A superfamily of disease resistance gene analogs is located on all homoeologous chromosome groups of wheat (Triticum aestivum)

Genome ◽  
1998 ◽  
Vol 41 (6) ◽  
pp. 782-788 ◽  
Author(s):  
W Spielmeyer ◽  
M Robertson ◽  
N Collins ◽  
D Leister ◽  
P Schulze-Lefert ◽  
...  
Keyword(s):  
Disease Resistance ◽  
Binding Site ◽  
Resistance Gene ◽  
Resistance Genes ◽  
Nucleotide Binding ◽  
Nucleotide Binding Site ◽  
Resistance Gene Analogs ◽  
Leucine Rich Repeat ◽  
Homoeologous Chromosome ◽  
Entry Points

In this study, resistance gene analogs (RGAs) which were isolated from monocot crop species (wheat, barley, maize and rice) and contained conserved sequence motifs found within the nucleotide binding site - leucine rich repeat (NBS-LRR) class of resistance genes, were used to assess their distribution in the wheat genome. The RGAs showed 30-70% amino acid identity to a previously isolated monocot NBS-LRR sequence from the Cre3 locus for cereal cyst nematode (CCN) resistance in wheat. We used the RGAs as probes to identify and map loci in wheat using recombinant inbred lines of an international Triticeae mapping family. RGA loci mapped across all seven homoeologous chromosome groups of wheat. This study demonstrated that the RGA mapping approach provides potential entry points toward identifying resistance gene candidates in wheat.Key words: wheat, disease resistance genes, nucleotide binding site, leucine rich repeat, resistance gene analogs.

scholarly journals Identification and Mapping of Nucleotide Binding Site–Leucine-rich Repeat Resistance Gene Analogs in Bermudagrass

2010 ◽  
Vol 135 (1) ◽  
pp. 74-82 ◽  
Author(s):  
Karen R. Harris ◽  
Brian M. Schwartz ◽  
Andrew H. Paterson ◽  
Jeff A. Brady
Keyword(s):  
Disease Resistance ◽  
Amino Acid ◽  
Binding Site ◽  
Resistance Gene ◽  
Resistance Genes ◽  
Nucleotide Binding ◽  
Amino Acid Sequences ◽  
Resistance Gene Analogs ◽  
Leucine Rich Repeat ◽  
Linkage Groups

Thirty-one partial bermudagrass (Cynodon spp.) disease-resistance gene analogs (BRGA) were cloned and sequenced from diploid, triploid, tetraploid, and hexaploid bermudagrass using degenerate primers to target the nucleotide binding site (NBS) of the NBS–leucine-rich repeat (LRR) resistance gene family. Alignment of deduced amino acid sequences revealed that the conserved motifs of the NBS are present and all sequences have non-Drosophila melanogaster Toll and mammalian interleukin-1 receptor (TIR) motifs. Using a neighbor-joining algorithm, a dendrogram was created and nine groups of deduced amino acid sequences from bermudagrass could be identified from those sequences that span the NBS. Four BRGA markers and 15 bermudagrass expressed sequence tags (ESTs) with similarity to resistance genes or resistance gene analogs were placed on a bermudagrass genetic map. Multiple BRGA and EST markers mapped on T89 linkage groups 1a and 5a and clusters were seen on T89 19 and two linkage groups previously unidentified. In addition, three primers made from BRGA groups and ESTs with similarity to NBS-LRR resistance genes amplify NBS-LRR analogs in zoysiagrass (Zoysia japonica or Z. matrella) or seashore paspalum (Paspalum vaginatum). This gives evidence of conservation of NBS-LRR analogs among the subfamilies Chloridoideae and Panicoideae. Once disease resistance genes are identified, these BRGA and EST markers may be useful in marker-assisted selection for the improvement of disease resistance in bermudagrass.

Map-based cloning of a gene sequence encoding a nucleotide-binding domain and a leucine-rich region at the Cre3 nematode resistance locus of wheat

Genome ◽  
1997 ◽  
Vol 40 (5) ◽  
pp. 659-665 ◽  
Author(s):  
Evans S. Lagudah ◽  
Odile Moullet ◽  
Rudi Appels
Keyword(s):  
Disease Resistance ◽  
Gene Family ◽  
Binding Site ◽  
Resistance Gene ◽  
Resistance Genes ◽  
Gene Sequence ◽  
Nucleotide Binding ◽  
Disease Resistance Gene ◽  
Leucine Rich Repeat ◽  
Rich Region

The Cre3 gene confers a high level of resistance to the root endoparasitic nematode Heterodera avenae in wheat. A DNA marker cosegregating with H. avenae resistance was used as an entry point for map-based cloning of a disease resistance gene family at the Cre3 locus. Two related gene sequences have been analysed at the Cre3 locus. One, identified as a cDNA clone, encodes a polypeptide with a nucleotide binding site (NBS) and a leucine-rich region; this member of the disease resistance gene family is expressed in roots. A second Cre3 gene sequence, cloned as genomic DNA, appears to be a pseudogene, with a frame shift caused by a deletion event. These two genes, related to members of the cytoplasmic NBS – leucine rich repeat class of plant disease resistance genes were physically mapped to the distal 0.06 fragment of the long arm of wheat chromosome 2D and cosegregated with nematode resistance.Key words: cereal cyst nematode, disease resistance genes, nucleotide-binding site, leucine-rich repeat.

Isolation of a family of resistance gene analogue sequences of the nucleotide binding site (NBS) type fromLensspecies

Genome ◽  
2004 ◽  
Vol 47 (4) ◽  
pp. 650-659 ◽  
Author(s):  
M W.F Yaish ◽  
L E Sáenz de Miera ◽  
M Pérez de la Vega
Keyword(s):  
Disease Resistance ◽  
Binding Site ◽  
Resistance Gene ◽  
Resistance Genes ◽  
Nucleotide Binding ◽  
Nucleotide Binding Site ◽  
Disease Resistance Genes ◽  
Nucleotide Sequence Analysis ◽  
Degenerate Primers ◽  
Conserved Motifs

Most known plant disease-resistance genes (R genes) include in their encoded products domains such as a nucleotide-binding site (NBS) or leucine-rich repeats (LRRs). Sequences with unknown function, but encoding these conserved domains, have been defined as resistance gene analogues (RGAs). The conserved motifs within plant NBS domains make it possible to use degenerate primers and PCR to isolate RGAs. We used degenerate primers deduced from conserved motifs in the NBS domain of NBS-LRR resistance proteins to amplify genomic sequences from Lens species. Fragments from approximately 500-850 bp were obtained. The nucleotide sequence analysis of these fragments revealed 32 different RGA sequences in Lens species with a high similarity (up to 91%) to RGAs from other plants. The predicted amino acid sequences showed that lentil sequences contain all the conserved motifs (P-loop, kinase-2, kinase-3a, GLPL, and MHD) present in the majority of other known plant NBS–LRR resistance genes. Phylogenetic analyses grouped the Lens NBS sequences with the Toll and interleukin-1 receptor (TIR) subclass of NBS–LRR genes, as well as with RGA sequences isolated from other legume species. Using inverse PCR on one putative RGA of lentil, we were able to amplify the flanking regions of this sequence, which contained features found in R proteins.Key words: disease resistance genes, comparative analysis, lentils, TIR, LRR.

scholarly journals Physical Mapping of Pm57, a Powdery Mildew Resistance Gene Derived from Aegilops searsii

2020 ◽  
Vol 21 (1) ◽  
pp. 322 ◽  
Author(s):  
Zhenjie Dong ◽  
Xiubin Tian ◽  
Chao Ma ◽  
Qing Xia ◽  
Beilin Wang ◽  
...  
Keyword(s):  
Powdery Mildew ◽  
Binding Site ◽  
Resistance Gene ◽  
Resistance Genes ◽  
Powdery Mildew Resistance ◽  
Nucleotide Binding ◽  
Nucleotide Binding Site ◽  
Leucine Rich Repeat ◽  
Powdery Mildew Resistance Gene ◽  
Mildew Resistance

Powdery mildew caused by Blumeria graminis f. sp. tritici (Bgt) is one of many severe diseases that threaten bread wheat (Triticum aestivum L.) yield and quality worldwide. The discovery and deployment of powdery mildew resistance genes (Pm) can prevent this disease epidemic in wheat. In a previous study, we transferred the powdery mildew resistance gene Pm57 from Aegilops searsii into common wheat and cytogenetically mapped the gene in a chromosome region with the fraction length (FL) 0.75–0.87, which represents 12% segment of the long arm of chromosome 2Ss#1. In this study, we performed RNA-seq using RNA extracted from leaf samples of three infected and mock-infected wheat-Ae. searsii 2Ss#1 introgression lines at 0, 12, 24, and 48 h after inoculation with Bgt isolates. Then we designed 79 molecular markers based on transcriptome sequences and physically mapped them to Ae. searsii chromosome 2Ss#1- in seven intervals. We used these markers to identify 46 wheat-Ae. searsii 2Ss#1 recombinants induced by ph1b, a deletion mutant of pairing homologous (Ph) genes. After analyzing the 46 ph1b-induced 2Ss#1L recombinants in the region where Pm57 is located with different Bgt-responses, we physically mapped Pm57 gene on the long arm of 2Ss#1 in a 5.13 Mb genomic region, which was flanked by markers X67593 (773.72 Mb) and X62492 (778.85 Mb). By comparative synteny analysis of the corresponding region on chromosome 2B in Chinese Spring (T. aestivum L.) with other model species, we identified ten genes that are putative plant defense-related (R) genes which includes six coiled-coil nucleotide-binding site-leucine-rich repeat (CNL), three nucleotide-binding site-leucine-rich repeat (NL) and a leucine-rich receptor-like repeat (RLP) encoding proteins. This study will lay a foundation for cloning of Pm57, and benefit the understanding of interactions between resistance genes of wheat and powdery mildew pathogens.

Systematic analysis and comparison of nucleotide-binding site disease resistance genes in maize

FEBS Journal ◽  
2012 ◽  
Vol 279 (13) ◽  
pp. 2431-2443 ◽  
Author(s):  
Ying Cheng ◽  
Xiaoyu Li ◽  
Haiyang Jiang ◽  
Wei Ma ◽  
Weiyun Miao ◽  
...  
Keyword(s):  
Disease Resistance ◽  
Binding Site ◽  
Resistance Genes ◽  
Nucleotide Binding ◽  
Nucleotide Binding Site ◽  
Disease Resistance Genes ◽  
Systematic Analysis

Isolation and characterization of a set of disease resistance-gene analogs (RGAs) from wild rice, Zizania latifolia Griseb. I. Introgression, copy number lability, sequence change, and DNA methylation alteration in several rice–Zizania introgression lines

Genome ◽  
2006 ◽  
Vol 49 (2) ◽  
pp. 150-158 ◽  
Author(s):  
Yu Chen ◽  
Likun Long ◽  
Xiuyun Lin ◽  
Wanli Guo ◽  
Bao Liu
Keyword(s):  
Dna Methylation ◽  
Binding Site ◽  
Resistance Gene ◽  
Wild Rice ◽  
Copy Number ◽  
Nucleotide Binding ◽  
Nucleotide Binding Site ◽  
Amino Acid Sequence Similarity ◽  
Resistance Gene Analogs ◽  
Zizania Latifolia

Eight resistance-gene analogs (RGAs) were isolated from wild rice, Zizania latifolia Griseb., by degenerate primers designed according to conserved motifs at or around the nucleotide-binding site (NBS) of known NBS-containing plant resistance genes. The 8 RGAs were classified into 6 distinct groups based on their deduced amino acid sequence similarity of 60% or greater. Gel-blot hybridization of each of the RGAs to 4 rice – Z. latifolia intro gression lines indicated an array of changes at either introgressed Zizania RGAs or, more likely, their rice homologs. The changes included dramatic increase in copy number, modification at the primary DNA sequence, and alteration in DNA methylation patterns.Key words: resistance gene analogs (RGAs), Zizania, introgression, nucleotide-binding site (NBS), leucine-rich repeat (LRR), genetic and epigenetic changes.

scholarly journals Mutational Analysis of the Arabidopsis Nucleotide Binding Site–Leucine-Rich Repeat Resistance Gene RPS2

2000 ◽  
Vol 12 (12) ◽  
pp. 2541-2554 ◽  
Author(s):  
Yi Tao ◽  
Fenghua Yuan ◽  
R. Todd Leister ◽  
Frederick M. Ausubel ◽  
Fumiaki Katagiri
Keyword(s):  
Binding Site ◽  
Resistance Gene ◽  
Mutational Analysis ◽  
Nucleotide Binding ◽  
Nucleotide Binding Site ◽  
Leucine Rich Repeat

scholarly journals Transcriptome-wide analysis of expressed resistance gene analogs (RGAs) in mango

2020 ◽  
Author(s):  
Darlon V. Lantican ◽  
Cris Q. Cortaga ◽  
Anand Noel C. Manohar ◽  
Fe M. dela Cueva ◽  
Maria Luz J. Sison
Keyword(s):  
Binding Site ◽  
Resistance Gene ◽  
De Novo ◽  
Insect Pests ◽  
Expression Profiles ◽  
Interleukin 1 ◽  
Coiled Coil ◽  
Nucleotide Binding ◽  
Nucleotide Binding Site ◽  
Resistance Gene Analogs

AbstractMango is an economically important fruit crop largely cultivated in the (sub)tropics and thus, is constantly challenged by a myriad of insect pests and diseases. Here, we identified and characterized the resistance gene analogs (RGAs) of mango from de novo assembly of transcriptomic sequences. A core RGA database of mango with 747 protein models was established and classified based on conserved domains and motifs: 53 nucleotide binding site proteins (NBS); 27 nucleotide binding site-leucine rich repeat proteins (NBS-LRR); 17 coiled-coil NBS-LRR (CNL); 2 toll/interleukin-1 receptor NBS-LRR (TNL); 29 coiled-coil NBS (CN); 4 toll/interleukin-1 receptor NBS (TN); 17 toll/interleukin-1 receptor with unknown domain (TX); 158 receptor-like proteins (RLP); 362 receptor-like kinases (RLK); 72 transmembrane coiled-coil domain protein (TM-CC), and 6 NBS-encoding proteins with other domains. The various molecular functions, biological processes, and cellular localizations of these RGAs were functionally well-annotated through gene ontology (GO) analysis, and their expression profiles across different mango varieties were also determined. Phylogenetic analysis broadly clustered the core RGAs into 6 major clades based on their domain classification, while TM-CC proteins formed subclades all across the tree. The phylogenetic results suggest highly divergent functions of the RGAs which also provide insights into the mango-pest co-evolutionary arms race. From the mango RGA transcripts, 134 unique EST-SSR loci were identified, and primers were designed targeting these potential markers. To date, this is the most comprehensive analysis of mango RGAs which offer a trove of markers for utilization in resistance breeding of mango.

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