A Genomic Survey of Mayetiola destructor Mobilome Provides New Insights into the Evolutionary History of Transposable Elements in the Cecidomyiid Midges

The availability of the Whole-Genome Sequence of the wheat pest Mayetiola destructor offers the opportunity to investigate the Transposable Elements (TEs) content and their relationship with the genes involved in the insect virulence. In this study, de novo annotation carried out using REPET pipelin...

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Published in:PloS one 2021-10, Vol.16 (10), p.e0257996-e0257996
Main Authors: Ben Amara, Wiem, Quesneville, Hadi, Khemakhem, Maha Mezghani
Format: Article
Language:English
Subjects:
Analysis
Annotations
Biochemistry
Biochemistry, Molecular Biology
Biodiversity
Bioinformatics
Biology and Life Sciences
Chemoreception
Chromosomes
Computer and Information Sciences
Divergence
Evolution
Evolutionary biology
Gene expression
Genes
Genetic aspects
Genomes
Genomics
Host plants
Insects
Laboratories
Life Sciences
Maximum likelihood method
Mayetiola destructor
Nucleotide sequence
Pests
Phylogenetics
Physical Sciences
Plant resistance
Populations and Evolution
Transposons
Virulence
Wheat
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description The availability of the Whole-Genome Sequence of the wheat pest Mayetiola destructor offers the opportunity to investigate the Transposable Elements (TEs) content and their relationship with the genes involved in the insect virulence. In this study, de novo annotation carried out using REPET pipeline showed that TEs occupy approximately 16% of the genome and are represented by 1038 lineages. Class II elements were the most frequent and most TEs were inactive due to the deletions they have accumulated. The analyses of TEs ages revealed a first burst at 20% of divergence from present that mobilized many TE families including mostly Tc1/mariner and Gypsy superfamilies and a second burst at 2% of divergence, which involved mainly the class II elements suggesting new TEs invasions. Additionally, 86 TEs insertions involving recently transposed elements were identified. Among them, several MITEs and Gypsy retrotransposons were inserted in the vicinity of SSGP and chemosensory genes. The findings represent a valuable resource for more in-depth investigation of the TE impact onto M. destructor genome and their possible influence on the expression of the virulence and chemosensory genes and consequently the behavior of this pest towards its host plants.
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subjects Analysis
Annotations
Biochemistry
Biochemistry, Molecular Biology
Biodiversity
Bioinformatics
Biology and Life Sciences
Chemoreception
Chromosomes
Computer and Information Sciences
Divergence
Evolution
Evolutionary biology
Gene expression
Genes
Genetic aspects
Genomes
Genomics
Host plants
Insects
Laboratories
Life Sciences
Maximum likelihood method
Mayetiola destructor
Nucleotide sequence
Pests
Phylogenetics
Physical Sciences
Plant resistance
Populations and Evolution
Transposons
Virulence
Wheat
title A Genomic Survey of Mayetiola destructor Mobilome Provides New Insights into the Evolutionary History of Transposable Elements in the Cecidomyiid Midges
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