Sains Malaysiana 53(5)(2024):
1033-1042
http://doi.org/10.17576/jsm-2024-5305-05
Development of Real-time PCR Method for Detection
of Xanthomonas campestris pv. juglandisCausing Walnut Bacterial Blight
(Pembangunan Kaedah PCR Masa Nyata untuk Pengesanan Xanthomonas campestris pv. juglandis Penyebab Hawar Bakteria Walnut)
YUQING DONG, LING
XIE, HANMINGYUE ZHU & TIANHUI ZHU*
College of Forestry, Sichuan Agricultural University, Chengdu 611130, China
Diserahkan: 11 Julai2023/Diterima: 18
April 2024
Abstract
Walnut is one of the important economic tree
species in the world. For the past few years, with the continuous expansion of
walnut planting area, walnut bacterial blight caused by Xanthomonas campestrispv. juglandis has critically affected walnut production and
caused economic losses. In this research, by comparing the gene sequences of X. campestrispv. juglandis and
its closely related bacterial species, the 16S rDNA gene sequence was selected,
and the specific primers were evaluated using PCR. Subsequently, the real-time
fluorescence PCR specific detection method of X. campestrispv. juglandis was established and optimized. The specificity of
real-time PCR was verified for 23 strains isolated from walnut and its
surrounding soil, including eight target pathogens. The specific amplification
was possible even when the cDNA template concentration was 7.0×10-5 µg/mL,
hence, the detection sensitivity of the standard
method is 7.0×10-5 µg/mL. The reliability
of the established real-time PCR detection method in field detection was
verified by the identification of target bacteria in 8 randomly collected
healthy leaves and leaves of suspected walnut blight. This method laid a
foundation for the early diagnosis of X. campestrispv. juglandis.
Keywords: Rapid detection;
real-time fluorescence PCR; walnut bacterial blight; Xanthomonas campestrispv. juglandis
Abstrak
Walnut adalah salah satu spesies pokok yang penting dalam ekonomi dunia. Sejak beberapa tahun kebelakangan ini, dengan pengembangan berterusan kawasan penanaman walnut, hawar bakteria walnut yang disebabkan oleh Xanthomonas campestris pv. juglandis telah menjejaskan pengeluaran walnut secara kritikal dan menyebabkan kerugian ekonomi. Dalam penyelidikan ini, dengan membandingkan jujukan gen antara X. campestris pv. juglandis dan spesies bakteria yang berkait rapat, jujukan gen 16S rDNA telah dipilih dan pencetus khusus telah dinilai menggunakan PCR. Seterusnya, kaedah pengesanan khusus PCR pendarfluor masa nyata bagi X. campestris pv. juglandis telah dibangunkan dan dioptimumkan. Kekhususan PCR masa nyata telah disahkan untuk 23 strain yang dipencilkan daripada walnut dan tanah di sekelilingnya, termasuk 8 patogen sasaran. Amplifikasi khusus masih berlaku walaupun apabila kepekatan templat cDNA ialah 7.0×10-5 µg/mL, oleh itu, kepekaan pengesanan kaedah piawai ialah 7.0×10-5 µg/mL. Kebolehpercayaan kaedah pengesanan PCR masa nyata yang telah dibangunkan dalam pengesanan di lapangan telah disahkan dengan pengenalpastian bakteria sasaran dalam 8 daun sihat yang dikumpul secara rawak dan daun yang disyaki menghidapi hawar walnut. Kaedah ini meletakkan asas untuk diagnosis awal X. campestris pv. juglandis.
Kata kunci:
PCR pendarfluor masa nyata; pengesanan yang pantas; penyakit hawar bakteria walnut; Xanthomonas campestrispv. juglandis
RUJUKAN
Belisario, A., Maccaroni, M., Corazza, L., Balmas, V.
& Valier, A. 2002. Occurrence and etiology of brown apical necrosis on
Persian (English) walnut fruit. Plant
Disease 86(6): 599-602.
Dye, D.W.,
Bradbury, J.F., Goto, M., Hayward, A.C. & Schroth, M.N. 1980. International
standards for naming pathovars of phytopathogenic bacteria and a list of
pathovar names and pathotype strains. Review
of Plant Pathology 59: 153-168.
Elbeaino,
T., Incerti, O., Dakroub, H., Valentini, F. & Huang, Q. 2020. Development
of an FTP-LAMP assay based on TaqMan real-time PCR and LAMP for the specific
detection of Xylella fastidiosa De
Donno and mulberry strains in both plants and insect vectors. Journal of Microbiological Methods 175:
105992.
Fu, B., Zhu,
J., Lee, C. & Wang, L. 2021. Multilocus sequence analysis and copper ion
resistance detection of 60 Xanthomonas
arboricola pv. juglandis isolates
from China. Plant Disease 105(11):
3715-3719.
Fu, H.Y.,
Sun, S.R., Wang, J.D., Ahmad, K., Wang, H.B., Chen, R.K. & Gao, S.J. 2016.
Rapid and quantitative detection of Leifsonia
xyli subsp. xyli in sugarcane
stalk juice using a real-time fluorescent (TaqMan) PCR assay. Biomed Research International 2016:
2681816.
Inoue, Y.,
Fujikawa, T. & Takikawa, Y. 2021. Detection and identification of Xanthomonas campestris pv. campestris and pv. raphani by multiplex polymerase chain reaction using specific
primers. Applied Microbiology and
Biotechnology 105(5): 1991-2002.
Kałużna,
M., Fischer-Le Saux, M., Pothier, J.F., Jacques, M-A., Obradović, A., Tavares,
F. & Stefani, E. 2021. Xanthomonas
arboricola pv. juglandis and pv. corylina: Brothers or distant relatives?
Genetic clues, epidemiology, and insights for disease management. Molecular Plant Pathology 22(12):
1481-1499.
Kałużna,
M., Pulawska, J., Waleron, M. & Sobiczewski, P. 2014. The genetic
characterization of Xanthomonas
arboricola pv. juglandis, the
causal agent of walnut blight in Poland. Plant
Pathology 63(6): 1404-1416.
Kim, H.S.,
Cheon, W., Lee, Y., Kwon, H-T., Seo, S-T., Balaraju, K. & Jeon, Y. 2021.
Identification and characterization of Xanthomonas
arboricola pv. juglandis causing
bacterial blight of walnuts in Korea. The
Plant Pathology Journal 37(2): 137-151.
Lee, Y.A.,
Lo, Y.C. & Yu, P.P. 1999. A gene involved in quinate metabolism is specific
to one DNA homology group of Xanthomonas
campestris. Journal of Applied
Microbiology 87(5): 649-658.
Loreti, S.,
Gallelli, A., Belisario, A., Wajnberg, E. & Corazza, L. 2001. Investigation
of genomic variability of Xanthomonas
arboricola pv. juglandis by AFLP
analysis. European Journal of Plant
Pathology 107(6): 583-591.
Martínez,
M.L., Labuckas, D.O., Lamarque, A.L. & Maestri, D.M. 2010. Walnut (Juglans regia L.): Genetic resources,
chemistry, by-products. Journal of the
Science of Food and Agriculture 90(12): 1959-1967.
Moragrega,
C., Matias, J., Aletà, N., Montesinos, E. & Rovira, M. 2011. Apical
necrosis and premature drop of Persian (English) walnut fruit caused by Xanthomonas arboricola pv. juglandis. Plant Disease 95(12): 1565-1570.
Ortiz-Pallardó,
M.E., Zhou, H., Fischer, H.P., Neuhaus, T., Sachinidis, A., Vetter, H. &
Ko, T.B. 2000. Rapid analysis of a1-antitrypsin PiZ genotype by a real-time PCR
approach. Journal of Molecular Medicine 78(4): 212-216.
Ozkan, G.
& Koyuncu, M.A. 2005. Physical and chemical composition of some walnut (Juglans regia L.) genotypes grown in
Turkey. Grasas y Aceites 56(2): 141-146.
Penazova,
E., Dvorak, M., Ragasova, L., Kiss, T., Pecenka, J., Cechova, J. &
Eichmeier, A. 2020. Multiplex real-time PCR for the detection of Clavibacter michiganensis subsp. michiganensis, Pseudomonas syringae pv. tomato and pathogenic Xanthomonas species on tomato plants. PLoS ONE 15(1): e0227559.
Ramos, D.E.
1998. Walnut Production Manual. Riverside: Agricultural and Food Sciences.
Ramos, D.E.
1985. Walnut Orchard Management. Riverside: Agricultural
and Food Sciences.
Sagawa,
C.H.D., Assis, R.D.A.B., Zaini, P.A., Saxe, H., Wilmarth, P.A., Salemi, M.,
Phinney, B.S. & Dandekar, A. 2021. De novo arginine synthesis is
required for full virulence of Xanthomonas
arboricola pv. juglandis during
walnut bacterial blight disease. Phytopathology® 112(7): 1500-1512.
Schaad,
N.W., Vidaver, A.K., Lacy, G.H., Rudolph, K. & Jones, J.B. 2000. Evaluation
of proposed amended names of several Pseudomonads and Xanthomonads and
recommendations. Phytopathology® 90(3): 208-213.
Scortichini,
M., Marchesi, U. & Prospero, P.D. 2010. Genetic diversity of Xanthomonas arboricola pv. juglandis (synonyms: X. campestris pv. juglandis; X. juglandis pv. juglandis) strains from different
geographical areas shown by repetitive polymerase chain reaction genomic
fingerprinting. Journal of Phytopathology 149(6): 325-332.
Vauterin,
L., Hoste, B., Kersters, K. & Swings, J. 1995. Reclassification of Xanthomonas. International Journal of Systematic Bacteriology 45(3): 472-489.
Vicente,
J.G. & Holub, E.B. 2013. Xanthomonas
campestris pv. campestris (cause
of black rot of crucifers) in the genomic era is still a worldwide threat to
brassica crops. Molecular Plant Pathology 14(1): 2-18.
*Pengarang untuk surat-menyurat; email: zhuth1227@126.com
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