Evaluation of nematode DNA extraction methods for species identification of root rice nematode (Hirschmanniella spp.)

References

• Abubakar BM, Salleh FM, Wagiran A, Abba M. 2021. Comparative evaluation of different DNA extraction methods from E. Longifolia herbal medicinal product. eFood. 2(1):21–26.
   Google Scholar
• Ahaniazad M, Bagheri M, Roumi V, Akrami MA. 2018. An efficient and non-destructive DNA extraction method for oribatid mites. Archiv Phytopathol Plant Protect. 51(3-4):187–196.
   Google Scholar
• Bailey DW, Attia Z, Reinert S, S Hulke B, Kane NC. 2022. Effective strategies for isolating DNA from members of Asteraceae with high concentrations of secondary metabolites. Biotechniques. 72(3):85–89.
   PubMed Web of Science ®Google Scholar
• Beesa N, Sasnarukkit A, Jindapunnapat K, Tivet F, Bellafiore S, Chinnasri B. 2021. Species characterization and population dynamics of Hirschmanniella mucronata in lowland rice fields managed under conservation agriculture in Cambodia. J Saudi Soc Agric Sci. 20(3):137–145.
   Google Scholar
• Berliner J, Pokhare SS, Adak T, Guruprasannapandi. 2017. Rice root nematoda an emerging threat to irrigated rice. Ind Farm. 67:31–32.
   Google Scholar
• Chen H, Rangasamy M, Tan SY, Wang H, Siegfried BD. 2010. Evaluation of five methods for total DNA extraction from western corn rootworm beetles. PLoS One. 5(8):e11963.
   PubMed Web of Science ®Google Scholar
• Cheng X, Chen X, Su X, Zhao H, Han M, Bo C, Xu J, Bai H, Ning K. 2014. DNA extraction protocol for biological ingredient analysis of Liuwei Dihuang Wan. Genomics Proteomics Bioinf. 12(3):137–143.
   PubMedGoogle Scholar
• Coyne DL, Plowright RA. 2000. Nematode treats intensifying smallholder upland production in the Guinea Savannah of Cote d’ Ivoire. Trop Sci. 40:67–74.
   Google Scholar
• Dairawan M, Shetty PJ. 2020. The evolution of DNA extraction methods. Am J Biomed Sci Res. 8:39–45.
   Google Scholar
• Doyle J. 1991. DNA protocols for plants. In: Hewitt GM, Johnston AWB, Young JPW, editors. Molecular techniques in taxonomy. NATO ASI series. Vol. 57. Berlin (Germany): Springer; p. 283–293.
   Google Scholar
• Eurofins Genomics. 2019. DNA sequencing results guide. Ebersberg (Germany): Eurofins Genomics.
   Google Scholar
• Fitriya RT, Ibrahim M, Lisdiana L. 2015. The effectiveness of modified DNA isolation method of Kit and CTAB/NaCl on Staphylococcus aureus and Shigella dysentriae. LenteraBio. 4(1):87–92. http://ejournal.unesa.ac.id/index.php/lenterabio.
   Google Scholar
• Geneaid Biotech Ltd. 2017. Genomic DNA mini kit. Taipei, Taiwan. https://GeneAid.com/data/files/1605685391109197921.pdf. Accessed on June, 2022.
   Google Scholar
• George A, Jeeva ML, Nath VS, Sreelatha GL, Sujina MG. 2018. Simple and efficient genomic DNA extraction protocol for molecular characterisation of Phytophthora colocasiae causing taro leaf blight. Archiv Phytopathol Plant Protect. 51(5-6):241–251.
   Google Scholar
• Indarti S, Soffan A, Andrasmara MMF. 2020. First record of Hirschmanniella mucronata (Nematoda: Pratylenchidae) in Yogyakarta, Indonesia. Biodiversitas. 21(5):2068–2073.
   Google Scholar
• Jeger M, Bragard C, Caffier D, Candresse T, Chatzivassiliou E, Dehnen-Schmutz K, Gilioli G, Gregoire JC, Anton J, Miret J, et al. 2018. Pest categorisation of Hirschmanniella spp. EFS2. 16(6):1–31.
   Web of Science ®Google Scholar
• Khun K, Decraemer W, Couvreur M, Karssen G, Steel H, Bert W. 2015. Deceptive morphological variation in Hirschmaniella mucronata (Nematoda: Pratylenchidae) and polytomous key to genus. Nematology. 17(4):377–400.
   Google Scholar
• Maung ZTZ, Kyi PP, Myint YY, Lwin T, de Waele D. 2010. Occurrence of the rice root nematode Hirschmanniella oryzae on monsoon rice in Myanmar. Trop Plant Pathol. 35:3–10.
   Web of Science ®Google Scholar
• Mundy C, Vanga BR, Thompson S, Bulman S. 2018. Assesment of sampling and DNA extraction methods for identification of grapevine trunk microorganisms using metabarcoding. NZPP. 71:10–18.
   Google Scholar
• Mutalaliah M, Indarti S, Wibowo A. 2019. The prevalence and species of root-knot nematode which in potato seed in Central Java, Indonesia. Biodiversitas. 20(1):11–16. doi:10.13057/biodiv/d200102.
   Google Scholar
• Natarajan VP, Zhang X, Morono Y, Inagaki F, Wang F. 2016. A modified SDS-based DNA extraction method for high quality environmental DNA from seafloor environments. Front Microbiol. 7:986.
   PubMed Web of Science ®Google Scholar
• Nunn GB. 1992. Nematode molecular evolution [PhD thesis]. Nottingham (UK): University of Nottingham.
   Google Scholar
• Olexová L, Kuchta T, Dovicovicová L. 2004. Comparison of three types of methods for the isolation of DNA from flours, biscuits and instant paps. Eur Food Res Technol. 218(4):390–393.
   Web of Science ®Google Scholar
• Pascual MLD, Decraemer W, Tandingan De Ley I, Vierstraete A, Steel H, Bert W. 2014. Prevalence and characterization of plant-parasitic nematodes in lowland and upland rice agro-ecosystems in Luzon, Philippines. Nematropica. 44:166–180.
   Web of Science ®Google Scholar
• Powers T. 2004. Nematode molecular diagnostics: from bands to barcodes. Annu Rev Phytopathol. 42(1):367–383.
   PubMedGoogle Scholar
• Pratiwi NWK, Amrulloh R, Auly FE, Kurniawati F. 2020. Deteksi dan identifikasi nematoda puru akar (Meloidogyne spp.) pada tanaman bit menggunakan metode DNA barcoding. J Fitopatol Indones. 16(1):1–8.
   Google Scholar
• Reddy PR, Raju N. 2012. Gel electrophoresis and its applications. In: Magdeldin S, editor. pp. 15–32. Gel electrophoresis – principles and basics. InTech. http://www.intechopen.com/books/gelelectrophoresis-principles-and-basics/gel-electrophoresis-and-its-applications.
   Google Scholar
• Regmi H, Nongmaithem BD, Ngangbam AK. 2016. Biotic constraints in rice productivity with special reference to rice root nematode: Hirschmanniella spp. a review. J Glob Agric Ecol. 5:127–133.
   Google Scholar
• Sloan S, Jenvey CJ, Piedrafita D, Preston S, Stear MJ. 2021. Comparative evaluation of different molecular methds for DNA extraction from individual Teladorsagia circumcincta nematodes. BMC Biotechnol. 21(1):13.
   PubMed Web of Science ®Google Scholar
• Southey JF. 1986. Laboratory methods for work with plant and soil nematodes. London (UK): Her Majesty’s Stationary Office.
   Google Scholar
• Zouhar M, Ryšánek P, Kočová M. 2000. Detection and differentiation of the potato cyst nematodes Globodera pallida and Globodera rostochiensis by PCR. Plant Protect Sci. 36(3):81–84.
   Google Scholar