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A Species-Wide Inventory of NLR Genes and Alleles in Arabidopsis thaliana.

Van de Weyer AL, Monteiro F, Furzer OJ, Nishimura MT, Cevik V, Witek K, Jones JDG, Dangl JL, Weigel D, Bemm F.

Cell. 2019 Aug 22;178(5):1260-1272.e14. doi: 10.1016/j.cell.2019.07.038.


TIR domains of plant immune receptors are NAD+-cleaving enzymes that promote cell death.

Wan L, Essuman K, Anderson RG, Sasaki Y, Monteiro F, Chung EH, Osborne Nishimura E, DiAntonio A, Milbrandt J, Dangl JL, Nishimura MT.

Science. 2019 Aug 23;365(6455):799-803. doi: 10.1126/science.aax1771.


Help wanted: helper NLRs and plant immune responses.

Jubic LM, Saile S, Furzer OJ, El Kasmi F, Dangl JL.

Curr Opin Plant Biol. 2019 May 4;50:82-94. doi: 10.1016/j.pbi.2019.03.013. [Epub ahead of print] Review.


A pentangular plant inflammasome.

Dangl JL, Jones JDG.

Science. 2019 Apr 5;364(6435):31-32. doi: 10.1126/science.aax0174. No abstract available.


Multilab EcoFAB study shows highly reproducible physiology and depletion of soil metabolites by a model grass.

Sasse J, Kant J, Cole BJ, Klein AP, Arsova B, Schlaepfer P, Gao J, Lewald K, Zhalnina K, Kosina S, Bowen BP, Treen D, Vogel J, Visel A, Watt M, Dangl JL, Northen TR.

New Phytol. 2019 Apr;222(2):1149-1160. doi: 10.1111/nph.15662. Epub 2019 Jan 24.


Elucidating Bacterial Gene Functions in the Plant Microbiome.

Levy A, Conway JM, Dangl JL, Woyke T.

Cell Host Microbe. 2018 Oct 10;24(4):475-485. doi: 10.1016/j.chom.2018.09.005. Review.


Phevamine A, a small molecule that suppresses plant immune responses.

O'Neill EM, Mucyn TS, Patteson JB, Finkel OM, Chung EH, Baccile JA, Massolo E, Schroeder FC, Dangl JL, Li B.

Proc Natl Acad Sci U S A. 2018 Oct 9;115(41):E9514-E9522. doi: 10.1073/pnas.1803779115. Epub 2018 Sep 20.


Large-scale replicated field study of maize rhizosphere identifies heritable microbes.

Walters WA, Jin Z, Youngblut N, Wallace JG, Sutter J, Zhang W, González-Peña A, Peiffer J, Koren O, Shi Q, Knight R, Glavina Del Rio T, Tringe SG, Buckler ES, Dangl JL, Ley RE.

Proc Natl Acad Sci U S A. 2018 Jul 10;115(28):7368-7373. doi: 10.1073/pnas.1800918115. Epub 2018 Jun 25.


An integrated workflow for phenazine-modifying enzyme characterization.

Coates RC, Bowen BP, Oberortner E, Thomashow L, Hadjithomas M, Zhao Z, Ke J, Silva L, Louie K, Wang G, Robinson D, Tarver A, Hamilton M, Lubbe A, Feltcher M, Dangl JL, Pati A, Weller D, Northen TR, Cheng JF, Mouncey NJ, Deutsch S, Yoshikuni Y.

J Ind Microbiol Biotechnol. 2018 Jul;45(7):567-577. doi: 10.1007/s10295-018-2025-5. Epub 2018 Mar 15.


Design of synthetic bacterial communities for predictable plant phenotypes.

Herrera Paredes S, Gao T, Law TF, Finkel OM, Mucyn T, Teixeira PJPL, Salas González I, Feltcher ME, Powers MJ, Shank EA, Jones CD, Jojic V, Dangl JL, Castrillo G.

PLoS Biol. 2018 Feb 20;16(2):e2003962. doi: 10.1371/journal.pbio.2003962. eCollection 2018 Feb.


Concerted Action of Evolutionarily Ancient and Novel SNARE Complexes in Flowering-Plant Cytokinesis.

Park M, Krause C, Karnahl M, Reichardt I, El Kasmi F, Mayer U, Stierhof YD, Hiller U, Strompen G, Bayer M, Kientz M, Sato MH, Nishimura MT, Dangl JL, Sanderfoot AA, Jürgens G.

Dev Cell. 2018 Feb 26;44(4):500-511.e4. doi: 10.1016/j.devcel.2017.12.027. Epub 2018 Jan 27.


Genomic features of bacterial adaptation to plants.

Levy A, Salas Gonzalez I, Mittelviefhaus M, Clingenpeel S, Herrera Paredes S, Miao J, Wang K, Devescovi G, Stillman K, Monteiro F, Rangel Alvarez B, Lundberg DS, Lu TY, Lebeis S, Jin Z, McDonald M, Klein AP, Feltcher ME, Rio TG, Grant SR, Doty SL, Ley RE, Zhao B, Venturi V, Pelletier DA, Vorholt JA, Tringe SG, Woyke T, Dangl JL.

Nat Genet. 2017 Dec 18;50(1):138-150. doi: 10.1038/s41588-017-0012-9.


Genome-wide identification of bacterial plant colonization genes.

Cole BJ, Feltcher ME, Waters RJ, Wetmore KM, Mucyn TS, Ryan EM, Wang G, Ul-Hasan S, McDonald M, Yoshikuni Y, Malmstrom RR, Deutschbauer AM, Dangl JL, Visel A.

PLoS Biol. 2017 Sep 22;15(9):e2002860. doi: 10.1371/journal.pbio.2002860. eCollection 2017 Sep.


Signaling from the plasma-membrane localized plant immune receptor RPM1 requires self-association of the full-length protein.

El Kasmi F, Chung EH, Anderson RG, Li J, Wan L, Eitas TK, Gao Z, Dangl JL.

Proc Natl Acad Sci U S A. 2017 Aug 29;114(35):E7385-E7394. doi: 10.1073/pnas.1708288114. Epub 2017 Aug 14.


Understanding and exploiting plant beneficial microbes.

Finkel OM, Castrillo G, Herrera Paredes S, Salas González I, Dangl JL.

Curr Opin Plant Biol. 2017 Aug;38:155-163. doi: 10.1016/j.pbi.2017.04.018. Epub 2017 Jun 13. Review.


Tradict enables accurate prediction of eukaryotic transcriptional states from 100 marker genes.

Biswas S, Kerner K, Teixeira PJPL, Dangl JL, Jojic V, Wigge PA.

Nat Commun. 2017 May 5;8:15309. doi: 10.1038/ncomms15309.


Activation of a Plant NLR Complex through Heteromeric Association with an Autoimmune Risk Variant of Another NLR.

Tran DTN, Chung EH, Habring-Müller A, Demar M, Schwab R, Dangl JL, Weigel D, Chae E.

Curr Biol. 2017 Apr 24;27(8):1148-1160. doi: 10.1016/j.cub.2017.03.018. Epub 2017 Apr 13.


Foundational and Translational Research Opportunities to Improve Plant Health.

Michelmore R, Coaker G, Bart R, Beattie G, Bent A, Bruce T, Cameron D, Dangl J, Dinesh-Kumar S, Edwards R, Eves-van den Akker S, Gassmann W, Greenberg JT, Hanley-Bowdoin L, Harrison RJ, Harvey J, He P, Huffaker A, Hulbert S, Innes R, Jones JDG, Kaloshian I, Kamoun S, Katagiri F, Leach J, Ma W, McDowell J, Medford J, Meyers B, Nelson R, Oliver R, Qi Y, Saunders D, Shaw M, Smart C, Subudhi P, Torrance L, Tyler B, Valent B, Walsh J.

Mol Plant Microbe Interact. 2017 Jul;30(7):515-516. doi: 10.1094/MPMI-01-17-0010-CR. Epub 2017 Jun 12.


Research priorities for harnessing plant microbiomes in sustainable agriculture.

Busby PE, Soman C, Wagner MR, Friesen ML, Kremer J, Bennett A, Morsy M, Eisen JA, Leach JE, Dangl JL.

PLoS Biol. 2017 Mar 28;15(3):e2001793. doi: 10.1371/journal.pbio.2001793. eCollection 2017 Mar.


Root microbiota drive direct integration of phosphate stress and immunity.

Castrillo G, Teixeira PJ, Paredes SH, Law TF, de Lorenzo L, Feltcher ME, Finkel OM, Breakfield NW, Mieczkowski P, Jones CD, Paz-Ares J, Dangl JL.

Nature. 2017 Mar 23;543(7646):513-518. doi: 10.1038/nature21417. Epub 2017 Mar 15.


LSU network hubs integrate abiotic and biotic stress responses via interaction with the superoxide dismutase FSD2.

Garcia-Molina A, Altmann M, Alkofer A, Epple PM, Dangl JL, Falter-Braun P.

J Exp Bot. 2017 Feb 1;68(5):1185-1197. doi: 10.1093/jxb/erw498.


AtSERPIN1 is an inhibitor of the metacaspase AtMC1-mediated cell death and autocatalytic processing in planta.

Lema Asqui S, Vercammen D, Serrano I, Valls M, Rivas S, Van Breusegem F, Conlon FL, Dangl JL, Coll NS.

New Phytol. 2018 May;218(3):1156-1166. doi: 10.1111/nph.14446. Epub 2017 Feb 3.


TIR-only protein RBA1 recognizes a pathogen effector to regulate cell death in Arabidopsis.

Nishimura MT, Anderson RG, Cherkis KA, Law TF, Liu QL, Machius M, Nimchuk ZL, Yang L, Chung EH, El Kasmi F, Hyunh M, Osborne Nishimura E, Sondek JE, Dangl JL.

Proc Natl Acad Sci U S A. 2017 Mar 7;114(10):E2053-E2062. doi: 10.1073/pnas.1620973114. Epub 2017 Jan 30.


Pseudomonas syringae Type III Effector HopBB1 Promotes Host Transcriptional Repressor Degradation to Regulate Phytohormone Responses and Virulence.

Yang L, Teixeira PJ, Biswas S, Finkel OM, He Y, Salas-Gonzalez I, English ME, Epple P, Mieczkowski P, Dangl JL.

Cell Host Microbe. 2017 Feb 8;21(2):156-168. doi: 10.1016/j.chom.2017.01.003. Epub 2017 Jan 26.


Intracellular innate immune surveillance devices in plants and animals.

Jones JD, Vance RE, Dangl JL.

Science. 2016 Dec 2;354(6316). pii: aaf6395. Review.


Genome-Wide Assessment of Efficiency and Specificity in CRISPR/Cas9 Mediated Multiple Site Targeting in Arabidopsis.

Peterson BA, Haak DC, Nishimura MT, Teixeira PJ, James SR, Dangl JL, Nimchuk ZL.

PLoS One. 2016 Sep 13;11(9):e0162169. doi: 10.1371/journal.pone.0162169. eCollection 2016.


Effector-Triggered Immune Response in Arabidopsis thaliana Is a Quantitative Trait.

Iakovidis M, Teixeira PJ, Exposito-Alonso M, Cowper MG, Law TF, Liu Q, Vu MC, Dang TM, Corwin JA, Weigel D, Dangl JL, Grant SR.

Genetics. 2016 Sep;204(1):337-53. doi: 10.1534/genetics.116.190678. Epub 2016 Jul 13.


Host genotype and age shape the leaf and root microbiomes of a wild perennial plant.

Wagner MR, Lundberg DS, Del Rio TG, Tringe SG, Dangl JL, Mitchell-Olds T.

Nat Commun. 2016 Jul 12;7:12151. doi: 10.1038/ncomms12151.


Pseudomonas syringae type III effector HopAF1 suppresses plant immunity by targeting methionine recycling to block ethylene induction.

Washington EJ, Mukhtar MS, Finkel OM, Wan L, Banfield MJ, Kieber JJ, Dangl JL.

Proc Natl Acad Sci U S A. 2016 Jun 21;113(25):E3577-86. doi: 10.1073/pnas.1606322113. Epub 2016 Jun 6.


Learning Microbial Interaction Networks from Metagenomic Count Data.

Biswas S, Mcdonald M, Lundberg DS, Dangl JL, Jojic V.

J Comput Biol. 2016 Jun;23(6):526-35. doi: 10.1089/cmb.2016.0061.


Toward a Predictive Understanding of Earth's Microbiomes to Address 21st Century Challenges.

Blaser MJ, Cardon ZG, Cho MK, Dangl JL, Donohue TJ, Green JL, Knight R, Maxon ME, Northen TR, Pollard KS, Brodie EL.

MBio. 2016 May 13;7(3). pii: e00714-16. doi: 10.1128/mBio.00714-16.


Arabidopsis AtMORC4 and AtMORC7 Form Nuclear Bodies and Repress a Large Number of Protein-Coding Genes.

Harris CJ, Husmann D, Liu W, Kasmi FE, Wang H, Papikian A, Pastor WA, Moissiard G, Vashisht AA, Dangl JL, Wohlschlegel JA, Jacobsen SE.

PLoS Genet. 2016 May 12;12(5):e1005998. doi: 10.1371/journal.pgen.1005998. eCollection 2016 May.


TNL-mediated immunity in Arabidopsis requires complex regulation of the redundant ADR1 gene family.

Dong OX, Tong M, Bonardi V, El Kasmi F, Woloshen V, Wünsch LK, Dangl JL, Li X.

New Phytol. 2016 May;210(3):960-73. doi: 10.1111/nph.13821. Epub 2016 Jan 4.


Novel Rhizosphere Soil Alleles for the Enzyme 1-Aminocyclopropane-1-Carboxylate Deaminase Queried for Function with an In Vivo Competition Assay.

Jin Z, Di Rienzi SC, Janzon A, Werner JJ, Angenent LT, Dangl JL, Fowler DM, Ley RE.

Appl Environ Microbiol. 2015 Dec 4;82(4):1050-9. doi: 10.1128/AEM.03074-15. Print 2016 Feb 15.


MICROBIOME. A unified initiative to harness Earth's microbiomes.

Alivisatos AP, Blaser MJ, Brodie EL, Chun M, Dangl JL, Donohue TJ, Dorrestein PC, Gilbert JA, Green JL, Jansson JK, Knight R, Maxon ME, McFall-Ngai MJ, Miller JF, Pollard KS, Ruby EG, Taha SA; Unified Microbiome Initiative Consortium.

Science. 2015 Oct 30;350(6260):507-8. doi: 10.1126/science.aac8480. Epub 2015 Oct 28. No abstract available.


50 years of Arabidopsis research: highlights and future directions.

Provart NJ, Alonso J, Assmann SM, Bergmann D, Brady SM, Brkljacic J, Browse J, Chapple C, Colot V, Cutler S, Dangl J, Ehrhardt D, Friesner JD, Frommer WB, Grotewold E, Meyerowitz E, Nemhauser J, Nordborg M, Pikaard C, Shanklin J, Somerville C, Stitt M, Torii KU, Waese J, Wagner D, McCourt P.

New Phytol. 2016 Feb;209(3):921-44. doi: 10.1111/nph.13687. Epub 2015 Oct 14. Review.


Primer and platform effects on 16S rRNA tag sequencing.

Tremblay J, Singh K, Fern A, Kirton ES, He S, Woyke T, Lee J, Chen F, Dangl JL, Tringe SG.

Front Microbiol. 2015 Aug 4;6:771. doi: 10.3389/fmicb.2015.00771. eCollection 2015.


PLANT MICROBIOME. Salicylic acid modulates colonization of the root microbiome by specific bacterial taxa.

Lebeis SL, Paredes SH, Lundberg DS, Breakfield N, Gehring J, McDonald M, Malfatti S, Glavina del Rio T, Jones CD, Tringe SG, Dangl JL.

Science. 2015 Aug 21;349(6250):860-4. doi: 10.1126/science.aaa8764. Epub 2015 Jul 16.


ProDeGe: a computational protocol for fully automated decontamination of genomes.

Tennessen K, Andersen E, Clingenpeel S, Rinke C, Lundberg DS, Han J, Dangl JL, Ivanova N, Woyke T, Kyrpides N, Pati A.

ISME J. 2016 Jan;10(1):269-72. doi: 10.1038/ismej.2015.100. Epub 2015 Jun 9.


Treasure your exceptions: unusual domains in immune receptors reveal host virulence targets.

Nishimura MT, Monteiro F, Dangl JL.

Cell. 2015 May 21;161(5):957-960. doi: 10.1016/j.cell.2015.05.017.


Microbiota and Host Nutrition across Plant and Animal Kingdoms.

Hacquard S, Garrido-Oter R, González A, Spaepen S, Ackermann G, Lebeis S, McHardy AC, Dangl JL, Knight R, Ley R, Schulze-Lefert P.

Cell Host Microbe. 2015 May 13;17(5):603-16. doi: 10.1016/j.chom.2015.04.009. Review.


Correction: Molecular and functional analyses of a maize autoactive NB-LRR protein identify precise structural requirements for activity.

Wang GF, Ji J, Ei-Kasmi F, Dangl JL, Johal G, Balint-Kurti PJ.

PLoS Pathog. 2015 Apr 10;11(4):e1004830. doi: 10.1371/journal.ppat.1004830. eCollection 2015 Apr.


Molecular and functional analyses of a maize autoactive NB-LRR protein identify precise structural requirements for activity.

Wang GF, Ji J, El-Kasmi F, Dangl JL, Johal G, Balint-Kurti PJ.

PLoS Pathog. 2015 Feb 26;11(2):e1004674. doi: 10.1371/journal.ppat.1004674. eCollection 2015 Feb. Erratum in: PLoS Pathog. 2015 Apr;11(4):e1004830.


Retromer contributes to immunity-associated cell death in Arabidopsis.

Munch D, Teh OK, Malinovsky FG, Liu Q, Vetukuri RR, El Kasmi F, Brodersen P, Hara-Nishimura I, Dangl JL, Petersen M, Mundy J, Hofius D.

Plant Cell. 2015 Feb;27(2):463-79. doi: 10.1105/tpc.114.132043. Epub 2015 Feb 13.


A truncated NLR protein, TIR-NBS2, is required for activated defense responses in the exo70B1 mutant.

Zhao T, Rui L, Li J, Nishimura MT, Vogel JP, Liu N, Liu S, Zhao Y, Dangl JL, Tang D.

PLoS Genet. 2015 Jan 24;11(1):e1004945. doi: 10.1371/journal.pgen.1004945. eCollection 2015 Jan.


A plant phosphoswitch platform repeatedly targeted by type III effector proteins regulates the output of both tiers of plant immune receptors.

Chung EH, El-Kasmi F, He Y, Loehr A, Dangl JL.

Cell Host Microbe. 2014 Oct 8;16(4):484-94. doi: 10.1016/j.chom.2014.09.004.


Convergent targeting of a common host protein-network by pathogen effectors from three kingdoms of life.

Weßling R, Epple P, Altmann S, He Y, Yang L, Henz SR, McDonald N, Wiley K, Bader KC, Gläßer C, Mukhtar MS, Haigis S, Ghamsari L, Stephens AE, Ecker JR, Vidal M, Jones JD, Mayer KF, Ver Loren van Themaat E, Weigel D, Schulze-Lefert P, Dangl JL, Panstruga R, Braun P.

Cell Host Microbe. 2014 Sep 10;16(3):364-75. doi: 10.1016/j.chom.2014.08.004.


MT-Toolbox: improved amplicon sequencing using molecule tags.

Yourstone SM, Lundberg DS, Dangl JL, Jones CD.

BMC Bioinformatics. 2014 Aug 22;15:284. doi: 10.1186/1471-2105-15-284.


The growth-defense pivot: crisis management in plants mediated by LRR-RK surface receptors.

Belkhadir Y, Yang L, Hetzel J, Dangl JL, Chory J.

Trends Biochem Sci. 2014 Oct;39(10):447-56. doi: 10.1016/j.tibs.2014.06.006. Epub 2014 Aug 1. Review.


New horizons for plant translational research.

Alfred J, Dangl JL, Kamoun S, McCouch SR.

PLoS Biol. 2014 Jun 10;12(6):e1001880. doi: 10.1371/journal.pbio.1001880. eCollection 2014 Jun. No abstract available.

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