In silico secretome analyses of the polyphagous root-knot nematode Meloidogyne javanica : a resource for studying M. javanica secreted protein
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Authors
Macharia, Teresia N.
Duong, Tuan A.
Moleleki, Lucy N.
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BMC
Abstract
BACKGROUND: Plant-parasitic nematodes (PPNs) that cause most damage include root-knot nematodes (RKNs) which are a major impediment to crop production. Root-knot nematodes, like other parasites, secrete proteins which are required for parasite proliferation and survival within the host during the infection process.
RESULTS: Here, we used various computational tools to predict and identify classically and non-classically secreted proteins encoded in the Meloidogyne javanica genome. Furthermore, functional annotation analysis was performed using various integrated bioinformatic tools to determine the biological significance of the predicted secretome. In total, 7,458 proteins were identified as secreted ones. A large percentage of this secretome is comprised of small proteins of ≤ 300 aa sequence length. Functional analyses showed that M. javanica secretome comprises cell wall degrading enzymes for facilitating nematode invasion, and migration by disintegrating the complex plant cell wall components. In addition, peptidases and peptidase inhibitors are an important category of M. javanica secretome involved in compatible host-nematode interactions.
CONCLUSION: This study identifies the putative secretome encoded in the M. javanica genome. Future experimental validation analyses can greatly benefit from this global analysis of M. javanica secretome. Equally, our analyses will advance knowledge of the interaction between plants and nematodes.
Description
DATA AVAILABILITY : All data generated or analyzed during this study are available in the figshare repository, https://doi.org/10.6084/m9.figshare.21641726.
Keywords
Secretome prediction, Plant-nematode interaction, Bioinformatics, Effectors, Plant-parasitic nematode (PPN), Root-knot nematode (RKN)
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Citation
Macharia, T.N., Duong, T.A. & Moleleki, L.N. In silico secretome analyses of the polyphagous root-knot nematode Meloidogyne javanica: a resource for studying M. javanica secreted proteins. BMC Genomics 24, 296 (2023). https://doi.org/10.1186/s12864-023-09366-6.