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Shukla, J. N.

Publications and source records attributed to Shukla, J. N..

3 recordsLinked to original sources

Host-dependent salivary effector candidates and predicted plant immune targets in Spodoptera frugiperda

Salivary secretions of herbivorous insects contain proteins that modulate plant defence and facilitate herbivory. Despite the broad host range of Spodoptera frugiperda, a major agricultural pest, its salivary molecular arsenal involved in interactions with different host plants remains poorly understood. In particular, the salivary proteins induced during feeding on different host plants and their potential interactions with plant immune components remain largely unexplored. To address this gap, we generated salivary gland transcriptomes from larvae reared on an artificial diet as well as larvae fed on tomato or chickpea plants. Comparative transcriptomic analysis identified salivary genes that were differentially expressed in response to plant feeding compared with the artificial diet. The encoded proteins were subsequently analysed using a secretory protein prediction pipeline to identify host-induced putatively secreted proteins with potential effector functions. Candidate salivary effectors were further investigated using large-scale in silico protein-protein interaction analyses with AlphaPulldown to predict their interactions with immune-pathway associated proteins of tomato and chickpea. This analysis identified multiple putative salivary effector candidates whose expression was induced by plants feeding, with distinct candidate repertoires associated with tomato and chickpea. Predicted interactions between these candidates and plant immune-associated proteins further identified potential host targets. Together, these findings suggest that S. frugiperda may adjust its salivary molecular repertoire in response to the host plant and provide a transcriptome-wide framework for validating effector-target interactions and elucidating the molecular mechanisms underlying S. frugiperda-plant interactions.

molecular biology↗

TSSK homologue regulates the expression of protamine and mosquito testes specific genes in Anopheles stephensi

The testis-specific serine/threonine-protein kinase (tssk) gene is known to play an important role in spermiogenesis in mammals. This study identifies tssk homologues, As_tssk3 and Aea_tssk1 in Anopheles stephensi and Aedes aegypti, respectively. Both As_tssk3 and Aea_tssk1 were found to express in a male-specific manner throughout the development. Efficient knockdown in the expression of As_tssk3 gene was observed upon feeding An. stephensi larvae with target dsRNA. As_tssk3 knockdown led to a reduced sperm reservoir in male adults. Additionally, the knockdown of As_tssk3 resulted in the reduced expression of two male specifically expressed genes, protamine & mosquito testes specific (mts- a sperm-specific marker) homologues of An. stephensi. In-silico interaction analysis suggests that As_TSSK3 protein interacts with the Nucleosome Assembly Protein1 like-4 (NAP1like-4), a putative transcription factor. We hypothesize that As_TSSK3 regulates the transcription of protamine and mts genes via NAP, as both NAP and protamine have previously been shown to function in the establishment and maintenance of chromatin dynamics, in independent studies. The study presented here is the first report of characterisation of tssk homologues in any mosquito species. The knockout studies and phosphorylation assays would provide more insights to explore the mechanism by which As_tssk3 regulates protamine and mts genes in Anopheles stephensi. HighlightsO_LIThis study identifies the tssk homologues in Ae. aegypti and An. stephensi and showed their male-specific expression in both the mosquito species. C_LIO_LIdsRNA mediated knockdown of As_TSSK3 resulted into the males with a reduced size of sperm reservoir. C_LIO_LIdsRNA mediated knockdown of As_TSSK3 led to the reduction in the expression of As_prot and As_mts, homologues of protamine and mosquito testis specific, genes in An. stephensi. C_LIO_LIIn-silico studies suggest that As_TSSK3 regulates the expression of As_prot and As_mts genes via NAP. C_LI

genetics↗

Genome assembly and annotation of the red flour beetle (Tribolium castaneum) from India

The largest insect order, Coleoptera, includes several economically important beetles that also serve as major model species for biological research. Perhaps foremost among these is the red flour beetle, a global pest of stored grains and flour whose genome was sequenced in 2008. However, the currently available reference genome (Tcas5.2) is incomplete, fragmented and contains many gaps, and the Y chromosome is not assembled. Here we present inTcas1, an updated genome assembly and annotation of T. castaneum collected from India, assembled using both short and long read sequencing, and annotated using two transcriptome datasets. We report that inTcas1 has fewer gaps, less fragmentation, and many new genes and new isoforms of previously annotated genes. This new resource provides a useful update, comparison, and reference for new beetle genome assemblies. The first Y chromosome assembly for this species also provides critical data to study the evolution of insect sex chromosomes and sex determination systems. SIGNIFICANCEWe present here an improved T. castaneum genome assembly (inTcas1) for beetles sampled from India, including the first Y chromosome of this important pest and laboratory model species. The new genome should facilitate more comprehensive analysis of Coleoptera genome and transcriptome datasets, especially beetle populations from Asia - the previously available genome, Tcas5.2, was assembled using the GA2 strain from USA. The updated genome should also facilitate analyses of genome evolution, including sex determination and sex chromosome dynamics; and the new gene annotations can expand the genetic toolkit for this beetle.

genomics↗