ArticlePloS one2015
Genome-wide comparative analysis reveals similar types of NBS genes in hybrid Citrus sinensis genome and original Citrus clementine genome and provides new insights into non-TIR NBS genes.
Article in PloS one, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed.
- Genome-wide identification and expression analysis of the NBS-LRR gene family in Citrus clementina.Scientific reports · 2026Article
- A Super-Pangenome for Cultivated Citrus Reveals Evolutive Features During the Allopatric Phase of Their Reticulate Evolution.Plant biotechnology journal · 2026Article
- Comparative analysis of PRR receptors and R genes reveals structural and functional divergence between wild, ancestral, and commercial citrus species.BMC genomics · 2026Article
- Evolutionary Diversification and Adaptive Evolution Analysis of the Plant HD-Zip IV Subfamily.Genes · 2025Article
- Genomics in plant pathogen identification and control.Frontiers in plant science · 2025Review
- Chromosome-Scale, De Novo, Phased Genome Assemblies of Three Australian Limes:Plants (Basel, Switzerland) · 2024Article
- DeepFrontiers in plant science · 2024Article
- Evolutionary balance between LRR domain loss and young NBS-LRR genes production governs disease resistance in Arachis hypogaea cv. Tifrunner.BMC genomics · 2019Article
- Transcriptome Analysis of Young Ovaries Reveals Candidate Genes Involved in Gamete Formation inPlants (Basel, Switzerland) · 2019Article
- PAMPs, PRRs, effectors and R-genes associated with citrus-pathogen interactions.Annals of botany · 2017Review
- LRR-RLK family from two Citrus species: genome-wide identification and evolutionary aspects.BMC genomics · 2016Article
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8 authors.
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Abstract
In this study, we identified and compared nucleotide-binding site (NBS) domain-containing genes from three Citrus genomes (C. clementina, C. sinensis from USA and C. sinensis from China). Phylogenetic analysis of all Citrus NBS genes across these three genomes revealed that there are three approximately evenly numbered groups: one group contains the Toll-Interleukin receptor (TIR) domain and two different Non-TIR groups in which most of proteins contain the Coiled Coil (CC) domain. Motif analysis confirmed that the two groups of CC-containing NBS genes are from different evolutionary origins. We partitioned NBS genes into clades using NBS domain sequence distances and found most clades include NBS genes from all three Citrus genomes. This suggests that three Citrus genomes have similar numbers and types of NBS genes. We also mapped the re-sequenced reads of three pomelo and three mandarin genomes onto the C. sinensis genome. We found that most NBS genes of the hybrid C. sinensis genome have corresponding homologous genes in both pomelo and mandarin genomes. The homologous NBS genes in pomelo and mandarin suggest that the parental species of C. sinensis may contain similar types of NBS genes. This explains why the hybrid C. sinensis and original C. clementina have similar types of NBS genes in this study. Furthermore, we found that sequence variation amongst Citrus NBS genes were shaped by multiple independent and shared accelerated mutation accumulation events among different groups of NBS genes and in different Citrus genomes. Our comparative analyses yield valuable insight into the structure, organization and evolution of NBS genes in Citrus genomes. Furthermore, our comprehensive analysis showed that the non-TIR NBS genes can be divided into two groups that come from different evolutionary origins. This provides new insights into non-TIR genes, which have not received much attention.
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