Literature DB >> 25467443

Species-wide genetic incompatibility analysis identifies immune genes as hot spots of deleterious epistasis.

Eunyoung Chae1, Kirsten Bomblies1, Sang-Tae Kim1, Darya Karelina2, Maricris Zaidem1, Stephan Ossowski1, Carmen Martín-Pizarro1, Roosa A E Laitinen1, Beth A Rowan1, Hezi Tenenboim1, Sarah Lechner1, Monika Demar1, Anette Habring-Müller1, Christa Lanz1, Gunnar Rätsch3, Detlef Weigel4.   

Abstract

Intraspecific genetic incompatibilities prevent the assembly of specific alleles into single genotypes and influence genome- and species-wide patterns of sequence variation. A common incompatibility in plants is hybrid necrosis, characterized by autoimmune responses due to epistatic interactions between natural genetic variants. By systematically testing thousands of F1 hybrids of Arabidopsis thaliana strains, we identified a small number of incompatibility hot spots in the genome, often in regions densely populated by nucleotide-binding domain and leucine-rich repeat (NLR) immune receptor genes. In several cases, these immune receptor loci interact with each other, suggestive of conflict within the immune system. A particularly dangerous locus is a highly variable cluster of NLR genes, DM2, which causes multiple independent incompatibilities with genes that encode a range of biochemical functions, including NLRs. Our findings suggest that deleterious interactions of immune receptors limit the combinations of favorable disease resistance alleles accessible to plant genomes.
Copyright © 2014 Elsevier Inc. All rights reserved.

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Year:  2014        PMID: 25467443      PMCID: PMC4269942          DOI: 10.1016/j.cell.2014.10.049

Source DB:  PubMed          Journal:  Cell        ISSN: 0092-8674            Impact factor:   41.582


  55 in total

1.  X-autosome incompatibilities in Drosophila melanogaster: tests of Haldane's rule and geographic patterns within species.

Authors:  Joseph Lachance; John R True
Journal:  Evolution       Date:  2010-08-19       Impact factor: 3.694

Review 2.  Speciation genes in plants.

Authors:  Loren H Rieseberg; Benjamin K Blackman
Journal:  Ann Bot       Date:  2010-06-24       Impact factor: 4.357

Review 3.  Hybrid necrosis: autoimmunity as a potential gene-flow barrier in plant species.

Authors:  Kirsten Bomblies; Detlef Weigel
Journal:  Nat Rev Genet       Date:  2007-04-03       Impact factor: 53.242

Review 4.  Clusters of resistance genes in plants evolve by divergent selection and a birth-and-death process.

Authors:  R W Michelmore; B C Meyers
Journal:  Genome Res       Date:  1998-11       Impact factor: 9.043

5.  Whole-genome sequencing of multiple Arabidopsis thaliana populations.

Authors:  Jun Cao; Korbinian Schneeberger; Stephan Ossowski; Torsten Günther; Sebastian Bender; Joffrey Fitz; Daniel Koenig; Christa Lanz; Oliver Stegle; Christoph Lippert; Xi Wang; Felix Ott; Jonas Müller; Carlos Alonso-Blanco; Karsten Borgwardt; Karl J Schmid; Detlef Weigel
Journal:  Nat Genet       Date:  2011-08-28       Impact factor: 38.330

6.  A tomato cysteine protease required for Cf-2-dependent disease resistance and suppression of autonecrosis.

Authors:  Julia Krüger; Colwyn M Thomas; Catherine Golstein; Mark S Dixon; Matthew Smoker; Saijun Tang; Lonneke Mulder; Jonathan D G Jones
Journal:  Science       Date:  2002-04-26       Impact factor: 47.728

Review 7.  Epistasis--the essential role of gene interactions in the structure and evolution of genetic systems.

Authors:  Patrick C Phillips
Journal:  Nat Rev Genet       Date:  2008-11       Impact factor: 53.242

8.  Local-scale patterns of genetic variability, outcrossing, and spatial structure in natural stands of Arabidopsis thaliana.

Authors:  Kirsten Bomblies; Levi Yant; Roosa A Laitinen; Sang-Tae Kim; Jesse D Hollister; Norman Warthmann; Joffrey Fitz; Detlef Weigel
Journal:  PLoS Genet       Date:  2010-03-26       Impact factor: 5.917

9.  A robust, simple genotyping-by-sequencing (GBS) approach for high diversity species.

Authors:  Robert J Elshire; Jeffrey C Glaubitz; Qi Sun; Jesse A Poland; Ken Kawamoto; Edward S Buckler; Sharon E Mitchell
Journal:  PLoS One       Date:  2011-05-04       Impact factor: 3.240

10.  A two-locus interaction causes interspecific hybrid weakness in rice.

Authors:  Chen Chen; Hao Chen; You-Shun Lin; Jin-Bo Shen; Jun-Xiang Shan; Peng Qi; Min Shi; Mei-Zhen Zhu; Xue-Hui Huang; Qi Feng; Bin Han; Liwen Jiang; Ji-Ping Gao; Hong-Xuan Lin
Journal:  Nat Commun       Date:  2014       Impact factor: 14.919

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  82 in total

1.  Hybrid mimics and hybrid vigor in Arabidopsis.

Authors:  Li Wang; Ian K Greaves; Michael Groszmann; Li Min Wu; Elizabeth S Dennis; W James Peacock
Journal:  Proc Natl Acad Sci U S A       Date:  2015-08-17       Impact factor: 11.205

2.  Signatures of Dobzhansky-Muller Incompatibilities in the Genomes of Recombinant Inbred Lines.

Authors:  Maria Colomé-Tatché; Frank Johannes
Journal:  Genetics       Date:  2015-12-17       Impact factor: 4.562

3.  Chromosome-level assembly of Arabidopsis thaliana Ler reveals the extent of translocation and inversion polymorphisms.

Authors:  Luis Zapata; Jia Ding; Eva-Maria Willing; Benjamin Hartwig; Daniela Bezdan; Wen-Biao Jiao; Vipul Patel; Geo Velikkakam James; Maarten Koornneef; Stephan Ossowski; Korbinian Schneeberger
Journal:  Proc Natl Acad Sci U S A       Date:  2016-06-27       Impact factor: 11.205

4.  NLR Mutations Suppressing Immune Hybrid Incompatibility and Their Effects on Disease Resistance.

Authors:  Kostadin E Atanasov; Changxin Liu; Alexander Erban; Joachim Kopka; Jane E Parker; Rubén Alcázar
Journal:  Plant Physiol       Date:  2018-05-23       Impact factor: 8.340

5.  Optimized Cas9 expression systems for highly efficient Arabidopsis genome editing facilitate isolation of complex alleles in a single generation.

Authors:  Jana Ordon; Mauro Bressan; Carola Kretschmer; Luca Dall'Osto; Sylvestre Marillonnet; Roberto Bassi; Johannes Stuttmann
Journal:  Funct Integr Genomics       Date:  2019-02-23       Impact factor: 3.410

6.  Salicylic Acid, Senescence, and Heterosis.

Authors:  Lisa M Smith
Journal:  Plant Physiol       Date:  2019-05       Impact factor: 8.340

7.  All in the Family: The First Whole-Genome Survey of NLR Genes.

Authors:  Detlef Weigel
Journal:  Plant Cell       Date:  2019-04-29       Impact factor: 11.277

8.  NLR network mediates immunity to diverse plant pathogens.

Authors:  Chih-Hang Wu; Ahmed Abd-El-Haliem; Tolga O Bozkurt; Khaoula Belhaj; Ryohei Terauchi; Jack H Vossen; Sophien Kamoun
Journal:  Proc Natl Acad Sci U S A       Date:  2017-07-11       Impact factor: 11.205

Review 9.  Mechanisms to Mitigate the Trade-Off between Growth and Defense.

Authors:  Talia L Karasov; Eunyoung Chae; Jacob J Herman; Joy Bergelson
Journal:  Plant Cell       Date:  2017-03-20       Impact factor: 11.277

10.  Genetic architecture of nonadditive inheritance in Arabidopsis thaliana hybrids.

Authors:  Danelle K Seymour; Eunyoung Chae; Dominik G Grimm; Carmen Martín Pizarro; Anette Habring-Müller; François Vasseur; Barbara Rakitsch; Karsten M Borgwardt; Daniel Koenig; Detlef Weigel
Journal:  Proc Natl Acad Sci U S A       Date:  2016-11-01       Impact factor: 11.205

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