The genome of the cereal pest Sitophilus oryzae : a transposable element haven
Nicolas Parisot
(1)
,
Carlos Vargas-Chavez
,
Clément Goubert
,
Patrice Baa-Puyoulet
(1)
,
Severine Balmand
(1)
,
Louis Beranger
,
Caroline Blanc
,
Aymeric Bonnamour
,
Matthieu Boulesteix
,
Nelly Burlet
,
Federica Calevro
(1)
,
Patrick Callaerts
,
Théo Chancy
,
Hubert Charles
(1)
,
Stefano Colella
(1)
,
André da Silva Barbosa
,
Elisa Dell’aglio
,
Alex Di Genova
,
Gérard Febvay
(1)
,
Toni Gabaldon
(2)
,
Mariana Galvão Ferrarini
,
Alexandra Gerber
,
Benjamin Gillet
,
Robert Hubley
,
Sandrine Hughes
,
Emmanuelle Jacquin-Joly
,
Justin Maire
,
Marina Marcet-Houben
,
Florent Masson
,
Camille Meslin
,
Nicolas Montagne
,
Andrés Moya
,
Ana Tereza Ribeiro de Vasconcelos
,
Gautier Richard
,
Jeb Rosen
,
Marie-France Sagot
,
Arian F.A. Smit
,
Jessica Storer
,
Carole Vincent-Monegat
(1)
,
Agnès Vallier
(1)
,
Aurélien Vigneron
,
Anna Zaidman-Remy
(1)
,
Waël Zamoum
,
Cristina Vieira
,
Rita Rebollo
(1)
,
Amparo Latorre
,
Abdelaziz Heddi
(1)
Nicolas Parisot
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Carlos Vargas-Chavez
- Function : Author
Clément Goubert
- Function : Author
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Patrice Baa-Puyoulet
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Severine Balmand
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Louis Beranger
- Function : Author
Caroline Blanc
- Function : Author
Aymeric Bonnamour
- Function : Author
Matthieu Boulesteix
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Nelly Burlet
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Federica Calevro
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Patrick Callaerts
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Théo Chancy
- Function : Author
Hubert Charles
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Stefano Colella
- Function : Author
- PersonId : 183396
- IdHAL : stefano-colella
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- IdRef : 183598113
André da Silva Barbosa
- Function : Author
Elisa Dell’aglio
- Function : Author
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- IdHAL : elisa-dellaglio
Alex Di Genova
- Function : Author
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Mariana Galvão Ferrarini
- Function : Author
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Alexandra Gerber
- Function : Author
Benjamin Gillet
- Function : Author
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Robert Hubley
- Function : Author
Sandrine Hughes
- Function : Author
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- IdHAL : sandrine-hughes
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- IdRef : 189991070
Emmanuelle Jacquin-Joly
- Function : Author
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- IdHAL : emmanuelle-joly
- ORCID : 0000-0002-6904-2036
- IdRef : 137606206
Justin Maire
- Function : Author
- PersonId : 802118
- ORCID : 0000-0003-1976-2323
Marina Marcet-Houben
- Function : Author
Florent Masson
- Function : Author
- PersonId : 767388
- ORCID : 0000-0002-5828-2616
- IdRef : 193867745
Camille Meslin
- Function : Author
Nicolas Montagne
- Function : Author
Andrés Moya
- Function : Author
Ana Tereza Ribeiro de Vasconcelos
- Function : Author
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Gautier Richard
- Function : Author
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- IdRef : 076765482
Jeb Rosen
- Function : Author
- PersonId : 808437
- ORCID : 0000-0002-8832-1276
Marie-France Sagot
- Function : Author
Arian F.A. Smit
- Function : Author
Jessica Storer
- Function : Author
Carole Vincent-Monegat
- Function : Author
- PersonId : 171241
- IdHAL : carole-vincent-monegat
- ORCID : 0000-0001-6377-5573
Agnès Vallier
- Function : Author
- PersonId : 748824
- IdHAL : agnesvallier
Aurélien Vigneron
- Function : Author
Anna Zaidman-Remy
- Function : Author
- PersonId : 748278
- IdHAL : anna-zaidman-remy
- ORCID : 0000-0003-2550-1752
- IdRef : 127186069
Waël Zamoum
- Function : Author
Cristina Vieira
- Function : Author
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- IdRef : 121157318
Rita Rebollo
- Function : Author
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- IdHAL : ritarebollo
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Amparo Latorre
- Function : Author
Abdelaziz Heddi
- Function : Author
- PersonId : 748780
- IdHAL : aziz-heddi
Abstract
Abstract Among beetles, the rice weevil Sitophilus oryzae is one of the most important pests causing extensive damage to cereal in fields and to stored grains. S. oryzae has an intracellular symbiotic relationship (endosymbiosis) with the Gram-negative bacterium Sodalis pierantonius and is a valuable model to decipher host-symbiont molecular interactions. We sequenced the Sitophilus oryzae genome using a combination of short and long reads to produce the best assembly for a Curculionidae species to date. We show that S. oryzae has undergone successive bursts of transposable element (TE) amplification, representing 72% of the genome. In addition, we show that many TE families are transcriptionally active, and changes in their expression are associated with insect endosymbiotic state. S. oryzae has undergone a high gene expansion rate, when compared to other beetles. Reconstruction of host-symbiont metabolic networks revealed that, despite its recent association with cereal weevils (30 Kyear), S. pierantonius relies on the host for several amino acids and nucleotides to survive and to produce vitamins and essential amino-acids required for insect development and cuticle biosynthesis. In addition to being an agricultural pest and a valuable endosymbiotic system, S. oryzae can be a remarkable model for studying TE evolution and regulation, along with the impact of TEs on eukaryotic genomes.