Table 5.
Data extraction structure
| Extracted data | Description |
|---|---|
| General information | In this section, the general information about the study is reported |
| RecordID | Unique number allocated to each row |
| RefID | Unique number allocated to each reference within the DistillerSR software |
| Reference | Full reference |
| Publication year | Year of the publication |
| Starting year | Starting year of the study, as reported in the publication |
| Ending year | Ending year of the study, as reported in the publication |
| Botanical identification | The botanical identification of the plant, both as reported in the publication and according to the updated taxonomy of the EPPO Global Database, is reported in this section |
| Plant EPPO code | EPPO code of the plant species, from the EPPO global databasea |
| Plant family | Plant family, from the EPPO global databasea |
| Plant genus | Plant genus, from the EPPO global databasea |
| Plant species | Plant species, from the EPPO global databasea |
| Reported plant species | Name of the plant species as reported in the publication |
| Common name | Common name of the plant species, as reported in the publication |
| Cultivar | Cultivar or plant variety, as reported in the publication |
| Infection information | Detailed information about the infection and location of the plant is reported in this section |
| Infection method (Level 1) | The infection of the plant can be natural, artificial or not specified |
| Infection method (Level 2) | Subcategories of natural infection: during survey activity, during research activity. ‘Research activity’ is used when plants are planted under natural inoculum pressure and infection development was monitored without interfering. Subcategories of artificial infection: mechanical inoculation (detailed at level 3a), vector transmission (detailed at level 3b) |
| Mechanical inoculation (Level 3a) | Subcategories of mechanical inoculation: budding, grafting, needle, root uptake, stem absorption, syringe |
| Infection vector species (Level 3b) | Insect species used in the artificial vector transmission |
| Location type | The place where the plant was placed or found: natural habitat, greenhouse, screenhouse, interception, not specified |
| Geographical information | In this section, the geographical location of the plant is reported, as detailed as possible. In case of intercepted plant, the reported location is the geographical origin of the plant and not the country and location where it was intercepted |
| Country code | From the EFSA catalogue |
| Country | From the EFSA catalogue |
| Location | From the EFSA catalogue, with additional detailed information as reported in the publication |
| Coordinates explanation | The reported coordinates (latitude and longitude) can represent the centroid of the area (region or country), or the exact location XY coordinates of the point of sample, or the near location XY coordinates based on village, town or identifiable geographical features (national park, lake, river etc.), or XY of study site coordinates indicates the centroid of the area sampled |
| Latitude | Latitude as reported in the publication or derived from Google maps (use WGS84, decimal format) |
| Longitude | Longitude as reported in the publication or derived from Google maps (use WGS84, decimal format) |
| Pest description | Information about the pest is reported in this section, together with genetic data |
| Pest EPPO code | EPPO code of the pest, from the EPPO global databasea |
| Pest species | Name of Xylella spp. as reported in the publication (from 1930 up to now): Alfalfa dwarf virus, Morus suffodiens virus, Phony peach bacterium, Pierce's disease bacterium, Pierce's disease virus, Rickettsia‐like bacteria, Rod‐shaped bacteria, Xylella fastidiosa, Xylella taiwanensis, Xylem‐inhabiting bacteria |
| Pest subspecies | Xylella fastidiosa subspecies reported in the publication: fastidiosa, morus, multiplex, pauca, sandyi, tashke |
| Reported pest | Name of Xylella spp. as reported in the publication (from 1930 up to now). |
| Disease | Name of the disease caused by Xylella spp., as reported in the publication: Alfalfa dwarf, Almond leaf scorch, Bacterial leaf scorch, Blueberry bacterial leaf scorch, Citrus variegated chlorosis, Coffee leaf scorch, Crespera, Elm leaf scorch, Leaf scorch disease, Mulberry leaf scorch, Oleander leaf scorch, Olive quick decline syndrome, Pear leaf scorch, Pecan bacterial leaf scorch, Periwinkle wilt, Phony peach disease, Pierce disease, Plum leaf scald, Potato purple top disease, Ragweed stunt, Sweetgum dieback, Sycamore leaf scorch |
| Strain | Name of the strain of Xylella spp., as reported in the publication |
| MLST (multilocus sequence type) | Sequence type (ST) of Xylella fastidiosa, as reported in the publication. If the ST is inferred from another publication, a note is added in the genotyping comment |
| Genotyping comment | Additional information retrieved in the publication about the Xylella spp. strain or sequence type |
| Methods of identification | In this section, the identification methods applied to detect a Xylella spp. infection are listed. Eight detection methods were considered and for each of them the outcome of the analysis (positive or negative), together with the number of infected plants and the total number of analysed plants, were reported. Moreover, additional information could be added in the comment column beside each detection method |
| Symptoms | Observation of symptoms in the plant, as reported in the publication |
| Symptoms expression in test plants | Observation of symptom development in test plants after an attempt to transmit the pathogen through vectors |
| Culture | Isolation of cultivable bacteria from tissue samples on solid culture media |
| Microscopy | Observation of Xylella bacteria through microscopic analysis techniques |
| ELISA | Enzyme‐linked immunosorbent assay |
| Other immunological techniques | Immunological techniques other than ELISA |
| PCR‐based methods | Polymerase chain‐reaction‐based methods (PCR, nested PCR, qPCR, etc.) |
| Sequencing | Sequencing technique (Sanger, next generation sequencing, etc.) and sequence analysis (MLST, phylogenetic tree, etc.) |
| Host status | Information about the tolerance and resistance response of the plant |
| Tolerance/Resistance reported | Tolerant/Resistant status of the plant, as reported in the publication |
| Tolerance/Resistance category | Categories describing the response of the tolerant/resistant plant: lack of infection or negative reading, Lack of systemic movement, Lack or reduction of symptoms, Lack or reduction of symptoms – Lower bacterial population, Lack or reduction of symptoms – Lower bacterial population – Lower disease incidence, Lack or reduction of symptoms – Lower disease incidence, Lower bacterial population, Lower bacterial population – Lower disease incidence, Lower disease incidence, Infection not persistent, Reported as tolerant/resistant (no details) |
| Tolerance/Resistance comment | Comment reporting detailed information about the tolerant/resistant response of the plant, as reported in the publication |
| General comment | General comment on the study |
| Comment | Additional relevant information |
a
EPPO (2018) EPPO Global Database (available online). https://gd.eppo.int