Data Employed in the Construction of a Composite Protein Database for Proteogenomic Analyses of Cephalopods Salivary Apparatus
Here we provide all datasets and details applied in the construction of a composite protein database required for the proteogenomic analyses of the article “Putative Antimicrobial Peptides of the Posterior Salivary Glands from the Cephalopod <i>Octopus vulgaris</i> Revealed by Exploring...
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| Format: | Article |
| Language: | English |
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MDPI AG
2020-11-01
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| Series: | Data |
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| Online Access: | https://www.mdpi.com/2306-5729/5/4/110 |
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| author | Daniela Almeida Dany Domínguez-Pérez Ana Matos Guillermin Agüero-Chapin Yuselis Castaño Vitor Vasconcelos Alexandre Campos Agostinho Antunes |
| author_facet | Daniela Almeida Dany Domínguez-Pérez Ana Matos Guillermin Agüero-Chapin Yuselis Castaño Vitor Vasconcelos Alexandre Campos Agostinho Antunes |
| author_sort | Daniela Almeida |
| collection | DOAJ |
| description | Here we provide all datasets and details applied in the construction of a composite protein database required for the proteogenomic analyses of the article “Putative Antimicrobial Peptides of the Posterior Salivary Glands from the Cephalopod <i>Octopus vulgaris</i> Revealed by Exploring a Composite Protein Database”. All data, subdivided into six datasets, are deposited at the Mendeley Data repository as follows. Dataset_1 provides our composite database “All_Databases_5950827_sequences.fasta” derived from six smaller databases composed of <i>(i)</i> protein sequences retrieved from public databases related to cephalopods’ salivary glands, <i>(ii)</i> proteins identified with Proteome Discoverer software using our original data obtained by shotgun proteomic analyses of posterior salivary glands (PSGs) from three <i>Octopus vulgaris</i> specimens (provided as Dataset_2) and <i>(iii)</i> a non-redundant antimicrobial peptide (AMP) database. Dataset_3 includes the transcripts obtained by <i>de novo</i> assembly of 16 transcriptomes from cephalopods’ PSGs using CLC Genomics Workbench. Dataset_4 provides the proteins predicted by the TransDecoder tool from the <i>de novo</i> assembly of 16 transcriptomes of cephalopods’ PSGs. Further details about database construction, as well as the scripts and command lines used to construct them, are deposited within Dataset_5 and Dataset_6. The data provided in this article will assist in unravelling the role of cephalopods’ PSGs in feeding strategies, toxins and AMP production. |
| first_indexed | 2024-03-10T14:30:47Z |
| format | Article |
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| institution | Directory Open Access Journal |
| issn | 2306-5729 |
| language | English |
| last_indexed | 2024-03-10T14:30:47Z |
| publishDate | 2020-11-01 |
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| record_format | Article |
| series | Data |
| spelling | doaj.art-146c8b1ee0924511bd237c8bf289676b2023-11-20T22:36:55ZengMDPI AGData2306-57292020-11-015411010.3390/data5040110Data Employed in the Construction of a Composite Protein Database for Proteogenomic Analyses of Cephalopods Salivary ApparatusDaniela Almeida0Dany Domínguez-Pérez1Ana Matos2Guillermin Agüero-Chapin3Yuselis Castaño4Vitor Vasconcelos5Alexandre Campos6Agostinho Antunes7CIIMAR/CIMAR—Interdisciplinary Centre of Marine and Environmental Research, University of Porto, 4450-208 Porto, PortugalCIIMAR/CIMAR—Interdisciplinary Centre of Marine and Environmental Research, University of Porto, 4450-208 Porto, PortugalCIIMAR/CIMAR—Interdisciplinary Centre of Marine and Environmental Research, University of Porto, 4450-208 Porto, PortugalCIIMAR/CIMAR—Interdisciplinary Centre of Marine and Environmental Research, University of Porto, 4450-208 Porto, PortugalBioMark Sensor Research, Instituto Superior de Engenharia do Porto, 4200-072 Porto, PortugalCIIMAR/CIMAR—Interdisciplinary Centre of Marine and Environmental Research, University of Porto, 4450-208 Porto, PortugalCIIMAR/CIMAR—Interdisciplinary Centre of Marine and Environmental Research, University of Porto, 4450-208 Porto, PortugalCIIMAR/CIMAR—Interdisciplinary Centre of Marine and Environmental Research, University of Porto, 4450-208 Porto, PortugalHere we provide all datasets and details applied in the construction of a composite protein database required for the proteogenomic analyses of the article “Putative Antimicrobial Peptides of the Posterior Salivary Glands from the Cephalopod <i>Octopus vulgaris</i> Revealed by Exploring a Composite Protein Database”. All data, subdivided into six datasets, are deposited at the Mendeley Data repository as follows. Dataset_1 provides our composite database “All_Databases_5950827_sequences.fasta” derived from six smaller databases composed of <i>(i)</i> protein sequences retrieved from public databases related to cephalopods’ salivary glands, <i>(ii)</i> proteins identified with Proteome Discoverer software using our original data obtained by shotgun proteomic analyses of posterior salivary glands (PSGs) from three <i>Octopus vulgaris</i> specimens (provided as Dataset_2) and <i>(iii)</i> a non-redundant antimicrobial peptide (AMP) database. Dataset_3 includes the transcripts obtained by <i>de novo</i> assembly of 16 transcriptomes from cephalopods’ PSGs using CLC Genomics Workbench. Dataset_4 provides the proteins predicted by the TransDecoder tool from the <i>de novo</i> assembly of 16 transcriptomes of cephalopods’ PSGs. Further details about database construction, as well as the scripts and command lines used to construct them, are deposited within Dataset_5 and Dataset_6. The data provided in this article will assist in unravelling the role of cephalopods’ PSGs in feeding strategies, toxins and AMP production.https://www.mdpi.com/2306-5729/5/4/110<i>Octopus vulgaris</i>shotgun proteomicsQ-Exactivetranscriptome <i>de novo</i> assemblymass spectrometry-based proteomicsTransDecoder |
| spellingShingle | Daniela Almeida Dany Domínguez-Pérez Ana Matos Guillermin Agüero-Chapin Yuselis Castaño Vitor Vasconcelos Alexandre Campos Agostinho Antunes Data Employed in the Construction of a Composite Protein Database for Proteogenomic Analyses of Cephalopods Salivary Apparatus Data <i>Octopus vulgaris</i> shotgun proteomics Q-Exactive transcriptome <i>de novo</i> assembly mass spectrometry-based proteomics TransDecoder |
| title | Data Employed in the Construction of a Composite Protein Database for Proteogenomic Analyses of Cephalopods Salivary Apparatus |
| title_full | Data Employed in the Construction of a Composite Protein Database for Proteogenomic Analyses of Cephalopods Salivary Apparatus |
| title_fullStr | Data Employed in the Construction of a Composite Protein Database for Proteogenomic Analyses of Cephalopods Salivary Apparatus |
| title_full_unstemmed | Data Employed in the Construction of a Composite Protein Database for Proteogenomic Analyses of Cephalopods Salivary Apparatus |
| title_short | Data Employed in the Construction of a Composite Protein Database for Proteogenomic Analyses of Cephalopods Salivary Apparatus |
| title_sort | data employed in the construction of a composite protein database for proteogenomic analyses of cephalopods salivary apparatus |
| topic | <i>Octopus vulgaris</i> shotgun proteomics Q-Exactive transcriptome <i>de novo</i> assembly mass spectrometry-based proteomics TransDecoder |
| url | https://www.mdpi.com/2306-5729/5/4/110 |
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