Evaluation of high-resolution melting and RT-qPCR probe assays for high-throughput detection of target-site mutations conferring glyphosate resistance in Lolium perenne

References

• Alfaro MP, Sepulveda JL, Lyon E. 2019. Chapter 22 – molecular testing for targeted therapies and pharmacogenomics. In: Dasgupta A, Sepulveda JL, editors. Accurate results in the clinical laboratory. 2nd ed. London: Elsevier; p. 349–363.
   Google Scholar
• Anderson CB, Franzmayr BK, Hong SW, Larking AC, van Stijn TC, Tan R, Moraga R, Faville MJ, Griffiths AG. 2018. Protocol: a versatile, inexpensive, high-throughput plant genomic DNA extraction method suitable for genotyping-by-sequencing. Plant Methods. 14(1):75.
   PubMedGoogle Scholar
• Barrantes-Santamaría W, Castillo-Matamoros R, Herrera-Murillo F, Brenes-Angulo A, Gómez-Alpízar L. 2018. Detection of the Trp-2027-Cys mutation in fluazifop-P-butyl–resistant itchgrass (Rottboellia cochinchinensis) using high-resolution melting analysis (HRMA). Weed Sci. 66(3):286–292.
   Web of Science ®Google Scholar
• Baucom RS. 2019. Evolutionary and ecological insights from herbicide-resistant weeds: what have we learned about plant adaptation, and what is left to uncover? New Phytol. 223(1):68–82.
   PubMed Web of Science ®Google Scholar
• Bradshaw LD, Padgette SR, Kimball SL, Wells BH. 1997. Perspectives on glyphosate resistance. Weed Technol. 11(1):189–198.
   Web of Science ®Google Scholar
• Buddenhagen CE, Harvey B, Wynne-Jones B, Hackell DL, Ghanizadeh H, Ando Y, Ngow Z, James TK. 2022. Ryegrass resistance to glyphosate and amitrole is becoming common in New Zealand vineyards. New Zeal Plant Prot. 75:57–63.
   Google Scholar
• Buddenhagen CE, James TK, Ngow Z, Hackell DL, Rolston MP, Chynoweth RJ, Gunnarsson M, Li F, Harrington KC, Ghanizadeh H. 2021. Resistance to post-emergent herbicides is becoming common for grass weeds on New Zealand wheat and barley farms. PLOS ONE. 16(10):e0258685.
   PubMed Web of Science ®Google Scholar
• Burgos NR. 2015. Whole-plant and seed bioassays for resistance confirmation. Weed Sci. 63(sp1):152–165.
   Google Scholar
• Burgos NR, Tranel PJ, Streibig JC, Davis VM, Shaner D, Norsworthy JK, Ritz C. 2013. Review: confirmation of resistance to herbicides and evaluation of resistance levels. Weed Sci. 61(1):4–20.
   Web of Science ®Google Scholar
• Cousins MM, Donnell D, Eshleman SH. 2013. Impact of mutation type and amplicon characteristics on genetic diversity measures generated using a high-resolution melting diversity assay. J Mol Diagn. 15(1):130–137.
   PubMed Web of Science ®Google Scholar
• Dayan FE, Owens DK, Corniani N, Silva FML, Watson SB, Howell J, Shaner DL. 2015. Biochemical markers and enzyme assays for herbicide mode of action and resistance studies. Weed Sci. 63:23–63.
   Web of Science ®Google Scholar
• Délye C, Menchari Y, Michel S, Darmency H. 2004. Molecular bases for sensitivity to tubulin-binding herbicides in green foxtail. Plant Physiol. 136(4):3920–3932.
   PubMed Web of Science ®Google Scholar
• Délye C, Michel S. 2005. ‘Universal’ primers for PCR-sequencing of grass chloroplastic acetyl-CoA carboxylase domains involved in resistance to herbicides. Weed Res. 45(5):323–330.
   Web of Science ®Google Scholar
• Délye C, Pernin F, Michel S. 2011. ‘Universal’ PCR assays detecting mutations in acetyl-coenzyme A carboxylase or acetolactate synthase that endow herbicide resistance in grass weeds. Weed Res. 51(4):353–362.
   Web of Science ®Google Scholar
• Ghanizadeh H, Buddenhagen CE, Griffiths AG, Harrington KC, Ngow Z. 2022. Target-site and non-target site resistance mechanisms are associated with iodosulfuron resistance in Lolium perenne L. New Zeal J Agric Res. DOI:10.1080/00288233.2022.2153875.
   Web of Science ®Google Scholar
• Ghanizadeh H, Buddenhagen CE, Harrington KC, James TK. 2019. The genetic inheritance of herbicide resistance in weeds. Crit Rev Plant Sci. 38(4):295–312.
   Web of Science ®Google Scholar
• Ghanizadeh H, Griffiths AG, Buddenhagen CE, Anderson CB, Harrington KC. 2021. A PCR plus restriction enzyme-based technique for detecting target-enzyme mutations at position Pro-106 in glyphosate-resistant Lolium perenne. PLOS ONE. 16(2):e0246028.
   PubMed Web of Science ®Google Scholar
• Ghanizadeh H, Harrington KC. 2021. Herbicide resistant weeds in New Zealand: state of knowledge. New Zeal J Agric Res. 64(4):471–482.
   Web of Science ®Google Scholar
• Ghanizadeh H, Harrington KC, James TK, Woolley DJ. 2015a. Quick tests for detecting glyphosate-resistant Italian and perennial ryegrass. New Zeal J Agric Res. 58(2):108–120.
   Web of Science ®Google Scholar
• Ghanizadeh H, Harrington KC, James TK, Woolley DJ, Ellison NW. 2015b. Mechanisms of glyphosate resistance in two perennial ryegrass (Lolium perenne) populations. Pest Manag Sci. 71:1617–1622.
   PubMed Web of Science ®Google Scholar
• Ghanizadeh H, Harrington KC, James TK, Woolley DJ, Ellison NW. 2016. Restricted herbicide translocation was found in two glyphosate-resistant Italian ryegrass (Lolium multiflorum Lam.) populations from New Zealand. J Agric Sci Technol. 18(4):1041–1051.
   Google Scholar
• Harrington KC, Ghanizadeh H. 2023. Comparing herbicide resistance in New Zealand and Australia. New Zeal J Agric Res. DOI:10.1080/00288233.2023.2180759.
   Web of Science ®Google Scholar
• Harrington KC, James TK, Parker MD, Ghanizadeh H. 2016. Strategies to manage the evolution of glyphosate resistance in New Zealand. New Zealand Plant Protection Journal. 69:252–257.
   Google Scholar
• Heap I. 2023. The international survey of herbicide resistant weeds. [accessed 2023 Feb 11]. http://www.weedscience.com.
   Google Scholar
• Monaco TJ, Weller SC, Ashton FM. 2001. Weed science: principles and practices. 4th ed. New York: John Wiley and Sons.
   Google Scholar
• Murphy BP, Tranel PJ. 2019. Target-site mutations conferring herbicide resistance. Plants. 8:382.
   Google Scholar
• Nandula VK. 2010. Glyphosate resistance in crops and weeds: history, development, and management. Nandula VK editor. Hoboken, NJ: John Wiley & Sons, Inc. 321 pp. xviii + 321 p.
   Google Scholar
• Neve P. 2007. Challenges for herbicide resistance evolution and management: 50 years after Harper. Weed Res. 47(5):365–369.
   Web of Science ®Google Scholar
• Pan L, Yu Q, Han H, Mao L, Nyporko A, Fan L, Bai L, Powles SB. 2019. Aldo-keto reductase metabolizes glyphosate and confers glyphosate resistance in Echinochloa colona. Plant Physiol. 181:1–16.
   PubMed Web of Science ®Google Scholar
• Shaner DL. 2009. Role of translocation as a mechanism of resistance to glyphosate. Weed Sci. 57(1):118–123.
   Web of Science ®Google Scholar
• Tal A, Rubin B. 2004. Molecular characterization and inheritance of resistance to ACCase-inhibiting herbicides in Lolium rigidum. Pest Manag Sci. 60(10):1013–1018.
   PubMed Web of Science ®Google Scholar
• Wang Y, Song L, Zhao L, Yu W, Zhao T. 2022. Development of a gene-based high resolution melting (HRM) marker for selecting the gene ty-5 conferring resistance to tomato yellow leaf curl virus. Horticulturae. 8(2):112.
   Web of Science ®Google Scholar
• Warwick SI, Sauder CA, Beckie HJ. 2010. Acetolactate synthase (ALS) target-site mutations in ALS inhibitor-resistant Russian thistle (Salsola tragus). Weed Sci. 58(3):244–251.
   Web of Science ®Google Scholar
• Zhang L, Cui G, Li Z, Wang H, Ding H, Wang DW. 2013. Comparison of high-resolution melting analysis, TaqMan allelic discrimination assay, and Sanger sequencing for clopidogrel efficacy genotyping in routine molecular diagnostics. J Mol Diagn. 15(5):600–606.
   PubMed Web of Science ®Google Scholar