ArticleBMC plant biology2008
The lipoxygenase gene family: a genomic fossil of shared polyploidy between Glycine max and Medicago truncatula.
Article in BMC plant biology, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
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31 citing papers in PubMed, 69 citations in OpenAlex.
- Description of the rate-limiting hydrogen tunneling mechanism for plant 9- and 13-lipoxygenases.Protein science : a publication of the Protein Society · 2026Article
- The Jasmonic Acid Biosynthetic Genes SmLOX4 and SmLOX5 Are Involved in Heat Tolerance in Eggplant.Plant & cell physiology · 2024Article
- A genome-wide study of the lipoxygenase gene families in Medicago truncatula and Medicago sativa reveals that MtLOX24 participates in the methyl jasmonate response.BMC genomics · 2024Article
- Recombinant Soybean Lipoxygenase 2 (GmLOX2) Acts Primarily as a ω6(Current issues in molecular biology · 2023Article
- Oxylipin biosynthetic gene families of Cannabis sativa.PloS one · 2023Article
- Identification and Characterization of Jasmonic Acid Biosynthetic Genes inInternational journal of molecular sciences · 2022Article
- Identification of the LOX Gene Family in Peanut and Functional Characterization ofFrontiers in plant science · 2022Article
- Fungal Jasmonate as a Novel Morphogenetic Signal for Pathogenesis.Journal of fungi (Basel, Switzerland) · 2021Article
- Identification, Phylogeny, and Comparative Expression of the Lipoxygenase Gene Family of the Aquatic Duckweed,International journal of molecular sciences · 2020Article
- Impacts of genomic research on soybean improvement in East Asia.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2020Review
- Article
- Genome-wide identification, classification and expression of lipoxygenase gene family in pepper.Plant molecular biology · 2018Article
- Genome-wide identification of lipoxygenase gene family in cotton and functional characterization in response to abiotic stresses.BMC genomics · 2018Article
- Identification of lipoxygenase (LOX) genes from legumes and their responses in wild type and cultivated peanut upon Aspergillus flavus infection.Scientific reports · 2016Article
- Medicago truncatula and Glycine max: Different Drought Tolerance and Similar Local Response of the Root Nodule Proteome.Journal of proteome research · 2015Article
- A dual positional specific lipoxygenase functions in the generation of flavor compounds during climacteric ripening of apple.Horticulture research · 2015Article
- Evolutionary aspects of lipoxygenases and genetic diversity of human leukotriene signaling.Progress in lipid research · 2015Review
- Characterization of the lipoxygenase (LOX) gene family in the Chinese white pear (Pyrus bretschneideri) and comparison with other members of the Rosaceae.BMC genomics · 2014Article
- Genome duplication and gene loss affect the evolution of heat shock transcription factor genes in legumes.PloS one · 2014Article
- A tandem array of CBF/DREB1 genes is located in a major freezing tolerance QTL region on Medicago truncatula chromosome 6.BMC genomics · 2013Article
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Authors and funding
8 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundSoybean lipoxygenases (Lxs) play important roles in plant resistance and in conferring the distinct bean flavor. Lxs comprise a multi-gene family that includes GmLx1, GmLx2 and GmLx3, and many of these genes have been characterized. We were interested in investigating the relationship between the soybean lipoxygenase isozymes from an evolutionary perspective, since soybean has undergone two rounds of polyploidy. Here we report the tetrad genome structure of soybean Lx regions produced by ancient and recent polyploidy. Also, comparative genomics with Medicago truncatula was performed to estimate Lxs in the common ancestor of soybean and Medicago.
resultsTwo Lx regions in Medicago truncatula showing synteny with soybean were analyzed. Differential evolutionary rates between soybean and Medicago were observed and the median Ks values of Mt-Mt, Gm-Mt, and Gm-Gm paralogs were determined to be 0.75, 0.62, and 0.46, respectively. Thus the comparison of Gm-Mt paralogs (Ks = 0.62) and Gm-Mt orthologs (Ks = 0.45) supports the ancient duplication of Lx regions in the common ancestor prior to the Medicago-Glycine split. After speciation, no Lx regions generated by another polyploidy were identified in Medicago. Instead tandem duplication of Lx genes was observed. On the other hand, a lineage-specific duplication occurred in soybean resulting in two pairs of Lx regions. Each pair of soybean regions was co-orthologous to one Lx region in Medicago. A total of 34 Lx genes (15 MtLxs and 19 GmLxs) were divided into two groups by phylogenetic analysis. Our study shows that the Lx gene family evolved from two distinct Lx genes in the most recent common ancestor.
conclusionThis study analyzed two pairs of Lx regions generated by two rounds of polyploidy in soybean. Each pair of soybean homeologous regions is co-orthologous to one region of Medicago, demonstrating the quartet structure of the soybean genome. Differential evolutionary rates between soybean and Medicago were observed; thus optimized rates of Ks per year should be applied for accurate estimation of coalescence times to each case of comparison: soybean-soybean, soybean-Medicago, or Medicago-Medicago. In conclusion, the soybean Lx gene family expanded by ancient polyploidy prior to taxon divergence, followed by a soybean- specific duplication and tandem duplications, respectively.
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