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Items: 36

1.

Distributions of Extracellular Peptidases Across Prokaryotic Genomes Reflect Phylogeny and Habitat.

Nguyen TTH, Myrold DD, Mueller RS.

Front Microbiol. 2019 Mar 5;10:413. doi: 10.3389/fmicb.2019.00413. eCollection 2019.

2.

Mineral Surfaces as Agents of Environmental Proteolysis: Mechanisms and Controls.

Chacon SS, Reardon PN, Burgess CJ, Purvine S, Chu RK, Clauss TR, Walter E, Myrold DD, Washton N, Kleber M.

Environ Sci Technol. 2019 Mar 19;53(6):3018-3026. doi: 10.1021/acs.est.8b05583. Epub 2019 Feb 28.

PMID:
30767514
3.

Nitrite-oxidizing activity responds to nitrite accumulation in soil.

Giguere AT, Taylor AE, Myrold DD, Mellbye BL, Sayavedra-Soto LA, Bottomley PJ.

FEMS Microbiol Ecol. 2018 Mar 1;94(3). doi: 10.1093/femsec/fiy008.

PMID:
29360963
4.

Modeling of soil nitrification responses to temperature reveals thermodynamic differences between ammonia-oxidizing activity of archaea and bacteria.

Taylor AE, Giguere AT, Zoebelein CM, Myrold DD, Bottomley PJ.

ISME J. 2017 Apr;11(4):896-908. doi: 10.1038/ismej.2016.179. Epub 2016 Dec 20.

5.

Back to the Future of Soil Metagenomics.

Nesme J, Achouak W, Agathos SN, Bailey M, Baldrian P, Brunel D, Frostegård Å, Heulin T, Jansson JK, Jurkevitch E, Kruus KL, Kowalchuk GA, Lagares A, Lappin-Scott HM, Lemanceau P, Le Paslier D, Mandic-Mulec I, Murrell JC, Myrold DD, Nalin R, Nannipieri P, Neufeld JD, O'Gara F, Parnell JJ, Pühler A, Pylro V, Ramos JL, Roesch LF, Schloter M, Schleper C, Sczyrba A, Sessitsch A, Sjöling S, Sørensen J, Sørensen SJ, Tebbe CC, Topp E, Tsiamis G, van Elsas JD, van Keulen G, Widmer F, Wagner M, Zhang T, Zhang X, Zhao L, Zhu YG, Vogel TM, Simonet P.

Front Microbiol. 2016 Feb 10;7:73. doi: 10.3389/fmicb.2016.00073. eCollection 2016. No abstract available.

6.

Inhibitory effects of C2 to C10 1-alkynes on ammonia oxidation in two Nitrososphaera species.

Taylor AE, Taylor K, Tennigkeit B, Palatinszky M, Stieglmeier M, Myrold DD, Schleper C, Wagner M, Bottomley PJ.

Appl Environ Microbiol. 2015 Mar;81(6):1942-8. doi: 10.1128/AEM.03688-14. Epub 2015 Jan 9.

7.

FOAM (Functional Ontology Assignments for Metagenomes): a Hidden Markov Model (HMM) database with environmental focus.

Prestat E, David MM, Hultman J, Taş N, Lamendella R, Dvornik J, Mackelprang R, Myrold DD, Jumpponen A, Tringe SG, Holman E, Mavromatis K, Jansson JK.

Nucleic Acids Res. 2014 Oct 29;42(19):e145. doi: 10.1093/nar/gku702. Epub 2014 Sep 26.

8.

Ecological consequences of the expansion of N₂-fixing plants in cold biomes.

Hiltbrunner E, Aerts R, Bühlmann T, Huss-Danell K, Magnusson B, Myrold DD, Reed SC, Sigurdsson BD, Körner C.

Oecologia. 2014 Sep;176(1):11-24. doi: 10.1007/s00442-014-2991-x. Epub 2014 Jun 18. Review.

PMID:
24938834
9.

The founding charter of the Genomic Observatories Network.

Davies N, Field D, Amaral-Zettler L, Clark MS, Deck J, Drummond A, Faith DP, Geller J, Gilbert J, Glöckner FO, Hirsch PR, Leong JA, Meyer C, Obst M, Planes S, Scholin C, Vogler AP, Gates RD, Toonen R, Berteaux-Lecellier V, Barbier M, Barker K, Bertilsson S, Bicak M, Bietz MJ, Bobe J, Bodrossy L, Borja A, Coddington J, Fuhrman J, Gerdts G, Gillespie R, Goodwin K, Hanson PC, Hero JM, Hoekman D, Jansson J, Jeanthon C, Kao R, Klindworth A, Knight R, Kottmann R, Koo MS, Kotoulas G, Lowe AJ, Marteinsson VT, Meyer F, Morrison N, Myrold DD, Pafilis E, Parker S, Parnell JJ, Polymenakou PN, Ratnasingham S, Roderick GK, Rodriguez-Ezpeleta N, Schonrogge K, Simon N, Valette-Silver NJ, Springer YP, Stone GN, Stones-Havas S, Sansone SA, Thibault KM, Wecker P, Wichels A, Wooley JC, Yahara T, Zingone A; GOs-COS.

Gigascience. 2014 Mar 7;3(1):2. doi: 10.1186/2047-217X-3-2.

10.

Altered precipitation regime affects the function and composition of soil microbial communities on multiple time scales.

Zeglin LH, Bottomley PJ, Jumpponen A, Rice CW, Arango M, Lindsley A, McGowan A, Mfombep P, Myrold DD.

Ecology. 2013 Oct;94(10):2334-45.

PMID:
24358718
11.

Use of aliphatic n-alkynes to discriminate soil nitrification activities of ammonia-oxidizing thaumarchaea and bacteria.

Taylor AE, Vajrala N, Giguere AT, Gitelman AI, Arp DJ, Myrold DD, Sayavedra-Soto L, Bottomley PJ.

Appl Environ Microbiol. 2013 Nov;79(21):6544-51. doi: 10.1128/AEM.01928-13. Epub 2013 Aug 16.

12.

A consideration of the relative contributions of different microbial subpopulations to the soil N cycle.

Bottomley PJ, Taylor AE, Myrold DD.

Front Microbiol. 2012 Oct 23;3:373. doi: 10.3389/fmicb.2012.00373. eCollection 2012.

13.

Dynamics of ammonia-oxidizing archaea and bacteria populations and contributions to soil nitrification potentials.

Taylor AE, Zeglin LH, Wanzek TA, Myrold DD, Bottomley PJ.

ISME J. 2012 Nov;6(11):2024-32. doi: 10.1038/ismej.2012.51. Epub 2012 Jun 14.

14.

Bacterial and archaeal amoA gene distribution covaries with soil nitrification properties across a range of land uses.

Zeglin LH, Taylor AE, Myrold DD, Bottomley PJ.

Environ Microbiol Rep. 2011 Dec;3(6):717-26. doi: 10.1111/j.1758-2229.2011.00290.x. Epub 2011 Sep 29.

PMID:
23761362
15.

Nitrogen mineralization and assimilation at millimeter scales.

Myrold DD, Pett-Ridge J, Bottomley PJ.

Methods Enzymol. 2011;496:91-114. doi: 10.1016/B978-0-12-386489-5.00004-X. Review.

PMID:
21514461
16.

Evidence for different contributions of archaea and bacteria to the ammonia-oxidizing potential of diverse Oregon soils.

Taylor AE, Zeglin LH, Dooley S, Myrold DD, Bottomley PJ.

Appl Environ Microbiol. 2010 Dec;76(23):7691-8. doi: 10.1128/AEM.01324-10. Epub 2010 Oct 1.

17.

Recovery of ectomycorrhiza after 'nitrogen saturation' of a conifer forest.

Högberg P, Johannisson C, Yarwood S, Callesen I, Näsholm T, Myrold DD, Högberg MN.

New Phytol. 2011 Jan;189(2):515-25. doi: 10.1111/j.1469-8137.2010.03485.x. Epub 2010 Sep 29.

18.

Soil microbial communities associated with Douglas-fir and red alder stands at high- and low-productivity forest sites in Oregon, USA.

Yarwood SA, Bottomley PJ, Myrold DD.

Microb Ecol. 2010 Oct;60(3):606-17. doi: 10.1007/s00248-010-9675-9. Epub 2010 May 7.

PMID:
20449582
19.

Termination of belowground C allocation by trees alters soil fungal and bacterial communities in a boreal forest.

Yarwood SA, Myrold DD, Högberg MN.

FEMS Microbiol Ecol. 2009 Oct;70(1):151-62. doi: 10.1111/j.1574-6941.2009.00733.x. Epub 2009 Jun 25.

20.

Molecular diversity of Frankia from root nodules of Hippophae salicifolia D.Don found in Sikkim.

Khan A, Myrold DD, Misra AK.

Indian J Microbiol. 2009 Jun;49(2):196-200. doi: 10.1007/s12088-009-0025-x. Epub 2009 Apr 24.

21.

Host species and habitat affect nodulation by specific Frankia genotypes in two species of Alnus in interior Alaska.

Anderson MD, Ruess RW, Myrold DD, Taylor DL.

Oecologia. 2009 Jul;160(4):619-30. doi: 10.1007/s00442-009-1330-0. Epub 2009 Apr 8.

PMID:
19352714
22.

Community composition of ammonia-oxidizing bacteria and archaea in soils under stands of red alder and Douglas fir in Oregon.

Boyle-Yarwood SA, Bottomley PJ, Myrold DD.

Environ Microbiol. 2008 Nov;10(11):2956-65. doi: 10.1111/j.1462-2920.2008.01600.x. Epub 2008 Apr 3.

PMID:
18393992
23.

Mitigation of shallow groundwater nitrate in a poorly drained riparian area and adjacent cropland.

Davis JH, Griffith SM, Horwath WR, Steiner JJ, Myrold DD.

J Environ Qual. 2007 Apr 5;36(3):628-37. Print 2007 May-Jun.

PMID:
17412899
24.

Environmental controls on denitrifying communities and denitrification rates: insights from molecular methods.

Wallenstein MD, Myrold DD, Firestone M, Voytek M.

Ecol Appl. 2006 Dec;16(6):2143-52. Review.

PMID:
17205893
25.

Is microbial community composition in boreal forest soils determined by pH, C-to-N ratio, the trees, or all three?

Högberg MN, Högberg P, Myrold DD.

Oecologia. 2007 Jan;150(4):590-601. Epub 2006 Oct 11.

PMID:
17033802
26.

Root controls on soil microbial community structure in forest soils.

Brant JB, Myrold DD, Sulzman EW.

Oecologia. 2006 Jul;148(4):650-9. Epub 2006 Mar 18.

PMID:
16547734
27.

Contrasting patterns of soil N-cycling in model ecosystems of Fennoscandian boreal forests.

Högberg MN, Myrold DD, Giesler R, Högberg P.

Oecologia. 2006 Feb;147(1):96-107. Epub 2005 Sep 29.

PMID:
16193295
28.

Responses of nitrification and ammonia-oxidizing bacteria to reciprocal transfers of soil between adjacent coniferous forest and meadow vegetation in the Cascade Mountains of Oregon.

Bottomley PJ, Taylor AE, Boyle SA, McMahon SK, Rich JJ, Cromack K Jr, Myrold DD.

Microb Ecol. 2004 Nov;48(4):500-8. Epub 2004 Oct 28.

PMID:
15696383
29.

Microbial community dynamics associated with rhizosphere carbon flow.

Butler JL, Williams MA, Bottomley PJ, Myrold DD.

Appl Environ Microbiol. 2003 Nov;69(11):6793-800.

30.

Community composition and functioning of denitrifying bacteria from adjacent meadow and forest soils.

Rich JJ, Heichen RS, Bottomley PJ, Cromack K Jr, Myrold DD.

Appl Environ Microbiol. 2003 Oct;69(10):5974-82.

31.

Ammonia-oxidizing bacteria along meadow-to-forest transects in the Oregon Cascade Mountains.

Mintie AT, Heichen RS, Cromack K Jr, Myrold DD, Bottomley PJ.

Appl Environ Microbiol. 2003 Jun;69(6):3129-36.

32.

Exploration of inorganic C and N assimilation by soil microbes with time-of-flight secondary ion mass spectrometry.

Cliff JB, Gaspar DJ, Bottomley PJ, Myrold DD.

Appl Environ Microbiol. 2002 Aug;68(8):4067-73.

33.

Use of length heterogeneity PCR and fatty acid methyl ester profiles to characterize microbial communities in soil.

Ritchie NJ, Schutter ME, Dick RP, Myrold DD.

Appl Environ Microbiol. 2000 Apr;66(4):1668-75.

34.

Molecular phylogenies of plants and Frankia support multiple origins of actinorhizal symbioses.

Jeong SC, Ritchie NJ, Myrold DD.

Mol Phylogenet Evol. 1999 Dec;13(3):493-503.

PMID:
10620407
35.

Geographic distribution and genetic diversity of Ceanothus-infective Frankia strains.

Ritchie NJ, Myrold DD.

Appl Environ Microbiol. 1999 Apr;65(4):1378-83.

36.

Denitrification: ecological niches, competition and survival.

Tiedje JM, Sexstone AJ, Myrold DD, Robinson JA.

Antonie Van Leeuwenhoek. 1982;48(6):569-83. Review.

PMID:
6762848

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