A genomic analysis of disease-resistance genes encoding nucleotide binding sites in Sorghum bicolor

Cheng, Xiangdong; Jiang, Haiyang; Zhao, Yang; Qian, Yexiong; Zhu, Suwen; Cheng, Beijiu

doi:10.1590/s1415-47572010005000036

Cited by 42 publications

(31 citation statements)

References 20 publications

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“…Among the duplication event genes, 93.3% (70/75) (table 2) of the NBS paralogs were located in clusters. This finding indicates that chromosomal hot spots in which the NBS genes share greater homology [10] also existed in G. raimondii genome, and genes in such hot spots may have been expanded by tandem duplication.…”

Section: Discussionmentioning

confidence: 82%

“…Studies of NBS-encoding genes in Arabidopsis, rice, sorghum, and maize have shown uneven chromosomal distributions on them; moreover, the studies also shown that most NBS-encoding genes are found in clusters [3], [10], [16], [17]. In this research, a gene cluster was considered a chromosome or a scaffold region when such region contained two or more genes within 200 kb [47].…”

Section: Resultsmentioning

confidence: 98%

“…NBS genes were usually found as clusters of tandem repeats that mostly derived from tandem duplication events and caused a higher proportion of duplicated genes in NBS gene family [3], [10], [17], [24]–[26]. Although all NBS genes tend to retain the conserved domains, considerable variations of these genes were detected in different species or same species.…”

Section: Introductionmentioning

confidence: 99%

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Systematic Analysis and Comparison of Nucleotide-Binding Site Disease Resistance Genes in a Diploid Cotton Gossypium raimondii

Wei

Sun

et al. 2013

PLoS ONE

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Plant disease resistance genes are a key component of defending plants from a range of pathogens. The majority of these resistance genes belong to the super-family that harbors a Nucleotide-binding site (NBS). A number of studies have focused on NBS-encoding genes in disease resistant breeding programs for diverse plants. However, little information has been reported with an emphasis on systematic analysis and comparison of NBS-encoding genes in cotton. To fill this gap of knowledge, in this study, we identified and investigated the NBS-encoding resistance genes in cotton using the whole genome sequence information of Gossypium raimondii. Totally, 355 NBS-encoding resistance genes were identified. Analyses of the conserved motifs and structural diversity showed that the most two distinct features for these genes are the high proportion of non-regular NBS genes and the high diversity of N-termini domains. Analyses of the physical locations and duplications of NBS-encoding genes showed that gene duplication of disease resistance genes could play an important role in cotton by leading to an increase in the functional diversity of the cotton NBS-encoding genes. Analyses of phylogenetic comparisons indicated that, in cotton, the NBS-encoding genes with TIR domain not only have their own evolution pattern different from those of genes without TIR domain, but also have their own species-specific pattern that differs from those of TIR genes in other plants. Analyses of the correlation between disease resistance QTL and NBS-encoding resistance genes showed that there could be more than half of the disease resistance QTL associated to the NBS-encoding genes in cotton, which agrees with previous studies establishing that more than half of plant resistance genes are NBS-encoding genes.

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Section: Discussionmentioning

confidence: 82%

Section: Resultsmentioning

confidence: 98%

Section: Introductionmentioning

confidence: 99%

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Systematic Analysis and Comparison of Nucleotide-Binding Site Disease Resistance Genes in a Diploid Cotton Gossypium raimondii

Wei

Sun

et al. 2013

PLoS ONE

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“…The absence of TIR-NBS-LRR was not only occured in Musa, but also reported in other monocots such as: rice (Zhou et al, 2004), wheat (Zhang et al, 2011), maize (Xiao et al, 2006), barley (Madsen et al, 2003), sorghum (Cheng et al, 2010), and sugarcane (Que et al, 2009). The TIR-NBS-LRR RGAs have been eliminated from majority monocots over time during evolution, although no mechanism has been described how to explain the elimination process.…”

Section: Discussionmentioning

confidence: 64%

Isolation and characterization of Resistance Gene Analogue (RGA) from Fusarium resistant banana cultivars

Sutanto

Sukma

Hermanto³

et al. 2014

Emir. J. Food Agric

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Isolation and characterization of resistance genes from local banana cultivars was important in order to support the development of FOC resistant banana cultivars. Resistance gene analogues (RGAs) were isolated and characterized form three fusarium resistant banana cultivars using degenerate primers based on NBS domains. From 91 fragments sequenced, 17 fragments were positively NBS-type sequences and encoded as MNBS1-MNBS17. Phylogenetic analysis of MNBS deduced amino classified into three groups; the first group consisted of 14 members (MNBS1-MNBS14) with 97.4% identity, and the other three groups consisted of one member (MNBS15, MNBS16 and MNBS17, respectively) with 28.5% identity. All MNBS sequences were categorized as non-TIR-NBS-LRR. Comparison and phylogenetic analysis of MNBS with other known RGA and R genes showed that deduced amino acid MNBSs shared 91.7-98.8% identity with Musa NBS-LRR and 19.9-35.5% identity with known R genes. Among them, MNBS17 shared 50.5% identity with RGC2 (ABY75802) that assosiated to FOC race 4 resistant Musa species.

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“…Based on their N-terminal motifs and leucine-rich repeats (LRR), 50 non-regular nucleotide binding site (NBS) genes and 224 regular NBS genes were identified in 274 candidate NBS genes. The vast majority (97%) of NBS genes occurred in gene clusters, indicating extensive gene duplication in the evolution of S. bicolor NBS genes (Cheng et al, 2010). Based on the location of individual NBS genes, 268 Sorghum NBS-encoding genes were mapped on the ten chromosomes.…”

Section: Genomicsmentioning

confidence: 99%

Sweet sorghum: genetics, breeding and commercialization.

Rao¹,

Umakanth²,

Reddy³

et al. 2013

Biofuel Crops: Production, Physiology and Genetics

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This chapter describes sweet sorghum characteristics and utilization as food and fuel; climate requirements and distribution; reproductive biology including floral biology, pollination, fertilization and seed development; genomics; genetic transformation; breeding objectives and methods; and commercialization. Full exploration of the available genetic resources through plant breeding with the aid of molecular tools could dramatically increase biomass yield of sorghum and thus meet the demand of feedstocks for biofuel production without a significant impact on our food supply and natural environment.

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A genomic analysis of disease-resistance genes encoding nucleotide binding sites in Sorghum bicolor

Cited by 42 publications

References 20 publications

Systematic Analysis and Comparison of Nucleotide-Binding Site Disease Resistance Genes in a Diploid Cotton Gossypium raimondii

Systematic Analysis and Comparison of Nucleotide-Binding Site Disease Resistance Genes in a Diploid Cotton Gossypium raimondii

Isolation and characterization of Resistance Gene Analogue (RGA) from Fusarium resistant banana cultivars

Sweet sorghum: genetics, breeding and commercialization.

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