Molecular diagnosis and direct quantification of cereal cyst nematode (Heterodera filipjevi) from field soil using TaqMan real-time PCR
Heterodera filipjevi continues to be a major threat to wheat production worldwide. Rapid detection and quantification of cyst nematodes are essential for more effective control against this nematode disease. In the present study, a TaqMan-minor groove binder (TaqMan-MGB) probe-based fluorescence qua...
| Main Authors: | , , , , , , |
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| Format: | Article |
| Language: | English |
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Elsevier
2023-08-01
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| Series: | Journal of Integrative Agriculture |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S2095311922002337 |
| _version_ | 1827866474241327104 |
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| author | Jin-zhuo JIAN Wen-kun HUANG Ling-an KONG Heng JIAN Sulaiman ABDULSALAM De-liang PENG Huan PENG |
| author_facet | Jin-zhuo JIAN Wen-kun HUANG Ling-an KONG Heng JIAN Sulaiman ABDULSALAM De-liang PENG Huan PENG |
| author_sort | Jin-zhuo JIAN |
| collection | DOAJ |
| description | Heterodera filipjevi continues to be a major threat to wheat production worldwide. Rapid detection and quantification of cyst nematodes are essential for more effective control against this nematode disease. In the present study, a TaqMan-minor groove binder (TaqMan-MGB) probe-based fluorescence quantitative real-time PCR (qPCR) was successfully developed and used for quantifying H. filipjevi from DNA extracts of soil. The primers and probe designed from the obtained RAPD-SCAR marker fragments of H. filipjevi showed high specificity to H. filipjevi using DNA from isolates-confirmed species of 23 Heterodera spp., 1 Globodera spp. and 3 Pratylenchus spp. The qPCR assay is highly sensitive and provides improved H. filipjevi detection sensitivity of as low as 4–3 single second-stage juvenile (J2) DNAs, 10–3 female DNAs, and 0.01 μg μL–1 genomic DNAs. A standard curve relating to the threshold cycle and log values of nematode numbers was generated and validated from artificially infested soils and was used to quantify H. filipjevi in naturally infested field soils. There was a high correlation between the H. filipjevi numbers estimated from 32 naturally infested field soils by both conventional methods and the numbers quantified using the qPCR assay. qPCR potentially provides a useful platform for the efficient detection and quantification of H. filipjevi directly from field soils and to quantify this species directly from DNA extracts of field soils. |
| first_indexed | 2024-03-12T15:04:16Z |
| format | Article |
| id | doaj.art-4dc34c6d4c5f4e179d169ca91445bd1c |
| institution | Directory Open Access Journal |
| issn | 2095-3119 |
| language | English |
| last_indexed | 2024-03-12T15:04:16Z |
| publishDate | 2023-08-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Journal of Integrative Agriculture |
| spelling | doaj.art-4dc34c6d4c5f4e179d169ca91445bd1c2023-08-13T04:53:31ZengElsevierJournal of Integrative Agriculture2095-31192023-08-0122825912601Molecular diagnosis and direct quantification of cereal cyst nematode (Heterodera filipjevi) from field soil using TaqMan real-time PCRJin-zhuo JIAN0Wen-kun HUANG1Ling-an KONG2Heng JIAN3Sulaiman ABDULSALAM4De-liang PENG5Huan PENG6State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, P.R.China; Key Laboratory of Plant Pathology of Ministry of Agriculture and Rural Affairs, College of Plant Protection, China Agricultural University, Beijing 100193, P.R.ChinaState Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, P.R.ChinaState Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, P.R.ChinaKey Laboratory of Plant Pathology of Ministry of Agriculture and Rural Affairs, College of Plant Protection, China Agricultural University, Beijing 100193, P.R.ChinaState Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, P.R.China; Division of Agricultural Colleges/Department of Crop Protection, Ahmadu Bello University, Zaria 810107, NigeriaState Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, P.R.ChinaState Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, P.R.China; Correspondence PENG Huan, Tel: +86-10-62815576Heterodera filipjevi continues to be a major threat to wheat production worldwide. Rapid detection and quantification of cyst nematodes are essential for more effective control against this nematode disease. In the present study, a TaqMan-minor groove binder (TaqMan-MGB) probe-based fluorescence quantitative real-time PCR (qPCR) was successfully developed and used for quantifying H. filipjevi from DNA extracts of soil. The primers and probe designed from the obtained RAPD-SCAR marker fragments of H. filipjevi showed high specificity to H. filipjevi using DNA from isolates-confirmed species of 23 Heterodera spp., 1 Globodera spp. and 3 Pratylenchus spp. The qPCR assay is highly sensitive and provides improved H. filipjevi detection sensitivity of as low as 4–3 single second-stage juvenile (J2) DNAs, 10–3 female DNAs, and 0.01 μg μL–1 genomic DNAs. A standard curve relating to the threshold cycle and log values of nematode numbers was generated and validated from artificially infested soils and was used to quantify H. filipjevi in naturally infested field soils. There was a high correlation between the H. filipjevi numbers estimated from 32 naturally infested field soils by both conventional methods and the numbers quantified using the qPCR assay. qPCR potentially provides a useful platform for the efficient detection and quantification of H. filipjevi directly from field soils and to quantify this species directly from DNA extracts of field soils.http://www.sciencedirect.com/science/article/pii/S2095311922002337cereal cyst nematodeHeterodera filipjevimolecular diagnosisquantificationTaqMan real-time PCR |
| spellingShingle | Jin-zhuo JIAN Wen-kun HUANG Ling-an KONG Heng JIAN Sulaiman ABDULSALAM De-liang PENG Huan PENG Molecular diagnosis and direct quantification of cereal cyst nematode (Heterodera filipjevi) from field soil using TaqMan real-time PCR Journal of Integrative Agriculture cereal cyst nematode Heterodera filipjevi molecular diagnosis quantification TaqMan real-time PCR |
| title | Molecular diagnosis and direct quantification of cereal cyst nematode (Heterodera filipjevi) from field soil using TaqMan real-time PCR |
| title_full | Molecular diagnosis and direct quantification of cereal cyst nematode (Heterodera filipjevi) from field soil using TaqMan real-time PCR |
| title_fullStr | Molecular diagnosis and direct quantification of cereal cyst nematode (Heterodera filipjevi) from field soil using TaqMan real-time PCR |
| title_full_unstemmed | Molecular diagnosis and direct quantification of cereal cyst nematode (Heterodera filipjevi) from field soil using TaqMan real-time PCR |
| title_short | Molecular diagnosis and direct quantification of cereal cyst nematode (Heterodera filipjevi) from field soil using TaqMan real-time PCR |
| title_sort | molecular diagnosis and direct quantification of cereal cyst nematode heterodera filipjevi from field soil using taqman real time pcr |
| topic | cereal cyst nematode Heterodera filipjevi molecular diagnosis quantification TaqMan real-time PCR |
| url | http://www.sciencedirect.com/science/article/pii/S2095311922002337 |
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