AmplifyRP® XRT for Begomovirus spp.
AmplifyRP® XRT for Begomovirus spp. is a rapid DNA amplification and detection platform designed for field-based or laboratory testing of many crops inclusing cucurbits, ornamentals, pepper, potato, sweet potato, and tomato (see validation report for full list) for Begomoviruses. This kit includes lyophilized reaction pellets containing the necessary reagents to amplify Begomovirus spp. DNA at a single operating temperature (42 °C).
AmplifyRP® XRT is a real-time isothermal nucleic acid amplification and detection system that rapidly amplifies small portions of DNA or RNA and offers unrivaled detection capabilities in an easy-to-use testing format. It offers comparable sensitivity and specificity to published PCR methods while eliminating laborious and costly nucleic acid extractions.
The test can be performed virtually anywhere using the battery operated AmpliFire® fluorometer. Assay parameters are loaded via barcode and results are automatically displayed as ( + ) or ( - ). NOTE: This assay requires a fluorometer to work properly.
Prior molecular diagnostic experience is not required to perform AmplifyRP® XRT tests. Total assay time is less than 30 minutes when used with the AmpliFire® as a real-time assay.
Click here for other product documents such as the User Guide or printable barcode.
Included:
- XRT reaction pellets for Begomovirus spp.
- Pre-filled 100 µL PD1 Pellet diluent tubes
- GEB2-filled mesh extraction bags
- User Guide
Required but Not Included:
- 5 µL Pipette
- 25 µL Pipette
- 5 and 25 µL Barrier Pipette Tips
- AmpliFire® or equivalent fluorometer
Optional:
For a full list of included items, including sizes, please see the Content List.
Validation Report Summary
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Test Format: AmplifyRP® XRT |
Full Validation Report |
| Analytical Sensitivity | ||
|---|---|---|
| Analytical Sensitivity varies depending on which viral species is present in the sample. Below are several examples of analytical sensitivity tested during product validation. These examples were chosen to represent species with a range of homology to the primers and probes used in this assay. | ||
| TYLCV | Analytical Sensitivity: | The assay is 86.4% sensitive between 1 fg/µL and 100 ag/µL. (n=22) |
| Limit of Detection: | The assay has a 100% detection rate at 1 fg/µL with DNA fragments. (n=11) | |
| The assay has a 72.7% detection rate at 100 ag/µL with DNA fragments. (n=11) | ||
| ToLCNDV | Analytical Sensitivity: | The assay is 72.2% sensitive between 100 fg/µL and 10 fg/µL. (n=18) |
| Limit of Detection: | The assay has a 100% detection rate at 100 fg/µL with DNA fragments. (n=9) | |
| The assay has a 44.4% detection rate at 10 fg/µL with DNA fragments. (n=9) | ||
| SLCV | Analytical Sensitivity: | The assay is 66.7% sensitive between 100 fg/µL and 10 fg/µL. (n=18) |
| Limit of Detection: | The assay has a 100% detection rate at 100 fg/µL with DNA fragments. (n=9) | |
| The assay has a 33.3% detection rate at 10 fg/µL with DNA fragments. (n=9) | ||
| BGYMV | Analytical Sensitivity: | The assay is 61.1% sensitive between 1 pg/µL and 100 fg/µL. (n=18) |
| Limit of Detection: | The assay has a 100% detection rate at 1 pg/µL with DNA fragments. (n=9) | |
| The assay has a 22.2% detection rate at 100 fg/µL with DNA fragments. (n=9) | ||
| Species Detected | |
|---|---|
| Virus Name | Species Name |
| African cassava mosaic virus (ACMV) | Begomovirus manihotis |
| Bean golden mosaic virus (BGMV) | Begomovirus costai |
| Bean golden yellow mosaic virus (BGYMV) | Begomovirus birdi |
| Chilli leaf curl Bhavanisagar virus (ChiLCBV) | Begomovirus capsibhavanisagarense |
| Chino del tomate virus (CdTV) | Begomovirus solanumflavi |
| Cotton leaf crumple virus (CLCrV) | Begomovirus gossypii |
| Cucurbit leaf crumple virus (CuLCrV) | Begomovirus cucurbitae |
| Emilia yellow vein Fujian virus (EYVFjV) | Begomovirus emiliafujianense |
| Melon chlorotic leaf curl virus (MCLCuV) | Begomovirus chlorocucumis |
| Ocimum mosaic virus (OcMV) | Begomovirus ocimummusivi |
| Pepper huasteco yellow vein virus (PHYVV) | Begomovirus capsicumhuastecoense |
| Sida mottle virus (SiMoV) | Begomovirus sidavariati |
| Squash leaf curl China virus (SLCCNV) | Begomovirus cucurbitachinaense |
| Squash leaf curl Philippines virus (SLCuPV) | Begomovirus cucurbitaphilippinense |
| Squash leaf curl virus (SLCuV) | Begomovirus cucurbitapeponis |
| Tomato golden mosaic virus (TGMV) | Begomovirus solanumaureimusivi |
| Tomato golden vein virus (TGVV) | Begomovirus solanumaureivenae |
| Tomato leaf curl new delhi virus (ToLCNDV) | Begomovirus solanumdelhiense |
| Tomato leaf curl Palampur virus (ToLCPalV) | Begomovirus solanumpalampurense |
| Tomato leaf deformation virus (ToLDeV) | Begomovirus solanumdepravationis |
| Tomato mottle virus (ToMoV) | Begomovirus solanumvariati |
| Tomato mottle wrinkle virus (ToMoWV) | Begomovirus solanumargentinaense |
| Tomato yellow leaf curl Sardinia virus (TYLCSaV) | Begomovirus solanumflavusardiniaense |
| Tomato yellow leaf curl Thailand virus (TYLCTHV) | Begomovirus solanumflavusthailandense |
| Tomato yellow leaf curl virus (TYLCV) | Begomovirus coheni |
| Watermelon chlorotic stunt virus (WmCSV) | Begomovirus citrulli |
The above table is the list of confirmed Begomovirus detections. More than 400 other Begomoviruses have been predicted to be detected by in silico analysis. For a full list, please see the Full Validation Report.
| Cross-reactions | |
|---|---|
| Virus Name | Species Name |
| Juncus maritimus geminivirus 11 | Maldovirus junci |
| Opuntia virus 11 | Opunvirus opuntiae |
| 1Predicted detection by in silico analysis only | |
For a list of validated hosts, please see the Full Validation Report.
| Additional Documents | ||
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