Draft genome sequencing of the foxglove aphid (Aulacorthum solani Kaltenbach), a vector of potato viruses, provides insights on virulence genes

Tiwari, Jagesh Kumar; Nagesh, M.; Sridhar, Jayavel; Mandal, Vikramjit; Ghosh, Arpita; Kardile, Hemant B.; Naga, Kailash Chandra; Shah, Mohd Abas; Rawat, Shashi; Venkateswarlu, Vallepu; Malik, Kamlesh; Bhatnagar, Anuj; Chakrabarti, S. K.; Kumar, Manoj; Rao, Atmakuri Ramakrishna; Rai, Anil

doi:10.1016/j.aspen.2021.03.010

Cited by 3 publications

(2 citation statements)

References 41 publications

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“…Using R v3.6.1 to plot the changes in the frequency of each SNP in the viral population, structures were identified and SNP frequency trajectories were grouped into heat maps for each lineage using the Heatmap.2 toolkit after eliminating SNPs that occurred at a frequency of at least 10% in at least two different lineages to conduct a more thorough search for potentially positively selected SNPs. Another study by Tiwari et al ( 2021 ) on the genome sequencing of the potato virus vector foxglove aphid ( Aulacorthum solani Kaltenbach) sheds light on the virulence genes. In all, 16,610 genes out of 22,021 predicted genes had putative roles associated with other aphids, primarily Myzus persicae, Acyrthosiphon pisum , and Diuraphis noxia .…”

Section: Genome Organization and Proteinsmentioning

confidence: 99%

Insight into aphid mediated Potato Virus Y transmission: A molecular to bioinformatics prospective

et al. 2022

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Potato, the world's most popular crop is reported to provide a food source for nearly a billion people. It is prone to a number of biotic stressors that affect yield and quality, out of which Potato Virus Y (PVY) occupies the top position. PVY can be transmitted mechanically and by sap-feeding aphid vectors. The application of insecticide causes an increase in the resistant vector population along with detrimental effects on the environment; genetic resistance and vector-virus control are the two core components for controlling the deadly PVY. Using transcriptomic tools together with differential gene expression and gene discovery, several loci and genes associated with PVY resistance have been widely identified. To combat this virus we must increase our understanding on the molecular response of the PVY-potato plant-aphid interaction and knowledge of genome organization, as well as the function of PVY encoded proteins, genetic diversity, the molecular aspects of PVY transmission by aphids, and transcriptome profiling of PVY infected potato cultivars. Techniques such as molecular and bioinformatics tools can identify and monitor virus transmission. Several studies have been conducted to understand the molecular basis of PVY resistance/susceptibility interactions and their impact on PVY epidemiology by studying the interrelationship between the virus, its vector, and the host plant. This review presents current knowledge of PVY transmission, epidemiology, genome organization, molecular to bioinformatics responses, and its effective management.

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Section: Genome Organization and Proteinsmentioning

confidence: 99%

Insight into aphid mediated Potato Virus Y transmission: A molecular to bioinformatics prospective

et al. 2022

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“…Indeed, many terrestrial habitats are dominated by species that reproduce by vegetative reproduction, such as saltmarshes, tundra, grasslands, dunes, and the herbaceous understory of woodlands ( Hola et al, 2014 ). Common vegetative plants in agriculture include potato, ginger, sugar cane, yam, banana, and sweet potato ( Thomas et al, 2016 ; Denham et al, 2020 ; Tiwari et al, 2021 ; Wu et al, 2021 ). Vegetative reproduction also provides several evolutionary benefits, such as avoiding the costs associated with sexual reproduction and a means by which adaptive genotypes can be replicated rapidly after colonization of new environments ( Charpentier, 2001 ; Verhoeven and Preite, 2014 ; Barrett, 2015 ).…”

Section: Introductionmentioning

confidence: 99%

“Breeding on Mountains” Resulted in the Reorganization of Endophytic Fungi in Asexually Propagated Plants (Ligusticum chuanxiong Hort.)

Kang

Wang

et al. 2021

Front. Plant Sci.

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“Breeding on mountains, cultivation in dam areas” is a unique propagation method for the vegetatively propagated plant Ligusticum chuanxiong, including two transplants between the mountain and the dam area. It is well known that the environment can influence the endophytic community structure of plants. However, the change of host endophytic flora caused by transplanting in different places and its influence on asexual reproduction are still poorly understood. We carried out three cycles of cultivation experiments on L. chuanxiong and collected stem nodes (LZ), immature rhizomes (PX), medicinal rhizomes (CX), and rhizosphere. High-throughput sequencing was performed to analyze the endophytic fungi in all samples. We observed that the diversity and richness of endophytic fungi in L. chuanxiong increased as a result of transplanting cultivation from dam areas to mountains. Local transplantation caused minor changes in the endophytic fungus structure of L. chuanxiong, while remote transplantation caused significant changes. Compared with LZ after breeding in the dam area, the LZ after breeding on mountains has more abundant Gibberella, Phoma, Pericona, Paraphoma, and Neocosmospora. The regular pattern of the relative abundance of endophytic fungi is consistent with that of the fungus in the soil, while there are also some cases that the relative abundance of endophytic fungi is the opposite of that of soil fungi. In addition, there is a significant correlation among certain kinds of endophytic fungi whether in the soil or the plants. We have isolated more gibberellin-producing and auxin-producing fungi in the LZ cultivated in the mountains than that in the LZ cultivated in the dam area. The results of pot experiments showed that the three fungi isolated from LZ cultivated in mountainous areas can promote the development of shoots, stem nodes, and internodes of LZ, and increase the activity of plant peroxidase, catalase, phenylalanine ammonia lyase, and other enzymes. We can conclude that transplantation leads to the recombination of the host endophytic fungus, the more significant the difference in the environment is, the greater the reorganization caused by transplanting. Reorganization is determined by the soil environment, hosts, and the interaction of microorganisms. Remote transplantation is a crucial opportunity to reshuffle the micro-ecological structure of the asexual reproduction of plants, and regulate the growth, development, and resistance of plants, and prevent germplasm degradation caused by asexual reproduction.

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Comparative Analysis of Two Pear Pests, Cacopsylla jukyungi and Cacopsylla burckhardti (Hemiptera: Psyllidae), Based on Complete Mitochondrial Genomes and Comparison to Confamilial Species

et al. 2022

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Mitochondrial genome sequences have been used in diverse fields of biology. In this study, we sequenced the complete mitochondrial genomes (mitogenome) of two pear pests: Cacopsylla jukyungi, the most damaging insect pest to commercial pears in South Korea, and Cacopsylla burckhardti (Hemiptera: Psyllidae). The two mitogenomes were compared to confamilial species to accumulate genetic information and understand evolutionary characteristics of the family Psyllidae. The 15,438 bp-and 14,799 bp-long complete mitogenomes of C. jukyungi and C. burckhardti, respectively, had many features typical of insect mitogenomes; however, at 1283 bp, the C. jukyungi mitogenome had an unusually long A+T-rich region, which was composed of two identical 540-bp repeat sequences. Among the intergenic spacer regions, the one located at the ND1 and trnS2 junction was relatively well conserved in length (mostly within 23–36 bp). This region had a high sequence identity in all Psyllidae, possessing a 5-bp consensus sequence (CGGTA), which is speculated to have a functional role. Though the A+T-rich region in available Psyllidae mitogenomes varied substantially in length (662–1430 bp) and sequence divergence, all species had a conserved sequence stretch at the 3′-end of srRNA, which is also speculated to have a functional role. Genetic divergence among genes indicated the lowest variability in srRNA, lrRNA, and COI, whereas ATP8 and ND6 showed the highest variability at both family and genus (Cacopsylla) levels. Our data provide evidence that the family Psyllidae, including current C. jukyungi and C. burckhardti, have evolutionary unique features that were previously undetected, along with the unique A+T-rich region structure in C. jukyungi.

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Draft genome sequencing of the foxglove aphid (Aulacorthum solani Kaltenbach), a vector of potato viruses, provides insights on virulence genes

Cited by 3 publications

References 41 publications

Insight into aphid mediated Potato Virus Y transmission: A molecular to bioinformatics prospective

Insight into aphid mediated Potato Virus Y transmission: A molecular to bioinformatics prospective

“Breeding on Mountains” Resulted in the Reorganization of Endophytic Fungi in Asexually Propagated Plants (Ligusticum chuanxiong Hort.)

Comparative Analysis of Two Pear Pests, Cacopsylla jukyungi and Cacopsylla burckhardti (Hemiptera: Psyllidae), Based on Complete Mitochondrial Genomes and Comparison to Confamilial Species

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