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Development of qPCR assays for quantitative detection of Heterodera avenae and H. latipons

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Abstract
Twelve Heterodera species are considered of major economic significance in cereals, of which Heterodera avenae, H. latipons and H. filipjevi are the most important. Precise identification and quantification of these nematodes are necessary to develop effective integrated pest control. This study reports on the use of the mitochondrial cytochrome oxidase subunit 1 (COI) gene to develop qPCR assays that could be used for the identification and quantification of H. avenae and H. latipons. Two qPCR primer sets, each comprising two primers and a probe, were designed for each of both species. After optimization, the qPCR assays using a single second-stage juvenile (J2) were able to identify and quantify H. avenae and H. latipons. Their specificity was confirmed by the lack of amplification of J2 of 14 other Heterodera species. A qPCR using DNA extracted from 120 J2 + eggs of H. avenae and H. latipons resulted in steady Ct-values (Ct = 22.33 +/- 0.1 and Ct = 21.83 +/- 0.12, respectively). Dilution series of DNA extracted from 120 J2 + eggs of the two species were made. The assays for both species resulted in a standard curve showing a highly significant linearity between the Ct-values and the dilution rates (R-2 = 0.99; slope = -3.03 and R-2 = 0.99; slope = -3.28 for H. avenae and H. latipons, respectively). The two qPCR assays provide a sensitive and valid tool for rapid detection and quantification of the two species whether they occur alone or in mixtures with other species.
Keywords
H. avenae, H. latipons, quantification., qPCR, cytochrome oxidase subunit 1 (COI) gene, REAL-TIME PCR, EVOLUTION, IDENTIFICATION, SOIL, FILIPJEVI, POTATO CYST, QUANTIFICATION, CYST-NEMATODE, RIBOSOMAL DNA, ROOT-LESION NEMATODE

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Chicago
Toumi, Fateh, Lieven Waeyenberge, Nicole Viaene, Abdelfattah Amer Dababat, Julie M Nicol, Francis C Ogbonnaya, and Maurice Moens. 2015. “Development of qPCR Assays for Quantitative Detection of Heterodera Avenae and H. Latipons.” European Journal of Plant Pathology 143 (2): 305–316.
APA
Toumi, F., Waeyenberge, L., Viaene, N., Dababat, A. A., Nicol, J. M., Ogbonnaya, F. C., & Moens, M. (2015). Development of qPCR assays for quantitative detection of Heterodera avenae and H. latipons. EUROPEAN JOURNAL OF PLANT PATHOLOGY, 143(2), 305–316.
Vancouver
1.
Toumi F, Waeyenberge L, Viaene N, Dababat AA, Nicol JM, Ogbonnaya FC, et al. Development of qPCR assays for quantitative detection of Heterodera avenae and H. latipons. EUROPEAN JOURNAL OF PLANT PATHOLOGY. 2015;143(2):305–16.
MLA
Toumi, Fateh, Lieven Waeyenberge, Nicole Viaene, et al. “Development of qPCR Assays for Quantitative Detection of Heterodera Avenae and H. Latipons.” EUROPEAN JOURNAL OF PLANT PATHOLOGY 143.2 (2015): 305–316. Print.
@article{6842380,
  abstract     = {Twelve Heterodera species are considered of major economic significance in cereals, of which Heterodera avenae, H. latipons and H. filipjevi are the most important. Precise identification and quantification of these nematodes are necessary to develop effective integrated pest control. This study reports on the use of the mitochondrial cytochrome oxidase subunit 1 (COI) gene to develop qPCR assays that could be used for the identification and quantification of H. avenae and H. latipons. Two qPCR primer sets, each comprising two primers and a probe, were designed for each of both species. After optimization, the qPCR assays using a single second-stage juvenile (J2) were able to identify and quantify H. avenae and H. latipons. Their specificity was confirmed by the lack of amplification of J2 of 14 other Heterodera species. A qPCR using DNA extracted from 120 J2 + eggs of H. avenae and H. latipons resulted in steady Ct-values (Ct = 22.33 +/- 0.1 and Ct = 21.83 +/- 0.12, respectively). Dilution series of DNA extracted from 120 J2 + eggs of the two species were made. The assays for both species resulted in a standard curve showing a highly significant linearity between the Ct-values and the dilution rates (R-2 = 0.99; slope = -3.03 and R-2 = 0.99; slope = -3.28 for H. avenae and H. latipons, respectively). The two qPCR assays provide a sensitive and valid tool for rapid detection and quantification of the two species whether they occur alone or in mixtures with other species.},
  author       = {Toumi, Fateh and Waeyenberge, Lieven and Viaene, Nicole and Dababat, Abdelfattah Amer and Nicol, Julie M and Ogbonnaya, Francis C and Moens, Maurice},
  issn         = {0929-1873},
  journal      = {EUROPEAN JOURNAL OF PLANT PATHOLOGY},
  keyword      = {H. avenae,H. latipons,quantification.,qPCR,cytochrome oxidase subunit 1 (COI) gene,REAL-TIME PCR,EVOLUTION,IDENTIFICATION,SOIL,FILIPJEVI,POTATO CYST,QUANTIFICATION,CYST-NEMATODE,RIBOSOMAL DNA,ROOT-LESION NEMATODE},
  language     = {eng},
  number       = {2},
  pages        = {305--316},
  title        = {Development of qPCR assays for quantitative detection of Heterodera avenae and H. latipons},
  url          = {http://dx.doi.org/10.1007/s10658-015-0681-0},
  volume       = {143},
  year         = {2015},
}

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