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Items: 30

1.

Draft Genome Sequences of Three Strains of a Novel Rhizobiales Species Isolated from Forest Soil.

Pold G, Huntemann M, Pillay M, Mikhailova N, Stamatis D, Reddy TBK, Daum C, Shapiro N, Kyrpides N, Woyke T, DeAngelis KM.

Genome Announc. 2018 Feb 1;6(5). pii: e01452-17. doi: 10.1128/genomeA.01452-17.

2.

Genome Sequence of Verrucomicrobium sp. Strain GAS474, a Novel Bacterium Isolated from Soil.

Pold G, Conlon EM, Huntemann M, Pillay M, Mikhailova N, Stamatis D, Reddy TBK, Daum C, Shapiro N, Kyrpides N, Woyke T, DeAngelis KM.

Genome Announc. 2018 Jan 25;6(4). pii: e01451-17. doi: 10.1128/genomeA.01451-17.

3.

Multi-time series RNA-seq analysis of Enterobacter lignolyticus SCF1 during growth in lignin-amended medium.

Orellana R, Chaput G, Markillie LM, Mitchell H, Gaffrey M, Orr G, DeAngelis KM.

PLoS One. 2017 Oct 19;12(10):e0186440. doi: 10.1371/journal.pone.0186440. eCollection 2017.

4.

Long-term pattern and magnitude of soil carbon feedback to the climate system in a warming world.

Melillo JM, Frey SD, DeAngelis KM, Werner WJ, Bernard MJ, Bowles FP, Pold G, Knorr MA, Grandy AS.

Science. 2017 Oct 6;358(6359):101-105. doi: 10.1126/science.aan2874.

PMID:
28983050
5.

Ecological Insights into the Dynamics of Plant Biomass-Degrading Microbial Consortia.

Jiménez DJ, Dini-Andreote F, DeAngelis KM, Singer SW, Salles JF, van Elsas JD.

Trends Microbiol. 2017 Oct;25(10):788-796. doi: 10.1016/j.tim.2017.05.012. Epub 2017 Jun 22. Review.

PMID:
28648267
6.

High-Quality Draft Genome Sequences of Four Lignocellulose-Degrading Bacteria Isolated from Puerto Rican Forest Soil: Gordonia sp., Paenibacillus sp., Variovorax sp., and Vogesella sp.

Woo HL, DeAngelis KM, Teshima H, Davenport K, Daligault H, Erkkila T, Goodwin L, Gu W, Lo CC, Munk C, Scholz M, Xu Y, Chain P, Bruce D, Detter C, Tapia R, Han C, Simmons BA, Hazen TC.

Genome Announc. 2017 May 4;5(18). pii: e00300-17. doi: 10.1128/genomeA.00300-17.

7.

Long-Term Warming Alters Carbohydrate Degradation Potential in Temperate Forest Soils.

Pold G, Billings AF, Blanchard JL, Burkhardt DB, Frey SD, Melillo JM, Schnabel J, van Diepen LT, DeAngelis KM.

Appl Environ Microbiol. 2016 Oct 27;82(22):6518-6530. Print 2016 Nov 15.

8.

Genome sequence and description of the anaerobic lignin-degrading bacterium Tolumonas lignolytica sp. nov.

Billings AF, Fortney JL, Hazen TC, Simmons B, Davenport KW, Goodwin L, Ivanova N, Kyrpides NC, Mavromatis K, Woyke T, DeAngelis KM.

Stand Genomic Sci. 2015 Nov 19;10:106. doi: 10.1186/s40793-015-0100-3. eCollection 2015.

9.

Two decades of warming increases diversity of a potentially lignolytic bacterial community.

Pold G, Melillo JM, DeAngelis KM.

Front Microbiol. 2015 May 20;6:480. doi: 10.3389/fmicb.2015.00480. eCollection 2015.

10.

Long-term forest soil warming alters microbial communities in temperate forest soils.

DeAngelis KM, Pold G, Topçuoğlu BD, van Diepen LT, Varney RM, Blanchard JL, Melillo J, Frey SD.

Front Microbiol. 2015 Feb 13;6:104. doi: 10.3389/fmicb.2015.00104. eCollection 2015.

11.

Complete genome sequence of the lignin-degrading bacterium Klebsiella sp. strain BRL6-2.

Woo HL, Ballor NR, Hazen TC, Fortney JL, Simmons B, Davenport KW, Goodwin L, Ivanova N, Kyrpides NC, Mavromatis K, Woyke T, Jansson J, Kimbrel J, DeAngelis KM.

Stand Genomic Sci. 2014 Dec 8;9:19. doi: 10.1186/1944-3277-9-19. eCollection 2014.

12.

Draft Genome Sequence of the Lignin-Degrading Burkholderia sp. Strain LIG30, Isolated from Wet Tropical Forest Soil.

Woo HL, Utturkar S, Klingeman D, Simmons BA, DeAngelis KM, Brown SD, Hazen TC.

Genome Announc. 2014 Jun 19;2(3). pii: e00637-14. doi: 10.1128/genomeA.00637-14.

13.

Enzyme activities of aerobic lignocellulolytic bacteria isolated from wet tropical forest soils.

Woo HL, Hazen TC, Simmons BA, DeAngelis KM.

Syst Appl Microbiol. 2014 Feb;37(1):60-7. doi: 10.1016/j.syapm.2013.10.001. Epub 2013 Nov 14.

14.

Evidence supporting dissimilatory and assimilatory lignin degradation in Enterobacter lignolyticus SCF1.

Deangelis KM, Sharma D, Varney R, Simmons B, Isern NG, Markilllie LM, Nicora C, Norbeck AD, Taylor RC, Aldrich JT, Robinson EW.

Front Microbiol. 2013 Sep 19;4:280. doi: 10.3389/fmicb.2013.00280. eCollection 2013.

15.

Metagenomes of tropical soil-derived anaerobic switchgrass-adapted consortia with and without iron.

Deangelis KM, D'Haeseleer P, Chivian D, Simmons B, Arkin AP, Mavromatis K, Malfatti S, Tringe S, Hazen TC.

Stand Genomic Sci. 2013 Feb 25;7(3):382-98. doi: 10.4056/sigs.3377516. eCollection 2013.

16.

Global transcriptome response to ionic liquid by a tropical rain forest soil bacterium, Enterobacter lignolyticus.

Khudyakov JI, D'haeseleer P, Borglin SE, Deangelis KM, Woo H, Lindquist EA, Hazen TC, Simmons BA, Thelen MP.

Proc Natl Acad Sci U S A. 2012 Aug 7;109(32):E2173-82. doi: 10.1073/pnas.1112750109. Epub 2012 May 14.

17.

Anaerobic decomposition of switchgrass by tropical soil-derived feedstock-adapted consortia.

DeAngelis KM, Fortney JL, Borglin S, Silver WL, Simmons BA, Hazen TC.

MBio. 2012 Feb 21;3(1). pii: e00249-11. doi: 10.1128/mBio.00249-11. Print 2012.

18.

Phylogenetic clustering of soil microbial communities by 16S rRNA but not 16S rRNA genes.

DeAngelis KM, Firestone MK.

Appl Environ Microbiol. 2012 Apr;78(7):2459-61. doi: 10.1128/AEM.07547-11. Epub 2012 Jan 27.

19.

Application of phenotypic microarrays to environmental microbiology.

Borglin S, Joyner D, DeAngelis KM, Khudyakov J, D'haeseleer P, Joachimiak MP, Hazen T.

Curr Opin Biotechnol. 2012 Feb;23(1):41-8. doi: 10.1016/j.copbio.2011.12.006. Epub 2012 Jan 2. Review.

20.

Complete genome sequence of "Enterobacter lignolyticus" SCF1.

Deangelis KM, D'Haeseleer P, Chivian D, Fortney JL, Khudyakov J, Simmons B, Woo H, Arkin AP, Davenport KW, Goodwin L, Chen A, Ivanova N, Kyrpides NC, Mavromatis K, Woyke T, Hazen TC.

Stand Genomic Sci. 2011 Oct 15;5(1):69-85. doi: 10.4056/sigs.2104875. Epub 2011 Sep 23.

21.

Metagenomic analysis of a permafrost microbial community reveals a rapid response to thaw.

Mackelprang R, Waldrop MP, DeAngelis KM, David MM, Chavarria KL, Blazewicz SJ, Rubin EM, Jansson JK.

Nature. 2011 Nov 6;480(7377):368-71. doi: 10.1038/nature10576.

PMID:
22056985
22.

PCR amplification-independent methods for detection of microbial communities by the high-density microarray PhyloChip.

DeAngelis KM, Wu CH, Beller HR, Brodie EL, Chakraborty R, DeSantis TZ, Fortney JL, Hazen TC, Osman SR, Singer ME, Tom LM, Andersen GL.

Appl Environ Microbiol. 2011 Sep;77(18):6313-22. doi: 10.1128/AEM.05262-11. Epub 2011 Jul 15.

23.

Effects of selected root exudate components on soil bacterial communities.

Shi S, Richardson AE, O'Callaghan M, DeAngelis KM, Jones EE, Stewart A, Firestone MK, Condron LM.

FEMS Microbiol Ecol. 2011 Sep;77(3):600-10. doi: 10.1111/j.1574-6941.2011.01150.x. Epub 2011 Jul 13.

24.

Characterization of trapped lignin-degrading microbes in tropical forest soil.

DeAngelis KM, Allgaier M, Chavarria Y, Fortney JL, Hugenholtz P, Simmons B, Sublette K, Silver WL, Hazen TC.

PLoS One. 2011 Apr 29;6(4):e19306. doi: 10.1371/journal.pone.0019306.

25.

Microbial communities acclimate to recurring changes in soil redox potential status.

DeAngelis KM, Silver WL, Thompson AW, Firestone MK.

Environ Microbiol. 2010 Dec;12(12):3137-49. doi: 10.1111/j.1462-2920.2010.02286.x.

PMID:
20629704
26.

Bacterial diversity analysis of Huanglongbing pathogen-infected citrus, using PhyloChip arrays and 16S rRNA gene clone library sequencing.

Sagaram US, DeAngelis KM, Trivedi P, Andersen GL, Lu SE, Wang N.

Appl Environ Microbiol. 2009 Mar;75(6):1566-74. doi: 10.1128/AEM.02404-08. Epub 2009 Jan 16.

27.

Selective progressive response of soil microbial community to wild oat roots.

DeAngelis KM, Brodie EL, DeSantis TZ, Andersen GL, Lindow SE, Firestone MK.

ISME J. 2009 Feb;3(2):168-78. doi: 10.1038/ismej.2008.103. Epub 2008 Nov 13.

PMID:
19005498
28.

Bacterial quorum sensing and nitrogen cycling in rhizosphere soil.

DeAngelis KM, Lindow SE, Firestone MK.

FEMS Microbiol Ecol. 2008 Nov;66(2):197-207. doi: 10.1111/j.1574-6941.2008.00550.x. Epub 2008 Aug 20.

29.

Sensitive whole-cell biosensor suitable for detecting a variety of N-acyl homoserine lactones in intact rhizosphere microbial communities.

DeAngelis KM, Firestone MK, Lindow SE.

Appl Environ Microbiol. 2007 Jun;73(11):3724-7. Epub 2007 Mar 30.

30.

Two novel bacterial biosensors for detection of nitrate availability in the rhizosphere.

DeAngelis KM, Ji P, Firestone MK, Lindow SE.

Appl Environ Microbiol. 2005 Dec;71(12):8537-47.

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