Description
The dataset includes metadata of endophytic bacteria with plant growth promoting activity and bacteria usable for bio-remedation of polluted environments from the CNR-IBBR-SUB collection, which is maintained at Institute of Biosciences and Bioresources (IBBR) in Naples, Italy. Endophytic bacteria were isolated from rice plants grown in Italy and in the State of Mali (West Africa), while polycyclic aromatic hydrocarbon degrading bacteria were isolated from the industrial zone of the port of Marghera (Venice, Italy). Microorganisms are cryopreserved at -80 °C resuspended in growth media containing cryoprotectants (glycerol). Frozen microorganisms can be revived by thawing at 37 °C and inoculating into fresh culture medium. The main aim of the collection is to study bacteria interacting with legumes and cereals (e.g., N-fixation, phytohormones production, etc.) and their ability to improve host plants resistance to abiotic stresses.
Data Records
The data in this occurrence resource has been published as a Darwin Core Archive (DwC-A), which is a standardized format for sharing biodiversity data as a set of one or more data tables. The core data table contains 84 records.
3 extension data tables also exist. An extension record supplies extra information about a core record. The number of records in each extension data table is illustrated below.
This IPT archives the data and thus serves as the data repository. The data and resource metadata are available for download in the downloads section. The versions table lists other versions of the resource that have been made publicly available and allows tracking changes made to the resource over time.
Versions
The table below shows only published versions of the resource that are publicly accessible.
How to cite
Researchers should cite this work as follows:
Bianco C, Defez R (2023). Rhizobacteria promoting plant growth and bacteria degrading toxic pollutants (CNR-IBBR-SUB). Version 1.0. GBIF Secretariat. Occurrence dataset. - doi: https://doi.org/10.15468/bprp46
Rights
Researchers should respect the following rights statement:
The publisher and rights holder of this work is Consiglio Nazionale delle Ricerche, Istituto di Bioscienze e BioRisorse (CNR-IBBR). This work is licensed under a Creative Commons Attribution Non Commercial (CC-BY-NC 4.0) License.
GBIF Registration
This resource has been registered with GBIF, and assigned the following GBIF UUID: 2aeae1a6-4478-4577-8519-e3898ef1bf12. Consiglio Nazionale delle Ricerche, Istituto di Bioscienze e BioRisorse (CNR-IBBR) publishes this resource, and is itself registered in GBIF as a data publisher endorsed by DiSSCo.
Keywords
Occurrence; Genomics; proteomics; metabolomics; bacteria; rhizobacteria; Specimen
External data
The resource data is also available in other formats
| API-JSON | https://biomemory.cnr.it/api/occurrences/json/?dataset=108 UTF-8 DwC |
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Contacts
- Point Of Contact
- Researcher
- v. Pietro Castellino 111
https://orcid.org/0000-0002-8489-3779
- Originator
- Researcher
- v. Pietro Castellino 111
- Metadata Provider
- Senior Researcher
- v. Madonna del Piano 10
- Point Of Contact
- Reference Person
- v. Pietro Castellino 111
- Owner
- Research Institute
- v. Piero Castellino 111
Geographic Coverage
Italy, Europe and Mali, Western-Central Africa
| Bounding Coordinates | South West [13.083, -8], North East [46.559, 14.062] |
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Taxonomic Coverage
The following families are represented: Enterobacterales, Sphingobacteriales, Pseudomonadales, Flavobacteriales, Xanthomonadales, Actinomycetales.
| Kingdom | Bacteria |
|---|---|
| Phylum | Firmicutes, Bacteroidota, Proteobacteria, Actinobacteriota |
| Class | Actinomycetia, Bacilli, Gammaproteobacteria, Bacteroidia |
| Order | Paenibacillales, Sphingobacteriales, Actinomycetales, Xanthomonadales, Pseudomonadales, Exiguobacterales, Flavobacteriales, Bacillales, Enterobacterales, Burkholderiales |
| Family | Micrococcaceae, Sphingobacteriaceae, Xanthomonadaceae, Paenibacillaceae, Weeksellaceae, Exiguobacteraceae, Aeromonadaceae, Bacillaceae, Shewanellaceae, Microbacteriaceae, Burkholderiaceae, Pseudomonadaceae, Enterobacteriaceae, Moraxellaceae |
Temporal Coverage
| Formation Period | 2013-2016 |
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Project Data
ITINERIS (PNRR Project IR0000032) Activity 6.5 "Mining and mapping the functional biodiversity in vivo and ex-situ research collections" - This activity is aimed to provide biodiversity (meta)data linked to Natural Science Collections (NSC). Extended digital specimens will be linked to related information (e.g.. images and videos, codification of functional traits, DNA and protein sequences, environmental parameters, etc.) in the frame of a national network of biological research collections, including all the existing in vivo and ex-situ collections of biological organisms (animals, plants, fungi, algae, archaea, bacteria, viruses, etc.) which have been created and maintained through past and current research projects. Reference to genetic/genomic data for each specimen will allow for the identification of the most interesting material for further genetic/genomic analysis. BioMemory (CNR-DiSBA Project No. SAC.AD002.173) is the network of biological collections of the Department of Biology, Agriculture and Food Sciences (DiSBA) of the National Research Council of Italy (CNR) for bio-monitoring, biodiversity conservation, agri-food and environmental sustainability, and human well-being. The project is aimed to create a network of biobanks (i.e., scientific research collections) where data and metadata associated to biological samples of different nature are collected and stored in a systematic and well-organized way. Maintaining the existing collections will allow their future use for a number of purposes, from the genetic improvement of organisms to face environmental changes (climate-ready organisms) to the fight against epidemics and pandemics affecting humans, animals and plants.
| Title | ITINERIS - Italian Integrated Environmental Research Infrastructures System | BIOMEMORY |
|---|---|
| Identifier | PNRR Project IR0000032 | CNR SAC.AD002.173 |
| Funding | ITINERIS project no. IR0000032 — ITINERIS, Italian Integrated Environmental Research Infrastructures System—CUP B53C22002150006 (D.D. n. 130/2022) Funded by the EU—Next Generation EU—Mission 4 “Education and Research”—Component 2: “From research to business”—Investment 3.1: “Fund for the realisation of an integrated system of research and innovation infrastructures” || BioMemory (CNR-DiSBA Project No. SAC.AD002.173) - CNR-DiSBA - Department of Bio-Agrofood Sciences, National Research Council of Italy |
| Project Award |
BioMemory Project (CNR-DiSBA) https://doi.org/10.13039/501100004462 Consiglio Nazionale delle Ricerche CNR-DiSBA no. SAC.AD002.173 https://www.disba.cnr.it/en/ ITINERIS - Italian Integrated Environmental Research Infrastructures System https://doi.org/10.13039/501100004462 Ministero dell'Università e della Ricerca PNRR Project IR0000032 https://itineris.cnr.it/ |
| Related Projects |
MICRO4Legumes (“Il microbioma vegetale simbionte come strumento per il miglioramento delle leguminose foraggere”), D.M.n.89267 (Italian Ministry of Agriculture) D.M.n.89267 COST Action CA18111 "Genome Editing in Plants - A Technology with Transformative Potential" (PlantEd) CA18111 European Commission - ABSTRESS project (FP7 KBBE-2011-289562) FP7 KBBE-2011-289562 |
The personnel involved in the project:
Collection Data
| Collection Name | Rhizobacteria promoting plant growth and bacteria degrading toxic pollutants (CNR-IBBR-SUB) |
|---|---|
| Collection Identifier | bf6ef975-8cde-47ea-9037-9ca01d8d61ea |
| Specimen preservation methods | Deep frozen, Glycerin |
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Bibliographic Citations
- Bianco C, Andreozzi A, Romano S, Fagorzi C, Cangioli L, Prieto P, Cisse F, Niangado O, Sidibé A, Pianezze S, et al. (2021). Endophytes from African Rice (Oryza glaberrima L.) efficiently colonize Asian Rice (Oryza sativa L.) stimulating the activity of its antioxidant enzymes and increasing the content of nitrogen, carbon, and chlorophyll. Microorganisms 9, 1714. https://doi.org/10.3390/microorganisms9081714
- The overproduction of indole-3-acetic acid (IAA) in endophytes up-regulates nitrogen-fixation in both bacterial cultures and inoculated rice plants. Microbial Ecology, 74, 441-452. https://doi.org/10.1007/s00248-017-0948-4
- Bianco C, Defez R (2015). Microorganisms and their use for environmental cleanup. Patent no. RM2015A00096, National Research Council of Italy, Rome, Italy. http://www.cnr.it/ontology/cnr/individuo/prodotto/ID326828
Additional Metadata
| Acknowledgements | PNRR Project IR0000032—ITINERIS, Italian Integrated Environmental Research Infrastructures System—CUP B53C22002150006 (D.D. n. 130/2022) Funded by the EU—Next Generation EU—Mission 4 “Education and Research”—Component 2: “From research to business”—Investment 3.1: “Fund for the realization of an integrated system of research and innovation infrastructures” CNR-DiSBA Project No. SAC.AD002.173 BioMemory - Network of scientific collections for bio-monitoring, biodiversity conservation, agri-food and environmental sustainability, and well-being. |
|---|---|
| Purpose | Microbiology; genomics; metabolomics. Microbiology: growth and manipulation of bacteria. Molecular Biology: isolation and manipulation of nucleic acids; cloning and heterologous expression of genes of interest in model organisms (E. coli); gene expression analysis (RT-PCR, RNA-seq). Biochemistry: structural and functional analysis of proteins by SDS-PAGE, native-PAGE and western blot; UV-visible, fluorescent and circular dichroism spectroscopy; enzymatic assays (varius enzymes inclucing DNA polymerases); in vitro DNA-ligand interaction techniques by innovative techniques, as the Surface Plasmon Resonance (SPR) and Bio-Layer Interferometry (BLI); fluorescence microscopy for in vivo study of bacteria, nematodes, and plants. |
| Maintenance Description | Microorganisms are cryopreserved at temperatures below freezing (-80 °C). To prevent damage to cells caused by ice crystal formation, cells are resuspended in growth media containing cryoprotectants such as glycerol prior to storage at -80 °C. Frozen microorganisms can be revived by thawing at 37 °C and inoculating into fresh culture medium. |
| Alternative Identifiers | 2aeae1a6-4478-4577-8519-e3898ef1bf12 |
| https://ipt.ibbr.cnr.it/ipt/resource?r=cnr-ibbr-sub |