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Select item 70471351.

Composition and functional profiling of the microbiota in the casts of Eisenia fetida during vermicomposting of brewers’ spent grains

Marilena Budroni, Ilaria Mannazzu, Severino Zara, Sara Saba, Antonio Pais, Giacomo Zara

Biotechnol Rep (Amst) 2020 Mar; 25: e00439. Published online 2020 Feb 20. doi: 10.1016/j.btre.2020.e00439

PMCID:: PMC7047135

Abstract Article PDF–1.8M

Select item 69121652.

Gene Expression Changes and Community Turnover Differentially Shape the Global Ocean Metatranscriptome

Guillem Salazar, Lucas Paoli, Adriana Alberti, Jaime Huerta-Cepas, Hans-Joachim Ruscheweyh, Miguelangel Cuenca, Christopher M. Field, Luis Pedro Coelho, Corinne Cruaud, Stefan Engelen, Ann C. Gregory, Karine Labadie, Claudie Marec, Eric Pelletier, Marta Royo-Llonch, Simon Roux, Pablo Sánchez, Hideya Uehara, Ahmed A. Zayed, Georg Zeller, Margaux Carmichael, Céline Dimier, Joannie Ferland, Stefanie Kandels, Marc Picheral, Sergey Pisarev, Julie Poulain, Tara Oceans Coordinators, Silvia G. Acinas, Marcel Babin, Peer Bork, Chris Bowler, Colomban de Vargas, Lionel Guidi, Pascal Hingamp, Daniele Iudicone, Lee Karp-Boss, Eric Karsenti, Hiroyuki Ogata, Stephane Pesant, Sabrina Speich, Matthew B. Sullivan, Patrick Wincker, Shinichi Sunagawa

Cell. 2019 Nov 14; 179(5): 1068–1083.e21. doi: 10.1016/j.cell.2019.10.014

PMCID:: PMC6912165

Abstract Article

Select item 68756643.

Effects of rhizoma peanut cultivars (Arachis glabrata Benth.) on the soil bacterial diversity and predicted function in nitrogen fixation

Xiao‐Bo Wang, Chih‐Ming Hsu, José C. B. Dubeux, Jr., Cheryl Mackowiak, Ann Blount, Xing‐Guo Han, Hui‐Ling Liao

Ecol Evol. 2019 Nov; 9(22): 12676–12687. Published online 2019 Nov 5. doi: 10.1002/ece3.5735

PMCID:: PMC6875664

Abstract Article PDF–1.2M

Select item 68480304.

Genomic Signatures for Sedimentary Microbial Utilization of Phytoplankton Detritus in a Fast-Flowing Estuary

Maria W. Smith, Lydie Herfort, Adam R. Rivers, Holly M. Simon

Front Microbiol. 2019; 10: 2475. Published online 2019 Nov 5. doi: 10.3389/fmicb.2019.02475

PMCID:: PMC6848030

Abstract Article PDF–3.1M

Select item 66874395.

Metagenome of Acropora palmata coral rubble: Potential metabolic pathways and diversity in the reef ecosystem

Andrés Sánchez-Quinto, Luisa I. Falcón

PLoS One. 2019; 14(8): e0220117. Published online 2019 Aug 8. doi: 10.1371/journal.pone.0220117

PMCID:: PMC6687439

Abstract Article PDF–1.4M

Select item 65908236.

Defoliation management and grass growth habits modulated the soil microbial community of turfgrass systems

Qing Xia, Huaihai Chen, Tianyou Yang, Grady Miller, Wei Shi

PLoS One. 2019; 14(6): e0218967. Published online 2019 Jun 24. doi: 10.1371/journal.pone.0218967

PMCID:: PMC6590823

Abstract Article PDF–1.7M

Select item 65537237.

Comparison of bacterial community structure and potential functions in hypoxic and non-hypoxic zones of the Changjiang Estuary

Dong-Mei Wu, Qiu-Ping Dai, Xue-Zhu Liu, Ying-Ping Fan, Jian-Xin Wang

PLoS One. 2019; 14(6): e0217431. Published online 2019 Jun 6. doi: 10.1371/journal.pone.0217431

PMCID:: PMC6553723

Abstract Article PDF–3.8M

Select item 62645158.

Predominance and high diversity of genes associated to denitrification in metagenomes of subantarctic coastal sediments exposed to urban pollution

Priscila A. Calderoli, Fernando J. Espínola, Hebe M. Dionisi, Mónica N. Gil, Janet K. Jansson, Mariana Lozada

PLoS One. 2018; 13(11): e0207606. Published online 2018 Nov 29. doi: 10.1371/journal.pone.0207606

PMCID:: PMC6264515

Abstract Article PDF–2.3M

Select item 61102769.

Profiling of the Microbiome Associated With Nitrogen Removal During Vermifiltration of Wastewater From a Commercial Dairy

Ellen Lai, Matthias Hess, Frank M. Mitloehner

Front Microbiol. 2018; 9: 1964. Published online 2018 Aug 20. doi: 10.3389/fmicb.2018.01964

PMCID:: PMC6110276

Abstract Article PDF–6.5M

Select item 608321310.

Eighteen-Year Farming Management Moderately Shapes the Soil Microbial Community Structure but Promotes Habitat-Specific Taxa

Huaihai Chen, Qing Xia, Tianyou Yang, Wei Shi

Front Microbiol. 2018; 9: 1776. Published online 2018 Aug 2. doi: 10.3389/fmicb.2018.01776

PMCID:: PMC6083213

Abstract Article PDF–4.2M

Select item 581787511.

Impact of Glyphosate on the Rhizosphere Microbial Communities of An EPSPS-Transgenic Soybean Line ZUTS31 by Metagenome Sequencing

Gui-Hua Lu, Xiao-Mei Hua, Jing Cheng, Yin-Ling Zhu, Gu-Hao Wang, Yan-Jun Pang, Rong-Wu Yang, Lei Zhang, Huixia Shou, Xiao-Ming Wang, Jinliang Qi, Yong-Hua Yang

Curr Genomics. 2018 Jan; 19(1): 36–49. Published online 2018 Jan. doi: 10.2174/1389202918666170705162405

PMCID:: PMC5817875

Abstract Article PDF–2.4M

Select item 532412212.

Effects of reciprocal transplantation on the microbiome and putative nitrogen cycling functions of the intertidal sponge, Hymeniacidon heliophila

Brooke L. Weigel, Patrick M. Erwin

Sci Rep. 2017; 7: 43247. Published online 2017 Feb 24. doi: 10.1038/srep43247

PMCID:: PMC5324122

Abstract Article PDF–1.0M

Select item 531934613.

Organization of biogeochemical nitrogen pathways with switch-like adjustment in fluctuating soil redox conditions

Sanjay Lamba, Soumen Bera, Mubasher Rashid, Alexander B. Medvinsky, Gui-Quan Sun, Claudia Acquisti, Amit Chakraborty, Bai-Lian Li

R Soc Open Sci. 2017 Jan; 4(1): 160768. Published online 2017 Jan 11. doi: 10.1098/rsos.160768

PMCID:: PMC5319346

Abstract Article PDF–1.0M

Select item 499540314.

Nitrogen fixation and nifH diversity in human gut microbiota

Katsura Igai, Manabu Itakura, Suguru Nishijima, Hirohito Tsurumaru, Wataru Suda, Takumi Tsutaya, Eriko Tomitsuka, Kiyoshi Tadokoro, Jun Baba, Shingo Odani, Kazumi Natsuhara, Ayako Morita, Minoru Yoneda, Andrew R. Greenhill, Paul F. Horwood, Jun-ichi Inoue, Moriya Ohkuma, Yuichi Hongoh, Taro Yamamoto, Peter M. Siba, Masahira Hattori, Kiwamu Minamisawa, Masahiro Umezaki

Sci Rep. 2016; 6: 31942. Published online 2016 Aug 24. doi: 10.1038/srep31942

PMCID:: PMC4995403

Abstract Article PDF–1007K

Select item 498160115.

Species Divergence vs. Functional Convergence Characterizes Crude Oil Microbial Community Assembly

Yong Nie, Jie-Yu Zhao, Yue-Qin Tang, Peng Guo, Yunfeng Yang, Xiao-Lei Wu, Fangqing Zhao

Front Microbiol. 2016; 7: 1254. Published online 2016 Aug 12. doi: 10.3389/fmicb.2016.01254

PMCID:: PMC4981601

Abstract Article PDF–2.3M

Select item 471862316.

Characterization of Bacterial Communities in Selected Smokeless Tobacco Products Using 16S rDNA Analysis

Robert E. Tyx, Stephen B. Stanfill, Lisa M. Keong, Angel J. Rivera, Glen A. Satten, Clifford H. Watson

PLoS One. 2016; 11(1): e0146939. Published online 2016 Jan 19. doi: 10.1371/journal.pone.0146939

PMCID:: PMC4718623

Abstract Article PDF–1.2M

Select item 435646517.

Metagenomic Analysis of the Bacterial Community Associated with the Taproot of Sugar Beet

Hirohito Tsurumaru, Takashi Okubo, Kazuyuki Okazaki, Megumi Hashimoto, Kaori Kakizaki, Eiko Hanzawa, Hiroyuki Takahashi, Noriyuki Asanome, Fukuyo Tanaka, Yasuyo Sekiyama, Seishi Ikeda, Kiwamu Minamisawa

Microbes Environ. 2015 Mar; 30(1): 63–69. Published online 2015 Feb 14. doi: 10.1264/jsme2.ME14109

PMCID:: PMC4356465

Abstract Article PDF–324K

Select item 423172418.

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

Emmanuel Prestat, Maude M. David, Jenni Hultman, Neslihan Taş, Regina Lamendella, Jill Dvornik, Rachel Mackelprang, David D. Myrold, Ari Jumpponen, Susannah G. Tringe, Elizabeth Holman, Konstantinos Mavromatis, Janet K. Jansson

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

PMCID:: PMC4231724

Abstract Article PDF–1.6M

Select item 361342419.

Construction of Customized Sub-Databases from NCBI-nr Database for Rapid Annotation of Huge Metagenomic Datasets Using a Combined BLAST and MEGAN Approach

Ke Yu, Tong Zhang

PLoS One. 2013; 8(4): e59831. Published online 2013 Apr 1. doi: 10.1371/journal.pone.0059831

PMCID:: PMC3613424

Abstract Article PDF–1.1M

Select item 337460920.

Metabolic Reconstruction for Metagenomic Data and Its Application to the Human Microbiome

Sahar Abubucker, Nicola Segata, Johannes Goll, Alyxandria M. Schubert, Jacques Izard, Brandi L. Cantarel, Beltran Rodriguez-Mueller, Jeremy Zucker, Mathangi Thiagarajan, Bernard Henrissat, Owen White, Scott T. Kelley, Barbara Methé, Patrick D. Schloss, Dirk Gevers, Makedonka Mitreva, Curtis Huttenhower

PLoS Comput Biol. 2012 Jun; 8(6): e1002358. Published online 2012 Jun 13. doi: 10.1371/journal.pcbi.1002358

PMCID:: PMC3374609

Abstract Article PDF–784K

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