Summary of Study ST000606
This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org, where it has been assigned Project ID PR000443. The data can be accessed directly via it's Project DOI: 10.21228/M8SP5T This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.
| Study ID | ST000606 |
| Study Title | Bioprospection of the aromatic potential of species from the Atlantic Rainforest in São Paulo: occurrence, taxonomy and chemical, genetic and physiological characterization of plant populations |
| Study Type | Chemcial profile of the volatiles from plants of the Atlantic Rainforest in São Paulo |
| Study Summary | Native plants were sampled from nine Atlantic rainforest locations in Brazil for botanical identification, herbarium mounts and chemical analyses. Plants were marked and the coordinate reference determined by Global Positioning System (GPS). Botanical names are as presented in the list of species of Brazilian flora (Lista de Espécies da Flora do Brasil, Jardim Botânico do Rio de Janeiro, 2015). Voucher specimens were deposited at the Herbarium of Instituto Agronômico de Campinas (IAC) (http://herbario.iac.sp.gov.br/), under the given accession numbers (Table 1). Marked plants were resampled in two subsequent years and those failing to be located or in poor condition were excluded from analyses. Environmental data were obtained from meteorological stations at the locations. Monthly values were used to calculate the average seasonal data. |
| Institute | Instituto Agronômico, IAC, São Paulo, Brazil |
| Department | Centro de Pesquisa e Desenvolvimento de Recursos Genéticos Vegetais |
| Laboratory | Laboratório de Produtos Naturais |
| Last Name | Ortiz Mayo Marques |
| First Name | Marcia |
| Address | Avenida Barão de Itapura, 1481, Botafogo, Campinas - SP, 13020-902, Brazil |
| mortiz@iac.sp.gov.br | |
| Phone | +55(19) 3202-1770 |
| Submit Date | 2017-05-14 |
| Num Groups | 4 |
| Total Subjects | 63 |
| Raw Data File Type(s) | d01 |
| Analysis Type Detail | GC-MS |
| Release Date | 2023-01-25 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR000443 |
| Project DOI: | doi: 10.21228/M8SP5T |
| Project Title: | Bioprospection of the aromatic potential of species from the Atlantic Rainforest in São Paulo: occurrence, taxonomy and chemical, genetic and physiological characterization of plant populations |
| Project Type: | Atlantic Rainforest Chemical Characterization |
| Project Summary: | Neotropical Atlantic Rainforest is a plant diversity rich biome and encompasses distinct vegetation formations depending on the environment. Essential oils (EOs) are part of the plants volatilome and consist of complex blends of hydrophobic metabolites. EOs are valuable for green chemistry applications. However, the interactions between the environment and plant processes controlling its chemical composition are poorly understood. The work aimed to provide a comprehensive characterization of the EOs from native species in distinct Atlantic Rainforest formations and access their antimicrobial potential. Aerial parts were harvested and dried for oil extraction by hydrodistillation, in two subsequent years. Chemical profiles were done by GC-MS and the metabolites identified by mass spectra and retention indices. Oil contents were determined by area normalization using GC–FID. Antimicrobial activity was investigated by in vitro growth inhibition. Computing and graphics were generated in R. The EO chemical profile was determined for plants from 50 species, in 15 botanical families, from nine Rainforest locations. Mono and sesquiterpenes were the most abundant chemical classes, followed by methyl ketones, phenylpropanoids and benzyl alcohols. Season and location were better discriminants for EO chemical profile than botanical family. Modules of co-regulated metabolites were identified and shown to correlate with environmental factors. Antimicrobial activity was widespread for the isolated EOs. Results provide a comprehensive metabolite profile of the EOs from the Atlantic Rainforest. Metabolite modules, correlated to environmental conditions, are conserved in complex plant populations. EOs are effective to inhibit pathogenic bacterial and fungal growth. |
| Institute: | Instituto Agronômico de Campinas, IAC, São Paulo, Brazil |
| Department: | Centro de Pesquisa e Desenvolvimento de Recursos Genéticos Vegetais |
| Laboratory: | Laboratório de Produtos Naturais |
| Last Name: | Ortiz Mayo Marques |
| First Name: | Márcia |
| Address: | Av Barão de Itapura, 1481, Botafogo, Campinas - SP, 13012-970, Brazil |
| Email: | mortiz@iac.sp.ogv |
| Phone: | +55(19) 3202-1770 |
Subject:
| Subject ID: | SU000629 |
| Subject Type: | Plants |
| Subject Species: | Mixed |
| Age Or Age Range: | Adult plants |
| Species Group: | Plant |
Factors:
Subject type: Plants; Subject species: Mixed (Factor headings shown in green)
| mb_sample_id | local_sample_id | Plant Species | Botanical Family | Location | Season |
|---|---|---|---|---|---|
| SA033438 | R1736/ IAC_47263 | Aiouea sp | Lauraceae | Pariquera-Açu | Winter |
| SA033439 | C004/ IAC_4614 | Aloysia virgata (Ruiz & Pav.) Juss. | Verbenaceae | Jundiai | Winter |
| SA033440 | R1746/ IAC_47273 | Aniba viridis Mez | Lauraceae | Pariquera-Açu | Winter |
| SA033441 | Lp51907/ IAC_47071 | Aniba viridis Mez | Lauraceae | Ubatuba | Autumn |
| SA033442 | Lp06101603/ IAC_47955 | Annona dioica A.St.-Hil. | Annonaceae | Votuporanga | Spring |
| SA033443 | R1755/ IAC_47282 | Baccharis dracunculifolia DC. | Asteraceae | Pariquera-Açu | Winter |
| SA033444 | R1773/ IAC_47522 | Baccharis dracunculifolia DC. | Asteraceae | Ribeirão Preto | Spring |
| SA033445 | R1745/IAC_47272 | Calyptranthes lanceolata O.Berg | Myrtaceae | Pariquera-Açu | Winter |
| SA033446 | Lp52009/ IAC_47080 | Calyptranthes lucida Mart. ex DC. | Myrtaceae | Ubatuba | Autumn |
| SA033447 | Lp6101822/ IAC_47988 | Campomanesia guavirota (DC.) Kiaersk. | Myrtaceae | Adamantina | Spring |
| SA033448 | R1643/ IAC_46842 | Casearia sylvestris Sw. | Salicaceae | Ubatuba | Summer |
| SA033449 | Lp52912/IAC_29030 | Croton celtidifolius Baill. | Euphorbiaceae | Monte Alegre do Sul | Autumn |
| SA033450 | R4167/ IAC_46976 | Croton floribundus Spreng. | Euphorbiaceae | Campinas | Autumn |
| SA033451 | R1768/ IAC_47517 | Croton urucurana Baill. | Euphorbiaceae | Mococa | Summer |
| SA033452 | R4165/ IAC_46974 | Croton warmingii Müll. Arg. | Euphorbiaceae | Campinas | Autumn |
| SA033453 | L4160/ IAC_46969 | Cupania vernalis Cambess. | Sapindaceae | Campinas | Autumn |
| SA033454 | C005/ IAC_47097 | Cyrtocymura scorpioides (Lam.) H. Rob. | Asteraceae | Jundiai | Winter |
| SA033455 | Lp6101818/ IAC_47975 | Dendropanax cuneatus (DC.) Decne. & Planch. | Araliaceae | Adamantina | Spring |
| SA033456 | C010/ IAC_47099 | Dendropanax cuneatus (DC.) Decne. & Planch. | Araliaceae | Jundiai | Winter |
| SA033457 | R1770/ IAC_47519 | Dendropanax cuneatus (DC.) Decne. & Planch. | Araliaceae | Mococa | Spring |
| SA033458 | R1622/ IAC_46801 | Endlicheria paniculata (Spreng.) J.F.Macbr. | Lauraceae | Campinas | Summer |
| SA033459 | Lp06091205/ IAC_44591 | Esenbeckia febrifuga (A.St.-Hil.) A.Juss. ex Mart | Rutaceae | Campinas | Spring |
| SA033460 | Lp06101816/ IAC_47973 | Eugenia moraviana O.Berg. | Myrtaceae | Adamantina | Spring |
| SA033461 | Lp6101714/ IAC_47971 | Eugenia myrcianthes Nied. | Myrtaceae | Votuporanga | Spring |
| SA033462 | R1626/ IAC_46825 | Eugenia neoverrucosa Sobral | Myrtaceae | Campinas | Summer |
| SA033463 | Lp51905/ IAC_47069 | Eugenia prasina O.Berg | Myrtaceae | Ubatuba | Autumn |
| SA033464 | C009/ IAC_34660 | Eugenia pyriformis Cambess. | Myrtaceae | Jundiai | Winter |
| SA033465 | R1598/ IAC_46831 | Guatteria australis A.St.-Hil. | Annonaceae | Ubatuba | Summer |
| SA033466 | Lp6101823/ IAC_47989 | Helietta apiculata Benth. | Rutaceae | Adamantina | Spring |
| SA033467 | Lp52006/IAC_47077 | Marlierea exocoriata Mart. | Myrtaceae | Ubatuba | Autumn |
| SA033468 | Lp06091204/ IAC_46826 | Metrodorea nigra A.St.-Hil. | Rutaceae | Campinas | Spring |
| SA033469 | L52008/ IAC_47079 | Monstera cf. adansonii Schott | Araceae | Ubatuba | Autumn |
| SA033470 | Lp051901/IAC_47045 | Myrcia spectabilis DC. | Myrtaceae | Ubatuba | Autumn |
| SA033471 | C007/ IAC_37365 | Myrcia splendens (Sw.) DC. | Myrtaceae | Jundiai | Winter |
| SA033472 | Lp06101817/IAC_47974 | Myrcia tomentosa (Aubl.) DC. | Myrtaceae | Adamantina | Spring |
| SA033473 | Lp6101820/ IAC_47986 | Nectandra megapotamica (Spreng.) Mez | Lauraceae | Adamantina | Spring |
| SA033474 | R1761/ IAC_47510 | Nectandra megapotamica (Spreng.) Mez | Lauraceae | Mococa | Spring |
| SA033475 | R1774/ IAC_47523 | Nectandra megapotamica (Spreng.) Mez | Lauraceae | Ribeirão Preto | Spring |
| SA033476 | Lp052902/IAC_47084 | Nectranda megapotamica (Spreng.) Mez | Lauraceae | Monte Alegre do Sul | Autumn |
| SA033477 | R1747/ IAC_47274 | Ocotea odorifera (Vell.) Rohwer | Lauraceae | Pariquera-Açu | Winter |
| SA033478 | Lp52911/IAC_47090 | Piper aduncum L. | Piperaceaea | Monte Alegre do Sul | Winter |
| SA033479 | Lp6101606/IAC_47958 | Piper aduncum L. | Piperaceaea | Votuporanga | Spring |
| SA033480 | Lp6101608/IAC_47960 | Piper aduncum L. | Piperaceaea | Votuporanga | Spring |
| SA033481 | Lp6101821/IAC_47987 | Piper amalago L. | Piperaceaea | Adamantina | Spring |
| SA033482 | Lp06091202/IAC_32056 | Piper amalago L. | Piperaceaea | Campinas | Spring |
| SA033483 | Lp06091206/IAC_46823 | Piper amalago L. | Piperaceaea | Campinas | Summer |
| SA033484 | R1763/IAC_47512 | Piper amalago L. | Piperaceaea | Mococa | Winter |
| SA033485 | R1740/IAC_7267 | Piper amplum Kunth. | Piperaceaea | Pariquera-Açu | Winter |
| SA033486 | R1741/IAC_7268 | Piper cernuum Vell. | Piperaceaea | Pariquera-Açu | Winter |
| SA033487 | L51904/ IAC_7068 | Piper cernuum Vell. | Piperaceaea | Ubatuba | Autumn |
| SA033488 | R1764/IAC_7513 | Piper crassinervium Kunth. | Piperaceaea | Mococa | Winter |
| SA033489 | R1738/IAC_7265 | Piper gaudichaudianum Kunth. | Piperaceaea | Pariquera-Açu | Winter |
| SA033490 | Lp052903/ IAC_7085 | Piper leptorum Kunth. | Piperaceaea | Monte Alegre do Sul | Autumn |
| SA033491 | L52007/ IAC_47078 | Piper rivinoides Kunth. | Piperaceaea | Ubatuba | Winter |
| SA033492 | R1633/ IAC_46832 | Piper solmsianum C.DC. | Piperaceaea | Ubatuba | Summer |
| SA033493 | R4169/IAC_46978 | Piper umbellatum (L.) | Piperaceaea | Campinas | Autumn |
| SA033494 | L52004/IAC_47075 | Piper xylosteoides (Kunth.) Steud. | Piperaceaea | Ubatuba | Autumn |
| SA033495 | R1772/IAC_47521 | Schinus terebinthifolius Raddi | Anacardiaceae | Ribeirão Preto | Spring |
| SA033496 | Lp6101709/IAC_47961 | Trichilia elegans A.Juss. | Meliaceae | Votuporanga | Spring |
| SA033497 | Lp52003/ IAC_49465 | Virola bicuhyba (Schott ex Spreng.) Warb. | Myristicaceae | Ubatuba | Autumn |
| SA033498 | Lp6101712/ IAC_47969 | Xylopia aromatica (Lam.) Mart. | Annonaceae | Votuporanga | Spring |
| SA033499 | R1739/ IAC_47266 | Xylopia brasiliensis Spreng. | Annonaceae | Pariquera-Açu | Winter |
| SA033500 | Lp6101710/ IAC_47962 | Zanthoxylum petiolare A.St.-Hil. & Tul. | Rutaceae | Votuporanga | Spring |
| Showing results 1 to 63 of 63 |
Collection:
| Collection ID: | CO000623 |
| Collection Summary: | Leaves were detached from woody stalks and air dried at room temperature, in the absence of direct light. EOs were extracted from 54 to 1870 g of dry material depending on availability, using a Clevenger-type apparatus until total recovery. Oils were transferred to hermetically closed vials, and stored at -20oC. Yield was is presented as oil weight (g) per plant material weight (g). Extractions were performed independently for each collection, and averaged for two collection years. |
| Collection Protocol Comments: | Plants failing to be located or in poor condition were excluded from analyses |
| Collection Method: | Aerial parts harvesting |
| Collection Location: | Rainforest locations in the state of São Paulo, Brazil (Adamantina, Campinas, Jundiai, Mococa, Monte Alegre do Sul, Pariquera-Açu, Ribeirão Preto, Ubatuba, Votuporanga) |
| Collection Frequency: | Once a season, every two years |
| Storage Conditions: | Detached leaves were air dried at room temperature, in the absence of light. Isolated essential oils were stored in hermetically closed vials at -20C. |
| Storage Vials: | Hermetically closed glass vials, kept at -20C |
Treatment:
| Treatment ID: | TR000643 |
| Treatment Summary: | Native plants were sampled from nine Atlantic rainforest locations in Brazil (Adamantina, Campinas, Jundiaí, Mococa, Monte Alegre do Sul, Pariquera-Açú, Ribeirão Preto, Ubatuba, Votuporanga) for botanical identification, herbarium mounts and chemical analyses. Plants were marked and the coordinate reference determined by Global Positioning System (GPS). Botanical names are as presented in the list of species of Brazilian flora (Lista de Espécies da Flora do Brasil, Jardim Botânico do Rio de Janeiro, 2015). Voucher specimens were deposited at the Herbarium of Instituto Agronômico de Campinas (IAC) (http://herbario.iac.sp.gov.br/), under the given accession numbers (Study Design tab). Marked plants were resampled in two subsequent years and those failing to be located or in poor condition were excluded from analyses. |
| Plant Growth Support: | Native soil |
| Plant Growth Location: | Nine Rainforest Locations in the state of São Paulo (Brazil) : Adamantina, Campinas, Jundiai, Mococa, Monte Alegre do Sul, Pariquera-Açu, Ribeirão Preto, Ubatuba, Votuporanga |
| Plant Plot Design: | Native plants were identified, marked and coordinate reference locations were determined by Global Positioning System (GPS). Marked plants were resampled, throughout the year, in two subsequent years. The individuals failing to be located or in poor condition were excluded from the analyses. |
| Plant Light Period: | Natural daylight conditions |
| Plant Humidity: | Natural humidity conditions |
| Plant Temp: | Natural temperature conditions |
| Plant Watering Regime: | Natural rainfall watering |
| Plant Nutritional Regime: | Natural soil nutrition |
| Plant Growth Stage: | Mature |
| Plant Metab Quench Method: | Air drying |
| Plant Harvest Method: | Cuttings from aerial parts |
Sample Preparation:
| Sampleprep ID: | SP000636 |
| Sampleprep Summary: | EOs were extracted from 54 to 1870 g of dry material depending on availability, using a Clevenger-type apparatus until total recovery. |
| Processing Method: | Detached leaves were air dried at room temperature in the absence of light |
| Extraction Method: | Hydrodistillation with Clevenger-type apparatus |
| Organ: | Aerial parts (leaves and petioles) |
Combined analysis:
| Analysis ID | AN000927 |
|---|---|
| Analysis type | MS |
| Chromatography type | GC |
| Chromatography system | Shimadzu GC-2010 |
| Column | fused silica capillary column OV - 5, dimensions 30m x 0.25mm x 0.25μm (Ohio Valley Specialty Chemical, Inc., USA) |
| MS Type | EI |
| MS instrument type | Single quadrupole |
| MS instrument name | Shimadzu QP-5000 |
| Ion Mode | POSITIVE |
| Units | % peak area |
Chromatography:
| Chromatography ID: | CH000662 |
| Chromatography Summary: | Targeted GC-MS and GC-FID. GC-MS using a Shimadzu QP-5000, equipped with fused silica capillary column OV - 5 (30m x 0.25mm x 0.25μm, Ohio Valley Specialty Chemical, Inc., USA), operating with electron impact (70 eV), Helium (1.0 mL/min.), injector at 220 °C, detector at 230 °C, split ratio 1/30 and the following temperature program: 60 0C- 240 0C, 3 0C/min. GC–FID at a Shimadzu GC-2010 equipped with fused silica capillary column OV - 5 (30m x 0.25mm x 0.25μm, Ohio Valley Specialty Chemical, Inc., USA), operating with electron impact (70 eV), Helium (1.0 mL/min.), injector at 220 °C, detector at 230 °C, split ratio 1/30 and the following temperature program: 60°C- 240 0C, 3 0C/min. |
| Instrument Name: | Shimadzu GC-2010 |
| Column Name: | fused silica capillary column OV - 5, dimensions 30m x 0.25mm x 0.25μm (Ohio Valley Specialty Chemical, Inc., USA) |
| Flow Rate: | 1.0 mL/min (Helium) |
| Injection Temperature: | 220 °C |
| Retention Index: | obtained from the injection of a mixture of n-alcanes (C9H20–C25H52, Sigma Aldrich, 99%) |
| Oven Temperature: | 60 °C- 240 °C, 3 0C/min |
| Chromatography Type: | GC |
MS:
| MS ID: | MS000824 |
| Analysis ID: | AN000927 |
| Instrument Name: | Shimadzu QP-5000 |
| Instrument Type: | Single quadrupole |
| MS Type: | EI |
| MS Comments: | EI/qradupole/Electron multiplier |
| Ion Mode: | POSITIVE |
| Fragmentation Method: | electron impact |
| Helium Flow: | 1.0 mL/min |
| Ionization: | EI |
| Ionization Energy: | 70 eV |
