Sponsoring Institution
Agricultural Research Service/USDA
Status
ACTIVE
Funding Source
USDA INHOUSE
Reporting Frequency
Annual
Project Director
CHEN J
Accession Number
433822
Project Number
2034-22000-014-001R
Dates
2017-10-01 - 2021-09-30
Recipient Organization
AGRICULTURAL RESEARCH SERVICE
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PARLIER,CA 93648
Keywords
asiaticus
candidatus
generation
high
hlb
huanglongbing
liberibacter
next
sequencing
throughput
Research Effort
Applied (30%)
Basic (60%)
Developmental (10%)
Classification Parameters
| Knowledge Area | Subject of Investigation | Field of Science | Percent |
|---|
| 212 - Pathogens and Nematodes Affecting Plants |
999 - Citrus, general/other |
1040 - Molecular biology |
70% |
| 212 - Pathogens and Nematodes Affecting Plants |
1131 - Wine grapes |
1040 - Molecular biology |
10% |
| 215 - Biological Control of Pests Affecting Plants |
1130 - Table grapes |
1040 - Molecular biology |
10% |
| 215 - Biological Control of Pests Affecting Plants |
1139 - Grapes, general/other |
1040 - Molecular biology |
10% |
Goals / Objectives
The aim is to develop a detection system that can unambiguously identify "Candidatus Liberibacter asiaticus", an unculturable bacterium associated with Huanglongbing (HLB), when the bacterial concentration is very low and current polymerase chain reaction (PCR) techniques could not make a clear conclusion. There are three objectives:
- Effective enrichment of low titer CLas DNA from HLB suspected sample
- Identify a cost-effective protocol for sample sequencing
- Evaluate and finalize an analytical pipeline for accurate and sensitive detection of CLas.
Methods (unparsed)
The system will make direct identification of sequences of PCR template using the up-to-date next generation sequencing/high throughput sequencing technology. Sequence data will be compared to signature sequences of "Candidatus Liberibacter asiaticus" of taxonomic authority. The detection result will be either a yes (matched) or a no (un-matched), without ambiguity.
Methods
The system will make direct identification of sequences of PCR template using the up-to-date next generation sequencing/high throughput sequencing technology. Sequence data will be compared to signature sequences of "Candidatus Liberibacter asiaticus" of taxonomic authority. The detection result will be either a yes (matched) or a no (un-matched), without ambiguity.