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1

Plantâmicrobiome interactions: from community assembly to plant health

Trivedi, Pankaj, Leach, Jan E., Tringe, Susannah G., Sa, Tongmin, Singh, Brajesh K.

Journal:

Nature Reviews Microbiology

Year:

2020

File:

PDF, 2.02 MB

2020

2

Niche differentiation is spatially and temporally regulated in the rhizosphere

Nuccio, Erin E., Starr, Evan, Karaoz, Ulas, Brodie, Eoin L., Zhou, Jizhong, Tringe, Susannah G., Malmstrom, Rex R., Woyke, Tanja, Banfield, Jillian F., Firestone, Mary K., Pett-Ridge, Jennifer

Journal:

The ISME Journal

Year:

2020

Language:

english

File:

PDF, 1.97 MB

english, 2020

3

Author Correction: Plantâmicrobiome interactions: from community assembly to plant health

Trivedi, Pankaj, Leach, Jan E., Tringe, Susannah G., Sa, Tongmin, Singh, Brajesh K.

Journal:

Nature Reviews Microbiology

Year:

2020

File:

PDF, 324 KB

2020

4

Natural soil microbes alter flowering phenology and the intensity of selection on flowering time in a wild Arabidopsis relative

Wagner, Maggie R., Lundberg, Derek S., Coleman-Derr, Devin, Tringe, Susannah G., Dangl, Jeffery L., Mitchell-Olds, Thomas, Klironomos, John

Journal:

Ecology Letters

Year:

2014

Language:

english

File:

PDF, 393 KB

english, 2014

5

New Biological Insights Into How Deforestation in Amazonia Affects Soil Microbial Communities Using Metagenomics and Metagenome-Assembled Genomes

Kroeger, Marie E., Delmont, Tom O., Eren, A. M., Meyer, Kyle M., Guo, Jiarong, Khan, Kiran, Rodrigues, Jorge L. M., Bohannan, Brendan J. M., Tringe, Susannah G., Borges, Clovis D., Tiedje, James M., T

Journal:

Frontiers in Microbiology

Year:

2018

Language:

english

File:

PDF, 1.99 MB

english, 2018

6

Microbial dark matter ecogenomics reveals complex synergistic networks in a methanogenic bioreactor

Nobu, Masaru K, Narihiro, Takashi, Rinke, Christian, Kamagata, Yoichi, Tringe, Susannah G, Woyke, Tanja, Liu, Wen-Tso

Journal:

The ISME Journal

Year:

2015

Language:

english

File:

PDF, 2.86 MB

english, 2015

7

Corrigendum to Wagner et al .: Natural soil microbes alter flowering phenology and the intensity of selection on flowering time in a wild Arabidopsis relative

Wagner, Maggie R., Lundberg, Derek S., Coleman-Derr, Devin, Tringe, Susannah Green, Dangl, Jeffery L., Mitchell-Olds, Thomas

Journal:

Ecology Letters

Year:

2015

Language:

english

File:

PDF, 215 KB

english, 2015

8

Consortia of low-abundance bacteria drive sulfate reduction-dependent degradation of fermentation products in peat soil microcosms

Hausmann, Bela, Knorr, Klaus-Holger, Schreck, Katharina, Tringe, Susannah G, Glavina del Rio, Tijana, Loy, Alexander, Pester, Michael

Journal:

The ISME Journal

Year:

2016

Language:

english

File:

PDF, 1.34 MB

english, 2016

9

Impact of library preparation protocols and template quantity on the metagenomic reconstruction of a mock microbial community

Bowers, Robert M., Clum, Alicia, Tice, Hope, Lim, Joanne, Singh, Kanwar, Ciobanu, Doina, Ngan, Chew Yee, Cheng, Jan-Fang, Tringe, Susannah G., Woyke, Tanja

Journal:

Year:

2015

Language:

english

File:

PDF, 2.24 MB

english, 2015

10

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

Wagner, Maggie R., Lundberg, Derek S, del Rio, Tijana G., Tringe, Susannah G., Dangl, Jeffery L., Mitchell-Olds, Thomas

Journal:

Nature Communications

Year:

2016

Language:

english

File:

PDF, 2.55 MB

english, 2016

11

The tale of a neglected energy source: Elevated hydrogen exposure affects both microbial diversity and function in soil.

Khdhiri, Mondher, Piché-Choquette, Sarah, Tremblay, Julien, Tringe, Susannah G., Constant, Philippe

Journal:

Applied and Environmental Microbiology

Year:

2017

Language:

english

File:

PDF, 892 KB

english, 2017

12

The rhizosphere microbiome of burned holm-oak: potential role of the genus Arthrobacter in the recovery of burned soils

Fernández-González, Antonio J., Martínez-Hidalgo, Pilar, Cobo-Díaz, José F., Villadas, Pablo J., Martínez-Molina, Eustoquio, Toro, Nicolás, Tringe, Susannah G., Fernández-López, Manuel

Journal:

Scientific Reports

Year:

2017

Language:

english

File:

PDF, 1.90 MB

english, 2017

13

Landscape topography structures the soil microbiome in arctic polygonal tundra

Taş, Neslihan, Prestat, Emmanuel, Wang, Shi, Wu, Yuxin, Ulrich, Craig, Kneafsey, Timothy, Tringe, Susannah G., Torn, Margaret S., Hubbard, Susan S., Jansson, Janet K.

Journal:

Nature Communications

Year:

2018

Language:

english

File:

PDF, 1.82 MB

english, 2018

14

Assembly and Succession of Iron Oxide Microbial Mat Communities in Acidic Geothermal Springs

Beam, Jacob P., Bernstein, Hans C., Jay, Zackary J., Kozubal, Mark A., Jennings, Ryan deM., Tringe, Susannah G., Inskeep, William P.

Journal:

Frontiers in Microbiology

Year:

2016

Language:

english

File:

PDF, 5.93 MB

english, 2016

15

Microbial Community Structure and Functional Potential in Cultivated and Native Tallgrass Prairie Soils of the Midwestern United States

Mackelprang, Rachel, Grube, Alyssa M., Lamendella, Regina, Jesus, Ederson da C., Copeland, Alex, Liang, Chao, Jackson, Randall D., Rice, Charles W., Kapucija, Stefanie, Parsa, Bayan, Tringe, Susannah

Journal:

Frontiers in Microbiology

Year:

2018

Language:

english

File:

PDF, 4.71 MB

english, 2018

16

Deforestation Impacts Network Co-occurrence Patterns of Microbial Communities in Amazon Soils

Khan, M A Wadud, Bohannan, Brendan J M, Nüsslein, Klaus, Tiedje, James M, Tringe, Susannah G, Parlade, Eloi, Barberán, Albert, Rodrigues, Jorge L M

Journal:

FEMS Microbiology Ecology

Year:

2018

Language:

english

File:

PDF, 1.30 MB

english, 2018

17

Marginal Zinc Deficiency and Environmentally Relevant Concentrations of Arsenic Elicit Combined Effects on the Gut Microbiome

Gaulke, Christopher A., Rolshoven, John, Wong, Carmen P., Hudson, Laurie G., Ho, Emily, Sharpton, Thomas J., Tringe, Susannah Green

Journal:

Year:

2018

Language:

english

File:

PDF, 753 KB

english, 2018

18

A layered defense against plant pathogens

Tringe, Susannah G.

Journal:

Year:

2019

Language:

english

File:

PDF, 518 KB

english, 2019

19

Emerging Trends in Biological Treatment of Wastewater From Unconventional Oil and Gas Extraction

Acharya, Shwetha M., Chakraborty, Romy, Tringe, Susannah G.

Journal:

Frontiers in Microbiology

Year:

2020

File:

PDF, 869 KB

2020

20

Structure and dynamics of the microbial communities underlying the carboxylate platform for biofuel production

Emily B. Hollister, Andrea K. Forrest, Heather H. Wilkinson, Daniel J. Ebbole, Stephanie A. Malfatti, Susannah G. Tringe, Mark T. Holtzapple, Terry J. Gentry

Journal:

Applied Microbiology and Biotechnology

Year:

2010

Language:

english

File:

PDF, 400 KB

english, 2010

21

A call for standardized classification of metagenome projects

Natalia Ivanova, Susannah G. Tringe, Konstantinos Liolios, Wen-Tso Liu, Norman Morrison, Philip Hugenholtz, Nikos C. Kyrpides

Journal:

Environmental Microbiology

Year:

2010

Language:

english

File:

PDF, 293 KB

english, 2010

22

Phage–bacteria relationships and CRISPR elements revealed by a metagenomic survey of the rumen microbiome

Margret E. Berg Miller, Carl J. Yeoman, Nicholas Chia, Susannah G. Tringe, Florent E. Angly, Robert A. Edwards, Harry J. Flint, Raphael Lamed, Edward A. Bayer, Bryan A. White

Journal:

Environmental Microbiology

Year:

2012

Language:

english

File:

PDF, 1.95 MB

english, 2012

23

Metagenomic insights into evolution of a heavy metal-contaminated groundwater microbial community

Hemme, Christopher L, Deng, Ye, Gentry, Terry J, Fields, Matthew W, Wu, Liyou, Barua, Soumitra, Barry, Kerrie, Tringe, Susannah G, Watson, David B, He, Zhili

Journal:

The ISME Journal

Year:

2010

Language:

english

File:

PDF, 1.08 MB

english, 2010

24

Multiple syntrophic interactions in a terephthalate-degrading methanogenic consortium

Lykidis, Athanasios, Chen, Chia-Lung, Tringe, Susannah G, McHardy, Alice C, Copeland, Alex, Kyrpides, Nikos C, Hugenholtz, Philip, Macarie, Hervé, Olmos, Alejandro, Monroy, Oscar

Journal:

The ISME Journal

Year:

2010

Language:

english

File:

PDF, 947 KB

english, 2010

25

Validation of two ribosomal RNA removal methods for microbial metatranscriptomics

He, Shaomei, Wurtzel, Omri, Singh, Kanwar, Froula, Jeff L, Yilmaz, Suzan, Tringe, Susannah G, Wang, Zhong, Chen, Feng, Lindquist, Erika A, Sorek, Rotem

Journal:

Year:

2010

Language:

english

File:

PDF, 6.57 MB

english, 2010

26

Metagenomics: DNA sequencing of environmental samples

Tringe, Susannah Green, Rubin, Edward M.

Journal:

Nature Reviews Genetics

Year:

2005

Language:

english

File:

PDF, 448 KB

english, 2005

27

Metagenomic and metaproteomic insights into bacterial communities in leaf-cutter ant fungus gardens

Aylward, Frank O, Burnum, Kristin E, Scott, Jarrod J, Suen, Garret, Tringe, Susannah G, Adams, Sandra M, Barry, Kerrie W, Nicora, Carrie D, Piehowski, Paul D, Purvine, Samuel O, Starrett, Gabriel J, G

Journal:

The ISME Journal

Year:

2012

Language:

english

File:

PDF, 4.66 MB

english, 2012

28

Deep-sea bacteria enriched by oil and dispersant from the Deepwater Horizon spill

Jacob Bælum, Sharon Borglin, Romy Chakraborty, Julian L. Fortney, Regina Lamendella, Olivia U. Mason, Manfred Auer, Marcin Zemla, Markus Bill, Mark E. Conrad, Stephanie A. Malfatti, Susannah G. Tringe

Journal:

Environmental Microbiology

Year:

2012

Language:

english

File:

PDF, 2.39 MB

english, 2012

29

A renaissance for the pioneering 16S rRNA gene

Susannah G Tringe, Philip Hugenholtz

Journal:

Current Opinion in Microbiology

Year:

2008

Language:

english

File:

PDF, 251 KB

english, 2008

30

Comparative analyses of foregut and hindgut bacterial communities in hoatzins and cows

Godoy-Vitorino, Filipa, Goldfarb, Katherine C, Karaoz, Ulas, Leal, Sara, Garcia-Amado, Maria A, Hugenholtz, Philip, Tringe, Susannah G, Brodie, Eoin L, Dominguez-Bello, Maria Gloria

Journal:

The ISME Journal

Year:

2012

Language:

english

File:

PDF, 761 KB

english, 2012

31

Global distribution of a wild alga revealed by targeted metagenomics

Alexandra Z. Worden, Jan Janouskovec, Darcy McRose, Augustin Engman, Rory M. Welsh, Stephanie Malfatti, Susannah G. Tringe, Patrick J. Keeling

Journal:

Current Biology

Year:

2012

Language:

english

File:

PDF, 505 KB

english, 2012

32

Geoarchaeota: a new candidate phylum in the Archaea from high-temperature acidic iron mats in Yellowstone National Park

Kozubal, Mark A, Romine, Margaret, Jennings, Ryan deM, Jay, Zack J, Tringe, Susannah G, Rusch, Doug B, Beam, Jacob P, McCue, Lee Ann, Inskeep, William P

Journal:

The ISME Journal

Year:

2013

Language:

english

File:

PDF, 2.77 MB

english, 2013

33

Bioprospecting metagenomics of decaying wood: mining for new glycoside hydrolases

Luen-Luen Li, Safiyh Taghavi, Sean M McCorkle, Yian-Biao Zhang, Michael G Blewitt, Roman Brunecky, William S Adney, Michael E Himmel, Phillip Brumm, Colleen Drinkwater, David A Mead, Susannah G Tringe

Journal:

Biotechnology for Biofuels

Year:

2011

Language:

english

File:

PDF, 532 KB

english, 2011

34

Metagenomic analysis of a stable trichloroethene-degrading microbial community

Brisson, Vanessa L, West, Kimberlee A, Lee, Patrick KH, Tringe, Susannah G, Brodie, Eoin L, Alvarez-Cohen, Lisa

Journal:

The ISME Journal

Year:

2012

Language:

english

File:

PDF, 559 KB

english, 2012

35

Community-wide plasmid gene mobilization and selection

Sentchilo, Vladimir, Mayer, Antonia P, Guy, Lionel, Miyazaki, Ryo, Green Tringe, Susannah, Barry, Kerrie, Malfatti, Stephanie, Goessmann, Alexander, Robinson-Rechavi, Marc, van der Meer, Jan R

Journal:

The ISME Journal

Year:

2013

Language:

english

File:

PDF, 3.36 MB

english, 2013

36

Single-cell and metagenomic analyses indicate a fermentative and saccharolytic lifestyle for members of the OP9 lineage

Dodsworth, Jeremy A., Blainey, Paul C., Murugapiran, Senthil K., Swingley, Wesley D., Ross, Christian A., Tringe, Susannah G., Chain, Patrick S. G., Scholz, Matthew B., Lo, Chien-Chi, Raymond, Jason,

Journal:

Nature Communications

Year:

2013

Language:

english

File:

PDF, 1.15 MB

english, 2013

37

Differences in sequencing technologies improve the retrieval of anammox bacterial genome from metagenomes

Gori, Fabio, Tringe, Susannah G, Folino, Gianluigi, van Hijum, Sacha AFT, Op den Camp, Huub JM, Jetten, Mike SM, Marchiori, Elena

Journal:

Year:

2013

Language:

english

File:

PDF, 1.04 MB

english, 2013

38

Enriching for direct regulatory targets in perturbed gene-expression profiles

Susannah G Tringe, Andreas Wagner, Stephanie W Ruby

Journal:

Year:

2004

Language:

english

File:

PDF, 386 KB

english, 2004

39

Extraordinary phylogenetic diversity and metabolic versatility in aquifer sediment

Castelle, Cindy J., Hug, Laura A., Wrighton, Kelly C., Thomas, Brian C., Williams, Kenneth H., Wu, Dongying, Tringe, Susannah G., Singer, Steven W., Eisen, Jonathan A., Banfield, Jillian F.

Journal:

Nature Communications

Year:

2013

Language:

english

File:

PDF, 943 KB

english, 2013

40

Comparative genomics of two ‘Candidatus Accumulibacter’ clades performing biological phosphorus removal

Flowers, Jason J, He, Shaomei, Malfatti, Stephanie, del Rio, Tijana Glavina, Tringe, Susannah G, Hugenholtz, Philip, McMahon, Katherine D

Journal:

The ISME Journal

Year:

2013

Language:

english

File:

PDF, 1013 KB

english, 2013

41

Community genomic analyses constrain the distribution of metabolic traits across the Chloroflexi phylum and indicate roles in sediment carbon cycling

Hug, Laura A, Castelle, Cindy J, Wrighton, Kelly C, Thomas, Brian C, Sharon, Itai, Frischkorn, Kyle R, Williams, Kenneth H, Tringe, Susannah G, Banfield, Jillian F

Journal:

Year:

2013

Language:

english

File:

PDF, 629 KB

english, 2013

42

The metagenomic basis of anammox metabolism in Candidatus ‘Brocadia fulgida’

Gori, Fabio, Tringe, Susannah Green, Kartal, Boran, Machiori, Elena, Jetten, Mike S.M.

Journal:

Biochemical Society Transactions

Year:

2011

Language:

english

File:

PDF, 194 KB

english, 2011

43

Biocorrosive Thermophilic Microbial Communities in Alaskan North Slope Oil Facilities

Duncan, Kathleen E., Gieg, Lisa M., Parisi, Victoria A., Tanner, Ralph S., Tringe, Susannah Green, Bristow, Jim, Suflita, Joseph M.

Journal:

Environmental Science & Technology

Year:

2009

Language:

english

File:

PDF, 2.05 MB

english, 2009

44

Transcriptional response of bathypelagic marine bacterioplankton to the Deepwater Horizon oil spill

Rivers, Adam R, Sharma, Shalabh, Tringe, Susannah G, Martin, Jeffrey, Joye, Samantha B, Moran, Mary Ann

Journal:

The ISME Journal

Year:

2013

Language:

english

File:

PDF, 4.56 MB

english, 2013

45

MaxBin: an automated binning method to recover individual genomes from metagenomes using an expectation-maximization algorithm

Yu-Wei Wu,Yung-Hsu Tang,Susannah G Tringe,Blake A Simmons,Steven W Singer

Journal:

Year:

2014

Language:

english

File:

PDF, 1.39 MB

english, 2014

46

Microbial ecology of an Antarctic hypersaline lake: genomic assessment of ecophysiology among dominant haloarchaea

Williams, Timothy J, Allen, Michelle A, DeMaere, Matthew Z, Kyrpides, Nikos C, Tringe, Susannah G, Woyke, Tanja, Cavicchioli, Ricardo

Journal:

The ISME Journal

Year:

2014

Language:

english

File:

PDF, 1.34 MB

english, 2014

47

Tackling soil diversity with the assembly of large, complex metagenomes

Howe, Adina Chuang, Jansson, Janet K., Malfatti, Stephanie A., Tringe, Susannah G., Tiedje, James M., Brown, C. Titus

Journal:

Proceedings of the National Academy of Sciences

Year:

2014

Language:

english

File:

PDF, 733 KB

english, 2014

48

High-Throughput Metagenomic Technologies for Complex Microbial Community Analysis: Open and Closed Formats

Zhou, Jizhong, He, Zhili, Yang, Yunfeng, Deng, Ye, Tringe, Susannah G., Alvarez-Cohen, Lisa

Journal:

Year:

2015

Language:

english

File:

PDF, 3.30 MB

english, 2015

49

Aquifer environment selects for microbial species cohorts in sediment and groundwater

Hug, Laura A, Thomas, Brian C, Brown, Christopher T, Frischkorn, Kyle R, Williams, Kenneth H, Tringe, Susannah G, Banfield, Jillian F

Journal:

The ISME Journal

Year:

2015

Language:

english

File:

PDF, 817 KB

english, 2015

50

Accurate, multi-kb reads resolve complex populations and detect rare microorganisms

Sharon, Itai, Kertesz, Michael, Hug, Laura A., Pushkarev, Dmitry, Blauwkamp, Timothy A., Castelle, Cindy J., Amirebrahimi, Mojgan, Thomas, Brian C., Burstein, David, Tringe, Susannah G., Williams, Ken

Journal:

Genome Research

Year:

2015

Language:

english

File:

PDF, 2.57 MB

english, 2015