Molecular characterization of thaumatin family genes related to stresses in Brassica rapa

Ahmed, Nasar Uddin; Park, Jong-In; Jung, Hee-Jeong; Kang, Kwon-Kyoo; Lim, Yong-Pyo; Hur, Yoonkang; Nou, Ill–Sup

doi:10.1016/j.scienta.2013.01.007

Cited by 26 publications

(18 citation statements)

References 54 publications

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“…The plants were grown for 3 weeks under culture room conditions with 16 h light and 8 h dark maintaining 25 °C temperature prior to fungus treatment. The fungal spore concentration 1x10 6 spores per ml solution was used for inoculation using the method described by Ahmed et al [71]. Samples were collected from infected and mock-infected plants at 0 h, 3 h, 6 h, 4 d, 8 d and 11 d after inoculation (dai).…”

Section: Methodsmentioning

confidence: 99%

Genome-wide expression profiling of aquaporin genes confer responses to abiotic and biotic stresses in Brassica rapa

et al. 2017

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BackgroundPlants contain a range of aquaporin (AQP) proteins, which act as transporter of water and nutrient molecules through living membranes. AQPs also participate in water uptake through the roots and contribute to water homeostasis in leaves.ResultsIn this study, we identified 59 AQP genes in the B. rapa database and Br135K microarray dataset. Phylogenetic analysis revealed four distinct subfamilies of AQP genes: plasma membrane intrinsic proteins (PIPs), tonoplast intrinsic proteins (TIPs), NOD26-like intrinsic proteins (NIPs) and small basic intrinsic proteins (SIPs). Microarray analysis showed that the majority of PIP subfamily genes had differential transcript abundance between two B. rapa inbred lines Chiifu and Kenshin that differ in their susceptibility to cold. In addition, all BrPIP genes showed organ-specific expression. Out of 22 genes, 12, 7 and 17 were up-regulated in response to cold, drought and salt stresses, respectively. In addition, 18 BrPIP genes were up-regulated under ABA treatment and 4 BrPIP genes were up-regulated upon F. oxysporum f. sp. conglutinans infection. Moreover, all BrPIP genes showed down-regulation under waterlogging stress, reflecting likely the inactivation of AQPs controlling symplastic water movement.ConclusionsThis study provides a comprehensive analysis of AQPs in B. rapa and details the expression of 22 members of the BrPIP subfamily. These results provide insight into stress-related biological functions of each PIP gene of the AQP family, which will promote B. rapa breeding programs.Electronic supplementary materialThe online version of this article (doi:10.1186/s12870-017-0979-5) contains supplementary material, which is available to authorized users.

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Section: Methodsmentioning

confidence: 99%

Genome-wide expression profiling of aquaporin genes confer responses to abiotic and biotic stresses in Brassica rapa

et al. 2017

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“…conglutinans) treatment, and plants were inoculated with the fungus according to the methods described by Ahmed et al (2013). After infection, samples were collected from infected and mock-infected plants at 0, 3, 6, 24 h, 6 and 11 days.…”

Section: Abiotic Stress Treatmentsmentioning

confidence: 99%

“…carotovorum infection, B. rapa (SUN-3061) plants were grown in soil under culture room conditions with a 16 h light/8 h dark for 6 weeks, and the bacterial culture and infection were carried out according to the methods described by Ahmed et al (2013). Inoculations were performed three times, and infection was confirmed by detecting disease lesions on plants leaves.…”

Section: Abiotic Stress Treatmentsmentioning

confidence: 99%

Identification and expression analysis of WRKY family genes under biotic and abiotic stresses in Brassica rapa

et al. 2014

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WRKY proteins constitute one of the largest transcription factor families in higher plants, and they are involved in multiple biological processes such as plant development, metabolism, and responses to biotic and abiotic stresses. Genes of this family have been well documented in response to many abiotic and biotic stresses in many plant species, but not yet against Pectobacterium carotovorum subsp. carotovorum and Fusarium oxysporum f.sp. conglutinans in any of the plants. Moreover, potentiality of a specific gene may vary depending on stress conditions and genotypes. To identify stress resistance-related potential WRKY genes of Brassica rapa, we analyzed their expressions against above-mentioned pathogens and cold, salt, and drought stresses in B. rapa. Stress resistance-related functions of all Brassica rapa WRKY (BrWRKY) genes were firstly analyzed through homology study with existing biotic and abiotic stress resistance-related WRKY genes of other plant species and found a high degree of homology. We then identified all BrWRKY genes in a Br135K microarray dataset, which was created by applying low-temperature stresses to two contrasting Chinese cabbage doubled haploid (DH) lines, Chiifu and Kenshin, and selected 41 BrWRKY genes with high and differential transcript abundance levels. These selected genes were further investigated under cold, salt, and drought stresses as well as after infection with P. carotovorum subsp. carotovorum and F. oxysporum f.sp. conglutinans in B. rapa. The selected genes showed an organ-specific expression, and 22 BrWRKY genes were differentially expressed in Chiifu compared to Kenshin under cold and drought stresses. Six BrWRKY genes were more responsive in Kenshin compared to Chiffu under salt stress. In addition, eight BrWRKY genes showed differential expression after P. carotovorum subsp. carotovorum infection and five genes after F. oxysporum f.sp. conglutinans infection in B. rapa. Thus, the differentially expressed BrWRKY genes might be potential resources for molecular breeding of Brassica crops against abiotic and biotic stresses and several genes, which showed differential expressions commonly in response to several stresses, might be useful for multiple stress resistance. These findings would also be helpful in resolving the complex regulatory mechanism of WRKY genes in stress resistance and for this further functional genomics study of these potential genes in different Brassica crops is essential.

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“…Brassica oleracea (AAO12209), Brassica rapa (AAB95118), Brassica rapa subsp. chinensis (ACU65941 and BAJ16221), Oryza sativa Japonica Group (BAD30547 and BAC82958), Arabidopsis thaliana (AEE29691, AEE29690, NP001031064, AEE86963, AEE86962, AEE29829, NP173365, AED93336 and AEE29926), Solanum lycopersicum (CAB86199), Nicotiana tabacum (AAW66482, CAA33292 and BAA74546), Zea mays (NP001150507 and NP001151120) and BrTLP1 to 20 were taken from our previous study (Ahmed et al 2013). The scale represents the frequency of amino acid substitution between sequences as determined by poisson evolutionary distance method.…”

Section: Identification and Sequence Analysismentioning

confidence: 99%

“…carotovorum infection in Chinese cabbage (Ahmed et al 2013). In relation to the previous study, we identified 12 thaumatin-like genes of B. oleracea from Brassica oleracea Genome Database (Bolbase) (http:// 119.97.203.210/bolbase/index.html).…”

Section: Introductionmentioning

confidence: 97%

Characterization of Thaumatin-like Gene Family and Identification of Pectobacterium carotovorum subsp. carotovorum Inducible Genes in Brassica oleracea

Ahmed¹,

Park²,

Jung³

et al. 2013

Plant Breed. Biotech.

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This is an Open-Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/3.0) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited. Enhancement of resistance by exploiting stress resistance-related genes offers the most efficient approach to address this issue. Among the stress resistance-related genes, thaumatin-like proteins (TLPs) play a vital role in enhancement of resistance against stresses. In this study, we identified 12 TLPs from B. oleracea genomic DNA sequencing database, analyzed their sequences and compared with other published pathogenesis-related TLPs, and found a high degree of homology with them. In addition, these genes showed an organ-specific expression, three of which expressed differentially after Pectobacterium carotovorum subsp. carotovorum infection in cabbage plants. Data obtained in this study suggest the probable involvement of TLPs in resistance against soft rot disease of Brassica.

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Molecular characterization of thaumatin family genes related to stresses in Brassica rapa

Cited by 26 publications

References 54 publications

Genome-wide expression profiling of aquaporin genes confer responses to abiotic and biotic stresses in Brassica rapa

Genome-wide expression profiling of aquaporin genes confer responses to abiotic and biotic stresses in Brassica rapa

Identification and expression analysis of WRKY family genes under biotic and abiotic stresses in Brassica rapa

Characterization of Thaumatin-like Gene Family and Identification of Pectobacterium carotovorum subsp. carotovorum Inducible Genes in Brassica oleracea

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