De novo assembly and functional annotation of Citrus aurantifolia transcriptome from Candidatus Liberibacter asiaticus infected and non-infected trees
Mexican lime (Citrus aurantifolia) belongs to the Rutaceae family and nowadays is one of the major commercial citrus crops in different countries. In Mexico, Mexican lime production is impaired by Huanglongbing (HLB) disease associated to Candidatus Liberibacter asiaticus (CLas) bacteria. To date, t...
| Main Authors: | , , , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Elsevier
2020-04-01
|
| Series: | Data in Brief |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2352340920300925 |
| _version_ | 1818244490945626112 |
|---|---|
| author | Ángela Paulina Arce-Leal Rocío Bautista Edgar A. Rodríguez-Negrete Miguel Ángel Manzanilla-Ramírez José Joaquín Velázquez-Monreal Jesús Méndez-Lozano Eduardo R. Bejarano Araceli G. Castillo M. Gonzalo Claros Norma Elena Leyva-López |
| author_facet | Ángela Paulina Arce-Leal Rocío Bautista Edgar A. Rodríguez-Negrete Miguel Ángel Manzanilla-Ramírez José Joaquín Velázquez-Monreal Jesús Méndez-Lozano Eduardo R. Bejarano Araceli G. Castillo M. Gonzalo Claros Norma Elena Leyva-López |
| author_sort | Ángela Paulina Arce-Leal |
| collection | DOAJ |
| description | Mexican lime (Citrus aurantifolia) belongs to the Rutaceae family and nowadays is one of the major commercial citrus crops in different countries. In Mexico, Mexican lime production is impaired by Huanglongbing (HLB) disease associated to Candidatus Liberibacter asiaticus (CLas) bacteria. To date, transcriptomic studies of CLas-Citrus interaction, have been performed mainly in sweet citrus models at symptomatic (early) stage where pleiotropic responses could mask important, pathogen-driven host modulation as well as, host antibacterial responses. Additionally, well-assembled reference transcriptomes for acid limes including C. aurantifolia are not available. The development of improved transcriptomic resources for CLas-citrus pathosystem, including both asymptomatic (early) and symptomatic (late) stages, could accelerate the understanding of the disease. Here, we provide the first transcriptomic analysis from healthy and HLB-infected C. aurantifolia leaves at both asymptomatic and symptomatic stages, using a RNA-seq approach in the Illumina NexSeq500 platform. The construction of the assembled transcriptome was conducted using the predesigned workflow Transflow and a total of 41,522 tentative transcripts (TTs) obtained. These C. aurantifolia TTs were functionally annotated using TAIR10 and UniProtKB databases. All raw reads were deposited in the NCBI SRA with accession numbers SRR10353556, SRR10353558, SRR10353560 and SRR10353562. Overall, this dataset adds new transcriptomic valuable tools for future breeding programs, will allow the design of novel diagnostic molecular markers, and will be an essential tool for studying the HLB disease. Keywords: Citrus aurantifolia, Huanglongbing, Candidatus Liberibacter asiaticus, Infection early and late stages, RNA-Seq, Transcriptome assembly |
| first_indexed | 2024-12-12T14:17:51Z |
| format | Article |
| id | doaj.art-8649505f00fc4f8eab5a377da069a803 |
| institution | Directory Open Access Journal |
| issn | 2352-3409 |
| language | English |
| last_indexed | 2024-12-12T14:17:51Z |
| publishDate | 2020-04-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Data in Brief |
| spelling | doaj.art-8649505f00fc4f8eab5a377da069a8032022-12-22T00:21:51ZengElsevierData in Brief2352-34092020-04-0129De novo assembly and functional annotation of Citrus aurantifolia transcriptome from Candidatus Liberibacter asiaticus infected and non-infected treesÁngela Paulina Arce-Leal0Rocío Bautista1Edgar A. Rodríguez-Negrete2Miguel Ángel Manzanilla-Ramírez3José Joaquín Velázquez-Monreal4Jesús Méndez-Lozano5Eduardo R. Bejarano6Araceli G. Castillo7M. Gonzalo Claros8Norma Elena Leyva-López9Instituto Politécnico Nacional, CIIDIR-Unidad Sinaloa, Departamento de Biotecnología Agrícola, MexicoPlataforma Andaluza de Bioinformática, Universidad de Málaga, Malaga, SpainCONACyT, Instituto Politécnico Nacional, CIIDIR-Unidad Sinaloa, Departamento de Biotecnología Agrícola, MexicoCampo Experimental Tecomán-INIFAP, Carretera Colima-Manzanillo km. 35, Tecomán, Colima, MexicoCampo Experimental Tecomán-INIFAP, Carretera Colima-Manzanillo km. 35, Tecomán, Colima, MexicoInstituto Politécnico Nacional, CIIDIR-Unidad Sinaloa, Departamento de Biotecnología Agrícola, MexicoInstituto de Hortofruticultura Subtropical y Mediterránea La Mayora (IHSM-UMA-CSIC), Área de Genética, Facultad de Ciencias, Universidad de Málaga, Málaga, SpainInstituto de Hortofruticultura Subtropical y Mediterránea La Mayora (IHSM-UMA-CSIC), Área de Genética, Facultad de Ciencias, Universidad de Málaga, Málaga, SpainPlataforma Andaluza de Bioinformática, Universidad de Málaga, Malaga, Spain; Departamento de Biología Molecular y Bioquímica, Universidad de Málaga, Malaga, SpainInstituto Politécnico Nacional, CIIDIR-Unidad Sinaloa, Departamento de Biotecnología Agrícola, Mexico; Corresponding author.Mexican lime (Citrus aurantifolia) belongs to the Rutaceae family and nowadays is one of the major commercial citrus crops in different countries. In Mexico, Mexican lime production is impaired by Huanglongbing (HLB) disease associated to Candidatus Liberibacter asiaticus (CLas) bacteria. To date, transcriptomic studies of CLas-Citrus interaction, have been performed mainly in sweet citrus models at symptomatic (early) stage where pleiotropic responses could mask important, pathogen-driven host modulation as well as, host antibacterial responses. Additionally, well-assembled reference transcriptomes for acid limes including C. aurantifolia are not available. The development of improved transcriptomic resources for CLas-citrus pathosystem, including both asymptomatic (early) and symptomatic (late) stages, could accelerate the understanding of the disease. Here, we provide the first transcriptomic analysis from healthy and HLB-infected C. aurantifolia leaves at both asymptomatic and symptomatic stages, using a RNA-seq approach in the Illumina NexSeq500 platform. The construction of the assembled transcriptome was conducted using the predesigned workflow Transflow and a total of 41,522 tentative transcripts (TTs) obtained. These C. aurantifolia TTs were functionally annotated using TAIR10 and UniProtKB databases. All raw reads were deposited in the NCBI SRA with accession numbers SRR10353556, SRR10353558, SRR10353560 and SRR10353562. Overall, this dataset adds new transcriptomic valuable tools for future breeding programs, will allow the design of novel diagnostic molecular markers, and will be an essential tool for studying the HLB disease. Keywords: Citrus aurantifolia, Huanglongbing, Candidatus Liberibacter asiaticus, Infection early and late stages, RNA-Seq, Transcriptome assemblyhttp://www.sciencedirect.com/science/article/pii/S2352340920300925 |
| spellingShingle | Ángela Paulina Arce-Leal Rocío Bautista Edgar A. Rodríguez-Negrete Miguel Ángel Manzanilla-Ramírez José Joaquín Velázquez-Monreal Jesús Méndez-Lozano Eduardo R. Bejarano Araceli G. Castillo M. Gonzalo Claros Norma Elena Leyva-López De novo assembly and functional annotation of Citrus aurantifolia transcriptome from Candidatus Liberibacter asiaticus infected and non-infected trees Data in Brief |
| title | De novo assembly and functional annotation of Citrus aurantifolia transcriptome from Candidatus Liberibacter asiaticus infected and non-infected trees |
| title_full | De novo assembly and functional annotation of Citrus aurantifolia transcriptome from Candidatus Liberibacter asiaticus infected and non-infected trees |
| title_fullStr | De novo assembly and functional annotation of Citrus aurantifolia transcriptome from Candidatus Liberibacter asiaticus infected and non-infected trees |
| title_full_unstemmed | De novo assembly and functional annotation of Citrus aurantifolia transcriptome from Candidatus Liberibacter asiaticus infected and non-infected trees |
| title_short | De novo assembly and functional annotation of Citrus aurantifolia transcriptome from Candidatus Liberibacter asiaticus infected and non-infected trees |
| title_sort | de novo assembly and functional annotation of citrus aurantifolia transcriptome from candidatus liberibacter asiaticus infected and non infected trees |
| url | http://www.sciencedirect.com/science/article/pii/S2352340920300925 |
| work_keys_str_mv | AT angelapaulinaarceleal denovoassemblyandfunctionalannotationofcitrusaurantifoliatranscriptomefromcandidatusliberibacterasiaticusinfectedandnoninfectedtrees AT rociobautista denovoassemblyandfunctionalannotationofcitrusaurantifoliatranscriptomefromcandidatusliberibacterasiaticusinfectedandnoninfectedtrees AT edgararodrigueznegrete denovoassemblyandfunctionalannotationofcitrusaurantifoliatranscriptomefromcandidatusliberibacterasiaticusinfectedandnoninfectedtrees AT miguelangelmanzanillaramirez denovoassemblyandfunctionalannotationofcitrusaurantifoliatranscriptomefromcandidatusliberibacterasiaticusinfectedandnoninfectedtrees AT josejoaquinvelazquezmonreal denovoassemblyandfunctionalannotationofcitrusaurantifoliatranscriptomefromcandidatusliberibacterasiaticusinfectedandnoninfectedtrees AT jesusmendezlozano denovoassemblyandfunctionalannotationofcitrusaurantifoliatranscriptomefromcandidatusliberibacterasiaticusinfectedandnoninfectedtrees AT eduardorbejarano denovoassemblyandfunctionalannotationofcitrusaurantifoliatranscriptomefromcandidatusliberibacterasiaticusinfectedandnoninfectedtrees AT araceligcastillo denovoassemblyandfunctionalannotationofcitrusaurantifoliatranscriptomefromcandidatusliberibacterasiaticusinfectedandnoninfectedtrees AT mgonzaloclaros denovoassemblyandfunctionalannotationofcitrusaurantifoliatranscriptomefromcandidatusliberibacterasiaticusinfectedandnoninfectedtrees AT normaelenaleyvalopez denovoassemblyandfunctionalannotationofcitrusaurantifoliatranscriptomefromcandidatusliberibacterasiaticusinfectedandnoninfectedtrees |