Results 41 to 50 of about 65,379 (150)

Spaced seeds improve k-mer-based metagenomic classification [PDF]

, 2015
Metagenomics is a powerful approach to study genetic content of environmental samples that has been strongly promoted by NGS technologies. To cope with massive data involved in modern metagenomic projects, recent tools [4, 39] rely on the analysis of k ...
Brinda, Karel, Kucherov, Gregory, Sykulski, Maciej   +2 more
core   +2 more sources

Pattern-Recognition Receptors and Cervical Microbiome in Patients with Early Miscarriages

International Journal of Inflammation
Early miscarriages are one of the main causes of reproductive losses. The objective of this study was to estimate Toll- and NOD-like receptors mRNA expression levels and their correlation with microbiome composition in the endocervix of patients with 1st
Mariya V. Gryaznova, Olesya N. Kozarenko, Victoria M. Ivannikova, Yuliya D. Smirnova, Inna Y. Burakova, Oxana B. Altukhova, Natalia I. Samborskaya, Mikhail Y. Syromyatnikov, Alexander Y. Maslov, Olga P. Lebedeva   +9 more
doaj   +1 more source

The gut mycobiome of the Human Microbiome Project healthy cohort

Microbiome, 2017
Background Most studies describing the human gut microbiome in healthy and diseased states have emphasized the bacterial component, but the fungal microbiome (i.e., the mycobiome) is beginning to gain recognition as a fundamental part of our microbiome ...
Andrea K. Nash, Thomas A. Auchtung, Matthew C. Wong, Daniel P. Smith, Jonathan R. Gesell, Matthew C. Ross, Christopher J. Stewart, Ginger A. Metcalf, Donna M. Muzny, Richard A. Gibbs, Nadim J. Ajami, Joseph F. Petrosino   +11 more
doaj   +1 more source

An overlooked phenomenon: complex interactions of potential error sources on the quality of bacterial de novo genome assemblies

BMC Genomics
Background Parameters adversely affecting the contiguity and accuracy of the assemblies from Illumina next-generation sequencing (NGS) are well described.
Zoltán Rádai, Alex Váradi, Péter Takács, Nikoletta Andrea Nagy, Nicholas Schmitt, Eszter Prépost, Gábor Kardos, Levente Laczkó   +7 more
doaj   +1 more source

Hydrogen cyanide in the rhizosphere: not suppressing plant pathogens, but rather regulating availability of phosphate

Frontiers in Microbiology, 2016
Plant growth promoting rhizobacteria produce chemical compounds with different benefits for the plant. Among them, HCN is recognized as a biocontrol agent, based on its ascribed toxicity against plant pathogens.
Tomaž Rijavec, Tomaž Rijavec, Aleš Lapanje, Aleš Lapanje, Aleš Lapanje   +4 more
doaj   +1 more source

Steps in Metagenomics: Let’s Avoid Garbage in and Garbage Out [PDF]

, 2015
Is metagenomics a revolution or a new fad? Metagenomics is tightly associated with the availability of next-generation sequencing in all its implementations.
Izard, Jacques
core   +1 more source

454-Pyrosequencing: A Molecular Battiscope for Freshwater Viral Ecology [PDF]

, 2010
Viruses, the most abundant biological entities on the planet, are capable of infecting organisms from all three branches of life, although the majority infect bacteria where the greatest degree of cellular diversity lies.
Ackermann, Alan J. McCarthy, Darren L. Smith, David J. Rooks, Foster, Heather E. Allison, James E. McDonald, Margulies, Martin J. Woodward, Ryan, Sambrook, Warren, White, Wilson   +13 more
core   +3 more sources

Complementary Metagenomic Approaches Improve Reconstruction of Microbial Diversity in a Forest Soil. [PDF]

, 2020
Soil ecosystems harbor diverse microorganisms and yet remain only partially characterized as neither single-cell sequencing nor whole-community sequencing offers a complete picture of these complex communities.
Alteio, LV, Blanchard, JL, Bowers, RM, Eichorst, SA, Goudeau, D, Katz, LA, Malmstrom, RR, Rodriguez-Reillo, W, Ryan, E, Schulz, F, Seshadri, R, Varghese, N, Woyke, T   +12 more
core   +3 more sources

Metagenomic screening of the sugarcane virome in Florida. [P.36] [PDF]

, 2015
Viral metagenomics has revolutionized the way pathologists decipher viral diseases. While the impact of this new approach is still debatable in plant virus diagnostics, viral metagenomics has already produced key advances in viral ecology and has the ...
Comstock, Jack C., ElSayed, Abdelaleim, Fernandez, Emmanuel, Filloux, Denis, Rott, Philippe, Roumagnac, Philippe   +5 more
core  

Environmental shaping of codon usage and functional adaptation across microbial communities. [PDF]

, 2013
Microbial communities represent the largest portion of the Earth's biomass. Metagenomics projects use high-throughput sequencing to survey these communities and shed light on genetic capabilities that enable microbes to inhabit every corner of the ...
Achtman, Altschul, Arumugam, Boto, Botzman, Bruggemann, Burke, Caro-Quintero, Chen, Diene, Donner, Foerstner, Forsberg, Gill, Hershberg, Horvath, Hunyadkurti, Huson, Ikemura, István Nagy, Jensen, Johnson, Kanaya, Kanehisa, Karlin, Keeling, Keller, Kristian Vlahoviček, Kuo, Larimer, Malmstrom, Martin, Maša Roller, McDaniel, McDowell, Mira, Myers, Oda, Plotkin, R Development Core Team, Retchless, Rocha, Sharp, Sharp, Sowell, Staley, Supek, Supek, Tatusov, Tettelin, Tina Perica, Tringe, Tuller, Tuller, Tuller, Turnbaugh, Tyson, Vedran Lucić, Venter, Verberkmoes, Vieira-Silva, Whitman, Willenbrock, Wilmes   +63 more
core   +1 more source