ArticleFrontiers in plant science2018
Different Modes of Gene Duplication Show Divergent Evolutionary Patterns and Contribute Differently to the Expansion of Gene Families Involved in Important Fruit Traits in Pear (
Article in Frontiers in plant science, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 71 papers.
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71 citing papers in PubMed, 153 citations in OpenAlex.
- Polyploidization driven pan-genome structural remodeling and gene duplication mediated functional diversification in Panax.Functional & integrative genomics · 2026Article
- A comprehensive and accessible database of jawed-vertebrate ohnologs.Science advances · 2026Article
- Distinct evolutionary trajectories of gene duplication modes in 40 diploid cotton genomes.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Regulatory dynamics of molecular determinants in divergent rice varieties under the influence of nano-structured Zinc: an integrative study of OsbZIP genes and their targeting miRNAs.BMC plant biology · 2026Article
- Genome-Wide Identification and Characterization of the NAC Transcription Factor Family inPlants (Basel, Switzerland) · 2026Article
- WRKY transcription factors govern selenium metabolism in Broussonetia papyrifera: genome-wide identification, expression profiling, and regulatory network analysis.BMC plant biology · 2026Article
- Gene duplication dynamics and regulatory evolution shape the diversification of Asteraceae.bioRxiv : the preprint server for biology · 2025Article
- Lonicera caerulea genome reveals molecular mechanisms of freezing tolerance and anthocyanin biosynthesis.Journal of advanced research · 2025Article
- Gene Family Expansions Provide Molecular Flexibility Required for Context-Dependent Species Interactions.Ecology letters · 2025Article
- Genome-Wide Identification of the Glycosyl Hydrolase Family 1 Genes inPlants (Basel, Switzerland) · 2025Article
- Genome-wide identification, transcriptome dynamics, and expression regulation of the key lignin biosynthesis gene families PAL and CAD in black walnut shell.BMC plant biology · 2025Article
- Common bean pan-genome reveals abundant variation patterns and relationships of stress response genes and pathways.BMC genomics · 2025Article
- Genome-wide identification of glyoxalase (PbrGLY) gene family and functional analysis of PbrGLYI-28 in response to Botryosphaeria dothidea in pear.BMC plant biology · 2025Article
- Long-read genome sequencing reveals the sequence characteristics of pear self-incompatibility locus.Molecular horticulture · 2025Article
- Comprehensive Genomic Analysis of thePlants (Basel, Switzerland) · 2025Article
- doubletrouble: an R/Bioconductor package for the identification, classification, and analysis of gene and genome duplications.Bioinformatics (Oxford, England) · 2025Article
- Genome-wide identification of MGT gene family in soybean (Glycine max) and their expression analyses under magnesium stress conditions.BMC plant biology · 2025Article
- The members of zinc finger-homeodomain (ZF-HD) transcription factors are associated with abiotic stresses in soybean: insights from genomics and expression analysis.BMC plant biology · 2025Article
- Analysis of the MYB gene family in tartary buckwheat and functional investigation of FtPinG0005108900.01 in response to drought.BMC plant biology · 2025Article
- Genome-wide identification and characterization of ALKB homolog gene family in wheat (Frontiers in plant science · 2025Article
11 more citing papers are in PubMed but not listed here.
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7 authors at 1 institution in 1 country.
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Abstract
Pear is an important fruit crop of the Rosaceae family and has experienced two rounds of ancient whole-genome duplications (WGDs). However, whether different types of gene duplications evolved differently after duplication remains unclear in the pear genome. In this study, we identified the different modes of gene duplication in pear. Duplicate genes derived from WGD, tandem, proximal, retrotransposed, DNA-based transposed or dispersed duplications differ in genomic distribution, gene features, selection pressure, expression divergence, regulatory divergence and biological roles. Widespread sequence, expression and regulatory divergence have occurred between duplicate genes over the 30-45 million years of evolution after the recent genome duplication in pear. The retrotransposed genes show relatively higher expression and regulatory divergence than other gene duplication modes. In contrast, WGD genes underwent a slower sequence divergence and may be influenced by abundant gene conversion events. Moreover, the different classes of duplicate genes exhibited biased functional roles. We also investigated the evolution and expansion patterns of the gene families involved in sugar and organic acid metabolism pathways, which are closely related to the fruit quality and taste in pear. Single-gene duplications largely account for the extensive expansion of gene families involved in the sorbitol metabolism pathway in pear. Gene family expansion was also detected in the sucrose metabolism pathway and tricarboxylic acid cycle pathways. Thus, this study provides insights into the evolutionary fates of duplicated genes.
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