Refine your search
Collections
Co-Authors
- Santosh S. Mali
- Babasaheb B. Fand
- Bikash Das
- Govindharaj Guru-Pirasanna-Pandi
- Abel Chemura
- G. Basana-Gowda
- Mahendran Annamalai
- Naveenkumar Patil
- Totan Adak
- Prakash Chandra Rath
- Aashish Kumar Anant
- Soumya Bharati Babu
- M. Annamalai
- P. Panneerselvam
- Guru-Pirasanna-Pandi Govindharaj
- C. Parameswaran
- P. Paneerselvam
- Naiyar Naaz
- Enrico Ruzzier
Journals
A B C D E F G H I J K L M N O P Q R S T U V W X Y Z All
Choudhary, Jaipal Singh
- Predicting the Invasion Potential of Indigenous Restricted Mango Fruit Borer, Citripestis Eutraphera (Lepidoptera:Pyralidae) in India Based on Maxent Modelling
Abstract Views :237 |
PDF Views:88
Authors
Affiliations
1 ICAR Research Complex for Eastern Region, Research Centre, Plandu, Ranchi 834 010, IN
2 Division of Crop Protection, ICAR-Central Institute for Cotton Research, Nagpur 440 010, IN
1 ICAR Research Complex for Eastern Region, Research Centre, Plandu, Ranchi 834 010, IN
2 Division of Crop Protection, ICAR-Central Institute for Cotton Research, Nagpur 440 010, IN
Source
Current Science, Vol 116, No 4 (2019), Pagination: 636-642Abstract
The mango fruit borer, Citripestis eutraphera (Meyrick), originally confined to the Andaman Islands, is a recent invasion in mainland India. With changes in climatic conditions, the pest is likely to spread in other major mango-growing regions of the country and can pose serious threats to mango production. In this backdrop, the present study examines the impact of climate change to develop spatio-temporal distribution of invasive C. eutraphera in India using the maximum entropy (MaxEnt) modelling approach. Integration of point data on current occurrence of pest and corresponding bioclimatic variables in MaxEnt were used to define the potential distribution in India and mapped using spatial analysis tool in ArcGIS. The model framework performed well as indicated by high area under the curve (0.97) value. Jackknife test for estimating predictive power of the variables indicated that ‘isothermality’ and ‘temperature seasonality’ significantly affected C. eutraphera distribution. It was found that mango-growing pockets in the southwestern parts of Gujarat, as well as parts of Kerala and Tamil Nadu were moderately to highly suitable for C. eutraphera distribution in 2050 and 2070. The results of this study could be an important guide for selecting monitoring and surveillance sites and designing integrated pest management policies in the context of climate change against this invasive pest of mango.Keywords
Climate Change, Mango, Invasive Pest, Species Distribution Models.References
- Bradley, B. A., Blumenthal, D. M., Wilcove, D. S. and Ziska, L. H., Predicting plant invasions in an era of global change. Trends Ecol. Evol., 2010, 25(5), 310–318.
- Pimentel, D., In Biological Invasions: Economic and Environmental Costs of Alien Plant, Animal, and Microbe Species, CRC Press, Boca Raton, Florida, USA, 2011, 2nd edn, p. 463.
- Mack, R. N., Simberloff, D., Lonsdale, W. M., Evans, H., Clout, M. and Bazzae, F. A., Biotic invasions: causes, epidemiology, global consequences, and control. Ecol. Appl., 2000, 10(10), 689–710.
- Soumya, B. R., Verghese, A., Kamala Jayanthi, P. D. and Jalali, S. K., Need to strengthen quarantine between Andaman and Nicobar Islands and mainland India. Curr. Sci., 2016, 111(11), 1753–1756.
- Mainka, S. A. and Howard, G. W., Climate change and invasive species: double jeopardy. Integr. Zool., 2010, 5(2), 102–111.
- Sujay, Y. H., Sattagi, H. N. and Patil, R. K., Invasive alien insects and their impact on agroecosystem. Karnataka J. Agric. Sci., 2010, 23(1), 26–34.
- Kamla Jayanthi, P. D., Verghese, A., Shashank, P. R. and Kempraj, V., Spread of indigenous restricted fruit borer, Citripestis eutraphera (Meyrick) (Lepidoptera: Pyralidae) in mango: time for domestic quarantine regulatory reforms. Pest Manage. Hortic. Ecosyst., 2014, 20, 227–230.
- Bhumannavar, B. S., Record of Citripestis eutraphera Meyrick (Pyralidae: Lepidoptera) on Mangifera andamanica in India. J. Bombay Nat. Hist. Soc., 1991, 88(2), 299.
- Jacob, T. K., Veenakumari, K. and Bhumannavar, B. S., Insect pests of cashew in the Andaman Islands. Cashew, 2004, 18(4), 25–28.
- Anderson, S. and Tran-Nguyen, L., Mango fruit borer (Citripestis eutraphera). updated on 24 February 2012; http://www.padil.gov.au (accessed on 17 August 2016).
- Ali, M. R., Miah, M. R. U., Chowdhury, M. S. U. M., Karim, M. A., Mustafi, B. A. A., Hossain, M. M. A. and Rahman, K. M. H., Pest risk analysis (PRA) of mango in Bangladesh. Department of Agriculture Extension, Dhaka, 2015, p. 92.
- Hiremath, S. R., Kumara, S. A. and Prathapan, K. D., First report of the mango fruit borer, Citripestis eutraphera (Meyrick) (Lepidoptera: Pyralidae) as a seedling borer of cashew, Anacardium occidentale L. (Anacardiaceae). J. Lepid. Soc., 2017, 71(2), 115– 116.
- Robinson, G. S., Ackery, P. R., Kitching, I. J., Beccaloni, G. W. and Hernández, L. M., HOSTS – a database of the world’s lepidopteran host plants. Natural History Museum, London, 2010; http://www.nhm.ac.uk/hosts (accessed on 17 August 2016).
- Kalshoven, L. G. E., Pests of Crops in Indonesia, Ichtiar Baru, W. Van Hoeve, Jakarta, 1981, p. 701.
- Kumar, S. et al., Evidence of niche shift and global invasion potential of the Tawny Crazy ant, Nylanderia fulva. Ecol. Evol., 2015, 5(20), 4268–4641.
- Bentlage, B., Peterson, A. T., Barve, N. and Cartwright, P., Plumbing the depths: extending ecological niche modelling and species distribution modelling in three dimensions. Global. Ecol. Biogeogr., 2013, 22(8), 952–961.
- Kumar, S., Graham, J., West, A. M. and Evangelista, P. H., Using district-level occurrences in MaxEnt for predicting the invasion potential of an exotic insect pest in India. Comput. Electron. Agric., 2014, 103, 55–62.
- Evangelista, P. H., Kumar, S., Stohlgren, T. J. and Young, N. E., Assessing forest vulnerability and the potential distribution of pine beetles under current and future climate scenarios in the Interior West of the US. For. Ecol. Manage., 2011, 262(3), 307–316.
- Fand, B. B., Kumar, M. and Kamble, A. L., Predicting the potential geographic distribution of cotton mealybug Phenacoccus solenopsis in India based on MaxEnt ecological niche model. J. Environ. Biol., 2014, 35(5), 973–982.
- Wei, J., Zhang, H., Zhao, W. and Zhao, Q., Niche shifts and the potential distribution of Phenacoccus solenopsis (Hemiptera: Pseudococcidae) under climate change. PLoS ONE, 2017, 12(7), e0180913.
- Hijmans, R. J., Cameron, S. E., Parra, J. L., Jones, P. G. and Jarvis A., Very high resolution interpolated climate surfaces for global land areas. Int. J. Climatol., 2005, 25(15), 195–204.
- Warren, D. L., Glor, R. E. and Turelli, M., ENMTools: a toolbox for comparative studies of environmental niche models. Ecography, 2010, 33(3), 607–611.
- Moss, R. H. et al., The next generation of scenarios for climate change research and assessment. Nature, 2010, 463(7282), 747–756.
- Phillips, S. J., Anderson, R. P. and Schapire, R. E., Maximum entropy modeling of species geographic distributions. Ecol. Model., 2006, 190(3–4), 231–259.
- Pearson, R. G., Raxworthy, C. J., Nakamura, M. and Peterson, A. T., Predicting species distributions from small numbers of occurrence records: a test case using cryptic geckos in Madagascar. J. Biogeogr., 2007, 34(1), 102–117.
- Kumar, S. and Stohlgren, T. J., Maxent modeling for predicting suitable habitat for threatened and endangered tree Canacomyrica monticola in New Caledonia. J. Ecol. Nat. Environ., 2009, 1(4), 94–98.
- Swets, J. A., Measuring the accuracy of diagnostic systems. Science, 1988, 240(4857), 1285–1293.
- Peterson, A. T., Soberon, J., Pearson, R. G., Anderson, R. P., Martinez-Meyer, E., Nakamura, M. and Araujo, M. B., Ecological Niches and Geographic Distributions, Princeton University Press, Princeton, NJ, USA, 2011, p. 328.
- Dormann, C. F. et al., Correlation and process in species distribution models: bridging a dichotomy. J. Biogeogr., 2012, 39(12), 2119–2131.
- Balocha, M. K., Bibi, F. and Jilani, M. F., Quality and shelf life of mango (Mangifera indica L.) fruit: as affected by cooling at harvest time. Sci. Hortic., 2011, 130, 642–646.
- Medlicott, A. P., Rynolds, S. B. and Thompson, A. K., Effect of temperature on ripening of mango fruit (Mangifera indica L. var. Tommy Atkins). J. Sci. Food Agric., 1986, 37, 469–474.
- Wisz, M. S. et al., The role of biotic interactions in shaping distributions and realized assemblages of species: implications for species distribution modelling. Biol. Rev., 2013, 88(1), 15–30.
- Buckley, L. B., Waaser, S. A., MacLean, H. J. and Fox, R., Does including physiology improve species distribution model predictions of responses to recent climate change? Ecology, 2011, 92(12), 2214–2221.
- Predicting the Brown Planthopper, Nilaparvata lugens (Stål) (Hemiptera: Delphacidae) Potential Distribution Under Climatic Change Scenarios in India
Abstract Views :205 |
PDF Views:78
Authors
Govindharaj Guru-Pirasanna-Pandi
1,
Jaipal Singh Choudhary
2,
Abel Chemura
3,
G. Basana-Gowda
1,
Mahendran Annamalai
1,
Naveenkumar Patil
1,
Totan Adak
1,
Prakash Chandra Rath
4
Affiliations
1 Division of Crop Protection, ICAR-National Rice Research Institute, Cuttack 753 006, IN
2 ICAR-RCER, Farming System Research Centre for Hill and Plateau Region, Ranchi 834 010, IN
3 Potsdam Institute for Climate Impact Research (PIK), A Member of the Leibniz Association, Potsdam, DE
4 Division of Crop Protection, ICAR-National Rice Research Institute, Cuttack 753 006, India, IN
1 Division of Crop Protection, ICAR-National Rice Research Institute, Cuttack 753 006, IN
2 ICAR-RCER, Farming System Research Centre for Hill and Plateau Region, Ranchi 834 010, IN
3 Potsdam Institute for Climate Impact Research (PIK), A Member of the Leibniz Association, Potsdam, DE
4 Division of Crop Protection, ICAR-National Rice Research Institute, Cuttack 753 006, India, IN
Source
Current Science, Vol 121, No 12 (2021), Pagination: 1600-1609Abstract
The brown planthopper, Nilaparvata lugens (Stål) is the most serious pest of rice across the world. It is also known to transmit stunted viral disease; the insect alone or in combination with a virus causes the breakdown of rice vascular system, leading to economic losses in commercial rice production. Despite its immense economic importance, information on its potential distribution and factors governing the present and future distribution patterns is limited. Thus, in the present study we used maximum entropy modelling with bioclimatic variables to predict the present and future potential distribution of N. lugens in India as an indicator of risk. The predictions were mapped for spatio-temporal variation and area was analysed under suitability ranges. Jackknife analysis indicated that N. lugens geographic distribution was mostly influenced by temperature-based variables that explain up to 68.7% of the distribution, with precipitation factors explaining the rest. Among individual factors, the most important for distribution of N. lugens was annual mean temperature followed by precipitation of coldest quarter and precipitation seasonality. Our results highlight that the highly suitable areas under current climate conditions are 7.3%, whereas all projections show an increase under changing climatic conditions with time up to 2090, and with emission scenarios and a corresponding decrease in low-risk areas. We conclude that climate change increases the risk of N. lugens with increased temperature as it is likely to spread to the previously unsuitable areas in India, demanding adaptation strategies.Keywords
Climate Change, Maximum Entropy Modeling, Nilaparvata lugens, Potential Distribution, Rice.References
- Lobell, D. B. and Gourdji, S. M., The influence of climate change on global crop productivity. Plant Physiol., 2012, 160(4), 1686–1697.
- Liu, D., Mishra, A. K. and Ray, D. K., Sensitivity of global major crop yields to climate variables: a non-parametric elasticity analysis. Sci. Total Environ., 2020, 748, 141431.
- Ceglar, A., Zampieri, M., Toreti, A. and Dentener, F., Observed northward migration of agro‐climate zones in Europe will further accelerate under climate change. Earths Future, 2019, 7(9), 1088–1101.
- Taylor, R. A., Ryan, S. J., Lippi, C. A., Hall, D. G., Narouei‐ Khandan, H. A., Rohr, J. R. and Johnson, L. R., Predicting the fundamental thermal niche of crop pests and diseases in a changing world: a case study on citrus greening. J. Appl. Ecol., 2019, 56(8), 2057–2068.
- Juroszek, P., Racca, P., Link, S., Farhumand, J. and Kleinhenz, B., Overview on the review articles published during the past 30 years relating to the potential climate change effects on plant pathogens and crop disease risks. Plant Pathol., 2020, 69(2), 179–193.
- Yang, L., Huang, L. F., Wang, W. L., Chen, E. H., Chen, H. S. and Jiang, J. J., Effects of temperature on growth and development of the brown planthopper, Nilaparvata lugens (Homoptera: Delphacidae). Environ. Entomol., 2021, 50(1), 1–11.
- Berzitis, E. A., Minigan, J. N., Hallett, R. H. and Newman, J. A., Climate and host plant availability impact the future distribution of the bean leaf beetle (Cerotoma trifurcata). Global Change Biol., 2014, 20, 2778–2792.
- Pandi, G. G. P., Chander, S., Pal, M. and Soumia, P. S., Impact of elevated CO2 on Oryza sativa phenology and brown planthopper, Nilaparvata lugens (Hemiptera: Delphacidae) population. Curr. Sci., 2018, 114(8), 1767–1777.
- Rao, V. T., Nilaparvata lugens Stal (Fulgoridae: Homoptera) as a pest of paddy cultivation in North Madras and its control. Indian J. Entomol., 1950, 12, 241–248.
- Jena, M. et al., Paradigm shift of insect pests in rice ecosystem and their management strategy. Oryza, 2018, 55, 82–89.
- Pandi, G. G. P., Chander, S. and Pal, M., Impact of elevated CO2 on brown planthopper, Nilaparvata lugens (Stal). Indian J. Entomol., 2017, 79(1), 82–85.
- Du, B., Chen, R., Guo, J. and He, J., Current understanding of the genomic, genetic, and molecular control of insect resistance in rice. Mol. Breed., 2020, 40, 24.
- Pandi, G. G. P., Chander, S., Pal, M. and Pathak, H., Impact of elevated CO2 and temperature on brown planthopper population in rice ecosystem. Proc. Natl. Acad. Sci. India Sect. B, 2016, 88(1), 57–64.
- Wu, S. F. et al., The evolution of insecticide resistance in the brown planthopper (Nilaparvata lugens Stål) of China in the period 2012–2016. Sci. Rep., 2018, 8(1), 1–11.
- Bale, J. S. B., Masters, G. J. and Hodkinson, I. D., Herbivory in global climate change research: direct effects of rising temperature on insect herbivores. Global Change Biol., 2002, 8, 1–16.
- Piyaphongkul, J., Pritchard, J. and Bale, J., Can tropical insects stand the heat? A case study with the brown planthopper Nilaparvata lugens (Stål). PLOS ONE, 2012, 7(1), e29409.
- Hallman, G. J. and Denlinger, D. L., Temperature Sensitivity in Insects and Application in Integrated Pest Management, CRC Press, New York, USA, 2019, pp. 6–47.
- Sujithra, M. and Chander, S., Simulation of rice brown planthopper, Nilaparvata lugens (Stal.) population and crop–pest interactions to assess climate change impact. Climatic Change, 2013, 121, 331–347.
- Bentlage, B., Peterson, A. T., Barve, N. and Cartwright, P., Plumbing the depths: extending ecological niche modelling and species distribution modelling in three dimensions. Global Ecol. Biogeogr., 2013, 22(8), 952–961.
- Kumar, S., Graham, J., West, A. M. and Evangelista, P. H., Using district-level occurrences in MaxEnt for predicting the invasion potential of an exotic insect pest in India. Comput. Electron. Agric., 2014, 103, 55–62.
- Evangelista, P. H., Kumar, S., Stohlgren, T. J. and Young, N. E., Assessing forest vulnerability and the potential distribution of pine beetles under current and future climate scenarios in the Interior West of the US. For. Ecol. Manage., 2011, 262(3), 307–316.
- Choudhary, J. S., Kumari, M., Mali, S. S., Dhakar, M. K., Das, B., Singh, A. K. and Bhatt, B. P., Predicting impact of climate change on habitat suitability of guava fruit fly, Bactrocera correcta (Bezzi) using MaxEnt modeling in India. J. Agrometeorol., 2019, 21(1), 24–30.
- AICRIP, All India Co-ordianted Rice Improvement Programme progress report. Volume 2: entomology and plant pathology. ICAR-Indian Institute of Rice Research, Hyderabad, 2019, pp. 18–20.
- EPPO, Global database on insect pest distribution, European and Mediterranean Plant Protection Organization, 2020; https://gd.eppo.int/taxon/NILALU/distribution (accessed on 14 December 2020).
- CABI, Datasheet on invasive species compendium, Centre for Agriculture and Bioscience International, 2020; https://www.cabi.org/isc/datasheet/36301 (accessed on 14 December 2020).
- Guevara, L., Gerstner, B. E., Kass, J. M. and Anderson, R. P., Toward ecologically realistic predictions of species distributions: a cross-time example from tropical montane cloud forests. Global Change Biol., 2018, 24, 1511–1522.
- Fourcade, Y., Engler, J. O., Rödder, D. and Secondi, J., Mapping species distributions with MAXENT using a geographically biased sample of presence data: a performance assessment of methods for correcting sampling bias. PLOS ONE, 2014, 9(5), e97122.
- Hortal, J., Roura-Pascual, N., Sanders, N. J. and Rahbek, C., Understanding (insect) species distributions across spatial scales. Ecography, 2010, 33, 51–53.
- Hijmans, R. J., Cameron, S. E., Parra, J. L., Jones, P. G. and Jarvis, A., Very high resolution interpolated climate surfaces for global land areas. Int. J. Climatol., 2005, 25(15), 195–204.
- Moss, R. H. et al., The next generation of scenarios for climate change research and assessment. Nature, 2010, 463(7282), 747–756.
- Taylor, K. E., Stouffer, R. J. and Meehl, G. A., An overview of CMIP5 and the experiment design. Bull. Am. Meteorol. Soc., 2012, 93, 485–498.
- Gao, T., Xu, Q., Liu, Y., Zhao, J. and Shi, J., Predicting the potential geographic distribution of Sirex nitobei in China under climate change using maximum entropy model. Forests, 2021, 12, 151.
- Rajpoot, R. et al., Climate models predict a divergent future for the medicinal tree Boswellia serrata Roxb. in India. Global Ecol. Conserv., 2020, 23, e01040.
- Wei, J., Zhang, H., Zhao, W. and Zhao, Q., Niche shifts and the potential distribution of Phenacoccus solenopsis (Hemiptera: Pseudococcidae) under climate change. PLOS ONE, 2017, 12(7), e0180913.
- Warren, D. L., Glor, R. E. and Turelli, M., ENMTools: a toolbox for comparative studies of environmental niche models. Ecography, 2010, 33(3), 607–611.
- Phillips, S. J., Anderson, R. P. and Schapire, R. E., Maximum entropy modeling of species geographic distributions. Ecol. Model., 2006, 190(3–4), 231–259.
- Elith, J., Graham, C. H., Anderson, R. P., Dudik, M. and Ferrier, S., Novel methods improve prediction of species’ distributions from occurrence data. Ecography, 2006, 29, 129–151.
- Pearson, R. G., Raxworthy, C. J., Nakamura, M. and Peterson, A. T., Predicting species distributions from small numbers of occurrence records: a test case using cryptic geckos in Madagascar. J. Biogeogr., 2007, 34, 102–117.
- Pearce, J. and Ferrier, S., An evaluation of alternative algorithms for fitting species distribution models using logistic regression. Ecol. Model., 2000, 128, 127–147.
- Qin, Y., Wang, C., Zhao, Z., Pan, X. and Li, Z., Climate change impacts on the global potential geographical distribution of the agricultural invasive pest, Bactrocera dorsalis (Hendel) (Diptera: Tephritidae). Climatic Change, 2019, 155, 145–156.
- Chemura, A., Musundire, R. and Chiwona-Karltun, L., Modelling habitat and spatial distribution of the edible insect Henicus whellani Chop (Orthoptera: Stenopelmatidae) in south-eastern districts of Zimbabwe. J. Insects Food Feed, 2018, 4(4), 229–238.
- Liu, C., Newell, G. and White, M., The effect of sample size on the accuracy of species distribution models: considering both presences and pseudo‐absences or background sites. Ecography, 2019, 42(3), 535–548.
- Fois, M., Cuena-Lombraña, A., Fenu, G. and Bacchetta, G., Using species distribution models at local scale to guide the search of poorly known species: review, methodological issues and future directions. Ecol. Model., 2018, 385, 124–132.
- West, A. M., Kumar, S., Brownb, C. S., Stohlgren, T. J. and Bromberg, J., Field validation of an invasive species Maxent model. Ecol. Inform., 2016, 36, 126–134.
- Warren, D. L. and Seifert, S. N., Ecological niche modeling in Maxent: the importance of model complexity and the performance of model selection criteria. Ecol. Appl., 2011, 21, 335–342.
- Ali, M. P., Huang, D. and Nachman, G., Ahmed, N., Begum, M. A. and Rabbi, M. F., Will climate change affect outbreak patterns of planthoppers in Bangladesh? PLOS ONE, 2014, 9(3), 1–10.
- Hu, G. et al., Outbreaks of the brown planthopper Nilaparvata lugens (Stål) in the Yangtze River Delta: immigration or local reproduction? PLOS ONE, 2014, 9, e88973.
- Yadav, D. S., Chander, S. and Selvaraj, K., Agro-ecological zoning of brown planthopper Nilaparvata lugens (Stal) incidence on rice (Oryza sativa L.). J. Sci. Ind. Res., 2010, 69, 818–822.
- Thomson, L. J., Macfadyen, S. and Hoffmann, A. A., Predicting the effects of climate change on natural enemies of agricultural pests. Biol. Control, 2010, 52(3), 296–306.
- Pandi, G. G. P., Chander, S. and Soumia, P. S., Elevated CO2 reared brown plant hopper as prey on feeding potential of wolf spider Pardosa pseudoannulata. Indian J. Entomol., 2018, 80(1), 127–130.
- Molecular diversity of Nilaparvata lugens (Stål.) (Hemiptera: Delphacidae) from India based on internal transcribed spacer 1 gene
Abstract Views :169 |
PDF Views:79
Authors
Govindharaj Guru-Pirasanna-Pandi
1,
Aashish Kumar Anant
1,
Jaipal Singh Choudhary
2,
Soumya Bharati Babu
1,
G. Basana-Gowda
1,
M. Annamalai
1,
Naveenkumar Patil
1,
Totan Adak
1,
P. Panneerselvam
1,
Prakash Chandra Rath
1
Affiliations
1 Division of Crop Protection, ICAR-National Rice Research Institute, Cuttack 753 006, IN
2 ICAR-RCER Farming System Research Centre for Hill and Plateau Region, Ranchi 834 010, IN
1 Division of Crop Protection, ICAR-National Rice Research Institute, Cuttack 753 006, IN
2 ICAR-RCER Farming System Research Centre for Hill and Plateau Region, Ranchi 834 010, IN
Source
Current Science, Vol 122, No 12 (2022), Pagination: 1392-1400Abstract
Brown planthopper, Nilaparvata lugens, is the major pest of rice in India and causes significant yield loss. It causes damage by sucking the plant sap leading to a characteristic symptom called ‘hopper burn’. The present study was undertaken to assess the genetic variability of N. lugens populations from different rice ecologies in India, to comprehend and assist in planning proper management strategies. We evaluated the molecular diversity in 17 N. lugens populations based on internal transcribed spacer 1 (ITSI) gene sequences. In all, 53 unique haplotypes were identified and their numbers varied from 1 to 10 in the sampled populations. Genetic diversity indices like nucleotide diversity, haplotype number, haplotype diversity and average number of nucleotide differences revealed low to high levels of genetic diversity among the populations. A highly significant negative relation of Fu’s F and Tajima’s D tests with insignificant sum of square deviation (SSD) values indicated possible recent expansion of N. lugens in different Indian regions with a population expansion time of 3.9 million years. A non-significant correlation in isolation pattern by distance indicated that geographic barriers present in India are inadequate to bring genetic differentiation among N. lugens from different migratory populations. In the present study, the ITSI gene sequence was used to analyse genetic structure among N. lugens in India.Keywords
Genetic Structure, Haplotypes, Molecular Diversity, Nilaparvata Lugens, RiceReferences
- Pandi, G. G. P., Chander, S., Pal, M. and Pathak, H., Impact of elevated CO2 and temperature on brown planthopper population in rice ecosystem. Proc. Natl. Acad. Sci. India, Sect. B, 2016, 88(1), 57–64.
- Jena, M. et al., Paradigm shift of insect pests in rice ecosystem and their management strategy. Oryza, 2018, 55, 82–89.
- Pandi, G. G. P., Chander, S., Pal, M. and Soumia, P. S., Impact of elevated CO2 on Oryza sativa phenology and brown planthopper, Nilaparvata lugens (Hemiptera: Delphacidae) population. Curr.
- Sci., 2018, 114(8), 767–777.
- Li, S., Wang, H. and Zhoum, G. S., Synergism between Southern rice black-streaked dwarf virus and Rice ragged stunt virus enhances their insect vector acquisition. Phytopathology, 2014, 104, 794–799.
- Bottrell, D. G. and Schoenly, K. G., Resurrecting the ghost of green revolutions past: the brown planthopper as a recurring threat to high-yielding rice production in tropical. J. Asia Pac. Entomol., 2012, 15(1), 122–140.
- Otuka, A., Migration of rice planthoppers and their vectored re-emerging and novel rice viruses in East Asia. Front. Microbiol., 2013, 4, 309.
- Hu, G., Lu, M. H., Tuan, H. A. and Liu, W. C., Population dynamics of rice planthoppers, Nilaparvata lugens and Sogatella furcifera (Hemiptera, Delphacidae) in Central Vietnam and its effects on their spring migration to China. Bull. Entomol. Res., 2017, 107, 369–381.
- Anant, A. K. et al., Genetic dissection and identification of candidate genes for brown planthopper, Nilaparvata lugens (Delphacidae: Hemiptera) resistance in farmers’ varieties of rice in Odisha. Crop Prot., 2021, 144, 105600 9. Mahapatra, B. et al., Imidacloprid application changes microbial dynamics and enzymes in rice soil. Ecotoxicol. Environ. Saf., 2017, 144, 123–130.
- Sahu, M. et al., Dissipation of chlorantraniliprole in contrasting soil and its effect on soil microbes and enzymes. Ecotoxicol. Environ. Saf., 2019, 180, 288–294.
- Hu, J., Xiao, C. and He, Y., Recent progress on the genetics and molecular breeding of brown planthopper resistance in rice. Rice, 2016, 9(1), 30.
- Matsumura, M., Takeuchi, H., Satoh, M., Sanada-Morimura, S., Otuka, A., Watanabe, T. and Van, T. D., Species specific insecticide resistance to imidacloprid and fipronil in the rice planthoppers Nilaparvata lugens and Sogatella furcifera in East and Southeast Asia. Pest Manage. Sci., 2008, 64, 1115–1121.
- Matsumoto, Y., Matsumura, M., Sanada-Morimura, S., Hirai, Y., Sato, Y. and Noda, H., Mitochondrial COX sequences of Nilaparvata lugens and Sogatella furcifera (Hemiptera, Delphacidae): low specificity among Asian planthopper populations. Bull. Entomol. Res., 2013, 103, 382–392.
- Naeemullah, M., Sharma, P. N., Tufail, M., Mori, N., Matsumura, M., Takeda, M. and Nakamura, C., Characterization of brown planthopper strains based on their differential responses to introgressed resistance genes and on mitochondrial DNA polymorphism. Appl. Entomol. Zool., 2009, 44, 475–483.
- Rollins, L. A., Woolnough, A. P., Sinclair, R., Mooney, N. J. and Sherwin, W. B., Mitochondrial DNA offers unique insights into invasion history of the common starling. Mol. Ecol., 2011, 20, 2307–2317.
- Wan, X., Liu, Y. and Zhang, B., Invasion history of the oriental fruit fly, Bactrocera dorsalis, in the Pacific-Asia region: two main invasion routes. PLoS ONE, 2012, 7(5), e36176.
- Choudhary, J. S., Naaz, N., Prabhakar, C. S and Lemtur, M., Genetic analysis of oriental fruit fly, Bactrocera dorsalis (Diptera: Tephritidae) populations based on mitochondrial COX1 and NAD1 gene sequences from India and other Asian countries. Genetica, 2016, 144, 611–623.
- Choudhary, J. S., Naaz, N., Lemtur, M., Das, B., Singh, A. K., Bhatt, B. P. and Prabhakar, C. S., Genetic analysis of Bactrocera zonata (Diptera: Tephritidae) populations from India based on COX1 and NAD1 gene sequences. Mitochondrial DNA A, 2018, 29(5), 727–736.
- Giantsis, I. A., Chaskopoulou, A. and Claude, B. M., Direct multiplex PCR (dmPCR) for the identification of six phlebotomine sand fly species (Diptera: Psychodidae), including major Leishmania vectors of the Mediterranean. J. Econ. Entomol., 2017, 110, 245–249.
- Watanabe, S. and Melzer, M. J., A multiplex PCR assay for differentiating coconut rhinoceros beetle (Coleoptera: Scarabaeidae) from oriental flower beetle (Coleoptera: Scarabaeidae) in early life stages and excrement. J. Econ. Entomol., 2017, 110, 678–682.
- Noda, H., How can planthopper genomics be useful for planthopper management? In Planthoppers: New Threats to the Sustainability of Intensive Rice Production Systems in Asia (eds Heong, K. L. and Hardy, B.), International Rice Research Institute, Los Banos, Philippines, 2009, pp. 429–446.
- Roderick, G. K. and Navajas, M., Genes in new environments: genetics and evolution in biological control. Nature Rev. Genet., 2003, 4, 889–899.
- Wilson, M. R. and Claridge, M. F., In Handbook for the Identification of Leafhoppers and Planthoppers of Rice, CAB International, London, UK, 1991, pp. 1–143; ISBN: 0-85198-692-7.
- Mun, J. H., Song, Y. H., Heong, K. L. and Roderick, G. K. Genetic variation among Asian populations of rice planthoppers, Nilaparvata lugens and Sogatella furcifera (Hemiptera: Delphacidae): mitochondrial DNA sequences. Bull. Entomol. Res., 1999, 89, 245–253.
- Liu, S. et al., Identification of Nilaparvata lugens and its two sibling species (N. bakeri and N. muiri) by direct multiplex PCR J. Econ. Entomol., 2018, 111(6), 2869–2875.
- Huang, X. and Madan, A., CAP3: a DNA sequence assembly program. Genome Res., 1999, 9, 868–877.
- Tamura, K., Stecher, G., Peterson, D., Filipski, A. and Kumar, S., MEGA6: molecular evolutionary genetics analysis version 6.0. Mol. Biol. Evol., 2003, 30, 2725–2729.
- Librado, P. and Rozas, J., DnaSP V5: software for comprehensive analysis of DNA polymorphism data. Bioinformatics, 2009, 25(11), 1451–1452.
- Excoffier, L. and Lischer, H. E. L., Arlequin suite ver. 3.5, a new series of programs to perform population genetics analyses under Linux and Windows. Mol. Ecol. Resour., 2010, 10(3), 564–567.
- Bandelt, H., Forster, P. and Roehl, A., Median-joining networks for inferring intraspecific phylogenies. Mol. Biol. Evol., 1999, 16(1), 37–48.
- Tajima, F., Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics, 1989, 123(3), 585–595.
- Fu, Y. X., Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection. Genetics, 1997, 147, 915–925.
- Rogers, A. R. and Harpending, H., Population growth makes waves in the distribution of pairwise differences. Mol. Biol. Evol., 1992, 9, 552–569.
- Mantel, N., The detection of disease and a generalized regression approach. Cancer Res., 1967, 27, 209–220.
- Miller, M. P., Alleles In Space (AIS): computer software for the joint analysis of interindividual spatial and genetic information. J. Hered., 2005, 96(6), 722–724.
- Rosetti, N. and Remis, M. I., Spatial genetic structure and mitochondrial DNA phylogeography of Argentinean populations of the grasshopper Dichroplus elongatus. PLoS ONE, 2012, 7(7), e40807.
- Nei, M. and Li, W. H., Mathematical model for studying genetic variation in terms of restriction endonucleases. Proc. Natl. Acad. Sci. USA, 1979, 76(10), 5269–5273.
- Grant, W. S. and Bowen, B. W., Shallow population histories in deep evolutionary lineages of marine fishes: insights from sardines and anchovies and lessons for conservation. J. Hered., 1998, 89, 415–426.
- AICRIP, All-India Co-ordinated Rice Improvement Programme progress report, volume 2: entomology and plant pathology. ICAR-Indian Institute of Rice Research, 2018, pp. 19–20.
- Anant, A. et al., Evaluation of brown planthopper, Nilaparvata
- lugens (Stal.) resistance. Indian J. Entomol., 2021, 83(2), 223– 225; doi:10.5958/0974-8172.2021.00065.1.
- Suarez, A. V. and Tsutsui, N. D., The evolutionary consequences of biological invasions. Mol. Ecol., 2008, 17, 351–360.
- Shi, W., Kerdelhue, C. and Ye, H., Genetic structure and inferences on potential source areas for Bactrocera dorsalis (Hendel) based on mitochondrial and microsatellite markers. PLoS ONE, 2012, 7(5), e37083.
- Grapputo, A., Bisazza, A. and Pilastro, A., Invasion success despite reduction of genetic diversity in the European populations of eastern mosquito fish (Gambusia holbrooki). Ital. J. Zool., 2006, 73, 67–73.
- Hoshizaki, S., Detection of isozyme polymorphism and estimation of geographic variation in the brown planthopper, Nilaparvata lugens (Stål) (Homoptera: Delphacidae). Bull. Entomol. Res., 1994, 84, 502–508.
- Wan, X., Nardi, F., Zhang, B. and Liu, Y., The oriental fruit fly, Bactrocera dorsalis, in China: origin and gradual inland range expansion associated with population growth. PLoS ONE, 2011, 6(10), e25238
- Slatkin, M. and Hudson, R. R., Pairwise comparison of mitochondrial DNA sequences in stable and exponentially growing populations. Genetics, 1991, 129, 555–562.
- Hereward, J. P., Cai, X., Matias, A. M. A., Walter, G. H., Xu, C. and Wang, Y., Migration dynamics of important rice pest: the brown planthopper (Nilaparvata lugens) across Asia – insights from population genomics. Evol. Appl., 2020, 13(9), 2449–2459.
- Harpending, H. C., Batzer, M. A., Gurven, M., Jorde, L. B., Rogers, A. R. and Sherry, S. T., Genetic traces of ancient demography. Proc. Natl. Acad. Sci. USA, 1998, 95, 1691–1697.
- Slatkin, M., Gene flow in natural populations. Annu. Rev. Ecol. Syst., 1985, 16, 393–430.
- Population genetic structure and migration pattern of Nilaparvata lugens (Stål.) (Hemiptera: Delphacidae) populations in India based on mitochondrial COI gene sequences
Abstract Views :166 |
PDF Views:84
Authors
Guru-Pirasanna-Pandi Govindharaj
1,
Jaipal Singh Choudhary
2,
Aashish Kumar Anant
3,
C. Parameswaran
3,
G. Basana-Gowda
3,
Totan Adak
3,
P. Paneerselvam
3,
M. Annamalai
3,
Naveenkumar Patil
3,
Prakash Chandra Rath
3
Affiliations
1 Division of Crop Protection, ICAR-National Rice Research Institute, Cuttack 753 006, India
2 ICAR-Reseach Complex for Eastern Region, Farming Systems Research Centre for Hill and Plateau Region, Ranchi 834 010, India
3 Division of Crop Protection, ICAR-National Rice Research Institute, Cuttack 753 006, India
1 Division of Crop Protection, ICAR-National Rice Research Institute, Cuttack 753 006, India
2 ICAR-Reseach Complex for Eastern Region, Farming Systems Research Centre for Hill and Plateau Region, Ranchi 834 010, India
3 Division of Crop Protection, ICAR-National Rice Research Institute, Cuttack 753 006, India
Source
Current Science, Vol 123, No 3 (2022), Pagination: 461-470Abstract
Despite the economic and ecological impact of the brown planthopper, Nilaparvata lugens infestation associated with rice cultivation in India, studies on its genetic structure are lacking. Hence, the present study was conducted to assess the genetic variability of N. lugens in India. The study evaluated the diversity in N. lugens populations using mitochondrial cytochrome oxidase subunit I gene sequences from India, and compared them with the Bangladesh, China and Japan populations. In all, 47 unique haplotypes were identified and the haplotype number varied from 6 to 18 in the sampled populations. Genetic diversity indices like nucleotide diversity (0.004), average number of nucleotide differences (1.98), haplotype diversity (0.667) and haplotype number (47) of N. lugens populations from India revealed a low level of genetic diversity. A highly significant negative correlation of the demographic history of N. lugens populations along with no significant sum of square deviations indicated possible recent expansion of the brown planthopper in India. A non-significant correlation in isolation pattern by distance results indicated that geographic barriers present in the country are not sufficient for genetic differentiation among N. lugens from different migratory populations. In this study, the genetic diversity of N. lugens populations from India is compared with other Asian populationsReferences
- Pandi, G.G.P., Chander, S., Pal, M. and Pathak, H., Impact of elevated CO2 and temperature on brown planthopper population in rice ecosystem. Proc. Natl. Acad. Sci. India, Sect. B, 2016, 88(1), 57–64; doi:10.1007/s40011-016-0727-x.
- Jena, M. et al., Paradigm shift of insect pests in rice ecosystem and their management strategy. Oryza, 2018, 55, 82–89; doi:10.5958/2249-5266.2018.00010.3.
- Pandi, G. G. P., Chander, S., Pal, M. and Soumia, P. S., Impact of elevated CO2 on Oryza sativa phenology and brown planthopper, Nilaparvata lugens (Hemiptera: Delphacidae) population. Curr. Sci., 2018, 114(8), 1767–1777; doi:10.18520/cs/v114/i08/1767-1777.
- Li, S., Wang, H. and Zhoum, G. S., Synergism between Southern rice black-streaked dwarf virus and Rice ragged stunt virus enhances their insect vector acquisition. Phytopathology, 2014, 104(7), 794–799; doi:10.1094/PHYTO-11-13-0319-R. PMID: 24915431.
- Bottrell, D. G. and Schoenly, K. G., Resurrecting the ghost of green revolutions past: the brown planthopper as a recurring threat to high-yielding rice production in tropical. J. Asia-Pac. Entomol., 2012, 15(1), 122–140; https://doi.org/10.1016/j.aspen.2011.09.004.
- Otuka, A., Migration of rice planthoppers and their vectored reemerging and novel rice viruses in East Asia. Front. Microbiol., 2013, 4, 309; doi:10.3389/fmicb.2013.00309.
- Hu, G., Lu, M. H., Tuan, H. A. and Liu, W. C., Population dynamics of rice planthoppers, Nilaparvata lugens and Sogatella furcifera (Hemiptera, Delphacidae) in Central Vietnam and its effects on their spring migration to China. Bull. Entomol. Res., 2017, 107, 369–381; https://doi.org/10.1017/S0007485316001024.
- EPPO, European and Mediterranean Plant Protection Organization global database, 2021; https://gd.eppo.int/taxon/NILALU/distribution (accessed on 20 December 2021).
- Anant, A. K. et al., Genetic dissection and identification of candidate genes for brown planthopper, Nilaparvata lugens (Delphacidae: Hemiptera) resistance in farmers’ varieties of rice in Odisha. Crop Prot., 2021, 144, 105600; https://doi.org/10.1016/j.cropro.2021.105600.
- Matsumura, M., Takeuchi, H., Satoh, M., Sanada-Morimura, S., Otuka, A., Watanabe, T. and Van, T. D., Species specific insecticide resistance to imidacloprid and fipronil in the rice planthoppers Nilaparvata lugens and Sogatella furcifera in East and South-east Asia. Pest Manage. Sci., 2008, 64(11), 1115–1121; doi:10.1002/ps.1641. PMID: 18803329.
- Matsumoto, Y., Matsumura, M., Sanada-Morimura, S., Hirai, Y., Sato, Y. and Noda, H., Mitochondrial COX sequences of Nilaparvata lugens and Sogatella furcifera (Hemiptera, Delphacidae): low specificity among Asian planthopper populations. Bull. Entomol. Res., 2013, 103(4), 382–392; doi:10.1017/S000748531200082X. PMID: 23537548.
- Naeemullah, M., Sharma, P. N., Tufail, M., Mori, N., Matsumura, M., Takeda, M. and Nakamura, C., Characterization of brown planthopper strains based on their differential responses to introgressed resistance genes and on mitochondrial DNA polymorphism. Appl. Entomol. Zool., 2009, 44, 475–483; https://doi.org/10.1303/aez.2009.475.
- Rollins, L. A., Woolnough, A. P., Sinclair, R., Mooney, N. J. and Sherwin, W. B., Mitochondrial DNA offers unique insights into invasion history of the common starling. Mol. Ecol., 2011, 20(11), 2307–2317; doi:10.1111/j.1365-294X.2011.05101.x. PMID: 21507095.
- Wan, X., Liu, Y. and Zhang, B., Invasion history of the oriental fruit fly, Bactrocera dorsalis, in the Pacific-Asia region: two main invasion routes. PLOS ONE, 2012, 7(5), e36176; https://doi.org/10.1371/journal.pone.0036176.
- Choudhary, J. S., Naaz, N., Prabhakar, C. S. and Lemtur, M., Genetic analysis of oriental fruit fly, Bactrocera dorsalis (Diptera: Tephritidae) populations based on mitochondrial COX 1 and NAD 1 gene sequences from India and other Asian countries. Genetica, 2016, 144, 611–623; doi:10.1007/s10709-016-9929-7. PMID: 27699519.
- Choudhary, J. S., Naaz, N., Lemtur, M., Das, B., Singh, A.K., Bhatt, B. P. and Prabhakar, C. S., Genetic analysis of Bactrocera zonata (Diptera: Tephritidae) populations from India based on COX 1 and NAD 1 gene sequences. Mitochondrial DNA A, 2018, 29(5), 727–736; https://doi.org/10.1080/24701394.2017.1350952.
- Pandi, G. G. P. et al., Molecular diversity of Nilaparvata lugens (Stål.) (Hemiptera: Delphacidae) from India based on internal transcribed spacer 1 (ITSI) gene. Curr. Sci., 2022, 122(12), 1392–1400.
- Watanabe, S. and Melzer, M. J., A multiplex PCR assay for differentiating coconut rhinoceros beetle (Coleoptera: Scarabaeidae) from oriental flower beetle (Coleoptera: Scarabaeidae) in early life stages and excrement. J. Econ. Entomol., 2017, 110, 678–682; doi:10.1093/jee/tow299. PMID: 28115497.
- Noda, H., How can planthopper genomics be useful for planthopper management? In Planthoppers: New Threats to the Sustainability of Intensive Rice Production Systems in Asia (eds Heong, K. L. and Hardy, B.), International Rice Research Institute, Philippines, 2009, pp. 429–446.
- Roderick, G. K. and Navajas, M., Genes in new environments: genetics and evolution in biological control. Nature Rev. Genet., 2003, 4, 889–899; https://doi.org/10.1038/nrg1201.
- Wilson, M. R. and Claridge, M. F., Handbook for the Identification of Leafhoppers and Planthoppers of Rice, CAB International, London, UK, 1991, p. 143; ISBN 0-85198-692-7.
- Mun, J. H., Song, Y. H., Heong, K. L. and Roderick, G. K., Genetic variation among Asian populations of rice planthoppers, Nilaparvata lugens and Sogatella furcifera (Hemiptera: Delphacidae): mitochondrial DNA sequences. Bull. Entomol. Res., 1999, 89, 245–253; doi:10.1017/S000748539900036X.
- Huang, X. and Madan, A., CAP3: a DNA sequence assembly program. Genome Res., 1999, 9(9), 868–877; doi:10.1101/gr.9.9.868. PMID: 10508846.
- Tamura, K., Stecher, G., Peterson, D., Filipski, A. and Kumar, S., MEGA6: molecular evolutionary genetics analysis version 6.0. Mol. Biol. Evol., 2013, 30(12), 2725–2729; doi:10.1093/molbev/mst197. Epub 2013 Oct 16. PMID: 24132122.
- Librado, P. and Rozas, J., DnaSP V5: software for comprehensive analysis of DNA polymorphism data. Bioinformatics, 2009, 25(11), 1451–1452; https://doi.org/10.1093/bioinformatics/btp187.
- Excoffier, L. and Lischer, H. E. L., Arlequin suite ver. 3.5, a new series of programs to perform population genetics analyses under Linux and Windows. Mol. Ecol. Resour., 2010, 10(3), 564–567; doi:10.1111/j.1755-0998.2010.02847.x. PMID: 21565059.
- Bandelt, H., Forster, P. and Roehl, A., Median-joining networks for inferring intraspecific phylogenies. Mol. Biol. Evol., 1999, 16(1), 37–48; doi:10.1093/oxfordjournals.molbev.a026036. PMID: 10331250.
- Dupanloup, I., Schneider, S. and Excoffier, L., A simulated annealing approach to define the genetic structure of populations. Mol. Ecol., 2002, 11, 2571e2581; doi:10.1046/j.1365-294x.2002.01650.x. PMID: 12453240.
- Tajima, F., Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics, 1989, 123(3), 585–595; doi:10.1093/genetics/123.3.585. PMID: 2513255.
- Fu, Y. X., Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection. Genetics, 1997, 147, 915–925; doi:10.1093/genetics/147.2.915. PMID: 9335623.
- Rogers, A. R. and Harpending, H., Population growth makes waves in the distribution of pairwise differences. Mol. Biol. Evol., 1992, 9(3), 552–569; doi:10.1093/oxfordjournals.molbev.a040727.
- Mantel, N., The detection of disease and a generalized regression approach. Cancer Res., 1967, 27, 209–220. PMID: 6018555.
- Miller, M. P., Alleles in space (AIS): computer software for the joint analysis of interindividual spatial and genetic information. J. Hered., 2005, 96(6), 722–724; https://doi.org/10.1093/jhered/esi119.
- Beerli, P. and Felsenstein, J., Maximum-likelihood estimation of a migration matrix and effective population sizes in subpopulations by using a coalescent approach. Proc. Natl. Acad. Sci. USA, 2001, 98(8), 4563–4568; https://doi.org/10.1073/pnas.081068098.
- Rosetti, N. and Remis, M. I., Spatial genetic structure and mitochondrial DNA phylogeography of argentinean populations of the grasshopper Dichroplus elongatus. PLoS ONE, 2012, 7(7), e40807; https://doi.org/10.1371/journal.pone.0040807.
- Grant, W. S. and Bowen, B. W., Shallow population histories in deep evolutionary lineages of marine fishes: insights from sardines and anchovies and lessons for conservation. J. Hered., 1998, 89, 415–426; https://doi.org/10.1093/jhered/89.5.415.
- Suarez, A. V. and Tsutsui, N. D., The evolutionary consequences of biological invasions. Mol. Ecol., 2008, 17(1), 351–360; doi: 10.1111/j.1365-294X.2007.03456.x. PMID: 18173507.
- Grapputo, A., Bisazza, A. and Pilastro, A., Invasion success despite reduction of genetic diversity in the European populations of eastern mosquito fish (Gambusia holbrooki). Ital. J. Zool., 2006, 73, 67–73; https://doi.org/10.1080/11250000500502111.
- Slatkin, M. and Hudson, R. R., Pairwise comparison of mitochondrial DNA sequences in stable and exponentially growing populations. Genetics, 1991, 129(2), 555–562; doi:10.1093/genetics/129.2.555.
- Hereward, J. P., Cai, X., Matias, A. M. A., Walter, G. H., Xu, C. and Wang, Y., Migration dynamics of important rice pest: the brown planthopper (Nilaparvata lugens) across Asia-insights from population genomics. Evol. Appl., 2020, 13(9), 2449–2459; https://doi.org/10.1111/eva.13047.
- Harpending, H. C., Batzer, M. A., Gurven, M., Jorde, L. B., Rogers, A. R. and Sherry, S. T., Genetic traces of ancient demography. Proc. Natl. Acad. Sci. USA, 1998, 95, 1691–1697; https://doi.org/10.1073/pnas.95.4.1961.
- Slatkin, M., Gene flow in natural populations. Annu. Rev. Evol. Syst., 1985, 16, 393–430; https://doi.org/10.1146/annurev.es.16.110185.002141.
- Schneider, S. and Excoffier, L., Estimation of past demographic parameters from the distribution of pairwise differences when the mutation rates vary among sites: application to human mitochondrial DNA. Genetics, 1999, 152(3), 1079–1089.
- Wan, X., Nardi, F., Zhang, B. and Liu, Y., The oriental fruit fly, Bactrocera dorsalis, in China: origin and gradual inland range expansion associated with population growth. PLoS ONE, 2011, 6(10), e25238; https://doi.org/10.1371/journal.pone.0025238.
- Wei, S. J., Genetic structure and demographic history reveal migration of the diamondback moth Plutellaxylostella (Lepidoptera: Plutellidae) from the southern to northern regions of China. PLoS ONE, 2013, 8, e59654; https://doi.org/10.1371/journal.pone.0059654.
- Irwin, D. E., Phylogeographic breaks without geographic barriers to gene flow. Evolution, 2002, 56(12), 2383–2394; https://doi.org/10.1554/0014-3820(2002)056[2383:PBWGBT]2.0.CO;2.
- Genome Organization and Comparative Evolutionary Mitochondriomics of Rice Earhead Bug Leptocorisa oratoria (Fabricius)
Abstract Views :50 |
PDF Views:48
Authors
Guru-Pirasanna-Pandi Govindharaj
1,
M. Annamalai
1,
Jaipal Singh Choudhary
2,
G. Basana-Gowda
1,
Totan Adak
1,
Naiyar Naaz
2,
Naveenkumar Patil
1,
Enrico Ruzzier
3,
Prakash Chandra Rath
1
Affiliations
1 ICAR-National Rice Research Institute, Cuttack 753 006, IN
2 ICAR-Research Complex for the Eastern Region, Farming System Research Centre for Hill and Plateau Region, Ranchi 834 010, IN
3 World Biodiversity Association Onlus, C/o Museo Civico di Storia Naturale, Lungadige Porta Vittoria 9, 37129 Verona, IT
1 ICAR-National Rice Research Institute, Cuttack 753 006, IN
2 ICAR-Research Complex for the Eastern Region, Farming System Research Centre for Hill and Plateau Region, Ranchi 834 010, IN
3 World Biodiversity Association Onlus, C/o Museo Civico di Storia Naturale, Lungadige Porta Vittoria 9, 37129 Verona, IT
Source
Current Science, Vol 125, No 4 (2023), Pagination: 407-415Abstract
The rice earhead bug, Leptocorisa oratoria (Fabricius, 1794) is a critical rice pest in India. No mitochondrial genome of L. oratoria has been sequenced earlier, and the mitochondrial data are crucial for phylogenetic and population genetic studies of this significant rice pest. In the present study, the genome of L. oratoria is 17,584 bp long with 73.57% AT content. We observed tandem repeat in the control region. Analyses from genetic distance, sliding window and Ka/Ks ratio revealed a purifying selection of 13 protein-coding genes, with cox1 and nad2 reporting the lowest and highest rate of evolution respectively. Phylogenetic analysis was reconstructed using 65 pentatomid mitogenomes with Bayesian inference and maximum likelihood methods. The results help differentiate the Coreoidea superfamily from Lygaeoidea, Aradoidea and Pentatomoidea. There were two topologies at the family level, i.e. one clade formed with Coreidae + Rhopalidae + Alydidae, and the rest of the families of Pentatomomorpha formed in separate clades. Further, L. oratoria produced an independent subclade from the earlier reported Leptocorisa sp. genome. This study provides a source mitogenome for L. oratoria species to study population demography, individual differences and phylogeography of hemipterans.Keywords
Mitogenome, Next Generation Sequencing, Population Genetics, Phylogeny, Rice Earhead Bug.References
- Rao, J. and Prakash, A., Bio-deterioration of paddy seed quality due to insects and mites and its control using botanicals. Final report of ICAR Ad-hoch Scheme, Central Rice Research Institute, Cuttack, India, 1995.
- Aktera, U. S., Islam, K. S., Jahan, M., Rahman, M. S., Talukder, F. U. and Hasan, M. A., Extent of damage of rice bug (Leptocorisa acuta) and its control with insecticides. Acta Sci. Malays., 2020, 4(2), 82–87; doi:10.26480/asm.02.2020.82.87.
- Rai, A. B., Singh, J. and Rai, L., Evaluation of gundhi bug, Lepto corisavaricornis (F.) damage in rice. In International Symposium on Rice Research, Hyderabad, 1990.
- Gupta, K. and Kumar, A., Field efficacy of certain insecticides against rice gundhi bug (Leptocorisa acuta (Thonberg)) under agro-climatic condition of Allahabad, India. Int. J. Curr. Microbiol. Appl. Sci., 2017, 6(8), 343–345.
- Nugaliyadde, L., Dissanayake, N., Mitrasena, J. and Wijesundera, D. S., Advances of pest and disease management of rice in Sri Lanka: a review. In Annual Symposium of the Department of Agriculture, Sri Lanka, 2000, vol. 2, pp. 409–422.
- Jahn, G. C., Domingo, I., Liberty, M., Almazan, P. and Pacia, J., Effect of rice bug Leptocoris aoratorius (Hemiptera: Alydidae) on rice yield, grain quality and seed viability. J. Econ. Entomol., 2004, 97(6), 1923–1927; https://doi.org/10.1093/jee/97.6.1923.
- Lessinger, A. C. et al., The mitochondrial genome of the primary screwworm fly Cochliomyia hominivorax (Diptera: Calliphoridae). Insect Mol. Biol., 2000, 9(5), 521–529; https://doi.org/10.1046/j.1365-2583.2000.00215.x.
- Lewis, J. A., Huq, A., Liu, W. and Jacob, A., Induction of gene expression by intracellular interferon-: abrogation of the species specificity barrier. Virology, 1995, 212(2), 438–450; https://doi.org/10.1006/viro.1995.1501.
- Zhang, D. X., Szymura, J. M. and Hewitt, G. M., Evolution and structural conservation of the control region of insect mitochondrial DNA. J. Mol. Evol., 1995, 40(4), 382–391; https://doi.org/10.1007/BF00164024.
- Shao, R., Campbell, N. J. and Barker, S. C., Numerous gene rear-rangements in the mitochondrial genome of the wallaby louse, Heterodoxus macropus (Phthiraptera). Mol. Biol. Evol., 2001, 18(5), 858–865; https://doi.org/10.1093/oxfordjournals.molbev.a003867.
- Choudhary, J. S., Naaz, N., Prabhakar, C. S., Rao, M. S. and Das, B., The mitochondrial genome of the peach fruit fly, Bactrocera zonata (Saunders) (Diptera: Tephritidae): Complete DNA sequence, genome organization, and phylogenetic analysis with other tephritids using next generation DNA sequencing. Gene, 2015, 569(2), 191–202; https://doi.org/10.1016/j.gene.2015.05.066.
- Taanman, J. W., The mitochondrial genome: structure, transcription, translation and replication. Biochim. Biophys. Acta, 1999, 1410(2), 103–123; https://doi.org/10.1016/S0005-2728(98)00161-3.
- Boore, J. L., Animal mitochondrial genomes. Nucleic Acids Res., 1999, 27, 1767–1780; doi:10.1093/nar/27.8.1767.
- Cameron, S. L., Beckenbach, A. T., Dowton, M. P. and Whiting, M. F., Evidence from mitochondrial genomics on interordinal relationships in insects. Arthropod Syst. Phylogen., 2006, 64(1), 27–34.
- Ashlock, P. D. and Slater, A., Family Lygaeidae Schilling, 1829 (= Infericornes Amyot and Serville, 1843; Myodochidae Kirkaldy, 1899; Geocoridae Kirkaldy, 1902): the seed bugs and chinch bugs. In Catalog of the Heteroptera, or True Bugs of Canada and the Continental United States, CRC Press, Boca Raton, Florida, 2019, pp. 167–245.
- Schuh, R. T. and Slater, J. A., True Bugs of the Eorld (Hemiptera: Heteroptera): Classification and Natural History, Cornell University Press, Ithaca, New York, 1995, pp. 609–610.
- Chilana, P., Sharma, A. and Rai, A., Insect genomic resources: status, availability and future. Curr. Sci., 2012, 102(4), 571–580.
- Ribeiro, F. J. et al., Finished bacterial genomes from shotgun sequence data. Genome Res., 2012, 22(11), 2270–2277; http://www.genome.org/cgi/doi/10.1101/gr.141515.112.
- Kirkness, E. F. et al., Genome sequences of the human body louse and its primary endosymbiont provide insights into the permanent parasitic lifestyle. Proc. Natl. Acad. Sci. USA, 2010, 107(27), 12168–12173; https://doi.org/10.1073/pnas.1003379107.
- Knaus, B. J., Cronn, R., Liston, A., Pilgrim, K. and Schwartz, M. K., Mitochondrial genome sequences illuminate maternal lineages of conservation concern in a rare carnivore. BMC Ecol., 2011, 11(1), 1–4; https://doi.org/10.1186/1472-6785-11-10.
- Ma, P. F., Guo, Z. H. and Li, D. Z., Rapid sequencing of the bamboo mitochondrial genome using Illumina technology and parallel episodic evolution of organelle genomes in grasses. PLoS ONE, 2012, 7(1), e30297; https://doi.org/10.1371/journal.pone.0030297.
- Coates, B. S., Assembly and annotation of full mitochondrial genomes for the corn rootworm species, Diabrotica virgifera virgifera and Diabrotica barberi (Insecta : Coleoptera : Chrysomelidae), using next generation sequence data. Gene, 2014, 542(2), 190–197; https://doi.org/10.1016/j.gene.2014.03.035.
- Barrion, A. T. and Litsinger, J. A., Dichogaster nr. Curgensis Michaelsen (Annelida : Octochaetidae): an earthworm pest of terraced rice in the Philippine Cordilleras. Crop Prot., 1997, 16(1), 89–93; https://doi.org/10.1016/S0261-2194(96)00058-0.
- Govindharaj, G. P. et al., Genome organization and comparative evolutionary mitochondriomics of brown planthopper, Nilaparvata lugens biotype 4 using next generation sequencing (NGS). Life, 2022, 12(9), 1289; https://doi.org/10.3390/life12091289.
- Bernt, M. et al., MITOS: improved de novo metazoan mitochondrial genome annotation. Mol. Phylogenet. Evol., 2013, 69(2), 313–319; https://doi.org/10.1016/j.ympev.2012.08.023.
- Lowe, T. M. and Eddy, S. R., tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence. Nucleic Acids Res., 1997, 25(5), 955–964; https://doi.org/10.1093/nar/25.5.955.
- Grant, J. R. and Stothard, P., The CGView Server: a comparative genomics tool for circular genomes. Nucleic Acids Res., 2008, 36(2), W181–W184; https://doi.org/10.1093/nar/gkn179.
- Tamura, K., Stecher, G., Peterson, D., Filipski, A. and Kumar, S., MEGA6: molecular evolutionary genetics analysis version 6.0. Mol. Biol. Evol., 2013, 30(12), 2725–2729; https://doi.org/10.1093/molbev/mst197.
- Choudhary, J. S., Naaz, N., Lemtur, M., Das, B., Singh, A. K., Bhatt, B. P. and Prabhakar, C. S., Genetic analysis of Bactrocerazonata (Diptera : Tephritidae) populations from India based on cox1 and nad1 gene sequences. Mitochondrial DNA Part A, 2018, 29(5), 727–736; https://doi.org/10.1080/24701394.2017.1350952.
- Perna, N. T. and Kocher, T. D., Patterns of nucleotide composition at fourfold degenerate sites of animal mitochondrial genomes. J. Mol. Evol., 1995, 41(3), 353–358; https://doi.org/10.1007/BF0018-6547.
- Librado, P. and Rozas, J., DnaSP v5: a software for comprehensive analysis of DNA polymorphism data. Bioinformatics, 2009, 25(11), 1451–1452; https://doi.org/10.1093/bioinformatics/btp187.
- Katoh, K. and Standley, D. M., MAFFT multiple sequence alignment software version 7: improvements in performance and usability. Mol. Biol. Evol., 2013, 30(4), 772–780; https://doi.org/10.1093/molbev/mst010.
- Talavera, G. and Castresana, J., Improvement of phylogenies after removing divergent and ambiguously aligned blocks from protein sequence alignments. Syst. Biol., 2007, 56(4), 564–577; https://doi.org/10.1080/10635150701472164.
- Bu, R. et al., Tillage and straw-returning practices effect on soil dissolved organic matter, aggregate fraction and bacteria community under rice-rice-rapeseed rotation system. Agric. Ecosyst. Environ., 2020, 287, 106681; https://doi.org/10.1016/j.agee.2019.106681.
- Lanfear, R., Frandsen, P. B., Wright, A. M., Senfeld, T. and Calcott, B., PartitionFinder 2: new methods for selecting partitioned models of evolution for molecular and morphological phylogenetic analyses. Mol. Biol. Evol., 2017, 34(3), 772–773; https://doi.org/10.1093/molbev/msw260.
- Guindon, S. and Gascuel, O., A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst. Biol., 2003, 52(5), 696–704; https://doi.org/10.1080/10635150390235520.
- Huelsenbeck, J. P. and Ronquist, F., MRBAYES: bayesian inference of phylogenetic trees. Bioinformatics, 2001, 17(8), 754–755.
- Letunic, I. and Bork, P., Interactive tree of life (iTOL) v4: recent updates and new developments. Nucleic Acids Res., 2019, 47(W1), W256–W259; https://doi.org/10.1093/nar/gkz239.
- Crease, T. J., The complete sequence of the mitochondrial genome of Daphnia pulex (Cladocera: Crustacea). Gene, 1999, 233(1–2), 89–99; https://doi.org/10.1016/S0378-1119(99)00151-1.
- Yuan, M. L., Zhang, Q. L., Guo, Z. L., Wang, J. and Shen, Y. Y., The complete mitochondrial genome of Corizus tetraspilus (Hemiptera: Rhopalidae) and phylogenetic analysis of Pentatomomorpha. PLoS ONE, 2015, 10(6), e0129003; https://doi.org/10.1371/journal.pone.0129003.
- Zhang, K. J. et al., The complete mitochondrial genomes of two rice planthoppers, Nilaparvata lugens and Laodelphax striatellus: conserved genome rearrangement in Delphacidae and discovery of new characteristics of atp8 and tRNA genes. BMC Genomics, 2013, 14(1), 1–2; https://doi.org/10.1186/1471-2164-14-417.
- Anant, A. K. et al., Genetic dissection and identification of candidate genes for brown planthopper, Nilaparvata lugens (Delphacidae: Hemiptera) resistance in farmers’ varieties of rice in Odisha. Crop Prot., 2021, 144, 105600; https://doi.org/10.1016/j.cropro.2021.10-5600.
- Cha, S. Y. et al., The complete nucleotide sequence and gene organization of the mitochondrial genome of the bumblebee, Bombus ignitus (Hymenoptera: Apidae). Gene, 2007, 392(1–2), 206–220; https://doi.org/10.1016/j.gene.2006.12.031.
- Jiang, S. T., Hong, G. Y., Yu, M., Li, N., Yang, Y., Liu, Y. Q. and Wei, Z. J., Characterization of the complete mitochondrial genome of the giant silkworm moth, Eriogyna pyretorum (Lepidoptera: Saturniidae). Int. J. Biol. Sci., 2009, 5(4), 351; doi:10.7150/ijbs.5.351.
- Song, N. and Liang, A. P., Complete mitochondrial genome of the small brown planthopper, Laodelphax striatellus (Delphacidae: Hemiptera), with a novel gene order. Zool. Sci., 2009, 26(12), 851–860; https://doi.org/10.2108/zsj.26.851.
- Chen, M. M. et al., Complete mitochondrial genome of the Atlas moth, Attacus atlas (Lepidoptera: Saturniidae) and the phylogenetic relationship of Saturniidae species. Gene, 2014, 545(1), 95–101; https://doi.org/10.1016/j.gene.2014.05.002.
- Hua, J., Li, M., Dong, P., Cui, Y., Xie, Q. and Bu, W., Comparative and phylogenomic studies on the mitochondrial genomes of Pentatomomorpha (Insecta: Hemiptera: Heteroptera). BMC Genomics, 2008, 9(1), 1–5; https://doi.org/10.1186/1471-2164-9-610.
- Hou, W. R. et al., A complete mitochondrial genome sequence of Asian black bear Sichuan subspecies (Ursus thibetanus mupinensis). Int. J. Biol. Sci., 2007, 3(2), 85; doi:10.7150/ijbs.3.85.
- Hong, G., Jiang, S., Yu, M., Yang, Y., Li, F., Xue, F. and Wei, Z., The complete nucleotide sequence of the mitochondrial genome of the cabbage butterfly, Artogeia melete (Lepidoptera: Pieridae). Acta Biochim. Biophys. Sin., 2009, 41(6), 446–455; https://doi.org/10.1093/abbs/gmp030.
- Lv, L., Peng, X., Jing, S., Liu, B., Zhu, L. and He, G., Intraspecific and interspecific variations in the mitochondrial genomes of Nilaparvata (Hemiptera: Delphacidae). J. Econ. Entomol., 2015, 108(4), 2021–2029; https://doi.org/10.1093/jee/tov122.
- Thao, M. L., Baumann, L. and Baumann, P., Organization of the mitochondrial genomes of whiteflies, aphids, and psyllids (Hemiptera, Sternorrhyncha). BMC Evol. Biol., 2004, 4(1), 1–3; https://doi.org/10.1186/1471-2148-4-25.
- Zhu, Y. J., Zhou, G. L., Fang, R., Ye, J. and Yi, J. P., The complete sequence determination and analysis of Lymantria dispar (Lepidoptera: Lymantriidae) mitochondrial genome. Plant Quarantine, 2010, 24(4), 6–11.
- Valero, M. C., Ojo, J. A., Sun, W., Tamò, M., Coates, B. S. and Pittendrigh, B. R., The complete mitochondrial genome of Anoplocnemis curvipes F. (Coreinea, Coreidae, Heteroptera), a pest of fresh cowpea pods. Mitochondrial DNA, Part B, 2017, 2(2), 421–423; https://doi.org/10.1080/23802359.2017.1347829.
- Huang, Y. X. and Qin, D. Z., First mitogenome for the tribe Saccharosydnini (Hemiptera: Delphacidae: Delphacinae) and the phylogeny of three predominant rice planthoppers. Eur. J. Entomol., 2018, 30, 115.
- Ohtsuki, T., Kawai, G. and Watanabe, K., The minimal tRNA: unique structure of Ascaris suum mitochondrial tRNASerUCU having a short T arm and lacking the entire D arm. FEBS Lett., 2002, 514(1), 37–43; https://doi.org/10.1016/S0014-5793(02)02328-1.
- Sheffield, N. C., Song, H., Cameron, S. L. and Whiting, M. F., Nonstationary evolution and compositional heterogeneity in beetle mitochondrial phylogenomics. Syst. Biol., 2009, 58(4), 381–394; https://doi.org/10.1093/sysbio/syp037.
- Zhao, Q., Wang, J., Wang, M. Q., Cai, B., Zhang, H. F. and Wei, J. F., Complete mitochondrial genome of Dinorhynchus dybowskyi (Hemiptera: Pentatomidae: Asopinae) and phylogenetic analysis of Pentatomomorpha species. J. Insect Sci., 2018, 18(2), 44; https://doi.org/10.1093/jisesa/iey031.
- Lee, W., Kang, J., Jung, C., Hoelmer, K., Lee, S. H. and Lee, S., Complete mitochondrial genome of brown marmorated stink bug Halyomorpha halys (Hemiptera: Pentatomidae), and phylogenetic relationships of hemipteran suborders. Mol. Cells, 2009, 28(3), 155–165; https://doi.org/10.1007/s10059-009-0125-9.
- Li, H., Liu, H., Shi, A., Štys, P., Zhou, X. and Cai, W., The complete mitochondrial genome and novel gene arrangement of the unique-headed bug Stenopirates sp. (Hemiptera: Enicocephalidae). PLoS ONE, 2012, 7(1), e29419; https://doi.org/10.1371/journal.pone.0029419.
- Castellana, S., Vicario, S. and Saccone, C., Evolutionary patterns of the mitochondrial genome in Metazoa: exploring the role of mutation and selection in mitochondrial protein-coding genes. Genome Biol. Evol., 2011, 3, 1067–1079; https://doi.org/10.1093/gbe/evr040.
- Wang, Y., Chen, J., Jiang, L. Y. and Qiao, G. X., Hemipteran mitochondrial genomes: features, structures and implications for phylogeny. Int. J. Mol. Sci., 2015, 16(6), 12382–12404; https://doi.org/10.3390/ijms160612382.
- Zhao, L., Wei, J., Zhao, W., Chen, C., Gao, X. and Zhao, Q., The complete mitochondrial genome of Pentatoma rufipes (Hemiptera, Pentatomidae) and its phylogenetic implications. ZooKeys, 2021, 1042, 51; doi:10.3897/zookeys.1042.62302.
- Johnson, K. P. et al., Phylogenomics and the evolution of hemipteroid insects. Proc. Natl. Acad. Sci. USA, 2018, 115(50), 12775–12780; https://doi.org/10.1073/pnas.1815820115.