In silico comparative analysis of tylenchid nematode pectate lyases

Filho, R.M. Moraes; Martins, Luíza Suely Semen

doi:10.4238/gmr.15038402

Cited by 3 publications

(3 citation statements)

References 22 publications

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“…Many studies have shown that pel is an important factor affecting host range. Different types of PELs recognise different sequences of methylated and unmethylated galacturonate sites with different chemical and enzyme properties (Herron et al 2000;Filho et al 2016), which may result in different pathogen host ranges. In this study, five pels from R. similis were screened and cloned based on R. similis transcriptome data, four of which belonged to the Class III family .…”

Section: Discussionmentioning

confidence: 99%

“…Pathogenic microorganisms destroy plant cell walls to facilitate their invasion via secreting PEL to degrade pectin and stimulate plant immune responses (Shevchik et al 1998;Ferrari et al 2013). Therefore, PEL plays an important role in the interaction between plant pathogens and their hosts and is an important factor affecting the host range of pathogens (Filho et al 2016). Currently, plant-parasitic nematodes are the only animals known to produce PEL.…”

Section: Introductionmentioning

confidence: 99%

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Pectate lyase genes from Radopholus similis and their application in pathotype identification

Yang,

et al. 2024

Appl Microbiol Biotechnol

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Radopholus similis is a destructive, migratory, and endophytoparasitic nematode. It has two morphologically indistinguishable pathotypes (or physiological races): banana and citrus pathotypes. At present, the only reliable method to differentiate the two pathotypes is testing the infestation and parasitism of nematodes on Citrus spp. via inoculation. However, differences in inoculation methods and conditions adopted by different researchers complicate obtaining consistent results. In this study, the parasitism and pathogenicity of 10 R. similis populations on rough lemon (Citrus limon) seedlings and the tropism and invasion of rough lemon roots were tested. It revealed that populations SWK, GJ, FZ, GZ, DBSR, and YJ were citrus pathotypes, which showed parasitism and pathogenicity on rough lemon and could invade rough lemon roots, whereas populations XIN, ML, HN6, and HL were banana pathotypes, having no parasitism and pathogenicity on rough lemon and they did not invade the rough lemon roots. Four pectate lyase genes (Rs-pel-2, Rs-pel-3, Rs-pel-4, and Rs-pel-5) belonging to the Class III family from these populations were amplified and analysed. The gene Rs-pel-3 could be amplified from six citrus pathotype populations and was stably expressed in the four developmental stages of the nematode, whereas it could not be amplified from the four banana pathotypes. Rs-pel-3 expression may be related to the parasitism and pathogenicity of R. similis on rough lemon. Hence, it can be used as a molecular marker to distinguish between banana and citrus pathotypes and as a target gene for the molecular identification of these two pathotypes. Key points • Four pectate lyase genes (Rs-pels) from Radopholus similis were cloned and analysed. • The expression of Rs-pels is different in two pathotypes of Radopholus similis. • A molecular identification method for two pathotypes of Radopholus similis using pectate lyase gene Rs-pel-3 as the target gene was established.

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Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Pectate lyase genes from Radopholus similis and their application in pathotype identification

Yang,

et al. 2024

Appl Microbiol Biotechnol

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“…Another in silico comparative analysis study showed that the legume lectin sequences ranged from 700 to 900 bp. Hundreds of structures of plant lectins have been characterized, and legume lectins are the most extensively studied (Moraes Filho et al, 2017).…”

Section: In Silico Characterization Of Plant Lectin Genesmentioning

confidence: 99%

In silico Comparative Analysis of Gene and Protein of Plant Lectins

Khairiya,

Dwivany,

Suhandono

et al. 2023

JTAS

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Lectins are a family of proteins that can recognize and bind specific carbohydrates. Plant lectins play various roles in plant defense and can be utilized as insecticidal, antibacterial, antifungal, and antiviral agents. This study compares genes, proteins, and carbohydrate-binding motifs between 15 plant lectins using in silico methods. The lectin genes of Artocarpus hypargyreus Hance, Hordeum vulgare var. Betzes, Triticum aestivum L. cv. Marshall, Galanthus nivalis L., Allium sativum L., Phaseolus vulgaris, Lens culinaris subsp. tomentosus, Robinia pseudoacacia, Glycine max, Cicer arietinum, Pisum sativum, Canavalia ensiformis, Amaranthus caudatus, Amaranthus hypochondriacus, and Musa acuminata subsp. malaccensis were obtained from National Center for Biotechnology Information and Banana Genome Hub. The gene comparison results revealed different characteristics of the 15 plant lectin genes, with A. hypargyreus having the shortest lectin gene and G. max having the longest. Overall, the 15 plant lectin genes have 1–3 exons. Domain predictions revealed the presence of five domains: jacalin, chitin_bind_1, B_lectin, legume lectin, and agglutinin. Furthermore, there were 2 protein sequences from the jacalin domain, 2 protein sequences from the chitin_bind_I domain, 2 protein sequences from the B_lectin domain, and 4 protein sequences from the legume lectin domains that have complete carbohydrate-binding motifs compared to consensus motifs from literature. The data obtained from this study has not been previously reported and can be utilized for future lectin protein production with synthetic biology approaches. This method will allow scientists to obtain plant bioparts for lectin production using a heterologous system, even without plant samples.

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In Silico Characterization of Meloidogyne Genus Nematode Cellulose Binding Proteins

Menezes

Cavalcanti

Martins

et al. 2019

Braz. arch. biol. technol.

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Root-knot nematodes are a group of endoparasites species that induce the formation of giant cells in the hosts, by which they guarantee their feeding and development. Meloidogyne species infect over 2000 plant species, and are highly destructive, causing damage to many crops around the world. M. enterolobii is considered the most aggressive species in tropical regions, such as Africa and South America. Phytonematodes are able to penetrate and migrate within plant tissues, establishing a sophisticated interaction with their hosts through parasitism factors, which include a series of cell wall degradation enzymes and plant cell modification. Among the parasitism factors documented in the M. enterolobii species, cellulose binding protein (CBP), a nematode excretion protein that appears to be associated with the breakdown of cellulose present in the plant cell wall. In silico analysis can be of great importance for the identification, structural and functional characterization of genomic sequences, besides making possible the prediction of structures and functions of proteins. The present work characterized 12 sequences of the CBP protein of nematodes of the genus Meloidogyne present in genomic databases. The results showed that all CBP sequences had signal peptide and that, after their removal, they had an isoelectric point that characterized them as unstable in an acid medium. The values of the average hydrophilicity demonstrated the hydrophilic character of the analyzed sequences. Phylogenetic analyzes were also consistent with the taxonomic classification of the nematode species of this study. Five motifs were identified, which are present in all sequences analyzed. These results may provide theoretical grounds for future studies of plant resistance to nematode infection. HIGHLIGHTS• CBPs are remarkably conserved between Meloidogyne species • CBPs exhibit two to three functional domains related to signal binding and cellulose hydrolase activities Menezes, A.M.F.; et al.

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In silico comparative analysis of tylenchid nematode pectate lyases

Cited by 3 publications

References 22 publications

Pectate lyase genes from Radopholus similis and their application in pathotype identification

Pectate lyase genes from Radopholus similis and their application in pathotype identification

In silico Comparative Analysis of Gene and Protein of Plant Lectins

In Silico Characterization of Meloidogyne Genus Nematode Cellulose Binding Proteins

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