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Items: 1 to 50 of 102

1.

Mitotic Recombination and Rapid Genome Evolution in the Invasive Forest Pathogen Phytophthora ramorum.

Dale AL, Feau N, Everhart SE, Dhillon B, Wong B, Sheppard J, Bilodeau GJ, Brar A, Tabima JF, Shen D, Brasier CM, Tyler BM, Grünwald NJ, Hamelin RC.

MBio. 2019 Mar 12;10(2). pii: e02452-18. doi: 10.1128/mBio.02452-18.

2.

Variation in Genetic Diversity of Phytophthora infestans Populations in Mexico from the Center of Origin Outwards.

Shakya SK, Larsen MM, Cuenca-Condoy MM, Lozoya-Saldaña H, Grünwald NJ.

Plant Dis. 2018 Aug;102(8):1534-1540. doi: 10.1094/PDIS-11-17-1801-RE. Epub 2018 May 24.

PMID:
30673430
3.

Insights into evolving global populations of Phytophthora infestans via new complementary mtDNA haplotype markers and nuclear SSRs.

Martin FN, Zhang Y, Cooke DEL, Coffey MD, Grünwald NJ, Fry WE.

PLoS One. 2019 Jan 2;14(1):e0208606. doi: 10.1371/journal.pone.0208606. eCollection 2019.

4.

Expansion and Divergence of Argonaute Genes in the Oomycete Genus Phytophthora.

Bollmann SR, Press CM, Tyler BM, Grünwald NJ.

Front Microbiol. 2018 Nov 30;9:2841. doi: 10.3389/fmicb.2018.02841. eCollection 2018.

5.

Variation in Disease Severity Caused by Phytophthora cinnamomi, P. plurivora, and Pythium cryptoirregulare on Two Rhododendron Cultivars.

Weiland JE, Scagel CF, Grünwald NJ, Davis EA, Beck BR, Fieland VJ.

Plant Dis. 2018 Dec;102(12):2560-2570. doi: 10.1094/PDIS-04-18-0666-RE. Epub 2018 Oct 22.

PMID:
30346246
6.

Taxa: An R package implementing data standards and methods for taxonomic data.

Foster ZSL, Chamberlain S, Grünwald NJ.

Version 2. F1000Res. 2018 Mar 5 [revised 2018 Jan 1];7:272. doi: 10.12688/f1000research.14013.2. eCollection 2018.

7.

Evolution of the U.S. Biological Select Agent Rathayibacter toxicus.

Davis EW 2nd, Tabima JF, Weisberg AJ, Lopes LD, Wiseman MS, Wiseman MS, Pupko T, Belcher MS, Sechler AJ, Tancos MA, Schroeder BK, Murray TD, Luster DG, Schneider WL, Rogers EE, Andreote FD, Grünwald NJ, Putnam ML, Chang JH.

MBio. 2018 Aug 28;9(4). pii: e01280-18. doi: 10.1128/mBio.01280-18.

8.

Stable predictive markers for Phytophthora sojae avirulence genes that impair infection of soybean uncovered by whole genome sequencing of 31 isolates.

Arsenault-Labrecque G, Sonah H, Lebreton A, Labbé C, Marchand G, Xue A, Belzile F, Knaus BJ, Grünwald NJ, Bélanger RR.

BMC Biol. 2018 Jul 26;16(1):80. doi: 10.1186/s12915-018-0549-9.

9.

Response to comments on "Evolutionary transitions between beneficial and phytopathogenic Rhodococcus challenge disease management".

Chang JH, Putnam ML, Grünwald NJ, Savory EA, Fuller SL, Weisberg AJ.

Elife. 2018 May 8;7. pii: e35852. doi: 10.7554/eLife.35852.

10.

Inferring Variation in Copy Number Using High Throughput Sequencing Data in R.

Knaus BJ, Grünwald NJ.

Front Genet. 2018 Apr 13;9:123. doi: 10.3389/fgene.2018.00123. eCollection 2018.

11.

Correction: Evolutionary transitions between beneficial and phytopathogenic Rhodococcus challenge disease management.

Savory EA, Fuller SL, Weisberg AJ, Thomas WJ, Gordon MI, Stevens DM, Creason AL, Belcher MS, Serdani M, Wiseman MS, Grünwald NJ, Putnam ML, Chang JH.

Elife. 2018 Mar 13;7. pii: e36350. doi: 10.7554/eLife.36350. No abstract available.

12.

Populations of Phytophthora rubi Show Little Differentiation and High Rates of Migration Among States in the Western United States.

Tabima JF, Coffey MD, Zazada IA, Grünwald NJ.

Mol Plant Microbe Interact. 2018 Jun;31(6):614-622. doi: 10.1094/MPMI-10-17-0258-R. Epub 2018 Apr 11.

PMID:
29451433
13.

Evolutionary transitions between beneficial and phytopathogenic Rhodococcus challenge disease management.

Savory EA, Fuller SL, Weisberg AJ, Thomas WJ, Gordon MI, Stevens DM, Creason AL, Belcher MS, Serdani M, Wiseman MS, Grünwald NJ, Putnam ML, Chang JH.

Elife. 2017 Dec 12;6. pii: e30925. doi: 10.7554/eLife.30925. Erratum in: Elife. 2018 Mar 13;7:.

14.

Whole Genome Sequences of the Raspberry and Strawberry Pathogens Phytophthora rubi and P. fragariae.

Tabima JF, Kronmiller BA, Press CM, Tyler BM, Zasada IA, Grünwald NJ.

Mol Plant Microbe Interact. 2017 Oct;30(10):767-769. doi: 10.1094/MPMI-04-17-0081-A. Epub 2017 Aug 22.

15.

Best Practices for Population Genetic Analyses.

Grünwald NJ, Everhart SE, Knaus BJ, Kamvar ZN.

Phytopathology. 2017 Sep;107(9):1000-1010. doi: 10.1094/PHYTO-12-16-0425-RVW. Epub 2017 Jul 27.

16.

Development and Validation of Polymorphic Microsatellite Loci for the NA2 Lineage of Phytophthora ramorum from Whole Genome Sequence Data.

Gagnon MC, Feau N, Dale AL, Dhillon B, Hamelin RC, Brasier CM, Grünwald NJ, Brière SC, Bilodeau GJ.

Plant Dis. 2017 May;101(5):666-673. doi: 10.1094/PDIS-11-16-1586-RE. Epub 2017 Mar 16.

PMID:
30678572
17.

Metacoder: An R package for visualization and manipulation of community taxonomic diversity data.

Foster ZS, Sharpton TJ, Grünwald NJ.

PLoS Comput Biol. 2017 Feb 21;13(2):e1005404. doi: 10.1371/journal.pcbi.1005404. eCollection 2017 Feb.

18.

High levels of diversity and population structure in the potato late blight pathogen at the Mexico centre of origin.

Wang J, Fernández-Pavía SP, Larsen MM, Garay-Serrano E, Gregorio-Cipriano R, Rodríguez-Alvarado G, Grünwald NJ, Goss EM.

Mol Ecol. 2017 Feb;26(4):1091-1107. doi: 10.1111/mec.14000. Epub 2017 Feb 4.

PMID:
28035737
19.

Towards an integrated ecosystem of R packages for the analysis of population genetic data.

Paradis E, Gosselin T, Grünwald NJ, Jombart T, Manel S, Lapp H.

Mol Ecol Resour. 2017 Jan;17(1):1-4. doi: 10.1111/1755-0998.12636. No abstract available.

PMID:
27860406
20.

Genetic Variation within Clonal Lineages of Phytophthora infestans Revealed through Genotyping-By-Sequencing, and Implications for Late Blight Epidemiology.

Hansen ZR, Everts KL, Fry WE, Gevens AJ, Grünwald NJ, Gugino BK, Johnson DA, Johnson SB, Judelson HS, Knaus BJ, McGrath MT, Myers KL, Ristaino JB, Roberts PD, Secor GA, Smart CD.

PLoS One. 2016 Nov 3;11(11):e0165690. doi: 10.1371/journal.pone.0165690. eCollection 2016.

21.

Microbe-ID: an open source toolbox for microbial genotyping and species identification.

Tabima JF, Everhart SE, Larsen MM, Weisberg AJ, Kamvar ZN, Tancos MA, Smart CD, Chang JH, Grünwald NJ.

PeerJ. 2016 Aug 18;4:e2279. doi: 10.7717/peerj.2279. eCollection 2016.

22.

Gall-ID: tools for genotyping gall-causing phytopathogenic bacteria.

Davis Ii EW, Weisberg AJ, Tabima JF, Grunwald NJ, Chang JH.

PeerJ. 2016 Jul 19;4:e2222. doi: 10.7717/peerj.2222. eCollection 2016.

23.

vcfr: a package to manipulate and visualize variant call format data in R.

Knaus BJ, Grünwald NJ.

Mol Ecol Resour. 2017 Jan;17(1):44-53. doi: 10.1111/1755-0998.12549. Epub 2016 Jul 12.

PMID:
27401132
24.

SNP-Based Differentiation of Phytophthora infestans Clonal Lineages Using Locked Nucleic Acid Probes and High-Resolution Melt Analysis.

Hansen ZR, Knaus BJ, Tabima JF, Press CM, Judelson HS, Grünwald NJ, Smart CD.

Plant Dis. 2016 Jul;100(7):1297-1306. doi: 10.1094/PDIS-11-15-1247-RE. Epub 2016 Mar 10.

PMID:
30686206
26.

Developing educational resources for population genetics in R: an open and collaborative approach.

Kamvar ZN, López-Uribe MM, Coughlan S, Grünwald NJ, Lapp H, Manel S.

Mol Ecol Resour. 2017 Jan;17(1):120-128. doi: 10.1111/1755-0998.12558. Epub 2016 Jul 12.

PMID:
27297607
27.

Population Genomics of Fungal and Oomycete Pathogens.

Grünwald NJ, McDonald BA, Milgroom MG.

Annu Rev Phytopathol. 2016 Aug 4;54:323-46. doi: 10.1146/annurev-phyto-080614-115913. Epub 2016 Jan 8. Review.

PMID:
27296138
28.

Host-induced aneuploidy and phenotypic diversification in the Sudden Oak Death pathogen Phytophthora ramorum.

Kasuga T, Bui M, Bernhardt E, Swiecki T, Aram K, Cano LM, Webber J, Brasier C, Press C, Grünwald NJ, Rizzo DM, Garbelotto M.

BMC Genomics. 2016 May 20;17:385. doi: 10.1186/s12864-016-2717-z.

29.

Genetic Analysis of Phytophthora nicotianae Populations from Different Hosts Using Microsatellite Markers.

Biasi A, Martin FN, Cacciola SO, di San Lio GM, Grünwald NJ, Schena L.

Phytopathology. 2016 Sep;106(9):1006-14. doi: 10.1094/PHYTO-11-15-0299-R. Epub 2016 Jun 23.

30.

Diverse Evolutionary Trajectories for Small RNA Biogenesis Genes in the Oomycete Genus Phytophthora.

Bollmann SR, Fang Y, Press CM, Tyler BM, Grünwald NJ.

Front Plant Sci. 2016 Mar 15;7:284. doi: 10.3389/fpls.2016.00284. eCollection 2016.

31.

Loop-mediated isothermal amplification for detection of the tomato and potato late blight pathogen, Phytophthora infestans.

Hansen ZR, Knaus BJ, Tabima JF, Press CM, Judelson HS, Grünwald NJ, Smart CD.

J Appl Microbiol. 2016 Apr;120(4):1010-20. doi: 10.1111/jam.13079. Epub 2016 Mar 7.

PMID:
26820117
32.

Diversity of Foliar Phytophthora Species on Rhododendron in Oregon Nurseries.

Knaus BJ, Fieland VJ, Graham KA, Grünwald NJ.

Plant Dis. 2015 Oct;99(10):1326-1332. doi: 10.1094/PDIS-09-14-0964-RE. Epub 2015 Aug 11.

PMID:
30690987
33.

Novel R tools for analysis of genome-wide population genetic data with emphasis on clonality.

Kamvar ZN, Brooks JC, Grünwald NJ.

Front Genet. 2015 Jun 10;6:208. doi: 10.3389/fgene.2015.00208. eCollection 2015.

34.

Spatial and Temporal Analysis of Populations of the Sudden Oak Death Pathogen in Oregon Forests.

Kamvar ZN, Larsen MM, Kanaskie AM, Hansen EM, Grünwald NJ.

Phytopathology. 2015 Jul;105(7):982-9. doi: 10.1094/PHYTO-12-14-0350-FI. Epub 2015 Jun 12.

35.

Fungicide Sensitivity of U.S. Genotypes of Phytophthora infestans to Six Oomycete-Targeted Compounds.

Saville A, Graham K, Grünwald NJ, Myers K, Fry WE, Ristaino JB.

Plant Dis. 2015 May;99(5):659-666. doi: 10.1094/PDIS-05-14-0452-RE.

PMID:
30699679
36.

Five Reasons to Consider Phytophthora infestans a Reemerging Pathogen.

Fry WE, Birch PR, Judelson HS, Grünwald NJ, Danies G, Everts KL, Gevens AJ, Gugino BK, Johnson DA, Johnson SB, McGrath MT, Myers KL, Ristaino JB, Roberts PD, Secor G, Smart CD.

Phytopathology. 2015 Jul;105(7):966-81. doi: 10.1094/PHYTO-01-15-0005-FI. Epub 2015 Jun 26. Review.

37.

Population Structure of Pythium irregulare, P. ultimum, and P. sylvaticum in Forest Nursery Soils of Oregon and Washington.

Weiland JE, Garrido P, Kamvar ZN, Espíndola AS, Marek SM, Grünwald NJ, Garzón CD.

Phytopathology. 2015 May;105(5):684-94. doi: 10.1094/PHYTO-05-14-0147-R.

38.

An ephemeral sexual population of Phytophthora infestans in the Northeastern United States and Canada.

Danies G, Myers K, Mideros MF, Restrepo S, Martin FN, Cooke DE, Smart CD, Ristaino JB, Seaman AJ, Gugino BK, Grünwald NJ, Fry WE.

PLoS One. 2014 Dec 31;9(12):e116354. doi: 10.1371/journal.pone.0116354. eCollection 2014.

39.

Lineage, Temperature, and Host Species have Interacting Effects on Lesion Development in Phytophthora ramorum.

Eyre CA, Hayden KJ, Kozanitas M, Grünwald NJ, Garbelotto M.

Plant Dis. 2014 Dec;98(12):1717-1727. doi: 10.1094/PDIS-02-14-0151-RE.

PMID:
30703894
40.

Pathogenicity, Fungicide Resistance, and Genetic Variability of Phytophthora rubi Isolates from Raspberry (Rubus idaeus) in the Western United States.

Stewart JE, Kroese D, Tabima JF, Larsen MM, Fieland VJ, Press CM, Zasada IA, Grünwald NJ.

Plant Dis. 2014 Dec;98(12):1702-1708. doi: 10.1094/PDIS-11-13-1130-RE.

PMID:
30703886
41.

The Top 10 oomycete pathogens in molecular plant pathology.

Kamoun S, Furzer O, Jones JD, Judelson HS, Ali GS, Dalio RJ, Roy SG, Schena L, Zambounis A, Panabières F, Cahill D, Ruocco M, Figueiredo A, Chen XR, Hulvey J, Stam R, Lamour K, Gijzen M, Tyler BM, Grünwald NJ, Mukhtar MS, Tomé DF, Tör M, Van Den Ackerveken G, McDowell J, Daayf F, Fry WE, Lindqvist-Kreuze H, Meijer HJ, Petre B, Ristaino J, Yoshida K, Birch PR, Govers F.

Mol Plant Pathol. 2015 May;16(4):413-34. doi: 10.1111/mpp.12190. Epub 2014 Dec 11. Review.

PMID:
25178392
42.

Sensitivity of Pythium irregulare, P. sylvaticum, and P. ultimum from Forest Nurseries to Mefenoxam and Fosetyl-Al, and Control of Pythium Damping-off.

Weiland JE, Santamaria L, Grünwald NJ.

Plant Dis. 2014 Jul;98(7):937-942. doi: 10.1094/PDIS-09-13-0998-RE.

PMID:
30708838
43.

Speciation in fungal and oomycete plant pathogens.

Restrepo S, Tabima JF, Mideros MF, Grünwald NJ, Matute DR.

Annu Rev Phytopathol. 2014;52:289-316. doi: 10.1146/annurev-phyto-102313-050056. Epub 2014 May 30. Review.

PMID:
24906125
44.

The Irish potato famine pathogen Phytophthora infestans originated in central Mexico rather than the Andes.

Goss EM, Tabima JF, Cooke DE, Restrepo S, Fry WE, Forbes GA, Fieland VJ, Cardenas M, Grünwald NJ.

Proc Natl Acad Sci U S A. 2014 Jun 17;111(24):8791-6. doi: 10.1073/pnas.1401884111. Epub 2014 Jun 2.

45.

Fungal Planet description sheets: 154-213.

Crous PW, Wingfield MJ, Guarro J, Cheewangkoon R, van der Bank M, Swart WJ, Stchigel AM, Cano-Lira JF, Roux J, Madrid H, Damm U, Wood AR, Shuttleworth LA, Hodges CS, Munster M, de Jesús Yáñez-Morales M, Zúñiga-Estrada L, Cruywagen EM, de Hoog GS, Silvera C, Najafzadeh J, Davison EM, Davison PJ, Barrett MD, Barrett RL, Manamgoda DS, Minnis AM, Kleczewski NM, Flory SL, Castlebury LA, Clay K, Hyde KD, Maússe-Sitoe SN, Chen S, Lechat C, Hairaud M, Lesage-Meessen L, Pawłowska J, Wilk M, Sliwińska-Wyrzychowska A, Mętrak M, Wrzosek M, Pavlic-Zupanc D, Maleme HM, Slippers B, Mac Cormack WP, Archuby DI, Grünwald NJ, Tellería MT, Dueñas M, Martín MP, Marincowitz S, de Beer ZW, Perez CA, Gené J, Marin-Felix Y, Groenewald JZ.

Persoonia. 2013 Dec;31:188-296. doi: 10.3767/003158513X675925. Epub 2013 Nov 26.

46.

Phytophthora community structure analyses in Oregon nurseries inform systems approaches to disease management.

Parke JL, Knaus BJ, Fieland VJ, Lewis C, Grünwald NJ.

Phytopathology. 2014 Oct;104(10):1052-62. doi: 10.1094/PHYTO-01-14-0014-R.

47.

Evolution of an Experimental Population of Phytophthora capsici in the Field.

Dunn AR, Bruening SR, Grünwald NJ, Smart CD.

Phytopathology. 2014 Oct;104(10):1107-17. doi: 10.1094/PHYTO-12-13-0346-R.

48.

Poppr: an R package for genetic analysis of populations with clonal, partially clonal, and/or sexual reproduction.

Kamvar ZN, Tabima JF, Grünwald NJ.

PeerJ. 2014 Mar 4;2:e281. doi: 10.7717/peerj.281. eCollection 2014.

49.

Population history and pathways of spread of the plant pathogen Phytophthora plurivora.

Schoebel CN, Stewart J, Grünwald NJ, Rigling D, Prospero S.

PLoS One. 2014 Jan 10;9(1):e85368. doi: 10.1371/journal.pone.0085368. eCollection 2014. Erratum in: PLoS One. 2014;9(8):e105259. Gruenwald, Niklaus J [corrected to Grünwald, Niklaus J].

50.

Evolution of RXLR-class effectors in the oomycete plant pathogen Phytophthora ramorum.

Goss EM, Press CM, Grünwald NJ.

PLoS One. 2013 Nov 7;8(11):e79347. doi: 10.1371/journal.pone.0079347. eCollection 2013.

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