Publicação
An apoplastic fluid extraction method for the characterization of grapevine leaves proteome and metabolome from a single sample
| Resumo: | The analysis of complex biological systems keeps challenging researchers. The main goal of systems biology is to decipher interactions within cells, by integrating datasets from large scale analytical approaches including transcriptomics, proteomics and metabolomics andmore specialized ‘OMICS’ such as epigenomics and lipidomics. Studying different cellular compartments allows a broader understanding of cell dynamics. Plant apoplast, the cellular compartment external to the plasma membrane including the cell wall, is particularly demanding to analyze. Despite our knowledge on apoplast involvement on several processes from cell growth to stress responses, its dynamics is still poorly known due to the lack of efficient extraction processes adequate to each plant system.Analyzing woody plants such as grapevine raises even more challenges. Grapevine is among the most important fruit crops worldwide and awider characterization of its apoplast is essential for a deeper understanding of its physiology and cellular mechanisms. Here, we describe, for the first time, a vacuum-infiltrationcentrifugationmethod that allows a simultaneous extraction of grapevine apoplastic proteins and metabolites from leaves on a single sample, compatible with high-throughput mass spectrometry analyses. The extracted apoplast from two grapevine cultivars, Vitis vinifera cv ‘Trincadeira’ and ‘Regent’, was directly used for proteomics and metabolomics analysis. The proteome was analyzed by nanoLC-MS/MS and more than 700 common proteinswere identified, with highly diverse biological functions. The metabolome profile through FT-ICR-MS allowed the identification of 514 unique putative compounds revealing a broad spectrum of molecular classes |
|---|---|
| Autores principais: | Figueiredo, J. |
| Outros Autores: | Cavaco, A.R.; Guerra-Guimarães, L.; Leclerq, C.; Renaut, J.; Cunha, J.; Eiras-Dias, J.; Cordeiro, C.; Matos, A.R.; Silva, M.S.; Figueiredo, A. |
| Assunto: | grapevine leaves proteome metabolome |
| Ano: | 2021 |
| País: | Portugal |
| Tipo de documento: | artigo |
| Tipo de acesso: | acesso aberto |
| Instituição associada: | Universidade de Lisboa |
| Idioma: | inglês |
| Origem: | Repositório da Universidade de Lisboa |
| _version_ | 1869346121910845440 |
|---|---|
| author | Figueiredo, J. |
| author2 | Cavaco, A.R. Guerra-Guimarães, L. Leclerq, C. Renaut, J. Cunha, J. Eiras-Dias, J. Cordeiro, C. Matos, A.R. Silva, M.S. Figueiredo, A. |
| author2_role | author author author author author author author author author author |
| author_facet | Figueiredo, J. Cavaco, A.R. Guerra-Guimarães, L. Leclerq, C. Renaut, J. Cunha, J. Eiras-Dias, J. Cordeiro, C. Matos, A.R. Silva, M.S. Figueiredo, A. |
| author_role | author |
| contributor_name_str_mv | Repositório Científico de Acesso Aberto da ULisboa |
| country_str | PT |
| creators_json_txt | [{\"Person.name\":\"Figueiredo, J.\"},{\"Person.name\":\"Cavaco, A.R.\"},{\"Person.name\":\"Guerra-Guimarães, L.\",\"Person.identifier.orcid\":\"0000-0002-9676-1036\"},{\"Person.name\":\"Leclerq, C.\"},{\"Person.name\":\"Renaut, J.\"},{\"Person.name\":\"Cunha, J.\"},{\"Person.name\":\"Eiras-Dias, J.\"},{\"Person.name\":\"Cordeiro, C.\"},{\"Person.name\":\"Matos, A.R.\"},{\"Person.name\":\"Silva, M.S.\"},{\"Person.name\":\"Figueiredo, A.\"}] |
| datacite.contributors.contributor.contributorName.fl_str_mv | Repositório Científico de Acesso Aberto da ULisboa |
| datacite.creators.creator.creatorName.fl_str_mv | Figueiredo, J. Cavaco, A.R. Guerra-Guimarães, L. Leclerq, C. Renaut, J. Cunha, J. Eiras-Dias, J. Cordeiro, C. Matos, A.R. Silva, M.S. Figueiredo, A. |
| datacite.date.Accepted.fl_str_mv | 2021-01-01T00:00:00Z |
| datacite.date.available.fl_str_mv | 2022-01-28T11:12:58Z |
| datacite.date.embargoed.fl_str_mv | 2022-01-28T11:12:58Z |
| datacite.rights.fl_str_mv | http://purl.org/coar/access_right/c_abf2 |
| datacite.subjects.subject.fl_str_mv | grapevine leaves proteome metabolome |
| datacite.titles.title.fl_str_mv | An apoplastic fluid extraction method for the characterization of grapevine leaves proteome and metabolome from a single sample |
| dc.contributor.none.fl_str_mv | Repositório Científico de Acesso Aberto da ULisboa |
| dc.creator.none.fl_str_mv | Figueiredo, J. Cavaco, A.R. Guerra-Guimarães, L. Leclerq, C. Renaut, J. Cunha, J. Eiras-Dias, J. Cordeiro, C. Matos, A.R. Silva, M.S. Figueiredo, A. |
| dc.date.Accepted.fl_str_mv | 2021-01-01T00:00:00Z |
| dc.date.available.fl_str_mv | 2022-01-28T11:12:58Z |
| dc.date.embargoed.fl_str_mv | 2022-01-28T11:12:58Z |
| dc.format.none.fl_str_mv | application/pdf |
| dc.identifier.none.fl_str_mv | http://hdl.handle.net/10400.5/23295 |
| dc.language.none.fl_str_mv | eng |
| dc.publisher.none.fl_str_mv | Scandinavian Plant Physiology Society |
| dc.rights.cclincense.fl_str_mv | http://creativecommons.org/licenses/by/4.0/ |
| dc.rights.none.fl_str_mv | http://purl.org/coar/access_right/c_abf2 |
| dc.subject.none.fl_str_mv | grapevine leaves proteome metabolome |
| dc.title.fl_str_mv | An apoplastic fluid extraction method for the characterization of grapevine leaves proteome and metabolome from a single sample |
| dc.type.none.fl_str_mv | http://purl.org/coar/resource_type/c_6501 |
| description | The analysis of complex biological systems keeps challenging researchers. The main goal of systems biology is to decipher interactions within cells, by integrating datasets from large scale analytical approaches including transcriptomics, proteomics and metabolomics andmore specialized ‘OMICS’ such as epigenomics and lipidomics. Studying different cellular compartments allows a broader understanding of cell dynamics. Plant apoplast, the cellular compartment external to the plasma membrane including the cell wall, is particularly demanding to analyze. Despite our knowledge on apoplast involvement on several processes from cell growth to stress responses, its dynamics is still poorly known due to the lack of efficient extraction processes adequate to each plant system.Analyzing woody plants such as grapevine raises even more challenges. Grapevine is among the most important fruit crops worldwide and awider characterization of its apoplast is essential for a deeper understanding of its physiology and cellular mechanisms. Here, we describe, for the first time, a vacuum-infiltrationcentrifugationmethod that allows a simultaneous extraction of grapevine apoplastic proteins and metabolites from leaves on a single sample, compatible with high-throughput mass spectrometry analyses. The extracted apoplast from two grapevine cultivars, Vitis vinifera cv ‘Trincadeira’ and ‘Regent’, was directly used for proteomics and metabolomics analysis. The proteome was analyzed by nanoLC-MS/MS and more than 700 common proteinswere identified, with highly diverse biological functions. The metabolome profile through FT-ICR-MS allowed the identification of 514 unique putative compounds revealing a broad spectrum of molecular classes |
| dirty | 0 |
| eu_rights_str_mv | openAccess |
| format | article |
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| funding.funder.alternateName_str_mv | FCT FCT FCT |
| funding.funder.identifier_str_mv | http://doi.org/10.13039/501100001871 http://doi.org/10.13039/501100001871 http://doi.org/10.13039/501100001871 |
| funding.funder.name_str_mv | Fundação para a Ciência e a Tecnologia Fundação para a Ciência e a Tecnologia Fundação para a Ciência e a Tecnologia |
| funding.identifier_str_mv | UIDB/04046/2020 UIDP/04046/2020 UID/AGR/04129/2019 |
| funding.name_str_mv | 6817 - DCRRNI ID 6817 - DCRRNI ID 6817 - DCRRNI ID |
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| identifier.url.fl_str_mv | http://hdl.handle.net/10400.5/23295 |
| inst_facet_str | urn:organizationAcronym:ul{{{_:::_}}}Universidade de Lisboa |
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| institution | Universidade de Lisboa |
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| language | eng |
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| network_name_str | Repositório da Universidade de Lisboa |
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| organization_str_mv | urn:organizationAcronym:ul |
| person_str_mv | Figueiredo, J. Cavaco, A.R. Guerra-Guimarães, L. Guerra-Guimarães, L. https://www.ciencia-id.pt/481A-FEE5-FC0A 481A-FEE5-FC0A http://orcid.org/0000-0002-9676-1036 0000-0002-9676-1036 Leclerq, C. Renaut, J. Cunha, J. Eiras-Dias, J. Cordeiro, C. Matos, A.R. Silva, M.S. Figueiredo, A. |
| publishDate | 2021 |
| publisher.none.fl_str_mv | Scandinavian Plant Physiology Society |
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| spelling | engScandinavian Plant Physiology Societypt_PTThe analysis of complex biological systems keeps challenging researchers. The main goal of systems biology is to decipher interactions within cells, by integrating datasets from large scale analytical approaches including transcriptomics, proteomics and metabolomics andmore specialized ‘OMICS’ such as epigenomics and lipidomics. Studying different cellular compartments allows a broader understanding of cell dynamics. Plant apoplast, the cellular compartment external to the plasma membrane including the cell wall, is particularly demanding to analyze. Despite our knowledge on apoplast involvement on several processes from cell growth to stress responses, its dynamics is still poorly known due to the lack of efficient extraction processes adequate to each plant system.Analyzing woody plants such as grapevine raises even more challenges. Grapevine is among the most important fruit crops worldwide and awider characterization of its apoplast is essential for a deeper understanding of its physiology and cellular mechanisms. Here, we describe, for the first time, a vacuum-infiltrationcentrifugationmethod that allows a simultaneous extraction of grapevine apoplastic proteins and metabolites from leaves on a single sample, compatible with high-throughput mass spectrometry analyses. The extracted apoplast from two grapevine cultivars, Vitis vinifera cv ‘Trincadeira’ and ‘Regent’, was directly used for proteomics and metabolomics analysis. The proteome was analyzed by nanoLC-MS/MS and more than 700 common proteinswere identified, with highly diverse biological functions. The metabolome profile through FT-ICR-MS allowed the identification of 514 unique putative compounds revealing a broad spectrum of molecular classesapplication/pdfpt_PTAn apoplastic fluid extraction method for the characterization of grapevine leaves proteome and metabolome from a single sampleFigueiredo, J.Cavaco, A.R.PersonalGuerra-Guimarães, L.DSpacehttp://dspace.org/items/59fe8b32-43ad-435a-ad69-90f4ed6e5a46DSpacehttp://dspace.org/items/59fe8b32-43ad-435a-ad69-90f4ed6e5a46Guerra-GuimarãesLeonorCiência IDhttps://www.ciencia-id.pt481A-FEE5-FC0AORCIDhttp://orcid.org0000-0002-9676-1036Researcher IDhttps://www.researcherid.comHTQ-8343-2023Scopus Author IDhttps://www.scopus.com6506667079Leclerq, C.Renaut, J.Cunha, J.Eiras-Dias, J.Cordeiro, C.Matos, A.R.Silva, M.S.Figueiredo, A.HostingInstitutionOrganizationalRepositório Científico de Acesso Aberto da ULisboae-mailmailto:repositorio@ulisboa.ptrepositorio@ulisboa.ptISSNIsPartOf0031-9317DOIIsPartOf10.1111/ppl.131982022-01-28T11:12:58Z20212021-01-01T00:00:00ZHandlehttp://hdl.handle.net/10400.5/23295http://purl.org/coar/access_right/c_abf2open accessgrapevine leavesproteomemetabolome13233794 bytesFundação para a Ciência e a TecnologiaBiosystems and Integrative Sciences Instituteinfo:eu-repo/grantAgreement/FCT/6817 - DCRRNI ID/UIDB%2F04046%2F2020/PTUIDB/04046/20206817 - DCRRNI IDCrossref Funder IDhttp://doi.org/10.13039/501100001871Fundação para a Ciência e a TecnologiaBiosystems and Integrative Sciences Instituteinfo:eu-repo/grantAgreement/FCT/6817 - DCRRNI ID/UIDP%2F04046%2F2020/PTUIDP/04046/20206817 - DCRRNI IDCrossref Funder IDhttp://doi.org/10.13039/501100001871Fundação para a Ciência e a TecnologiaLinking Landscape, Environment, Agriculture and Foodinfo:eu-repo/grantAgreement/FCT/6817 - DCRRNI ID/UID%2FAGR%2F04129%2F2019/PTUID/AGR/04129/20196817 - DCRRNI IDCrossref Funder IDhttp://doi.org/10.13039/501100001871literaturehttp://purl.org/coar/resource_type/c_6501journal article2021http://creativecommons.org/licenses/by/4.0/http://purl.org/coar/access_right/c_abf2application/pdffulltexthttps://repositorio.ulisboa.pt/bitstreams/70be0e96-2e64-46a6-b5d3-91a189eff8f6/downloadPhysiologia Plantarum |
| spellingShingle | An apoplastic fluid extraction method for the characterization of grapevine leaves proteome and metabolome from a single sample Figueiredo, J. grapevine leaves proteome metabolome |
| status | SINGLETON |
| subject.fl_str_mv | grapevine leaves proteome metabolome |
| title | An apoplastic fluid extraction method for the characterization of grapevine leaves proteome and metabolome from a single sample |
| title_full | An apoplastic fluid extraction method for the characterization of grapevine leaves proteome and metabolome from a single sample |
| title_fullStr | An apoplastic fluid extraction method for the characterization of grapevine leaves proteome and metabolome from a single sample |
| title_full_unstemmed | An apoplastic fluid extraction method for the characterization of grapevine leaves proteome and metabolome from a single sample |
| title_short | An apoplastic fluid extraction method for the characterization of grapevine leaves proteome and metabolome from a single sample |
| title_sort | An apoplastic fluid extraction method for the characterization of grapevine leaves proteome and metabolome from a single sample |
| topic | grapevine leaves proteome metabolome |
| topic_facet | grapevine leaves proteome metabolome |
| url | http://hdl.handle.net/10400.5/23295 |
| visible | 1 |
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