1
|
Walsh C, Vanderburgh C, Grant L, Katz E, Kliebenstein DJ, Fierer N. Microbial terroir: associations between soil microbiomes and the flavor chemistry of mustard (Brassica juncea). THE NEW PHYTOLOGIST 2024; 243:1951-1965. [PMID: 38553428 DOI: 10.1111/nph.19708] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/16/2023] [Accepted: 03/05/2024] [Indexed: 08/02/2024]
Abstract
Here, we characterized the independent role of soil microbiomes (bacterial and fungal communities) in determining the flavor chemistry of harvested mustard seed (Brassica juncea). Given the known impacts of soil microbial communities on various plant characteristics, we hypothesized that differences in rhizosphere microbiomes would result in differences in seed flavor chemistry (glucosinolate content). In a glasshouse study, we introduced distinct soil microbial communities to mustard plants growing in an otherwise consistent environment. At the end of the plant life cycle, we characterized the rhizosphere and root microbiomes and harvested produced mustard seeds for chemical characterization. Specifically, we measured the concentrations of glucosinolates, secondary metabolites known to create spicy and bitter flavors. We examined associations between rhizosphere microbial taxa or genes and seed flavor chemistry. We identified links between the rhizosphere microbial community composition and the concentration of the main glucosinolate, allyl, in seeds. We further identified specific rhizosphere taxa predictive of seed allyl concentration and identified bacterial functional genes, namely genes for sulfur metabolism, which could partly explain the observed associations. Together, this work offers insight into the potential influence of the belowground microbiome on the flavor of harvested crops.
Collapse
Affiliation(s)
- Corinne Walsh
- Cooperative Institute for Research in Environmental Sciences, University of Colorado Boulder, Boulder, CO, 80309, USA
- Department of Ecology and Evolutionary Biology, University of Colorado Boulder, Boulder, CO, 80309, USA
| | - Caihong Vanderburgh
- Cooperative Institute for Research in Environmental Sciences, University of Colorado Boulder, Boulder, CO, 80309, USA
| | - Lady Grant
- Department of Soil and Crop Sciences, Colorado State University, Fort Collins, CO, 80523, USA
| | - Ella Katz
- Department of Plant Sciences, University of California Davis, Davis, CA, 95616, USA
| | | | - Noah Fierer
- Cooperative Institute for Research in Environmental Sciences, University of Colorado Boulder, Boulder, CO, 80309, USA
- Department of Ecology and Evolutionary Biology, University of Colorado Boulder, Boulder, CO, 80309, USA
| |
Collapse
|
2
|
Besze BZ, Borsodi AK, Megyes M, Zsigmond T, Horel Á. Changes in the taxonomic composition of soil bacterial communities under different inter-row tillage managements in a sloping vineyard of the Balaton Uplands (Hungary). Biol Futur 2024:10.1007/s42977-024-00234-2. [PMID: 39073547 DOI: 10.1007/s42977-024-00234-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2024] [Accepted: 07/14/2024] [Indexed: 07/30/2024]
Abstract
The common grape (Vitis vinifera L.) has been cultivated for thousands of years. Nowadays, it is cultivated using a variety of tillage practices that affect the structure of the soil microbial communities and thus the health of the vine. The aim of this study was to explore and compare the effects of tillage (shallow tillage with bare soil) and no-tillage (perennial grass cover) practices on soil physical and chemical properties and soil bacterial community diversities in a small catchment. Soil samples were taken in July and October 2020 at different slope positions of two vineyards exposed to erosion. The two sampling sites were separated by the agricultural inter-row management type: tilled and no-tilled slopes. The taxonomic diversity of bacterial communities was determined using 16S rRNA gene-based amplicon sequencing method on Illumina MiSeq platform. Based on the examined soil properties, the sampling areas were separated from each other according to the positions of the upper and lower slopes and the sampling times. Both the tilled and no-tilled soil samples were dominated by sequences assigned to phyla Pseudomonadota, Acidobacteriota, Bacteroidota, Verrucomicrobiota, Actinobacteriota, and Gemmatimonadota. The results showed that tillage had no significant effect compared to the no-tilled samples in the studied area. Water runoff and seasonally changed soil physical and chemical properties affected mainly the bacterial community structures.
Collapse
Affiliation(s)
- Balázs Zoltán Besze
- Department of Microbiology, Institute of Biology, ELTE Eötvös Loránd University, Pázmány Péter Sétány 1/C, Budapest, 1117, Hungary
| | - Andrea K Borsodi
- Department of Microbiology, Institute of Biology, ELTE Eötvös Loránd University, Pázmány Péter Sétány 1/C, Budapest, 1117, Hungary.
| | - Melinda Megyes
- Department of Microbiology, Institute of Biology, ELTE Eötvös Loránd University, Pázmány Péter Sétány 1/C, Budapest, 1117, Hungary
- Doctoral School of Environmental Sciences, ELTE Eötvös Loránd University, Egyetem tér 1-3, Budapest, 1053, Hungary
| | - Tibor Zsigmond
- Institute for Soil Sciences, HUN-REN Centre for Agricultural Research, Ruszti ut 2-4, Budapest, 1022, Hungary
- Doctoral School of Environmental Sciences, ELTE Eötvös Loránd University, Egyetem tér 1-3, Budapest, 1053, Hungary
| | - Ágota Horel
- Institute for Soil Sciences, HUN-REN Centre for Agricultural Research, Ruszti ut 2-4, Budapest, 1022, Hungary
| |
Collapse
|
3
|
Borsodi AK, Megyes M, Zsigmond T, Horel Á. Soil bacterial communities affected by land-use types in a small catchment area of the Balaton Uplands (Hungary). Biol Futur 2024:10.1007/s42977-024-00233-3. [PMID: 39066977 DOI: 10.1007/s42977-024-00233-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2024] [Accepted: 07/14/2024] [Indexed: 07/30/2024]
Abstract
Changes resulting from different tillage practices can affect the structure of microbial communities, thereby altering soil ecosystems and their functioning. The aim of this study was to explore and compare the physical, chemical properties and bacterial community composition of soils from different land use types (forest, grassland, vineyard, and arable field) in a small catchment. 16S rRNA gene-based amplicon sequencing was used to reveal the taxonomic diversity of summer and autumn soil samples taken from two different slope positions. The greater the anthropogenic impact was on the type of land use, the greater the change was in soil physical and chemical parameters. All sample types were dominated by the phyla Pseudomonadota, Acidobacteriota, Actinobacteriota, Bacteroidota and Verrucomicrobiota. Differences in the relative abundance of various bacterial taxa reflected the different land use types, the seasonality, and the topography. These diversity changes were consistent with the differences in soil properties.
Collapse
Affiliation(s)
- Andrea K Borsodi
- Department of Microbiology, Institute of Biology, ELTE Eötvös Loránd University, Pázmány Péter sétány 1/C, Budapest, 1117, Hungary.
- HUN-REN Centre for Ecological Research, Institute of Aquatic Ecology, Karolina út 29, Budapest, 1113, Hungary.
| | - Melinda Megyes
- Department of Microbiology, Institute of Biology, ELTE Eötvös Loránd University, Pázmány Péter sétány 1/C, Budapest, 1117, Hungary
- Doctoral School of Environmental Sciences, ELTE Eötvös Loránd University, Egyetem tér 1-3, Budapest, 1053, Hungary
| | - Tibor Zsigmond
- HUN-REN Centre for Agricultural Research, Institute for Soil Sciences, Ruszti út 2-4, Budapest, 1022, Hungary
- Doctoral School of Environmental Sciences, ELTE Eötvös Loránd University, Egyetem tér 1-3, Budapest, 1053, Hungary
- HUN-REN Centre for Agricultural Research, National Laboratory for Water Science and Water Security, Institute for Soil Sciences, Ruszti út 2-4, Budapest, 1022, Hungary
| | - Ágota Horel
- HUN-REN Centre for Agricultural Research, Institute for Soil Sciences, Ruszti út 2-4, Budapest, 1022, Hungary
- HUN-REN Centre for Agricultural Research, National Laboratory for Water Science and Water Security, Institute for Soil Sciences, Ruszti út 2-4, Budapest, 1022, Hungary
| |
Collapse
|
4
|
Daccak D, Lidon FC, Coelho ARF, Luís IC, Marques AC, Pessoa CC, Brito MDG, Kullberg JC, Ramalho JC, Silva MJ, Rodrigues AP, Campos PS, Pais IP, Semedo JN, Silva MM, Legoinha P, Galhano C, Simões M, Pessoa MF, Reboredo FH. Assessment of Physicochemical Parameters in Two Winegrapes Varieties after Foliar Application of ZnSO 4 and ZnO. PLANTS (BASEL, SWITZERLAND) 2023; 12:1426. [PMID: 37050051 PMCID: PMC10097101 DOI: 10.3390/plants12071426] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/07/2023] [Revised: 03/17/2023] [Accepted: 03/21/2023] [Indexed: 06/19/2023]
Abstract
One-third of the world's population is suffering from "hidden hunger" due to micronutrient deficiency. Zinc is acquired through diet, leading its deficiency to the development of disorders such as retarded growth, anorexia, infections, and hypogeusia. Accordingly, this study aimed to develop an agronomic workflow for Zn biofortification on two red winegrapes varieties (cv. Castelão and Syrah) and determine the physicochemical implications for winemaking. Both varieties produced in Setúbal (Portugal) were submitted to four foliar applications of ZnSO4 or ZnO (900 and 1350 g ha-1, respectively), during the production cycle. At harvest, Zn biofortification reached a 4.3- and 2.3-fold increase with ZnO 1350 g ha-1 in Castelão and Syrah, respectively (although, with ZnSO4 1350 g ha-1 both varieties revealed an increase in Zn concentration). On a physiological basis, lower values of NDVI were found in the biofortified grapes, although not reflected in photosynthetic parameters with cv. Syrah shows even a potential benefit with the use of Zn fertilizers. Regarding physical and chemical parameters (density, total soluble solids, dry weight, and color), relative to the control no significant changes in both varieties were observed, being suitable for winemaking. It was concluded that ZnSO4 and ZnO foliar fertilization efficiently increased Zn concentration on both varieties without a negative impact on quality, but cv. Castelão showed a better index of Zn biofortification and pointed to a potentially higher quality for winemaking.
Collapse
Affiliation(s)
- Diana Daccak
- Departamento de Ciências da Terra, Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (F.C.L.); (A.R.F.C.); (I.C.L.); (A.C.M.); (C.C.P.); (M.d.G.B.); (J.C.K.); (M.M.S.); (P.L.); (C.G.); (M.S.); (M.F.P.); (F.H.R.)
- Centro de Investigação de Geobiociências, Geoengenharias e Geotecnologias (GeoBioTec), Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (J.C.R.); (M.J.S.); (P.S.C.); (I.P.P.); (J.N.S.)
| | - Fernando C. Lidon
- Departamento de Ciências da Terra, Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (F.C.L.); (A.R.F.C.); (I.C.L.); (A.C.M.); (C.C.P.); (M.d.G.B.); (J.C.K.); (M.M.S.); (P.L.); (C.G.); (M.S.); (M.F.P.); (F.H.R.)
- Centro de Investigação de Geobiociências, Geoengenharias e Geotecnologias (GeoBioTec), Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (J.C.R.); (M.J.S.); (P.S.C.); (I.P.P.); (J.N.S.)
| | - Ana Rita F. Coelho
- Departamento de Ciências da Terra, Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (F.C.L.); (A.R.F.C.); (I.C.L.); (A.C.M.); (C.C.P.); (M.d.G.B.); (J.C.K.); (M.M.S.); (P.L.); (C.G.); (M.S.); (M.F.P.); (F.H.R.)
- Centro de Investigação de Geobiociências, Geoengenharias e Geotecnologias (GeoBioTec), Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (J.C.R.); (M.J.S.); (P.S.C.); (I.P.P.); (J.N.S.)
| | - Inês Carmo Luís
- Departamento de Ciências da Terra, Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (F.C.L.); (A.R.F.C.); (I.C.L.); (A.C.M.); (C.C.P.); (M.d.G.B.); (J.C.K.); (M.M.S.); (P.L.); (C.G.); (M.S.); (M.F.P.); (F.H.R.)
- Centro de Investigação de Geobiociências, Geoengenharias e Geotecnologias (GeoBioTec), Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (J.C.R.); (M.J.S.); (P.S.C.); (I.P.P.); (J.N.S.)
| | - Ana Coelho Marques
- Departamento de Ciências da Terra, Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (F.C.L.); (A.R.F.C.); (I.C.L.); (A.C.M.); (C.C.P.); (M.d.G.B.); (J.C.K.); (M.M.S.); (P.L.); (C.G.); (M.S.); (M.F.P.); (F.H.R.)
- Centro de Investigação de Geobiociências, Geoengenharias e Geotecnologias (GeoBioTec), Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (J.C.R.); (M.J.S.); (P.S.C.); (I.P.P.); (J.N.S.)
| | - Cláudia Campos Pessoa
- Departamento de Ciências da Terra, Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (F.C.L.); (A.R.F.C.); (I.C.L.); (A.C.M.); (C.C.P.); (M.d.G.B.); (J.C.K.); (M.M.S.); (P.L.); (C.G.); (M.S.); (M.F.P.); (F.H.R.)
- Centro de Investigação de Geobiociências, Geoengenharias e Geotecnologias (GeoBioTec), Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (J.C.R.); (M.J.S.); (P.S.C.); (I.P.P.); (J.N.S.)
| | - Maria da Graça Brito
- Departamento de Ciências da Terra, Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (F.C.L.); (A.R.F.C.); (I.C.L.); (A.C.M.); (C.C.P.); (M.d.G.B.); (J.C.K.); (M.M.S.); (P.L.); (C.G.); (M.S.); (M.F.P.); (F.H.R.)
- Centro de Investigação de Geobiociências, Geoengenharias e Geotecnologias (GeoBioTec), Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (J.C.R.); (M.J.S.); (P.S.C.); (I.P.P.); (J.N.S.)
| | - José Carlos Kullberg
- Departamento de Ciências da Terra, Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (F.C.L.); (A.R.F.C.); (I.C.L.); (A.C.M.); (C.C.P.); (M.d.G.B.); (J.C.K.); (M.M.S.); (P.L.); (C.G.); (M.S.); (M.F.P.); (F.H.R.)
- Centro de Investigação de Geobiociências, Geoengenharias e Geotecnologias (GeoBioTec), Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (J.C.R.); (M.J.S.); (P.S.C.); (I.P.P.); (J.N.S.)
| | - José C. Ramalho
- Centro de Investigação de Geobiociências, Geoengenharias e Geotecnologias (GeoBioTec), Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (J.C.R.); (M.J.S.); (P.S.C.); (I.P.P.); (J.N.S.)
- Plant Stress & Biodiversity Lab, Centro de Estudos Florestais (CEF), Laboratório Associado TERRA, Instituto Superior Agronomia (ISA), Universidade de Lisboa (ULisboa), Quinta do Marquês, Avenida da República, 2784-505 Oeiras, Portugal;
- Plant Stress & Biodiversity Lab, Centro de Estudos Florestais (CEF), Laboratório Associado TERRA, Instituto Superior Agronomia (ISA), Universidade de Lisboa (ULisboa), Tapada da Ajuda, 1349-017 Lisboa, Portugal
| | - Maria José Silva
- Centro de Investigação de Geobiociências, Geoengenharias e Geotecnologias (GeoBioTec), Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (J.C.R.); (M.J.S.); (P.S.C.); (I.P.P.); (J.N.S.)
- Plant Stress & Biodiversity Lab, Centro de Estudos Florestais (CEF), Laboratório Associado TERRA, Instituto Superior Agronomia (ISA), Universidade de Lisboa (ULisboa), Quinta do Marquês, Avenida da República, 2784-505 Oeiras, Portugal;
- Plant Stress & Biodiversity Lab, Centro de Estudos Florestais (CEF), Laboratório Associado TERRA, Instituto Superior Agronomia (ISA), Universidade de Lisboa (ULisboa), Tapada da Ajuda, 1349-017 Lisboa, Portugal
| | - Ana Paula Rodrigues
- Plant Stress & Biodiversity Lab, Centro de Estudos Florestais (CEF), Laboratório Associado TERRA, Instituto Superior Agronomia (ISA), Universidade de Lisboa (ULisboa), Quinta do Marquês, Avenida da República, 2784-505 Oeiras, Portugal;
- Plant Stress & Biodiversity Lab, Centro de Estudos Florestais (CEF), Laboratório Associado TERRA, Instituto Superior Agronomia (ISA), Universidade de Lisboa (ULisboa), Tapada da Ajuda, 1349-017 Lisboa, Portugal
| | - Paula Scotti Campos
- Centro de Investigação de Geobiociências, Geoengenharias e Geotecnologias (GeoBioTec), Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (J.C.R.); (M.J.S.); (P.S.C.); (I.P.P.); (J.N.S.)
- Instituto Nacional de Investigação Agrária e Veterinária, I.P. (INIAV), Quinta do Marquês, Avenida da República, 2780-157 Oeiras, Portugal
| | - Isabel P. Pais
- Centro de Investigação de Geobiociências, Geoengenharias e Geotecnologias (GeoBioTec), Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (J.C.R.); (M.J.S.); (P.S.C.); (I.P.P.); (J.N.S.)
- Instituto Nacional de Investigação Agrária e Veterinária, I.P. (INIAV), Quinta do Marquês, Avenida da República, 2780-157 Oeiras, Portugal
| | - José N. Semedo
- Centro de Investigação de Geobiociências, Geoengenharias e Geotecnologias (GeoBioTec), Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (J.C.R.); (M.J.S.); (P.S.C.); (I.P.P.); (J.N.S.)
- Instituto Nacional de Investigação Agrária e Veterinária, I.P. (INIAV), Quinta do Marquês, Avenida da República, 2780-157 Oeiras, Portugal
| | - Maria Manuela Silva
- Departamento de Ciências da Terra, Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (F.C.L.); (A.R.F.C.); (I.C.L.); (A.C.M.); (C.C.P.); (M.d.G.B.); (J.C.K.); (M.M.S.); (P.L.); (C.G.); (M.S.); (M.F.P.); (F.H.R.)
- Centro de Investigação de Geobiociências, Geoengenharias e Geotecnologias (GeoBioTec), Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (J.C.R.); (M.J.S.); (P.S.C.); (I.P.P.); (J.N.S.)
| | - Paulo Legoinha
- Departamento de Ciências da Terra, Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (F.C.L.); (A.R.F.C.); (I.C.L.); (A.C.M.); (C.C.P.); (M.d.G.B.); (J.C.K.); (M.M.S.); (P.L.); (C.G.); (M.S.); (M.F.P.); (F.H.R.)
- Centro de Investigação de Geobiociências, Geoengenharias e Geotecnologias (GeoBioTec), Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (J.C.R.); (M.J.S.); (P.S.C.); (I.P.P.); (J.N.S.)
| | - Carlos Galhano
- Departamento de Ciências da Terra, Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (F.C.L.); (A.R.F.C.); (I.C.L.); (A.C.M.); (C.C.P.); (M.d.G.B.); (J.C.K.); (M.M.S.); (P.L.); (C.G.); (M.S.); (M.F.P.); (F.H.R.)
- Centro de Investigação de Geobiociências, Geoengenharias e Geotecnologias (GeoBioTec), Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (J.C.R.); (M.J.S.); (P.S.C.); (I.P.P.); (J.N.S.)
| | - Manuela Simões
- Departamento de Ciências da Terra, Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (F.C.L.); (A.R.F.C.); (I.C.L.); (A.C.M.); (C.C.P.); (M.d.G.B.); (J.C.K.); (M.M.S.); (P.L.); (C.G.); (M.S.); (M.F.P.); (F.H.R.)
- Centro de Investigação de Geobiociências, Geoengenharias e Geotecnologias (GeoBioTec), Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (J.C.R.); (M.J.S.); (P.S.C.); (I.P.P.); (J.N.S.)
| | - Maria Fernanda Pessoa
- Departamento de Ciências da Terra, Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (F.C.L.); (A.R.F.C.); (I.C.L.); (A.C.M.); (C.C.P.); (M.d.G.B.); (J.C.K.); (M.M.S.); (P.L.); (C.G.); (M.S.); (M.F.P.); (F.H.R.)
- Centro de Investigação de Geobiociências, Geoengenharias e Geotecnologias (GeoBioTec), Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (J.C.R.); (M.J.S.); (P.S.C.); (I.P.P.); (J.N.S.)
| | - Fernando H. Reboredo
- Departamento de Ciências da Terra, Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (F.C.L.); (A.R.F.C.); (I.C.L.); (A.C.M.); (C.C.P.); (M.d.G.B.); (J.C.K.); (M.M.S.); (P.L.); (C.G.); (M.S.); (M.F.P.); (F.H.R.)
- Centro de Investigação de Geobiociências, Geoengenharias e Geotecnologias (GeoBioTec), Faculdade de Ciências e Tecnologia, Campus da Caparica, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal; (J.C.R.); (M.J.S.); (P.S.C.); (I.P.P.); (J.N.S.)
| |
Collapse
|
5
|
Yan H, Ge C, Zhou J, Li J. Diversity of soil fungi in the vineyards of Changli region in China. Can J Microbiol 2022; 68:341-352. [PMID: 35050808 DOI: 10.1139/cjm-2021-0337] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
This study aimed to elucidate the fungal diversity in Changli vineyard soil in China. High-throughput sequencing technology was used to investigate the diversity and composition of soil fungi in five vineyards at different geographical locations of Changli. Although the five vineyards had similar fungal communities, diversity, the composition and distribution of high-abundance species differed. Ascomycota, Basidiomycota and Mortierellomycota were the dominant phyla. Among the14 high-abundance genera of fungi, Odiodendron, Pleotrichocladium and Plectosephalella were rarely reported in other vineyards and are the unique species from Changli region. In addition, Solicoccozyma aeria and Solicoccozyma terrea were the dominant species in five vineyards and were rarely reported in domestic vineyards. Additionally, Rhizophagus, Wardomyces, Mortierella, Volutella and Cryptococcus were significantly different in the five vineyard soils. Among these species, Mortierella was highly abundant in each vineyard, but its contents were significantly different across vineyards. These findings enriched the information on the composition and diversity of soil fungi in the vineyard of Changli region, which helped to explore the regional or distinctive sensorial attributes of wine from the perspective of microbial biogeography.
Collapse
Affiliation(s)
- Hejing Yan
- Hebei Normal University of Science & Technology, Changli, China, 066600;
| | - Chao Ge
- Hebei Normal University of Science & Technology, Changli, China;
| | - Jiefang Zhou
- Hebei Normal University of Science & Technology, Changli, China;
| | - Jun Li
- Hebei Normal University of Science & Technology, Changli, China;
| |
Collapse
|
6
|
Microbial diversity of the soil, rhizosphere and wine from an emerging wine-producing region of Argentina. Lebensm Wiss Technol 2022. [DOI: 10.1016/j.lwt.2021.112429] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
|
7
|
Zahid MS, Li D, Javed HU, Sabir IA, Wang L, Jiu S, Song S, Ma C, Wang D, Zhang C, Zhou X, Xu W, Wang S. Comparative fungal diversity and dynamics in plant compartments at different developmental stages under root-zone restricted grapevines. BMC Microbiol 2021; 21:317. [PMID: 34784893 PMCID: PMC8594160 DOI: 10.1186/s12866-021-02376-y] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2021] [Accepted: 10/29/2021] [Indexed: 01/04/2023] Open
Abstract
BACKGROUND The root-zone restriction cultivation technique is used to achieve superior fruit quality at the cost of limited vegetative and enhanced reproductive development of grapevines. Fungal interactions and diversity in grapevines are well established; however, our knowledge about fungal diversity under the root-zone restriction technique is still unexplored. To provide insights into the role of mycobiota in the regulation of growth and fruit quality of grapevine under root-zone restriction, DNA from rhizosphere and plant compartments, including white roots (new roots), leaves, flowers, and berries of root-zone restricted (treatment) and conventionally grown plants (control), was extracted at three growth stages (full bloom, veraison, and maturity). RESULTS Diversity analysis based on the ITS1 region was performed using QIIME2. We observed that the root-zone restriction technique primarily affected the fungal communities of the soil and plant compartments at different growth stages. Interestingly, Fusarium, Ilyonectria, Cladosporium and Aspergillus spp observed in the rhizosphere overlapped with the phyllosphere at all phenological stages, having distinctive abundance in grapevine habitats. Peak richness and diversity were observed in the rhizosphere at the full bloom stage of control plants, white roots at the veraison stage of treatment, leaves at the maturity stage of treatment, flowers at the full bloom stage and berries at the veraison stage of control plants. Except for white roots, the diversity of soil and plant compartments of treated plants tended to increase until maturity. At the maturity stage of the treated and control plants, the abundance of Aspergillus spp. was 25.99 and 29.48%, respectively. Moreover, the total soluble sugar content of berries was 19.03 obrix and 16 obrix in treated and control plants, respectively, at the maturity stage. CONCLUSIONS This is the first elucidative study targeting the fungal diversity of conventional and root-restricted cultivation techniques in a single vineyard. Species richness and diversity are affected by stressful cultivation known as root zone restriction. There is an association between the abundance of Aspergillus spp. and fruit quality because despite causing stress to the grapevine, superior quality of fruit is retrieved in root-zone restricted plants.
Collapse
Affiliation(s)
- Muhammad Salman Zahid
- Department of Plant Science, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai, 200240 China
| | - Dongmei Li
- Department of Plant Science, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai, 200240 China
| | - Hafiz Umer Javed
- Department of Plant Science, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai, 200240 China
| | - Irfan Ali Sabir
- Department of Plant Science, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai, 200240 China
| | - Lei Wang
- Department of Plant Science, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai, 200240 China
| | - Songtao Jiu
- Department of Plant Science, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai, 200240 China
| | - Shiren Song
- Department of Plant Science, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai, 200240 China
| | - Chao Ma
- Department of Plant Science, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai, 200240 China
| | - Dapeng Wang
- Department of Plant Science, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai, 200240 China
| | - Caixi Zhang
- Department of Plant Science, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai, 200240 China
| | - Xuhui Zhou
- Shanghai Key Laboratory for Urban Ecological Processes and Eco-Restoration, School of Ecological and Environmental Sciences, East China Normal University, Shanghai, 200241 China
| | - Wenping Xu
- Department of Plant Science, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai, 200240 China
| | - Shiping Wang
- Department of Plant Science, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai, 200240 China
| |
Collapse
|
8
|
Torres N, Yu R, Kurtural SK. Inoculation with Mycorrhizal Fungi and Irrigation Management Shape the Bacterial and Fungal Communities and Networks in Vineyard Soils. Microorganisms 2021; 9:1273. [PMID: 34207954 PMCID: PMC8230719 DOI: 10.3390/microorganisms9061273] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2021] [Revised: 06/07/2021] [Accepted: 06/10/2021] [Indexed: 12/05/2022] Open
Abstract
Vineyard-living microbiota affect grapevine health and adaptation to changing environments and determine the biological quality of soils that strongly influence wine quality. However, their abundance and interactions may be affected by vineyard management. The present study was conducted to assess whether the vineyard soil microbiome was altered by the use of biostimulants (arbuscular mycorrhizal fungi (AMF) inoculation vs. non-inoculated) and/or irrigation management (fully irrigated vs. half irrigated). Bacterial and fungal communities in vineyard soils were shaped by both time course and soil management (i.e., the use of biostimulants and irrigation). Regarding alpha diversity, fungal communities were more responsive to treatments, whereas changes in beta diversity were mainly recorded in the bacterial communities. Edaphic factors rarely influence bacterial and fungal communities. Microbial network analyses suggested that the bacterial associations were weaker than the fungal ones under half irrigation and that the inoculation with AMF led to the increase in positive associations between vineyard-soil-living microbes. Altogether, the results highlight the need for more studies on the effect of management practices, especially the addition of AMF on cropping systems, to fully understand the factors that drive their variability, strengthen beneficial microbial networks, and achieve better soil quality, which will improve crop performance.
Collapse
Affiliation(s)
| | | | - S. Kaan Kurtural
- Department of Viticulture and Enology, University of California Davis, 1 Shields Avenue, Davis, CA 95616, USA; (N.T.); (R.Y.)
| |
Collapse
|
9
|
Zhou J, Cavagnaro TR, De Bei R, Nelson TM, Stephen JR, Metcalfe A, Gilliham M, Breen J, Collins C, López CMR. Wine Terroir and the Soil Bacteria: An Amplicon Sequencing-Based Assessment of the Barossa Valley and Its Sub-Regions. Front Microbiol 2021; 11:597944. [PMID: 33488543 PMCID: PMC7817890 DOI: 10.3389/fmicb.2020.597944] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2020] [Accepted: 12/04/2020] [Indexed: 02/01/2023] Open
Abstract
A wines' terroir, represented as wine traits with regional distinctiveness, is a reflection of both the biophysical and human-driven conditions in which the grapes were grown and wine made. Soil is an important factor contributing to the uniqueness of a wine produced by vines grown in specific conditions. Here, we evaluated the impact of environmental variables on the soil bacteria of 22 Barossa Valley vineyard sites based on the 16S rRNA gene hypervariable region 4. In this study, we report that both dispersal isolation by geographic distance and environmental heterogeneity (soil plant-available P content, elevation, rainfall, temperature, spacing between row and spacing between vine) contribute to microbial community dissimilarity between vineyards. Vineyards located in cooler and wetter regions showed lower beta diversity and a higher ratio of dominant taxa. Differences in soil bacterial community composition were significantly associated with differences in fruit and wine composition. Our results suggest that environmental factors affecting wine terroir, may be mediated by changes in microbial structure, thus providing a basic understanding of how growing conditions affect interactions between plants and their soil bacteria.
Collapse
Affiliation(s)
- Jia Zhou
- School of Agriculture Food & Wine, Waite Research Institute, The University of Adelaide, Adelaide, SA, Australia
| | - Timothy R. Cavagnaro
- School of Agriculture Food & Wine, Waite Research Institute, The University of Adelaide, Adelaide, SA, Australia
| | - Roberta De Bei
- School of Agriculture Food & Wine, Waite Research Institute, The University of Adelaide, Adelaide, SA, Australia
| | - Tiffanie M. Nelson
- Queensland Facility for Advanced Bioinformatics, School of Medicine, Menzies Health Institute Queensland, Griffith University, Southport, QLD, Australia
| | - John R. Stephen
- School of Agriculture Food & Wine, Waite Research Institute, The University of Adelaide, Adelaide, SA, Australia
| | - Andrew Metcalfe
- School of Mathematical Sciences, The University of Adelaide, Adelaide, SA, Australia
| | - Matthew Gilliham
- School of Agriculture Food & Wine, Waite Research Institute, The University of Adelaide, Adelaide, SA, Australia
- ARC Industrial Transformation Training Centre for Innovative Wine Production, Waite Research Institute, Adelaide, SA, Australia
| | - James Breen
- Bioinformatics Hub, School of Biological Sciences, The University of Adelaide, Adelaide, SA, Australia
- Robinson Research Institute, The University of Adelaide, Adelaide, SA, Australia
- South Australian Health and Medical Research Institute, Adelaide, SA, Australia
| | - Cassandra Collins
- School of Agriculture Food & Wine, Waite Research Institute, The University of Adelaide, Adelaide, SA, Australia
- ARC Industrial Transformation Training Centre for Innovative Wine Production, Waite Research Institute, Adelaide, SA, Australia
| | - Carlos M. Rodríguez López
- Environmental Epigenetics and Genetics Group, Department of Horticulture, College of Agriculture, Food and Environment, University of Kentucky, Lexington, KY, United States
| |
Collapse
|
10
|
Oyuela Aguilar M, Gobbi A, Browne PD, Ellegaard-Jensen L, Hansen LH, Semorile L, Pistorio M. Influence of vintage, geographic location and cultivar on the structure of microbial communities associated with the grapevine rhizosphere in vineyards of San Juan Province, Argentina. PLoS One 2020; 15:e0243848. [PMID: 33315910 PMCID: PMC7735631 DOI: 10.1371/journal.pone.0243848] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2020] [Accepted: 11/29/2020] [Indexed: 12/02/2022] Open
Abstract
Soil microbiomes, as a primary reservoir for plant colonizing fungi and bacteria, play a major role in determining plant productivity and preventing invasion by pathogenic microorganisms. The use of 16S rRNA and ITS high-throughput amplicon sequencing for analysis of complex microbial communities have increased dramatically in recent years, establishing links between wine specificity and, environmental and viticultural factors, which are framed into the elusive terroir concept. Given the diverse and complex role these factors play on microbial soil structuring of agricultural crops, the main aim of this study is to evaluate how external factors, such as vintage, vineyard location, cultivar and soil characteristics, may affect the diversity of the microbial communities present. Additionally, we aim to compare the influence these factors have on the structuring of bacterial and fungal populations associated with Malbec grapevine rhizosphere with that of the more widespread Cabernet Sauvignon grapevine cultivar. Samples were taken from Malbec and Cabernet Sauvignon cultivars from two different vineyards in the San Juan Province of Argentina. Total DNA extracts from the rhizosphere soil samples were sequenced using Illumina’s Miseq technology, targeting the V3-V4 hypervariable 16S rRNA region in prokaryotes and the ITS1 region in yeasts. The major bacterial taxa identified were Proteobacteria, Bacteroidetes and Firmicutes, while the major fungal taxa were Ascomycetes, Basidiomycetes, Mortierellomycetes and a low percentage of Glomeromycetes. Significant differences in microbial community composition were found between vintages and vineyard locations, whose soils showed variances in pH, organic matter, and content of carbon, nitrogen, and absorbable phosphorus.
Collapse
Affiliation(s)
- Mónica Oyuela Aguilar
- Instituto de Biotecnología y Biología Molecular (IBBM), CCT-La Plata, CONICET, Dto de Cs. Biológicas, Fac. Cs. Exactas, UNLP, La Plata, Argentina
| | - Alex Gobbi
- Section of Microbial Ecology and Biotechnology, Department of Plant and Environmental Sciences, University of Copenhagen, Frederiksberg, Denmark
| | - Patrick D. Browne
- Section of Microbial Ecology and Biotechnology, Department of Plant and Environmental Sciences, University of Copenhagen, Frederiksberg, Denmark
| | | | - Lars Hestbjerg Hansen
- Section of Microbial Ecology and Biotechnology, Department of Plant and Environmental Sciences, University of Copenhagen, Frederiksberg, Denmark
| | - Liliana Semorile
- Laboratorio de Microbiología Molecular, Departamento de Ciencia y Tecnología, Instituto de Microbiología Básica y Aplicada, Universidad de Nacional de Quilmes (UNQ), Bernal, Buenos Aires, Argentina
| | - Mariano Pistorio
- Instituto de Biotecnología y Biología Molecular (IBBM), CCT-La Plata, CONICET, Dto de Cs. Biológicas, Fac. Cs. Exactas, UNLP, La Plata, Argentina
- * E-mail:
| |
Collapse
|
11
|
Deyett E, Rolshausen PE. Endophytic microbial assemblage in grapevine. FEMS Microbiol Ecol 2020; 96:5810658. [DOI: 10.1093/femsec/fiaa053] [Citation(s) in RCA: 35] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2020] [Accepted: 03/19/2020] [Indexed: 12/16/2022] Open
Abstract
ABSTRACT
The plant vascular system has remained an underexplored niche despite its potential for hosting beneficial microbes. The aim of this work was to determine the origin of the microbial endophytes inhabiting grapevine. We focused on a single commercial vineyard in California over a two-year period and used an amplicon metagenomics approach to profile the bacterial (16S–V4) and fungal (ITS) communities of the microbiome across a continuum of six grapevine compartments: bulk soil, rhizosphere, root, cordon, cane and sap. Our data supported that roots are a bottleneck to microbial richness and that they are mostly colonized with soilborne microbes, including plant growth-promoting bacteria recruited by the host, but also saprophytic and pathogenic fungal invaders. A core group of taxa was identified throughout the vine; however, there was clear partitioning of the microbiome with niche adaptation of distinct taxonomic groups. Above- and belowground plant tissues displayed distinct microbial fingerprints and were intermixed in a limited capacity mostly by way of the plant sap. We discuss how cultural practices and human contact may shape the endosphere microbiome and identify potential channels for transmission of its residents.
Collapse
Affiliation(s)
- E Deyett
- Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA
| | - P E Rolshausen
- Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA
| |
Collapse
|
12
|
Looking at the Origin: Some Insights into the General and Fermentative Microbiota of Vineyard Soils. FERMENTATION-BASEL 2019. [DOI: 10.3390/fermentation5030078] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
In winemaking processes, there is a current tendency to develop spontaneous fermentations taking advantage of the metabolic diversity of derived from the great microbial diversity present in grape musts. This enological practice enhances wine complexity, but undesirable consequences or deviations could appear on wine quality. Soil is a reservoir of important microorganisms for different beneficial processes, especially for plant nutrition, but it is also the origin of many of the phytopathogenic microorganisms that affect vines. In this study, a meta-taxonomic analysis of the microbial communities inhabiting vineyard soils was realized. A significant impact of the soil type and climate aspects (seasonal patterns) was observed in terms of alpha and beta bacterial diversity, but fungal populations appeared as more stable communities in vineyard soils, especially in terms of alpha diversity. Focusing on the presence and abundance of wine-related microorganisms present in the studied soils, some seasonal and soil-dependent patterns were observed. The Lactobacillaceae family, containing species responsible for the malolactic fermentation, was only present in non-calcareous soils samples and during the summer season. The study of wine-related fungi indicated that the Debaryomycetaceae family dominates the winter yeast population, whereas the Saccharomycetaceae family, containing the most important fermentative yeast species for winemaking, was detected as dominant in summer.
Collapse
|