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Transcriptome profiling of resistant and susceptible Cavendish banana roots following inoculation with Fusarium oxysporum f. sp. cubense tropical race 4.

Li CY, Deng GM, Yang J, Viljoen A, Jin Y, Kuang RB, Zuo CW, Lv ZC, Yang QS, Sheng O, Wei YR, Hu CH, Dong T, Yi GJ - BMC Genomics (2012)

Bottom Line: Expression patterns of genes involved in pathogen-associated molecular pattern (PAMP) recognition, activation of effector-triggered immunity (ETI), ion influx, and biosynthesis of hormones as well as pathogenesis-related (PR) genes, transcription factors, signaling/regulatory genes, cell wall modification genes and genes with other functions were analyzed and compared.This study generated a substantial amount of banana transcript sequences and compared the defense responses against Foc TR4 between resistant and susceptible Cavendish bananas.The results contribute to the identification of candidate genes related to plant resistance in a non-model organism, banana, and help to improve the current understanding of host-pathogen interactions.

View Article: PubMed Central - HTML - PubMed

Affiliation: Institution of Fruit Tree Research, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640, China.

ABSTRACT

Background: Fusarium wilt, caused by the fungal pathogen Fusarium oxysporum f. sp. cubense tropical race 4 (Foc TR4), is considered the most lethal disease of Cavendish bananas in the world. The disease can be managed in the field by planting resistant Cavendish plants generated by somaclonal variation. However, little information is available on the genetic basis of plant resistance to Foc TR4. To a better understand the defense response of resistant banana plants to the Fusarium wilt pathogen, the transcriptome profiles in roots of resistant and susceptible Cavendish banana challenged with Foc TR4 were compared.

Results: RNA-seq analysis generated more than 103 million 90-bp clean pair end (PE) reads, which were assembled into 88,161 unigenes (mean size = 554 bp). Based on sequence similarity searches, 61,706 (69.99%) genes were identified, among which 21,273 and 50,410 unigenes were assigned to gene ontology (GO) categories and clusters of orthologous groups (COG), respectively. Searches in the Kyoto Encyclopedia of Genes and Genomes Pathway database (KEGG) mapped 33,243 (37.71%) unigenes to 119 KEGG pathways. A total of 5,008 genes were assigned to plant-pathogen interactions, including disease defense and signal transduction. Digital gene expression (DGE) analysis revealed large differences in the transcriptome profiles of the Foc TR4-resistant somaclonal variant and its susceptible wild-type. Expression patterns of genes involved in pathogen-associated molecular pattern (PAMP) recognition, activation of effector-triggered immunity (ETI), ion influx, and biosynthesis of hormones as well as pathogenesis-related (PR) genes, transcription factors, signaling/regulatory genes, cell wall modification genes and genes with other functions were analyzed and compared. The results indicated that basal defense mechanisms are involved in the recognition of PAMPs, and that high levels of defense-related transcripts may contribute to Foc TR4 resistance in banana.

Conclusions: This study generated a substantial amount of banana transcript sequences and compared the defense responses against Foc TR4 between resistant and susceptible Cavendish bananas. The results contribute to the identification of candidate genes related to plant resistance in a non-model organism, banana, and help to improve the current understanding of host-pathogen interactions.

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Comparison of the colonization of Fusarium oxysporum f. sp. cubense tropical race 4 on the lateral roots of banana cv ‘Brazilian’ (susceptible wild-type) and cv ‘Nongke No 1’ (resistant mutant). Few chlamydospores attached and germinated on the roots of cv ‘Nongke No 1’ at 48 hai (A) and 96 hai (B), respectively. Significant attachment and germination of spores of chlamydospores on the surface of the lateral roots of cv ‘Brazilian’ at 48 hai (C) and 96 hai (D) respectively; A-D. Scale bar = 50 μm.
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Figure 1: Comparison of the colonization of Fusarium oxysporum f. sp. cubense tropical race 4 on the lateral roots of banana cv ‘Brazilian’ (susceptible wild-type) and cv ‘Nongke No 1’ (resistant mutant). Few chlamydospores attached and germinated on the roots of cv ‘Nongke No 1’ at 48 hai (A) and 96 hai (B), respectively. Significant attachment and germination of spores of chlamydospores on the surface of the lateral roots of cv ‘Brazilian’ at 48 hai (C) and 96 hai (D) respectively; A-D. Scale bar = 50 μm.

Mentions: The differences in disease progression between a resistant Cavendish banana mutant ‘Brazilian’ and its susceptible wild-type ‘Nongke No 1’ were monitored after infection with a GFP-tagged Foc TR4 isolate. Numerous spores were attached to the roots of ‘Brazilian’ 48 h after infection (hai), and most of these germinated and developed into hyphae 96 hai (Figure1C and D). On ‘Nongke No 1’ roots, however, only a few fungal spores were found, and only a small number of these spores germinated at 96 hai (Figure1A and B). Therefore, two time-points were selected to investigate the genetic basis underlying the differential responses of the two cultivars to infection, namely 48 and 96 hai.


Transcriptome profiling of resistant and susceptible Cavendish banana roots following inoculation with Fusarium oxysporum f. sp. cubense tropical race 4.

Li CY, Deng GM, Yang J, Viljoen A, Jin Y, Kuang RB, Zuo CW, Lv ZC, Yang QS, Sheng O, Wei YR, Hu CH, Dong T, Yi GJ - BMC Genomics (2012)

Comparison of the colonization of Fusarium oxysporum f. sp. cubense tropical race 4 on the lateral roots of banana cv ‘Brazilian’ (susceptible wild-type) and cv ‘Nongke No 1’ (resistant mutant). Few chlamydospores attached and germinated on the roots of cv ‘Nongke No 1’ at 48 hai (A) and 96 hai (B), respectively. Significant attachment and germination of spores of chlamydospores on the surface of the lateral roots of cv ‘Brazilian’ at 48 hai (C) and 96 hai (D) respectively; A-D. Scale bar = 50 μm.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC3473311&req=5

Figure 1: Comparison of the colonization of Fusarium oxysporum f. sp. cubense tropical race 4 on the lateral roots of banana cv ‘Brazilian’ (susceptible wild-type) and cv ‘Nongke No 1’ (resistant mutant). Few chlamydospores attached and germinated on the roots of cv ‘Nongke No 1’ at 48 hai (A) and 96 hai (B), respectively. Significant attachment and germination of spores of chlamydospores on the surface of the lateral roots of cv ‘Brazilian’ at 48 hai (C) and 96 hai (D) respectively; A-D. Scale bar = 50 μm.
Mentions: The differences in disease progression between a resistant Cavendish banana mutant ‘Brazilian’ and its susceptible wild-type ‘Nongke No 1’ were monitored after infection with a GFP-tagged Foc TR4 isolate. Numerous spores were attached to the roots of ‘Brazilian’ 48 h after infection (hai), and most of these germinated and developed into hyphae 96 hai (Figure1C and D). On ‘Nongke No 1’ roots, however, only a few fungal spores were found, and only a small number of these spores germinated at 96 hai (Figure1A and B). Therefore, two time-points were selected to investigate the genetic basis underlying the differential responses of the two cultivars to infection, namely 48 and 96 hai.

Bottom Line: Expression patterns of genes involved in pathogen-associated molecular pattern (PAMP) recognition, activation of effector-triggered immunity (ETI), ion influx, and biosynthesis of hormones as well as pathogenesis-related (PR) genes, transcription factors, signaling/regulatory genes, cell wall modification genes and genes with other functions were analyzed and compared.This study generated a substantial amount of banana transcript sequences and compared the defense responses against Foc TR4 between resistant and susceptible Cavendish bananas.The results contribute to the identification of candidate genes related to plant resistance in a non-model organism, banana, and help to improve the current understanding of host-pathogen interactions.

View Article: PubMed Central - HTML - PubMed

Affiliation: Institution of Fruit Tree Research, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640, China.

ABSTRACT

Background: Fusarium wilt, caused by the fungal pathogen Fusarium oxysporum f. sp. cubense tropical race 4 (Foc TR4), is considered the most lethal disease of Cavendish bananas in the world. The disease can be managed in the field by planting resistant Cavendish plants generated by somaclonal variation. However, little information is available on the genetic basis of plant resistance to Foc TR4. To a better understand the defense response of resistant banana plants to the Fusarium wilt pathogen, the transcriptome profiles in roots of resistant and susceptible Cavendish banana challenged with Foc TR4 were compared.

Results: RNA-seq analysis generated more than 103 million 90-bp clean pair end (PE) reads, which were assembled into 88,161 unigenes (mean size = 554 bp). Based on sequence similarity searches, 61,706 (69.99%) genes were identified, among which 21,273 and 50,410 unigenes were assigned to gene ontology (GO) categories and clusters of orthologous groups (COG), respectively. Searches in the Kyoto Encyclopedia of Genes and Genomes Pathway database (KEGG) mapped 33,243 (37.71%) unigenes to 119 KEGG pathways. A total of 5,008 genes were assigned to plant-pathogen interactions, including disease defense and signal transduction. Digital gene expression (DGE) analysis revealed large differences in the transcriptome profiles of the Foc TR4-resistant somaclonal variant and its susceptible wild-type. Expression patterns of genes involved in pathogen-associated molecular pattern (PAMP) recognition, activation of effector-triggered immunity (ETI), ion influx, and biosynthesis of hormones as well as pathogenesis-related (PR) genes, transcription factors, signaling/regulatory genes, cell wall modification genes and genes with other functions were analyzed and compared. The results indicated that basal defense mechanisms are involved in the recognition of PAMPs, and that high levels of defense-related transcripts may contribute to Foc TR4 resistance in banana.

Conclusions: This study generated a substantial amount of banana transcript sequences and compared the defense responses against Foc TR4 between resistant and susceptible Cavendish bananas. The results contribute to the identification of candidate genes related to plant resistance in a non-model organism, banana, and help to improve the current understanding of host-pathogen interactions.

Show MeSH