In-silico identification and differential expressions of LepR4-syntenic disease resistance related domain containing genes against blackleg causal fungus Leptosphaeria maculans in Brassica oleracea

Ferdous, Mostari Jahan; Hossain, Mohammad Rashed; Park, Jong-In; Robin, Arif Hasan Khan; Natarajan, Sathishkumar; Jesse, Denison Michael Immanuel; Jung, Hee-Jeong; Kim, Hoy‐Taek; Nou, Ill Sup

doi:10.1016/j.genrep.2020.100598

Cited by 11 publications

(6 citation statements)

References 63 publications

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“…Nevertheless, truncated RGAs such as NL and TN have been cloned and functionally characterised with disease resistance in A. thaliana [ 53 , 61 , 62 ]. While a NBS gene has been reported as a signalling component in disease resistance [ 20 ], genes with TX domains were able to interact with different R and Avr genes to elicit disease resistance in A. thaliana [ 169 , 170 ], and CC domain has been reported as a candidate for the blackleg R genes Rlm1, LepR2, and LepR4 in B. oleracea [ 171 , 172 , 173 ].…”

Section: Discussionmentioning

confidence: 99%

Mining of Cloned Disease Resistance Gene Homologs (CDRHs) in Brassica Species and Arabidopsis thaliana

Cantila

Neik

Tirnaz

et al. 2022

Biology

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Various diseases severely affect Brassica crops, leading to significant global yield losses and a reduction in crop quality. In this study, we used the complete protein sequences of 49 cloned resistance genes (R genes) that confer resistance to fungal and bacterial diseases known to impact species in the Brassicaceae family. Homology searches were carried out across Brassica napus, B. rapa, B. oleracea, B. nigra, B. juncea, B. carinata and Arabidopsis thaliana genomes. In total, 660 cloned disease R gene homologs (CDRHs) were identified across the seven species, including 431 resistance gene analogs (RGAs) (248 nucleotide binding site-leucine rich repeats (NLRs), 150 receptor-like protein kinases (RLKs) and 33 receptor-like proteins (RLPs)) and 229 non-RGAs. Based on the position and distribution of specific homologs in each of the species, we observed a total of 87 CDRH clusters composed of 36 NLR, 16 RLK and 3 RLP homogeneous clusters and 32 heterogeneous clusters. The CDRHs detected consistently across the seven species are candidates that can be investigated for broad-spectrum resistance, potentially providing resistance to multiple pathogens. The R genes identified in this study provide a novel resource for the future functional analysis and gene cloning of Brassicaceae R genes towards crop improvement.

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Section: Discussionmentioning

confidence: 99%

Mining of Cloned Disease Resistance Gene Homologs (CDRHs) in Brassica Species and Arabidopsis thaliana

Cantila

Neik

Tirnaz

et al. 2022

Biology

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“… a 1, Stotz et al (2018); 2, Inturrisi et al (2022); 3, Lee et al (2015); 4, Ferdous, Hossain, Park, Kim, et al (2020); 5, Hossain et al (2020); 6, Ferdous, Hossain, Park, Robin, et al (2020); 7, Ferdous et al (2019); 8, Chang et al (2019); 9, Yang et al (2021); 10, Raman et al (2021). …”

Section: Resultsmentioning

confidence: 99%

In silico prediction and analysis of transmembrane‐coiled‐coil resistance gene analogues in 27Brassicaceaespecies

Cantila,

Thomas,

Bayer

et al. 2023

Plant Pathology

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The Brassicaceae family is composed of a broad range of species, including the economically important crops from Brassica, Raphanus, Camelina and Sinapis genera. The production of Brassicaceae species, particularly the crop members, is threatened by major diseases. However, the impact of diseases can be minimized or even negated by improving disease resistance. Transmembrane‐coiled‐coil (TM‐CC) genes are a type of resistance gene analogue (RGA) that have been proven to play specific roles in resistance to several diseases. Here, TM‐CCs have been predicted in 27 genomes from Brassicaceae genera including Arabidopsis, Arabis, Barbarea, Boechera, Brassica, Camelina, Capsella, Cardamine, Eutrema, Leavenworthia, Lepidium, Raphanus, Sinapis, Sisymbrium, Schrenkiella and Thlaspi. The number of TM‐CCs varies throughout the studied genomes, as well as between genera, diploids and polyploids, and Brassica genomes and subgenomes. In total, 6788 TM‐CCs were identified, with 708 of them predicted with signalling function, 172 colocalized with previously known disease resistance regions and 70 phylogenetically related to cloned resistance genes, indicating the possible functional involvement of TM‐CCs in resistance. This study provides a resource for the identification of functional Brassicaceae TM‐CCs along with their clustering and duplication patterns and provides a benchmark for further studies investigating TM‐CCs.

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“…sylvestris (Yu et al 2005 , 2008 ). To date, no resistance R gene against blackleg has been observed in the C Brassica genome, although some possible in silico candidates have recently been proposed (Ferdous et al 2020 ). Other kinds of resistances that involve more than just one gene are known as quantitative disease resistances.…”

Section: Useful Traits Identified In Brassica Crops and Wild Alliesmentioning

confidence: 99%

Using wild relatives and related species to build climate resilience in Brassica crops

et al. 2021

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Climate change will have major impacts on crop production: not just increasing drought and heat stress, but also increasing insect and disease loads and the chance of extreme weather events and further adverse conditions. Often, wild relatives show increased tolerances to biotic and abiotic stresses, due to reduced stringency of selection for yield and yield-related traits under optimum conditions. One possible strategy to improve resilience in our modern-day crop cultivars is to utilize wild relative germplasm in breeding, and attempt to introgress genetic factors contributing to greater environmental tolerances from these wild relatives into elite crop types. However, this approach can be difficult, as it relies on factors such as ease of hybridization and genetic distance between the source and target, crossover frequencies and distributions in the hybrid, and ability to select for desirable introgressions while minimizing linkage drag. In this review, we outline the possible effects that climate change may have on crop production, introduce the Brassica crop species and their wild relatives, and provide an index of useful traits that are known to be present in each of these species that may be exploitable through interspecific hybridization-based approaches. Subsequently, we outline how introgression breeding works, what factors affect the success of this approach, and how this approach can be optimized so as to increase the chance of recovering the desired introgression lines. Our review provides a working guide to the use of wild relatives and related crop germplasm to improve biotic and abiotic resistances in Brassica crop species.

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In-silico identification and differential expressions of LepR4-syntenic disease resistance related domain containing genes against blackleg causal fungus Leptosphaeria maculans in Brassica oleracea

Cited by 11 publications

References 63 publications

Mining of Cloned Disease Resistance Gene Homologs (CDRHs) in Brassica Species and Arabidopsis thaliana

Mining of Cloned Disease Resistance Gene Homologs (CDRHs) in Brassica Species and Arabidopsis thaliana

In silico prediction and analysis of transmembrane‐coiled‐coil resistance gene analogues in 27Brassicaceaespecies

Using wild relatives and related species to build climate resilience in Brassica crops

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