Molecular Evidence for the Association of Swarm Forming Desert Locust, Schistocerca gregaria gregaria (Forskål) in Pakistan with Highly Prevalent Subspecies in Sahara Desert of Africa

Jam Nazeer Ahmad1,*, Samina J.N. Ahmad1,2,*, Mubashir Ahmad Malik1, Abid Ali1, Muhammad Ali3, Ejaz Ahmad1, Muhammad Tahir2 and Muhammad Ashraf2

1Department of Entomology, University of Agriculture, Faisalabad

2Plant Stress Physiology and Molecular Biology Laboratory, Department of Botany, University of Agriculture, Faisalabad

3Institute of Agricultural Sciences, University of the Punjab, Quaid-e-Azam Campus Lahore

ABSTRACT

Locust commonly known as short horned grasshopper is one of the most dangerous agricultural pests worldwide. There are various important species of large swarms forming of desert locusts found in different regions of the world. In early 2020, in Pakistan, huge swarm of desert locust infestation was observed in different provinces of Pakistan. Precise and correct identification of any pest is very important to start a proper control strategy against it. The current study was conducted to identify and characterize locust species and to determine their association with other swarm forming locust species worldwide. Morphological features and molecular characters were observed using digital camera and PCR technique, respectively. For molecular identification, DNA was extracted through CTAB method and polymerase chain reaction was performed using mitochondrial cytochrome oxidase I (COI) gene based primers. Gel electrophoresis of the PCR products of desert locusts indicated a 710bp amplified DNA fragment on 1.5% agarose gel. DNA sequence analysis of PCR product indicated that specimens shared a 99-100% identity with Schistocerca gregaria gregaria) (Forskål, 1775). Molecular phylogenetic analysis and evolutionary divergence study also revealed the formation of same cluster in phylogenetic tree with that of specific subspecies S. g. gregaria which further deviate genetically not only from closely related subspecies (S. g. flaviventris) but also other species reported from various countries. Migratory pattern of S. g. gregaria from Africa to Asia and neighboring countries with their potential routes also suggested developing sustainable policy to counter internal as well as external threat. This is the first report of molecular identification of S. g. grgaria and its association with most prevailed subspecies of Sahara desert in Northern Africa. Desert locust, S. g. gregaria is very destructive polyphagus pest therefore, immediately; control measures should be adopted to stop its further spread and infestation in Pakistan.

Article Information

Received 01 May 2020

Revised 30 July 2020

Accepted 18 August 2020

Available online 11 September 2020

Authors’ Contribution

JNA, EA and MAM planned the experiments and collected insects. JNA, EA and MT performed experiments. SJNA, JNA and EA wrote the manuscript. M Ashraf presented the research idea and gave guidance. AA, M Ali collected locust sampling from all over Pakistan.

Key words

Desert locust, Shistocerca gregaria gregaria, PCR, Molecular phylogeny, DNA barcoding.

DOI: https://dx.doi.org/10.17582/journal.pjz/20200501020521

* Corresponding authors: [email protected];

[email protected]

0030-9923/2020/0006-2233 $ 9.00/0

Copyright 2020 Zoological Society of Pakistan

INTRODUCTION

The desert locust, Schistocerca gregaria (Orthoptera: Acrididae), are distributed all over the world and are commonly known as short horned grasshoppers. It has severely damaged vegetation found in eastern and western hemisphere (Harvey, 1981; Song, 2004; Lovejoy et al., 2006; Cheseto et al., 2015). Similar to other locust species, S. gregaria undergoes phase polyphenism under density stress and crowding inducing two phenotypic phases, solitarious and gregarious (Uvarov, 1977). In the last two centuries, its gregarious phase had destroyed vegetation in Southwest Asia, Africa and Middle East (Meinzingen, 1993; El Hassan, 2000). The desert locust undergoes incomplete metamorphosis forming egg, nymph and adult. Both nymph and adult of locust show density dependent phase polymorphism. Gregarious individuals have black and orange color while cryptic and solitary’s locusts have green to brown color depending on ecological conditions (Pener, 1991; Tanaka, 2006; Ayali, 2019). There are more than 700 species of locusts including 50 species in the genus Schistocerca where four species S. gregaria, S. piceifrons, S. cancellata and S. interrita form swarms, the remaining Schistocerca species are sedentary grasshopper (Song and Wenzel, 2008; Song et al., 2017). The desert locust, S. gregaria has two sub species, a phase changing species (S. gregaria gregaria) having largest expansive swarm zone found in Northern Africa whereas solitarious species (S. gregaria flaviventris) prevailed in Southern Africa that rarely undergoes phase changing (Popov et al., 1991; Chapuis et al., 2017). Central American locust (S. piceifrons) has a long history as a pest, and has even been implicated in the downfall of the Mayan civilization (Granados, 2011). It has two subspecies; S. p. piceifrons found in Mexico and parts of Central America while the other (S. p. peruviana) present in Peru, Ecuador, Colombia, Venezuela, Panama, Trinidad and Tobago (Harvey, 1983; Barrientos et al., 1992). South American locust (S. cancellata) damage was reported first time on cassava in 1538 in Buenos Aires (Gastón, 1969), then spread to Argentina infesting many plants including soybeans, sorghum, maize, peanut, and citrus, as well as pasture grass. Migratory locusts (Locusta migratoria) are the most widely distributed grasshopper species in the world based on their geographic range corresponding to the Asian migratory locust (L. migratoria migratoria) and the African migratory locust, (L. migratoria migratorioides) (Ma et al., 2012). Asian migratory locust that can fly 1000 km is one of the most important agricultural pests in Russia, Kazhakhstan, and Uzbekistan (Latchininsky, 2013), China (Stige et al., 2007; Tian et al., 2011) and Australia (Farrow, 1979). Pakistan is an agricultural country and crops are attacked by a number of pests including lepidopteron, dipterous and coleopterans. Pakistan is also an important front-line country for locust because it has summer and spring breeding areas such as the Indian border in the deserts of Tharparkar, Khipro and Cholistan (Sindh and Southern Punjab) and Lasbela/Uthal area west of Karachi considered as a transition zone where locusts may be present nearly any time of year. After the first swarm which occurred in 1961, a large swarm arrived in Pakistan from Iran ravaging cotton, wheat, maize and other crops in 1961. Then in November 2019, a swarm was seen in Karachi which spread to other regions of Pakistan. On February 1, 2020, Government of Pakistan declared a national emergency to protect crops and help farmers. There are different species of locusts that found in different parts of the world. It is utmost important to identify accurate species for its proper control and management. DNA barcoding is widely implemented and a popular molecular technique to identify species from a small portions of cytochrome oxidase I (COI) gene (Manzoor et al., 2018). The author has recently identified and characterized based on molecular technique several important insect pests and pathogens (Ahmad et al., 2017, 2019; Manzoor et al., 2018, 2020; Sharif et al., 2019). The objective of the present study was to identify, characterize and provide phylogenetic analysis of the population of desert locust farming swarms in Pakistan so that their association with the known species existed in different countries of the world could be revealed on the basis of mitochondrial cytochrome oxidase I (COI) gene.

 

Materials and methods

Samples collection and PCR amplification of COI gene

During a survey in late 2019 and early 2020, hand collection of adult locust was done from different regions of Pakistan and were preserved in 96% alcohol or stored at −20 °C in a freezer for molecular study. Total genomic DNA from the legs of the collected locust was extracted using CTAB method. The quantification of DNA was done using Pico drop micro volume spectrophotometer (Pico200, UK). PCR amplifications were performed in PCR machine (PeqSTAR, Germany) with primer pairs LCO-1490 (5′-TCTCAACAAACCATAAGGACATTGG-3′ and HCO-2198 (5′-TAAACTTCTGGGTGTCCAAAGAATCA-3′) (Folmer et al., 1994). The 25µl PCR reaction mixture was prepared using 50-100 ng quantity of each DNA sample, 10mM of each forward and reverse Primers and PCR master Mix according to mentioned protocol. The DNA fragments of 710 bp were obtained following PCR condition; first an initial denaturation temperature of 95°C for 5 min. was conducted. Then denaturation temperature of 94°C for 40 sec., annealing temperature of 47°C for 40 sec. and an extension temperature of 72°C for 45 min. was carried out for 34 cycles. The final extension temperature was used at 72°C for 7 min. The amplified PCR products (710bp) were visualized using gel electrophoresis on 1.5% agarose gel.

Sequencing and analysis

The 710bp PCR products were sequenced directly in both directions using services by Macrogen (South Korea). Obtained sequences were analyzed using Lasergene v. 7.1 software package (DNASTAR, USA) and further aligned using CLUSTAL W method of Bio-Edit software. Comparison of obtained sequences with sequences available in GenBank was accomplished using BLASTn service available at http://www.ncbi.nlm.nih.gov:80/BLAST. The studies were performed with software BLASTN 2.8.0+ employing a methodology for Pairwise Alignment for the construction of phylogenetic tree. Mview of aligned sequences were obtained by using CLUSTAL Omega alignment software. Homology phylogenetic studies were also performed with MEGA6 software employing a methodology named as “Maximum Likelihood method” (Tamura et al., 2013). Analyses of evolutionary estimates (Zuckerkandl and Pauling, 1965) were conducted using the Poisson correction model. The analysis involved 27 amino acid sequences. All positions containing gaps and missing data were eliminated. There were a total of 658 positions in the final dataset. Evolutionary analyses were conducted in MEGA6 (Tamura et al., 2013).

 

Results and discussion

Sequence alignment and phylogenetic analysis

The alignments of sequenced nucleotides of 710 bp were done with a multiple sequence alignment tool. The nucleotides sequences of S. g. gregaria from Pakistan submitted at National Centre of Biotechnology Information (NCBI) site with accession numbers (MK168615.1, MK168616.1, MT449731.1, MT449732.1, MT449733.1, MT449734.1, MT449735.1, KU2514651.1) showed 100% similarity to S. g. gregaria (KU251463.1, KY980902.1) and >99%<100% to KU251464.1, KU251465.1, KU251462.1 of NCBI sequences of S. g. gregaria reported from North Africa. Further analysis indicated 93-95% genetic similarity of South American locust, S. cancellata (GU115922.1) and Central American locust, S. piceifron (GU116453.1), S. americana (GU122627.1), S. impleta (GU115862.1) and S. guisqueya (GU115949.1) as well as some other species (GU115864.1, GU115863.1, GU115867.1, GU115915.1, and KM243977.1) (Table I). Similarly, pair wised aligned DNA sequences of S. g. gregaria from Pakistan, showed > 99-100% genetic similarity with same subspecies reported from Mauritania (KU251463.1) except migratory locust (AB497251.1) showing 88% similarity (Fig. 1). Molecular phylogenetic tree produced (Maximum Likelihood Method) from the DNA sequences available at NCBI showed that studied sequences of the desert locust from Pakistan (MK168615.1, MK168616.1, MT449731.1, MT449732.1, MT449733.1, MT449734.1, MT449735.1, KU2514651.1) formed same cluster with the same species of desert locust, S. g. gregaria isolates reported from the countries of Northern Africa (Mauritania11, Niger7, Algeria19) and different clusters were observed with the different species of locusts reported from Southern Africa, Central and South America following distinctive mono clade with closely related subspecies of desert locust (S.gregaria flaviventris) (Fig. 2). Similarly, in estimation of evolutionary divergences, amino acid substitution between sequences of different and same species indicated very little divergence values (0.000-0.009) between same species while it increased trend was observed in different species (0.012-0.207) with maximum divergence value (0.207) in migratory locust (Locusta migratoria) (Table II). The results of current study showed that the studied DNA sequences of desert locusts from Pakistan belonged to the most prevailed subspecies of desert locust, Schistocerca gregaria gregaria.

 

Table I.- BLASTnt results of DNA sequences of locusts submitted on NCBI showing their Identity % of species of desert locusts from Pakistan, S. g. gregaria with various important species reported from other countries of the World.

Query / Subject		Max score	Total score	Query coverage	E. value	Identity	Accessions
MT449735.1
	Schistocerca gregaria gregaria Pak1	1216	1216	100%	0.0	100.00%	MT168616.1
	S. g. gregaria mau11	1216	1216	100%	0.0	100.00%	KU251463.1
	S. g. gregaria	1216	1216	100%	0.0	100.00%	KY980902.1
	S. g. gregaria Nig7	1199	1199	100%	0.0	99.54%	KU251464.1
	S. g. gregaria pak2	1194	1194	100%	0.0	99.39%	MT168616.1
	S. g. gregaria pak3	1194	1194	100%	0.0	99.39%	KU251465.1
	S. g. gregaria Alg19	1188	1188	100%	0.0	99.34%	KU251462.1
	S. g. flaviventris	1194	1194	100%	0.0	98.79%	KU251470.1
	S. g. flaviventris	1194	1194	100%	0.0	98.12%	KU251474.1
	S. americana	1055	1055	100%	0.0	95.59%	GU122627.1
	S. impleta	1044	1044	100%	0.0	95.29%	GU115862.1
	S. guisqueya	1038	1038	100%	0.0	95.14%	GU115949.1
	S. melanocera	1033	1033	100%	0.0	94.98%	GU115864.1
	S. literosa	1033	1033	100%	0.0	94.98%	GU115863.1
	S. guisqueya	1022	1022	100%	0.0	94.68%	GU115867.1
	S. pallens	1022	1022	100%	0.0	94.68%	GU115915.1
	S. cancellata	1016	1016	100%	0.0	94.53%	GU116453.1
	S. piceifrons	1014	1014	99%	0.0	94.52%	GU115922.1
	S. lineata	1000	1000	100%	0.0	93.92%	KM243977.1
	L. migratoria	1000	1000	100%	0.0	88.92%	AB497251.1

 

Table II.- Estimates of Evolutionary Divergence between Sequences.

 

The number of amino acid substitutions per site from between sequences is shown. Divergences values are very small between same species and increases as DNA of different species diverged more. Pakistani isolates (MK168615.1, MK168616.1, MT449731.1, MT449732.1, MT449733.1, MT449734.1, MT449735.1, and KU2514651.1) compared with DNA sequences of same or different species reported from other countries. Name of locust species (left) and evolutionary divergence value (right).

 

Discussion

Locusts belonging to the family Acrididae (Insecta: Orthoptera) are actually short horned grasshoppers in which solitary individuals are transformed into gregarious ones in response to increased population density having complex evolution of density dependent plasticity (Pener, 1983; Pener and Simpson, 2009; Song et al., 2017). The desert locust, Schistocerca gregaria (Orthoptera: Acrididae) distributed in various regions of Southwest Asia, Africa and Middle East are devastating agricultural pests (Meinzingen, 1993; El Hassan, 2000). Recently, in June 2019 and Jan 2020, a large swarm appeared in Pakistan from Iran and destroyed cotton, wheat, maize and other crops in various provinces of Pakistan. The samples were collected and by studying morphological characters of several specimens and molecular features of 8 DNA sequences submitted and reported from Pakistan (MK168615.1, MK168616.1, MT449731.1, MT449732.1, MT449733.1, MT449734.1, MT449735.1, KU2514651.1) showed a maximum genetic similarity (99-100%) and minimum amino acid substitution divergence value (0.00-0.009) (Table II) to one of the most prevailed phase changing (gregarious) subspecies, S. gregaria gregaria originated from Northern Africa as compared to another closely related subspecies, S. gregaria flaviventris found in Southern part of Africa (Popov et al., 1991; Chapuis et al., 2017). Schistocerca gregaria also named as Schistocerca americana with their same subspecies but Schistocerca gregaria is acceptable by majority of molecular taxonomist. Four species among the 50 species of the genus Schistocerca, S. gregaria, S. piceifrons, S. cancellata and S. interrita form huge swarms in Central and South America, Africa, Middle East and South Asia (Song and Wenzel, 2008; Song et al., 2017). Figure 2 revealed the association of desert locust of Pakistan (S. g. gregaria) with same subspecies reported from Algeria, Niger and Mauritania by placing in one cluster of the phylogenetic tree as compared to S. g. flaviventris of Tanzania (Tan6) and Namibia (Nam1) present in Southern Africa as well as other closely related Schistocerca species of Central and Southern America. Similarly, a clear distinct single monophyletic clade was formed with S. g. flaviventris mtDNA sequences as observed in current study within the desert locust lineage (Chapuis et al., 2016). The current molecular study of subspecies determination was confirmed by several researchers using COI gene (de Waard et al., 2010; Mousseau and Sikes, 2011; Silva-Brandão et al., 2013; Chapuis et al., 2016). A distinct morphological character between two sub species of desert locust (S. g. gregaria and S. g. flaviventris) is the elongated and un bend cercus of male S. g. gregaria which was observed in current study as compared to short and wider cercus observed in male of S. g. flaviventris (Song, 2004, 2009). The studied subspecies (S. g. gregaria) has much breeding potential as compared to other subspecies (S. g. faviventris) because of the distinctive shape and elongated length of male cercus that give advantage during mating. The color variation observed on the head, thorax and abdomen of sexually matured males and females of S. g. gregaria have also been reported by the previous researchers (Maeno and Tanaka, 2007; Tanka et al., 2010; Nishide and Tanaka, 2010). Central American locust (S. piceifrons) with two subspecies; S. p. piceifrons and S. p. peruviana (Harvey, 1983; and South American locust (S. cancellata) (Barrientos Lozano et al., 1992) showed genetic similarity (93-95%) with S. g. gregaria reported from Pakistan. The desert locust of Pakistan (S. g. gregaria) has a wide genetic differentiation from other widely spread migratory locust (Locusta migratoria) which further consist of two subspecies as Asian Migratory Locust (flying capacity 1000 km (L. migratoria migratoria) and African Migratory Locust, (L. migratoria migratorioides) (Linnaeus, 1758) (Ma et al., 2012; Stige et al., 2007; Tian et al., 2011).

 

In current research, identification of subspecies of desert locusts and their association with same subspecies which is widely present in Northern and now in East Africa suggested few routes (migration pattern) of its entrance and exit from Africa towards Asia (Fig. 3). The gregarious subspecies (S. g. gregaria) was originated from Northern Africa (Sahara desert) and mostly prevailed in Northern and Eastern part of Africa. The other closely related solitary subspecies (S. g. flaviventris) was found only in Southern Part of Africa. Therefore, it is further suggested that S. g. gregaria present in Pakistan during 2019-2020 swarms has a strong association with Sahara desert of Algeria, Niger, Egypt and Sudan as well as Eastern part of Africa (Somalia, Kenya and Ethiopia) from where this species was potentially reproduced (2018-2020) due to favorable climatic condition and migrated to different countries (Fig. 3).

Pakistan is an important front-line country for locust attack because of the presence of transit zones and potential breeding areas present in Indus Valley of Pakistan, particularly winter/spring breeding areas of Baluchistan (Lasbela/Uthal area), Sindh (West Karachi) and summer breeding zones of Sindh (Thar) and Southern Punjab (Cholistan, Thal etc.). Internal and external developing locust swarm move between these areas for seasonal breeding and destroy crops in different provinces along with few districts of Khyber Pakhtunkhwa (KPK). In June 2019, swarm of desert locust entered from neighboring countries (Iran and India) and hundreds of hectare of important crops costing millions was lost in this attack. Large population of desert locust (S. g. grearia) appeared again in early-2020 to Mid-2020 from various summer breeding areas of Pakistan and again damaging cotton, sugarcane, maize, fruit crops and vegetables in different provinces of Pakistan. Due to desert locust attack, a loss of $2.2 billion for winter crop (wheat/potatoes) and $4.6 billion for summer crops in a year has been estimated by the Food and Agriculture organization (FAO) of United Nation. Government of Pakistan has declared national emergency since Jan 2020 in the country to counter swarms attack and to adopt proper control measures. According to a report, 38% area of Pakistan (65% area of Baluchistan, 26% Sindh, 15% Punjab and several districts of KPK are under severe threat by desert locust (Schistocerca gregaria). In May, 2020 locust was widely reported from 56 districts including 17 districts of Punjab with devastating effect on cotton in South Punjab. Current breeding and widely presence of locust in India (Rajasthan) and Iran can be fatal to main crops if its migration towards Pakistan not observed properly in Pakistan. End of April, 2020 Chinese Government helped Pakistan by providing 300 tons of ULV malathian, 50000 liter of Lambda cyhalothrin and 50 vehicle mounted high efficiency sprayers to fight against locust disaster. National Locust Control Centre (NLCC), National Disaster Management Authority (NDMA), Ministry of Food, Plant Protection, and Agriculture Extension departments are using these facilities to control desert locust. Thousands of acres (121605 hectare) have been sprayed and more than 3682639 hectare under surveillance. Pakistan has deployed more than 1100 surveys and control teams across the country.

Potential migratory routes and breeding places for desert locust migration from Southern and Eastern Africa to Pakistan through gulf countries (Yemen, Oman, UAE and Saudi Arabia) have been elaborated (Fig. 3). Small to large groups and swarms of locusts are developing in spring breeding areas in Africa, gulf region as well as in southern coast and parts of Iran (Sistan-Baluchistan) as vegetation is drying out. These locust groups and swarms will move east to the Indo-Pakistan summer breeding areas of Sindh and Punjab. Control operations are underway but same pattern for S. g. flaviventris and other species can’t be ignored from other contries towards Pakistan. It is expected that swarm may last for next year 2021 and create trouble if not controlled properly. So, it is essential to protect crops from external as well as internal threat of locust by careful monitoring of eggs in breeding zones. Hundreds of eggs (~300) are laid by single female of desert locust at 3-10 mm depth by inserting their abdomen in sandy soils. It is therefore utmost important to observe all seasons breeding areas of desert locust, S. g. gregaria to destroy their eggs and emerging young ones through chemical, biological, physical, cultural and mechanical ways. After hatching, young ones before going to fledgling stage (before wing formation) can be easily controlled with insecticides (malathion, lambda cyhalothrin, fipronil etc.) and bio pesticides (Metarhizuium anisoplae var acridum) or drenching methodology. After, wing formation, serotonin is produced in nervous system and guaiacol in gut of insect therefore locust body color is changed, food consumption increased, mating enhanced, quickly reproduced and under overcrowding condition, locust swarm occurs and move along wind direction and by using olfactory sense find food and vegetation. Desert locust, S. g. gregaria can fly easily 150 km/day and approximately 150 million of desert locusts are present in 1 km2 area of a small swarm that can eat up to 35000 human’s equal food in a day. Drum beating, smoke making and irrigation can be helpful to stop locust settling in the fields that can be achieved by active involvement of farmer’s community. Identification and utilization of species specific indigenous entomopathogens (fungi, bacteria, viruses, and nematodes), predators and parasitoids, phytochemicals, development of low cost efficient machinery, nanoparticle based insecticides and RNA interference (RNAi) based important GM crops will be best strategy to control locust and reduce environmental pollution caused by pesticides. Locusts are rich in protein and can be utilized as protein rich diet for human, poultry and fish. Relevant industries can be engaged for getting maximum benefit from it. Sustainable management of desert locust is possible only along with other control practices, if deserts (breeding areas) of Pakistan are converted into green areas. Recently, billion tree project initiated by Government of Pakistan can be useful to convert deserts into greenery.

The precise identification of desert locust (S. g. gregaria) will be very helpful to adopt species specific control measures (biological control) not only in Pakistan but also in foreign countries. Further, keeping in view the potential entrance routes of locusts from Africa, gulf and neighboring countries (India, Iran, and Afghanistan), existence of other potentially damaging species of locust, particularly S. g. flaviventris can’t be ignored in Pakistan. The study on molecular taxonomy, host plant preference, phytochemical and bio pesticides synthesis, insecticides toxicity and resistance against desert locust, S. g. gregaria is under progress.

 

Conclusion

The identification of a sub-species of desert locust S. g. gregaria (Forskål, 1775) from Pakistan using the mitochondrial Cytochrome C Oxidase subunit 1 (COI) confirmed the database search that the sequenced DNA segment is corresponded to the most prevailed species of desert locust (Schistocerca gregaria subspecies gregaria) reported from Northern Africa. Further, this is the first report of molecular identification S. g. gregaria with observed adult morphological parameters and migratory pattern with potential routes of locust entrance and exit from Northern and Eastern Africa towards Asia particularly from neighbor countries to Pakistan. Regular seasonal monitoring of desert locust (egg laying and destroying) in breeding and infested areas will be helpful to manage this pest.

 

Acknowledgements

Authors are thankful to Higher Education commission of Pakistan (HEC) (Grant No. 204535/NRPU/R&D/HEC/14/159 and Pak-Norway Institutional Cooperation Program for providing funds to JNA and SJNA for research and to establish research Laboratory (IGCDB) at University of Agriculture Faisalabad, Pakistan.

 

Statement of conflict of interest

Authors declare that they have no conflict of interest.

 

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