A step forward in the genome characterization of the sugarcane borer, Diatraea saccharalis: karyotype analysis, sex chromosome system and repetitive DNAs through a cytogenomic approach
Autor(a) principal: | |
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Data de Publicação: | 2022 |
Outros Autores: | , , , , , , , |
Tipo de documento: | Artigo |
Idioma: | eng |
Título da fonte: | Repositório Institucional da UNESP |
Texto Completo: | http://dx.doi.org/10.1007/s00412-022-00781-4 http://hdl.handle.net/11449/246047 |
Resumo: | Moths of the family Crambidae include a number of pests that cause economic losses to agricultural crops. Despite their economic importance, little is known about their genome architecture and chromosome evolution. Here, we characterized the chromosomes and repetitive DNA of the sugarcane borer Diatraea saccharalis using a combination of low-pass genome sequencing, bioinformatics, and cytogenetic methods, focusing on the sex chromosomes. Diploid chromosome numbers differed between the sexes, i.e., 2n = 33 in females and 2n = 34 in males. This difference was caused by the occurrence of a WZ1Z2 trivalent in female meiosis, indicating a multiple sex-chromosome system WZ1Z2/Z1Z1Z2Z2. A strong interstitial telomeric signal was observed on the W chromosome, indicating a fusion of the ancestral W chromosome with an autosome. Among repetitive DNAs, transposable elements (TEs) accounted for 39.18% (males) to 41.35% (females), while satDNAs accounted for only 0.214% (males) and 0.215% (females) of the genome. FISH mapping revealed different chromosomal organization of satDNAs, such as single localized clusters, spread repeats, and non-clustered repeats. Two TEs mapped by FISH were scattered. Although we found a slight enrichment of some satDNAs in the female genome, they were not differentially enriched on the W chromosome. However, we found enriched FISH signals for TEs on the W chromosome, suggesting their involvement in W chromosome degeneration and differentiation. These data shed light on karyotype and repetitive DNA dynamics due to multiple chromosome fusions in D. saccharalis, contribute to the understanding of genome structure in Lepidoptera and are important for future genomic studies. |
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A step forward in the genome characterization of the sugarcane borer, Diatraea saccharalis: karyotype analysis, sex chromosome system and repetitive DNAs through a cytogenomic approachChromosome fusionFISHHolocentric chromosomeMultiple sex chromosomessatDNAW chromatinMoths of the family Crambidae include a number of pests that cause economic losses to agricultural crops. Despite their economic importance, little is known about their genome architecture and chromosome evolution. Here, we characterized the chromosomes and repetitive DNA of the sugarcane borer Diatraea saccharalis using a combination of low-pass genome sequencing, bioinformatics, and cytogenetic methods, focusing on the sex chromosomes. Diploid chromosome numbers differed between the sexes, i.e., 2n = 33 in females and 2n = 34 in males. This difference was caused by the occurrence of a WZ1Z2 trivalent in female meiosis, indicating a multiple sex-chromosome system WZ1Z2/Z1Z1Z2Z2. A strong interstitial telomeric signal was observed on the W chromosome, indicating a fusion of the ancestral W chromosome with an autosome. Among repetitive DNAs, transposable elements (TEs) accounted for 39.18% (males) to 41.35% (females), while satDNAs accounted for only 0.214% (males) and 0.215% (females) of the genome. FISH mapping revealed different chromosomal organization of satDNAs, such as single localized clusters, spread repeats, and non-clustered repeats. Two TEs mapped by FISH were scattered. Although we found a slight enrichment of some satDNAs in the female genome, they were not differentially enriched on the W chromosome. However, we found enriched FISH signals for TEs on the W chromosome, suggesting their involvement in W chromosome degeneration and differentiation. These data shed light on karyotype and repetitive DNA dynamics due to multiple chromosome fusions in D. saccharalis, contribute to the understanding of genome structure in Lepidoptera and are important for future genomic studies.Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)Departamento de Biologia Geral e Aplicada Instituto de Biociências/IB UNESP - Universidade Estadual Paulista, SPDepartment of Entomology and Acarology Luiz de Queiroz College of Agriculture (USP/ESALQ) University of São Paulo, SPBiology Centre of the Czech Academy of Sciences Institute of EntomologyFaculty of Science University of South BohemiaDepartment of Experimental Biology Genetics Area University of Jaen, Paraje las Lagunillas s/nDepartamento de Biologia Geral e Aplicada Instituto de Biociências/IB UNESP - Universidade Estadual Paulista, SPFAPESP: 2019/19069-7CNPq: 308290/2020-8Universidade Estadual Paulista (UNESP)Universidade de São Paulo (USP)Institute of EntomologyUniversity of South BohemiaUniversity of JaenGasparotto, Ana E. [UNESP]Milani, Diogo [UNESP]Martí, Emiliano [UNESP]Ferretti, Ana Beatriz S. M. [UNESP]Bardella, Vanessa B. [UNESP]Hickmann, FredericoZrzavá, MagdaMarec, FrantišekCabral-de-Mello, Diogo C. [UNESP]2023-07-29T12:30:16Z2023-07-29T12:30:16Z2022-12-01info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/article253-267http://dx.doi.org/10.1007/s00412-022-00781-4Chromosoma, v. 131, n. 4, p. 253-267, 2022.1432-08860009-5915http://hdl.handle.net/11449/24604710.1007/s00412-022-00781-42-s2.0-85139611804Scopusreponame:Repositório Institucional da UNESPinstname:Universidade Estadual Paulista (UNESP)instacron:UNESPengChromosomainfo:eu-repo/semantics/openAccess2023-07-29T12:30:16Zoai:repositorio.unesp.br:11449/246047Repositório InstitucionalPUBhttp://repositorio.unesp.br/oai/requestopendoar:29462024-08-05T22:33:00.164799Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP)false |
dc.title.none.fl_str_mv |
A step forward in the genome characterization of the sugarcane borer, Diatraea saccharalis: karyotype analysis, sex chromosome system and repetitive DNAs through a cytogenomic approach |
title |
A step forward in the genome characterization of the sugarcane borer, Diatraea saccharalis: karyotype analysis, sex chromosome system and repetitive DNAs through a cytogenomic approach |
spellingShingle |
A step forward in the genome characterization of the sugarcane borer, Diatraea saccharalis: karyotype analysis, sex chromosome system and repetitive DNAs through a cytogenomic approach Gasparotto, Ana E. [UNESP] Chromosome fusion FISH Holocentric chromosome Multiple sex chromosomes satDNA W chromatin |
title_short |
A step forward in the genome characterization of the sugarcane borer, Diatraea saccharalis: karyotype analysis, sex chromosome system and repetitive DNAs through a cytogenomic approach |
title_full |
A step forward in the genome characterization of the sugarcane borer, Diatraea saccharalis: karyotype analysis, sex chromosome system and repetitive DNAs through a cytogenomic approach |
title_fullStr |
A step forward in the genome characterization of the sugarcane borer, Diatraea saccharalis: karyotype analysis, sex chromosome system and repetitive DNAs through a cytogenomic approach |
title_full_unstemmed |
A step forward in the genome characterization of the sugarcane borer, Diatraea saccharalis: karyotype analysis, sex chromosome system and repetitive DNAs through a cytogenomic approach |
title_sort |
A step forward in the genome characterization of the sugarcane borer, Diatraea saccharalis: karyotype analysis, sex chromosome system and repetitive DNAs through a cytogenomic approach |
author |
Gasparotto, Ana E. [UNESP] |
author_facet |
Gasparotto, Ana E. [UNESP] Milani, Diogo [UNESP] Martí, Emiliano [UNESP] Ferretti, Ana Beatriz S. M. [UNESP] Bardella, Vanessa B. [UNESP] Hickmann, Frederico Zrzavá, Magda Marec, František Cabral-de-Mello, Diogo C. [UNESP] |
author_role |
author |
author2 |
Milani, Diogo [UNESP] Martí, Emiliano [UNESP] Ferretti, Ana Beatriz S. M. [UNESP] Bardella, Vanessa B. [UNESP] Hickmann, Frederico Zrzavá, Magda Marec, František Cabral-de-Mello, Diogo C. [UNESP] |
author2_role |
author author author author author author author author |
dc.contributor.none.fl_str_mv |
Universidade Estadual Paulista (UNESP) Universidade de São Paulo (USP) Institute of Entomology University of South Bohemia University of Jaen |
dc.contributor.author.fl_str_mv |
Gasparotto, Ana E. [UNESP] Milani, Diogo [UNESP] Martí, Emiliano [UNESP] Ferretti, Ana Beatriz S. M. [UNESP] Bardella, Vanessa B. [UNESP] Hickmann, Frederico Zrzavá, Magda Marec, František Cabral-de-Mello, Diogo C. [UNESP] |
dc.subject.por.fl_str_mv |
Chromosome fusion FISH Holocentric chromosome Multiple sex chromosomes satDNA W chromatin |
topic |
Chromosome fusion FISH Holocentric chromosome Multiple sex chromosomes satDNA W chromatin |
description |
Moths of the family Crambidae include a number of pests that cause economic losses to agricultural crops. Despite their economic importance, little is known about their genome architecture and chromosome evolution. Here, we characterized the chromosomes and repetitive DNA of the sugarcane borer Diatraea saccharalis using a combination of low-pass genome sequencing, bioinformatics, and cytogenetic methods, focusing on the sex chromosomes. Diploid chromosome numbers differed between the sexes, i.e., 2n = 33 in females and 2n = 34 in males. This difference was caused by the occurrence of a WZ1Z2 trivalent in female meiosis, indicating a multiple sex-chromosome system WZ1Z2/Z1Z1Z2Z2. A strong interstitial telomeric signal was observed on the W chromosome, indicating a fusion of the ancestral W chromosome with an autosome. Among repetitive DNAs, transposable elements (TEs) accounted for 39.18% (males) to 41.35% (females), while satDNAs accounted for only 0.214% (males) and 0.215% (females) of the genome. FISH mapping revealed different chromosomal organization of satDNAs, such as single localized clusters, spread repeats, and non-clustered repeats. Two TEs mapped by FISH were scattered. Although we found a slight enrichment of some satDNAs in the female genome, they were not differentially enriched on the W chromosome. However, we found enriched FISH signals for TEs on the W chromosome, suggesting their involvement in W chromosome degeneration and differentiation. These data shed light on karyotype and repetitive DNA dynamics due to multiple chromosome fusions in D. saccharalis, contribute to the understanding of genome structure in Lepidoptera and are important for future genomic studies. |
publishDate |
2022 |
dc.date.none.fl_str_mv |
2022-12-01 2023-07-29T12:30:16Z 2023-07-29T12:30:16Z |
dc.type.status.fl_str_mv |
info:eu-repo/semantics/publishedVersion |
dc.type.driver.fl_str_mv |
info:eu-repo/semantics/article |
format |
article |
status_str |
publishedVersion |
dc.identifier.uri.fl_str_mv |
http://dx.doi.org/10.1007/s00412-022-00781-4 Chromosoma, v. 131, n. 4, p. 253-267, 2022. 1432-0886 0009-5915 http://hdl.handle.net/11449/246047 10.1007/s00412-022-00781-4 2-s2.0-85139611804 |
url |
http://dx.doi.org/10.1007/s00412-022-00781-4 http://hdl.handle.net/11449/246047 |
identifier_str_mv |
Chromosoma, v. 131, n. 4, p. 253-267, 2022. 1432-0886 0009-5915 10.1007/s00412-022-00781-4 2-s2.0-85139611804 |
dc.language.iso.fl_str_mv |
eng |
language |
eng |
dc.relation.none.fl_str_mv |
Chromosoma |
dc.rights.driver.fl_str_mv |
info:eu-repo/semantics/openAccess |
eu_rights_str_mv |
openAccess |
dc.format.none.fl_str_mv |
253-267 |
dc.source.none.fl_str_mv |
Scopus reponame:Repositório Institucional da UNESP instname:Universidade Estadual Paulista (UNESP) instacron:UNESP |
instname_str |
Universidade Estadual Paulista (UNESP) |
instacron_str |
UNESP |
institution |
UNESP |
reponame_str |
Repositório Institucional da UNESP |
collection |
Repositório Institucional da UNESP |
repository.name.fl_str_mv |
Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP) |
repository.mail.fl_str_mv |
|
_version_ |
1808129436229304320 |