptera, Coccinellidae) Mora, Pablo Vela, Jesús Ruiz-Ruano, Francisco J. Ruiz-Mena, Areli Montiel, Eugenia E. Palomeque, Teresa Lorite, Pedro Genes (Basel) Article Hippodamia variegata 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 H. variegata 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. MDPI 2020-07-13 /pmc/articles/PMC7397073/ /pubmed/32668664 http://dx.doi.org/10.3390/genes11070783 Text en © 2020 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Mora, Pablo
Vela, Jesús
Ruiz-Ruano, Francisco J.
Ruiz-Mena, Areli
Montiel, Eugenia E.
Palomeque, Teresa
Lorite, Pedro
Satellitome Analysis in the Ladybird Beetle Hippodamia variegata (Coleoptera, Coccinellidae)
title Satellitome Analysis in the Ladybird Beetle Hippodamia variegata (Coleoptera, Coccinellidae)
title_full Satellitome Analysis in the Ladybird Beetle Hippodamia variegata (Coleoptera, Coccinellidae)
title_fullStr Satellitome Analysis in the Ladybird Beetle Hippodamia variegata (Coleoptera, Coccinellidae)
title_full_unstemmed Satellitome Analysis in the Ladybird Beetle Hippodamia variegata (Coleoptera, Coccinellidae)
title_short Satellitome Analysis in the Ladybird Beetle Hippodamia variegata (Coleoptera, Coccinellidae)
title_sort satellitome analysis in the ladybird beetle hippodamia variegata (coleoptera, coccinellidae)
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7397073/
https://www.ncbi.nlm.nih.gov/pubmed/32668664
http://dx.doi.org/10.3390/genes11070783
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