SRAP analysis of brown planthopper (Nilaparvata lugens) populations maintained on differential rice host varieties
##plugins.themes.bootstrap3.article.sidebar##
Issue
Section
Articles
##plugins.themes.bootstrap3.article.main##
Abstract
Abstract. Chaerani, Dadang A, Fatimah, Husin BA, Sutrisno, Yunus M. 2021. SRAP analysis of brown planthopper (Nilaparvata lugens) populations maintained on differential rice host varieties. Biodiversitas 22: 4266-4272. Brown planthopper (Nilaparvata lugens Stål) biotypes differ in virulence to rice varieties carrying different Bph resistance genes. These biotypes are reported can be genetically discriminated against using DNA markers. Four brown planthoppers (BPH) populations, which displayed two virulence phenotypes, have been produced by selection and adaptation on four differential host varieties. Sequence-related amplified polymorphism (SRAP) marker preferentially amplifies the coding regions in the genome and, thus, can discriminate the observed virulence variations among those populations. This study aimed to analyze the genetic variation of four developed BPH populations using SRAP markers. Genetic analysis of a total of 40 BPH females with 18 polymorphic primers revealed equal genetic diversity parameter values among populations (Na: 1.1 to 1.4, Ne: 1.2 to 1.3, I: 0.22 to 0.29, He: 0.14 to 0.18, and UHe: 0.15 to 0.19). Analysis of population structure by AMOVA indicated low genetic variation among populations (9%). Still, pairwise PhiPT population values between all pairs of the population revealed the presence of moderate genetic differentiations (PhiPT ranged from 0.57 to 0.133, P<0.01). Two partial clusters in plots of PCoA were corresponded to two virulence groups, indicating the ability of SRAP markers to discriminate virulence phenotype. Further selection and adaptation are expected can form four desired virulence patterns with complete genetic separation among the population before its application as resistance screening agents of rice lines.
##plugins.themes.bootstrap3.article.details##
References
Baehaki S, Munawar, D. 2008. Identification of brown planthopper biotype in Java, Sumatera and Sulawesi and resistance reaction of rice cultivars. In B. Suprihatno (ed). Prosiding Seminar Appreciation of Rice Research Supports P2BN. Balai Besar Penelitian Tanaman Padi, Subang, 19-20 Nopember 2007. [Indonesian]
Bahagiawati AH, Rijzaani H. 2005. Pengelompokan biotipe wereng cokelat berdasarkan hasil PCR-RAPD clustering of brown planthopper biotype based on RAPD-PCR. Hayati 12(1): 1–6.
Botstein D, White RL, Skolnick M, DAvis RW. 1980. Construction of a genetic linkage map in man using restriction fragment length polymorphisms. Am JHum Genet 32:314-331, 1980
Brar DS, Virk PS, Jena KK, Khush GS. 2009. Breeding for resistance to planthoppers in rice. In: Heong KL, Hardy B (eds) Plant hoppers: new threats to the sustainability of intensive rice production systems in Asia. International Rice Research Institute, Los Banos.
Budak H, Shearman RC, Gaussoin RE, Dweikat I.2004. Application of sequence-related amplified polymorphism markers for characterization of turfgrass species. HortScience 39(5): 955–958.
Chaerani, . 2015. Virulence and molecular characterization of brown planthopper (Nilaparvata lugens [Stål]). In: Abdulrachman S, Nuryanto B, Rahmini, Usyati N, Sudir, Widyantoro, Pratiwi GR, Ruskandar A, Kusbiantoro B, Handoko DD, Guswara A, Baliadi Y, Jamil A (eds) Rice technology Innovation Supports Bioindustrial Agriculture. BB Padi, Subang 19 August 2014. [Indonesian]
Chaerani, Fatimah, Damayanti D, Dadang A, Sutrisno, Bahagiawati. 2017. Selection of brown planthopper (Nilaparvata lugens Stal) biotypes. In: Rumanti IA, Susanto U, Usyati N, Nuryanto B, Ruskandar A, Widyantoro (eds) Breakthrough Innovation in Climate Change Adaptive Rice Technology Supports Food Sovereignty. Balai Besar Penelitian Tanaman Padi, Sukamandi 31 August 2016. [Indonesian].
Chaerani, Dadang A, Sutrisno, Bahagiawati AH, Yunus M. 2021. Virulence and SSR diversity of brown planthopper (Nilaparvata lugens) adapted on differential rice host varieties. Hayati J of Bioscience. [submitted]
Chaerani, Damayanti D, Trisnaningsih, Yuriyah S, Kusumanegara K, Dadang A, Sutrisno, Bahagiawati. 2016. Virulence of brown planthopper and development of core collection of the pest. J Pen Pert Tan Pangan 35(2): 109–118.
Cheng X, Zhu L, He G. 2013. Towards understanding of molecular interactions between rice and the brown planthopper. Molecular Plant, 6(3): 621–634.
Claridge MF, Den Hollander, J. 1983. Biotype concept and its application. Crop Protection 2(1): 85–95.
Claridge MF, Den Hollander J, Morgan JC. 1985. Variation in the courtship signals and hybridization between geographycally definable populations of the rice brown planthopper, Nilaparvata lugens (Stal). Biological Journal of the Linnean Society 24: 35–4.
Claridge MF, Morgan JC. 1987. The brown planthopper, Nilaparvata lugens (Stal), and some related species: a biotaxonomic approach. In: Wilson MR, Nault LR (eds) Proceedings of 2nd International Workshop on Leafhoppers and Planthoppers of Economic Importance. Provo, Utah, USA, 28th July-1st Aug 1986.
Jamil A, Satoto, Sasmita P, Guswara A, Suharna 2016. Description of New Superior Variety of Rice. Reasearch Institute for Rice Research, Subang.
Jing S, Liu B, Peng L, Peng X, Zhu L, Fu Q, He G. 2012. Development and use of EST-SSR markers for assessing genetic diversity in the brown planthopper (Nilaparvata lugens Stål). Bulletin of Entomological Research 102(1): 113–122.
Jing S, Zhang L, Ma Y, Liu B, Zhao Y, Yu H, Zhou X, Qin R, Zhu L, He G. . 2014. Genome-wide mapping of virulence in brown planthopper identifies loci that break down host plant resistance. PLoS ONE 9(6).
Li G, Quiros CF. 2001. Sequence-related amplified polymorphism (SRAP), a new marker system based on a simple PCR reaction: Its application to mapping and gene tagging in Brassica. Theoretical and Applied Genetics 103(2–3): 455–461.
Liao B, Wang F, Chen L, Li P, Ouyang K, Pian R, Liu M, Que Q, Zhou X, Xi W, Chen X. 2016. Population structure and genetic relationships of Melia taxa in China assayed with sequence-related amplified polymorphism (SRAP) markers. Forests 7(4): 1–15.
Liu K, Muse SV. 2005. PowerMaker: An integrated analysis environment for genetic maker analysis. Bioinformatics 21(9): 2128–2129.
Manzila I, Rijzaani H, Bahagiawati. 2000. Purification of laboratory brown planthopper biotypes. In: Mariska I, Somantri IH, Samudra IM, Ambarwati AD, Prasetiyono J, Orbani IN (eds) Prosiding Seminar on Results of Pioneering Research and Plant Biotechnology. Bogor,.26-27 Desember 2001. [Indonesian].
Nemoto H, Yokoo M. 2002. Experimental selection of a brown population on mixtures of resistant rice lines. Breeding Science 44: 133–136. Available at: http://www.mendeley.com/research/geology-volcanic-history-eruptive-style-yakedake-volcano-group-central-japan/.
Pathak M, Khan Z. 1994. Insect Pests of Rice. IRRI, Manila.
Peakall P, Smouse R. 2012. GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research–an update. Bioinformatics 28(19): 2537.
Robarts DWH, Wolfe AD. 2014. Sequence-related amplified polymorphism (SRAP) markers: a potential resource for studies in plant molecular biology. Applications in Plant Sciences: 2(7): 1400017.
Shufran K, Whalon M. 1995. Genetic analysis of brown planthopper biotypes using random amplified polymorphid DNA-polymerase chain-reaction (RAPD-PCR). International Journal of Tropical Insect Science 16(1): 27–33.
Xu Y, Cai N, Woeste K, Kang X, He C, Li G, Chen S, Duan A. 2016. Genetic diversity and population structure of Pinus yunnanensis by Simple Sequence Repeat Markers. Forest Science 62(1): 38–47.
Most read articles by the same author(s)
- SUTRISNO SUTRISNO, HERU KUSWANTORO, Cowpea Mild Mottle Virus (CpMMV) infection and its effect to performance of South Korean soybean varieties , Biodiversitas Journal of Biological Diversity: Vol. 17 No. 1 (2016)
- FATIMAH, FATICHATUS SUROIYAH, NIKMATUS SOLIKHA, NAZIL DWI RAHAYUNINGTYAS, TINI SURTININGSIH, TRI NURHARIYATI, NI’MATUZAHROH, MOCH. AFFANDI, ALMANDO GERALDI, AHMAD THONTOWI, Antimicrobial activity of actinomycetes isolated from mangrove soil in Tuban, East Java, Indonesia , Biodiversitas Journal of Biological Diversity: Vol. 23 No. 6 (2022)
- AGMAL QODRI, ENCILIA, YULIZAH, DEDEN GIRMANSYAH, SUNARDI, WAHYUDI SANTOSO, MEGAWATI, RINA RACHMATIYAH, FATIMAH, DARMAWAN, SARINO, DJUNIJANTI PEGGIE, Recorded and predicted butterflies in the Padang Bindu Karst, South Sumatra, Indonesia , Biodiversitas Journal of Biological Diversity: Vol. 24 No. 2 (2023)
- FATIMAH, LILLAH ASRITAFRIHA, SYARIFAH SALSABILA, ERNA KRISTIANA DEWI, NI’MATUZAHROH, ALMANDO GERALDI, RICO RAMADHAN, HERY SUWITO, ARRIZAL RAHMAN, LUKMAN RIYADI, Potential of antimicrobial-producing endophytic bacteria from Balikpapan endemic ginger (Etlingera balikpapanensis A.D. Poulsen) , Biodiversitas Journal of Biological Diversity: Vol. 25 No. 9 (2024)
- FIRLI RAHMAH PRIMULA DEWI, VUANGHAO LIM, A’LIYATUR ROSYIDAH, FATIMAH, SRI PUJI ASTUTI WAHYUNINGSIH, UMMI ZUBAIDAH, Characterization of silver nanoparticles (AgNPs) synthesized from Piper ornatum leaf extract and its activity against food borne pathogen Staphylococcus aureus , Biodiversitas Journal of Biological Diversity: Vol. 24 No. 3 (2023)
- SALAMUN, RIZKY DANANG SUSETYO, FARAH AISYAH NAFIDIASTRI, RIZKI AMALIAH ZAIN, ROSSY PERMATA SARI, ALMANDO GERALDI, FATIMAH, NI’MATUZAHROH, Potential biocontrol agent of indigenous Bacillus sp. EG6.4: Molecular identification, larvicidal toxicity, and mechanism of actions , Biodiversitas Journal of Biological Diversity: Vol. 23 No. 10 (2022)
- FATIMAH, NAZIL DWI RAHAYUNINGTYAS, ALIFAH NASTITI, DELA DWI ALAWIYAH, RICO RAMADHAN, ALMANDO GERALDI, JUNAIRIAH, Antibacterial and biosurfactant activity of endophytic bacteria isolated from mangrove plant in Lamongan, Indonesia , Biodiversitas Journal of Biological Diversity: Vol. 25 No. 7 (2024)
- FARAH AISYAH NAFIDIASTRI, NATASYA THESSA LOLITA, HANA SHAFIYAH RIQINA, BELLA ZEZARI AURORA, ALMANDO GERALDI, TRI NURHARIYATI, AGUS SUPRIYANTO, NI’MATUZAHROH, FATIMAH, SALAMUN, The potential of indigenous Bacillus sp. BT3.1 as an antifungal biopesticide against the plant pathogen Fusarium oxysporum , Biodiversitas Journal of Biological Diversity: Vol. 25 No. 6 (2024)