Genome sequences and in silico effector mining of Corynespora cassiicola CC_29 and Corynespora olivacea CBS 114450

Dal’Sasso, Thaís Carolina da Silva; Rody, Hugo Vianna Silva; Grijalba, P. E.; Oliveira, Luiz Orlando de

doi:10.1007/s00203-021-02456-7

Cited by 6 publications

(9 citation statements)

References 47 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…From GenBank, we downloaded genome sequences from 42 fungal isolates and predicted their proteins and associated CDSs. We also included protein sequences and CDSs from additional two isolates: CCP (Lopez et al 2018) and CC_29 (Dal’Sasso et al 2021). Thus, our set contained 44 isolates of C. cassiicola ; hereafter, this set was referred to as “the Corca set” (Table S1).…”

Section: Methodsmentioning

confidence: 99%

“…Using RT-qPCR, we investigated the expression in planta of the predicted NLP genes of C. cassiicola . We used C. cassiicola isolate CC_29 (originally isolated from soybean leaves; Dal’Sasso et al 2021) because it also contained a copy of the rare non-effector Cc_NLP1.3 in addition to the widespread Cc_NLP1.1, Cc_NLP1.2A, and Cc_NLP1.2B copies.…”

Section: Methodsmentioning

confidence: 99%

“…BLASTn searches using each of those insertion sequences as queries did not find significant matches in the genomes of the remaining 41 isolates of C. cassiicola (Corca set; Table S1). Moreover, additional BLASTn searches did not find evidence for homology between those insertions and the repeat/transposable elements that were present in the genome of isolate CC_29 (Dal'Sasso et al 2021). Finally, copies within the Cc_NLP1.3 clade were predicted to be non-effector NLP-encoding genes.…”

Section: Phylogenetic Relationships Among Nlp-encoding Genesmentioning

confidence: 96%

“…During alignment of CDSs, we detected the presence of an insertion of either 105 bp (in isolate CC_29) or 153 bp (in isolates 777AA and RUD). In order to find out their origin, these insertions were used as query in local BLASTn (E-value < 1e-4) to search for homologous sequences within the Corca set and within the repeat library we have built previously for isolate CC_29 (Dal'Sasso et al 2021).…”

Section: Orthogroups and Bayesian Phylogenies Of Nlpsmentioning

confidence: 99%

“…Target spot induces premature defoliation in a number of crops, which in turn reduces yield and results in economic losses. Glycine max (soybean), Gossypium hirsutum (cotton), Cucumis sativus (cucumber), and Carica papaya (papaya) are a few of the plant hosts to which C. cassiicola causes economically important diseases (Dixon et al 2009; Déon et al 2014; Sumabat et al 2018; Gao et al 2020; Dal’Sasso et al 2021). In rare cases, C. cassiicola has been reported associated with human infection (Looi et al 2017).…”

Section: Introductionmentioning

confidence: 99%

See 4 more Smart Citations

The Necrosis- and Ethylene-inducing peptide 1-like protein (NLP) gene family of the plant pathogen Corynespora cassiicola

Dal’Sasso

Rocha

Rody

et al. 2022

Preprint

Self Cite

View full text Add to dashboard Cite

Effectors are secreted by plant-associated microorganisms in order to modify the host cell physiology. As effectors, the Necrosis- and Ethylene-inducing peptide 1-like proteins (NLPs) are involded in the early phases of plant infection and may trigger host immune responses. Corynespora cassiicola is a polyphagous plant-pathogen that causes target spot on many agriculturally important crops. Using genome assembly, gene prediction, and proteome annotation tools, we retrieved 135 NLP-encoding genes from proteomes of 44 isolates. We explored the evolutionary history of NLPs using Bayesian phylogeny, gene genealogies, and selection analyses. We accessed the expression profiles of the NLP genes during the early phase of C. cassiicola–soybean interaction. Three NLP effector genes (Cc_NLP1.1, Cc_NLP1.2A, and Cc_NLP1.2B) were maintained in the genomes of all isolates tested. A non-effector NLP gene (Cc_NLP1.3) was found in three isolates that had been originally obtained from soybean. NLP effectors were under different selective constraints: Cc_NLP1.1 was under stronger selective pressure, while Cc_NLP1.2A was under a more relaxed constraint. Meanwhile, Cc_NLP1.2B likely evolved under either positive or balancing selection. Despite highly divergent, the effector NLPs maintain conserved the residues necessary to trigger plant immune responses, suggesting they are potentially functional. Only the Cc_NLP1.1 effector gene was significantly expressed at the early hours of soybean colonization, while Cc_NLP1.2A and Cc_NLP1.2B showed much lower levels of gene expression.

show abstract

Section: Methodsmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

Section: Phylogenetic Relationships Among Nlp-encoding Genesmentioning

confidence: 96%

Section: Orthogroups and Bayesian Phylogenies Of Nlpsmentioning

confidence: 99%