Horizontal gene transfer is more frequent with increased heterotrophy and contributes to parasite adaptation.
| Title: | Horizontal gene transfer is more frequent with increased heterotrophy and contributes to parasite adaptation. |
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| Authors: | Yang Z; Intercollege Graduate Program in Plant Biology, Huck Institutes of the Life Sciences, The Pennsylvania State University, University Park, PA 16802.; Department of Biology, The Pennsylvania State University, University Park, PA 16802.; Institute of Molecular Evolutionary Genetics, Huck Institutes of the Life Sciences, The Pennsylvania State University, University Park, PA 16802.; Zhang Y; Department of Biology, The Pennsylvania State University, University Park, PA 16802.; Institute of Molecular Evolutionary Genetics, Huck Institutes of the Life Sciences, The Pennsylvania State University, University Park, PA 16802.; Intercollege Graduate Program in Genetics, Huck Institutes of the Life Sciences, The Pennsylvania State University, University Park, PA 16802.; Wafula EK; Department of Biology, The Pennsylvania State University, University Park, PA 16802.; Institute of Molecular Evolutionary Genetics, Huck Institutes of the Life Sciences, The Pennsylvania State University, University Park, PA 16802.; Honaas LA; Intercollege Graduate Program in Plant Biology, Huck Institutes of the Life Sciences, The Pennsylvania State University, University Park, PA 16802.; Department of Biology, The Pennsylvania State University, University Park, PA 16802.; Institute of Molecular Evolutionary Genetics, Huck Institutes of the Life Sciences, The Pennsylvania State University, University Park, PA 16802.; Ralph PE; Department of Biology, The Pennsylvania State University, University Park, PA 16802.; Jones S; Intercollege Graduate Program in Plant Biology, Huck Institutes of the Life Sciences, The Pennsylvania State University, University Park, PA 16802.; Department of Biology, The Pennsylvania State University, University Park, PA 16802.; Clarke CR; Department of Plant Pathology, Physiology and Weed Science, Virginia Polytechnic Institute and State University, Blacksburg, VA 24061.; Liu S; Department of Plant Sciences, University of California, Davis, CA 95616.; Su C; Department of Biology, University of Virginia, Charlottesville, VA 22904.; Zhang H; Intercollege Graduate Program in Plant Biology, Huck Institutes of the Life Sciences, The Pennsylvania State University, University Park, PA 16802.; Department of Biology, The Pennsylvania State University, University Park, PA 16802.; Altman NS; Department of Statistics, The Pennsylvania State University, University Park, PA 16802.; Huck Institutes of the Life Sciences, The Pennsylvania State University, University Park, PA 16802.; Schuster SC; Huck Institutes of the Life Sciences, The Pennsylvania State University, University Park, PA 16802.; Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA 16802.; Timko MP; Department of Biology, University of Virginia, Charlottesville, VA 22904.; Yoder JI; Department of Plant Sciences, University of California, Davis, CA 95616.; Westwood JH; Department of Plant Pathology, Physiology and Weed Science, Virginia Polytechnic Institute and State University, Blacksburg, VA 24061.; dePamphilis CW; Intercollege Graduate Program in Plant Biology, Huck Institutes of the Life Sciences, The Pennsylvania State University, University Park, PA 16802; cwd3@psu.edu.; Department of Biology, The Pennsylvania State University, University Park, PA 16802.; Institute of Molecular Evolutionary Genetics, Huck Institutes of the Life Sciences, The Pennsylvania State University, University Park, PA 16802.; Intercollege Graduate Program in Genetics, Huck Institutes of the Life Sciences, The Pennsylvania State University, University Park, PA 16802.; Huck Institutes of the Life Sciences, The Pennsylvania State University, University Park, PA 16802. |
| Source: | Proceedings of the National Academy of Sciences of the United States of America [Proc Natl Acad Sci U S A] 2016 Nov 08; Vol. 113 (45), pp. E7010-E7019. Date of Electronic Publication: 2016 Oct 24. |
| Publication Type: | Journal Article |
| Language: | English |
| Journal Info: | Publisher: National Academy of Sciences Country of Publication: United States NLM ID: 7505876 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1091-6490 (Electronic) Linking ISSN: 00278424 NLM ISO Abbreviation: Proc Natl Acad Sci U S A Subsets: PubMed not MEDLINE |
| Imprint Name(s): | Original Publication: Washington, DC : National Academy of Sciences |
| Abstract: | Horizontal gene transfer (HGT) is the transfer of genetic material across species boundaries and has been a driving force in prokaryotic evolution. HGT involving eukaryotes appears to be much less frequent, and the functional implications of HGT in eukaryotes are poorly understood. We test the hypothesis that parasitic plants, because of their intimate feeding contacts with host plant tissues, are especially prone to horizontal gene acquisition. We sought evidence of HGTs in transcriptomes of three parasitic members of Orobanchaceae, a plant family containing species spanning the full spectrum of parasitic capabilities, plus the free-living Lindenbergia Following initial phylogenetic detection and an extensive validation procedure, 52 high-confidence horizontal transfer events were detected, often from lineages of known host plants and with an increasing number of HGT events in species with the greatest parasitic dependence. Analyses of intron sequences in putative donor and recipient lineages provide evidence for integration of genomic fragments far more often than retro-processed RNA sequences. Purifying selection predominates in functionally transferred sequences, with a small fraction of adaptively evolving sites. HGT-acquired genes are preferentially expressed in the haustorium-the organ of parasitic plants-and are strongly biased in predicted gene functions, suggesting that expression products of horizontally acquired genes are contributing to the unique adaptive feeding structure of parasitic plants. |
| Competing Interests: | The authors declare no conflict of interest. |
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| Contributed Indexing: | Keywords: HGT; genomic transfer; parasitism; phylogenomics; validation pipeline |
| Entry Date(s): | Date Created: 20161030 Latest Revision: 20231111 |
| Update Code: | 20260130 |
| PubMed Central ID: | PMC5111717 |
| DOI: | 10.1073/pnas.1608765113 |
| PMID: | 27791104 |
| Database: | MEDLINE |
Journal Article